Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 221 of 344
Found at i:73382138 original size:54 final size:54
Alignment explanation
Indices: 73382068--73382189 Score: 208
Period size: 54 Copynumber: 2.3 Consensus size: 54
73382058 TGGTAATAAA
*
73382068 TTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAATTGCGTAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAATTACGTAAG
* * *
73382122 TTATGTAAGTTATGATATGATGTTTATTTATGTAAGTTATGTAAATTATGTAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAATTACGTAAG
73382176 TTATGTAAGTTATG
1 TTATGTAAGTTATG
73382190 TAAATTATGT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.47
Consensus pattern (54 bp):
TTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAATTACGTAAG
Found at i:73382170 original size:18 final size:18
Alignment explanation
Indices: 73382068--73382216 Score: 133
Period size: 18 Copynumber: 8.3 Consensus size: 18
73382058 TGGTAATAAA
*
73382068 TTATGTAAGTTATGATATG
1 TTATGTAAGTTATG-TAAG
* * *
73382087 ATATAT-ATTTATGTAAG
1 TTATGTAAGTTATGTAAG
* **
73382104 TTATGTAAATTGCGTAAG
1 TTATGTAAGTTATGTAAG
73382122 TTATGTAAGTTATG-ATA-
1 TTATGTAAGTTATGTA-AG
* * *
73382139 TGATGTTTATTTATGTAAG
1 TTATG-TAAGTTATGTAAG
*
73382158 TTATGTAAATTATGTAAG
1 TTATGTAAGTTATGTAAG
*
73382176 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGTAAG
*
73382194 TTATGTGAGTTATGTAAG
1 TTATGTAAGTTATGTAAG
73382212 TTATG
1 TTATG
73382217 ATTAGCATCT
Statistics
Matches: 103, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
17 12 0.12
18 82 0.80
19 9 0.09
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (18 bp):
TTATGTAAGTTATGTAAG
Found at i:73382719 original size:26 final size:26
Alignment explanation
Indices: 73382684--73382735 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
73382674 ATTATAGAGA
*
73382684 AAAAAAATTGCAGATAGCTTTAGTAC
1 AAAAAAATTGCAAATAGCTTTAGTAC
73382710 AAAAAAATTGCAAATAGCTTTAGTAC
1 AAAAAAATTGCAAATAGCTTTAGTAC
73382736 CTTTAATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (26 bp):
AAAAAAATTGCAAATAGCTTTAGTAC
Found at i:73385029 original size:21 final size:23
Alignment explanation
Indices: 73384994--73385040 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
73384984 TTTTAAGAAC
73384994 ACCATAAAACCCTAAACCATA-A
1 ACCATAAAACCCTAAACCATATA
*
73385016 ACCAT-AACCCCTAAACCATATA
1 ACCATAAAACCCTAAACCATATA
73385038 ACC
1 ACC
73385041 CTAGCCCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (23 bp):
ACCATAAAACCCTAAACCATATA
Found at i:73385284 original size:23 final size:21
Alignment explanation
Indices: 73385258--73385306 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 21
73385248 CATGAAACCA
73385258 TAAATCAC-AAACCTTATAATCAC
1 TAAA-CACGAAACCTTA-AA-CAC
73385281 TAAACACGAAACCTTAAACAC
1 TAAACACGAAACCTTAAACAC
73385302 TAAAC
1 TAAAC
73385307 TTTAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.32
22 5 0.20
23 12 0.48
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (21 bp):
TAAACACGAAACCTTAAACAC
Found at i:73385332 original size:137 final size:138
Alignment explanation
Indices: 73385070--73385341 Score: 386
Period size: 137 Copynumber: 2.0 Consensus size: 138
73385060 TCATAAACCG
* **
73385070 CAAATCTTAAACCAAAAACCCTAAATTATATAGCCACTAAACATGAAACCATAAATCTTAAATCC
1 CAAATCTTAAACCAAAAACCCTAAACTATATAGCCACTAAACATGAAACCATAAATCACAAATCC
* * * * *
73385135 TATAATCACTAAACACAAAATCTTAAACCCTAAACTATAACCCTTAAACCATATACACT-AACCT
66 TATAATCACTAAACACAAAACCTTAAACACTAAACTATAAACCTTAAACCATAAACACTAAACCC
73385199 TAAAATCA
131 TAAAATCA
* *
73385207 CAAATCTTAAACCACAAACCCTAAACTATATAGCTACTAAACATGAAACCATAAATCACAAA-CC
1 CAAATCTTAAACCAAAAACCCTAAACTATATAGCCACTAAACATGAAACCATAAATCACAAATCC
* * ** *
73385271 TTATAATCACTAAACACGAAACCTTAAACACTAAACTTTAAATTTTAAACCATAAATACTAAACC
66 -TATAATCACTAAACACAAAACCTTAAACACTAAACTATAAACCTTAAACCATAAACACTAAACC
73385336 CTAAAA
130 CTAAAA
73385342 CCGTAACTAA
Statistics
Matches: 118, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
136 2 0.02
137 107 0.91
138 9 0.08
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.24
Consensus pattern (138 bp):
CAAATCTTAAACCAAAAACCCTAAACTATATAGCCACTAAACATGAAACCATAAATCACAAATCC
TATAATCACTAAACACAAAACCTTAAACACTAAACTATAAACCTTAAACCATAAACACTAAACCC
TAAAATCA
Found at i:73385644 original size:84 final size:84
Alignment explanation
Indices: 73385522--73385964 Score: 372
Period size: 83 Copynumber: 5.3 Consensus size: 84
73385512 TAGTCTTTTA
* * * * ** *
73385522 AGGCAAA-TGGTATTACAACTTTGTGGCGTTTTTTAAAAACACCACTAAAATTTTAATGCTTTGT
1 AGGCAAATTGGTATTGCAAATTTGCGGCGTTTGTTAAAAATGCCACTAAAAATTTAATGCTTTGT
* *
73385586 AATGAAACAACACCGTTGG
66 AATGAAACGACACCGTTTG
* * * * **
73385605 AGACAAATTAGTATTGCAAATTTGCGGCGTTTGTGAAAAATGCCACTAAAAATTTAATTCCCTGT
1 AGGCAAATTGGTATTGCAAATTTGCGGCGTTTGTTAAAAATGCCACTAAAAATTTAATGCTTTGT
** **** *
73385670 TGTGAAACGATGTTGTTTA
66 AATGAAACGACACCGTTTG
* * * *
73385689 AGGCAAA-TGGTATTGCAACTTTGCGGCATTTCTTAAAAATGCCACTAAAATTTTAATGCTTTGT
1 AGGCAAATTGGTATTGCAAATTTGCGGCGTTTGTTAAAAATGCCACTAAAAATTTAATGCTTTGT
* * *
73385753 AATGAAACGACGCCATTGG
66 AATGAAACGACACCGTTTG
* * * * * * * * * **
73385772 AGTCGAATTGGTATTGCAAGTTTGCAGCTTTTGTGAAAAATGCAACTAAAAATTTAGTTCCCTGT
1 AGGCAAATTGGTATTGCAAATTTGCGGCGTTTGTTAAAAATGCCACTAAAAATTTAATGCTTTGT
** ** *
73385837 TGTGAAACGAC-TTGTTTA
66 AATGAAACGACACCGTTTG
* * * *
73385855 AGGCAAA-TGGTTATTGCAATTTTGCGGCGTTTTTTAAAAATGTCACTAAAAGTTTAATGCTTTG
1 AGGCAAATTGG-TATTGCAAATTTGCGGCGTTTGTTAAAAATGCCACTAAAAATTTAATGCTTTG
73385919 TAATGAAACGACACCGTTTG
65 TAATGAAACGACACCGTTTG
* **
73385939 AGTCAAATTTATTATTGCAAATTTGC
1 AGGCAAA-TTGGTATTGCAAATTTGC
73385965 AGTTGTGTGG
Statistics
Matches: 271, Mismatches: 83, Indels: 10
0.74 0.23 0.03
Matches are distributed among these distances:
82 3 0.01
83 128 0.47
84 126 0.46
85 13 0.05
86 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (84 bp):
AGGCAAATTGGTATTGCAAATTTGCGGCGTTTGTTAAAAATGCCACTAAAAATTTAATGCTTTGT
AATGAAACGACACCGTTTG
Found at i:73385788 original size:167 final size:167
Alignment explanation
Indices: 73385488--73385966 Score: 676
Period size: 167 Copynumber: 2.9 Consensus size: 167
73385478 TTTAGGGAAG
* * * *
73385488 AATTTTATTCCCTGTTCTGAAACG-TAGTCT-TTTAAGGCAAATGGTATTACAACTTTGTGGCGT
1 AATTTAATTCCCTGTTGTGAAACGAT-GT-TGTTTAAGGCAAATGGTATTGCAACTTTGCGGCGT
** * *
73385551 TTTTTAAAAACACCACTAAAATTTTAATGCTTTGTAATGAAACAACACCGTTGGAGACAAATTAG
64 TTTTTAAAAATGCCACTAAAATTTTAATGCTTTGTAATGAAACGACACCGTTGGAGTCAAATTAG
* *
73385616 TATTGCAAATTTGCGGCGTTTGTGAAAAATGCCACTAAA
129 TATTGCAAATTTGCAGCGTTTGTGAAAAATGCAACTAAA
*
73385655 AATTTAATTCCCTGTTGTGAAACGATGTTGTTTAAGGCAAATGGTATTGCAACTTTGCGGCATTT
1 AATTTAATTCCCTGTTGTGAAACGATGTTGTTTAAGGCAAATGGTATTGCAACTTTGCGGCGTTT
* * * * *
73385720 CTTAAAAATGCCACTAAAATTTTAATGCTTTGTAATGAAACGACGCCATTGGAGTCGAATTGGTA
66 TTTAAAAATGCCACTAAAATTTTAATGCTTTGTAATGAAACGACACCGTTGGAGTCAAATTAGTA
* *
73385785 TTGCAAGTTTGCAGCTTTTGTGAAAAATGCAACTAAA
131 TTGCAAATTTGCAGCGTTTGTGAAAAATGCAACTAAA
* * *
73385822 AATTTAGTTCCCTGTTGTGAAACGA-CTTGTTTAAGGCAAATGGTTATTGCAATTTTGCGGCGTT
1 AATTTAATTCCCTGTTGTGAAACGATGTTGTTTAAGGCAAATGG-TATTGCAACTTTGCGGCGTT
* * * *
73385886 TTTTAAAAATGTCACTAAAAGTTTAATGCTTTGTAATGAAACGACACCGTTTGAGTCAAATTTAT
65 TTTTAAAAATGCCACTAAAATTTTAATGCTTTGTAATGAAACGACACCGTTGGAGTCAAA-TTAG
73385951 TATTGCAAATTTGCAG
129 TATTGCAAATTTGCAG
73385967 TTGTGTGGGA
Statistics
Matches: 276, Mismatches: 32, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
166 18 0.07
167 240 0.87
168 18 0.07
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (167 bp):
AATTTAATTCCCTGTTGTGAAACGATGTTGTTTAAGGCAAATGGTATTGCAACTTTGCGGCGTTT
TTTAAAAATGCCACTAAAATTTTAATGCTTTGTAATGAAACGACACCGTTGGAGTCAAATTAGTA
TTGCAAATTTGCAGCGTTTGTGAAAAATGCAACTAAA
Found at i:73388996 original size:18 final size:20
Alignment explanation
Indices: 73388973--73389012 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
73388963 GGCAATAAGT
73388973 ATAGAAGA-T-AACTAACTA
1 ATAGAAGAGTGAACTAACTA
*
73388991 ATAGAAGAGTGAACTAATTA
1 ATAGAAGAGTGAACTAACTA
73389011 AT
1 AT
73389013 TGGAAGTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.25
Consensus pattern (20 bp):
ATAGAAGAGTGAACTAACTA
Found at i:73394729 original size:31 final size:29
Alignment explanation
Indices: 73394689--73394746 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
73394679 TTATAATACT
*
73394689 ATCATTAAATTATTTAAAAAATTTTATTTAA
1 ATCACTAAATTA-TT-AAAAATTTTATTTAA
*
73394720 ATCACTAAATTATTAAAATTTTTATTT
1 ATCACTAAATTATTAAAAATTTTATTT
73394747 TATAATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 12 0.48
30 2 0.08
31 11 0.44
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (29 bp):
ATCACTAAATTATTAAAAATTTTATTTAA
Found at i:73395547 original size:20 final size:20
Alignment explanation
Indices: 73395522--73395571 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
73395512 AAAGATATAA
73395522 ATTTTGGAATTTTT-ATAAA-T
1 ATTTT-GAATTTTTGA-AAATT
73395542 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
73395562 ATTTTGAATT
1 ATTTTGAATT
73395572 ATTTTGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:73395552 original size:19 final size:19
Alignment explanation
Indices: 73395517--73395571 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
73395507 TTTCTAAAGA
*
73395517 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
73395535 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
73395554 TGA-AAATTATTTTGAATT
1 T-ATAAA-TATTTTGAATT
73395572 ATTTTGTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 7 0.21
19 14 0.42
20 12 0.36
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:73397752 original size:23 final size:22
Alignment explanation
Indices: 73397713--73397758 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
73397703 GCTTATATCC
*
73397713 AAACCAAAACATACCAAATCAT
1 AAACCAAAACATACCAAAACAT
*
73397735 AAACCAAAGTCATACCAAAACAT
1 AAACCAAA-ACATACCAAAACAT
73397758 A
1 A
73397759 TGATTCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.59, C:0.26, G:0.02, T:0.13
Consensus pattern (22 bp):
AAACCAAAACATACCAAAACAT
Found at i:73401974 original size:18 final size:18
Alignment explanation
Indices: 73401953--73402011 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
73401943 TAAAATTCAA
*
73401953 TTATTCAGTAGCAATTAG
1 TTATTCAGTAGCAATCAG
* *
73401971 TTATTCAGTAACAATCAT
1 TTATTCAGTAGCAATCAG
**
73401989 TTGCTCAGTAGCAATCAG
1 TTATTCAGTAGCAATCAG
73402007 TTATT
1 TTATT
73402012 GAAAACGATC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (18 bp):
TTATTCAGTAGCAATCAG
Found at i:73403049 original size:18 final size:17
Alignment explanation
Indices: 73403002--73403049 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
73402992 TTCTTTCCTT
* *
73403002 CTTTTCTTTTCTGTTTT
1 CTTTTCATTTCTGTTTC
*
73403019 CGTTTCATATTCTGTTTC
1 CTTTTCAT-TTCTGTTTC
73403037 CTTTTTCATTTCT
1 C-TTTTCATTTCT
73403050 TTTATTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 6 0.24
18 13 0.52
19 6 0.24
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.67
Consensus pattern (17 bp):
CTTTTCATTTCTGTTTC
Found at i:73403353 original size:9 final size:9
Alignment explanation
Indices: 73403339--73403368 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
73403329 GTCTTTCAAC
73403339 TATTTATTT
1 TATTTATTT
73403348 TATTTATTT
1 TATTTATTT
73403357 TATTTATTT
1 TATTTATTT
73403366 TAT
1 TAT
73403369 AAAAAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TATTTATTT
Found at i:73403511 original size:16 final size:17
Alignment explanation
Indices: 73403490--73403533 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
73403480 ATTTATTTCA
*
73403490 TAATAAAATATCAA-TT
1 TAATAAAATATCAACAT
73403506 TAATAAAA-AT-AACAT
1 TAATAAAATATCAACAT
73403521 TAAT-AAATATCAA
1 TAATAAAATATCAA
73403534 ATATAAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 5 0.21
15 9 0.38
16 10 0.42
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (17 bp):
TAATAAAATATCAACAT
Found at i:73408462 original size:23 final size:22
Alignment explanation
Indices: 73408422--73408467 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
73408412 GCTTATATCC
*
73408422 AAACCAAAACATACCAAATCAT
1 AAACCAAAACATACCAAAACAT
* *
73408444 AAACCAAAGTCATATCAAAACAT
1 AAACCAAA-ACATACCAAAACAT
73408467 A
1 A
73408468 TGATTCATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.59, C:0.24, G:0.02, T:0.15
Consensus pattern (22 bp):
AAACCAAAACATACCAAAACAT
Found at i:73414810 original size:35 final size:35
Alignment explanation
Indices: 73414764--73414833 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
73414754 ATGACATAAA
*
73414764 AGAAAATCAACGATTTTTGAAAATCGATTCACCAC
1 AGAAAATCAACGATCTTTGAAAATCGATTCACCAC
73414799 AGAAAATCAACGATCTTTGAAAATCGATTCACCAC
1 AGAAAATCAACGATCTTTGAAAATCGATTCACCAC
73414834 CACCACGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.24
Consensus pattern (35 bp):
AGAAAATCAACGATCTTTGAAAATCGATTCACCAC
Found at i:73420102 original size:41 final size:41
Alignment explanation
Indices: 73420045--73420125 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
73420035 CTATCTGAAA
73420045 GTTTGACGTCTTTTTTGTTTCTTGTTGCTGATAATACAGGT
1 GTTTGACGTCTTTTTTGTTTCTTGTTGCTGATAATACAGGT
73420086 GTTTGACGTCTTTTTTGTTTCTTGTTGCTGATAATACAGG
1 GTTTGACGTCTTTTTTGTTTCTTGTTGCTGATAATACAGG
73420126 ATGGTATCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.15, C:0.12, G:0.22, T:0.51
Consensus pattern (41 bp):
GTTTGACGTCTTTTTTGTTTCTTGTTGCTGATAATACAGGT
Found at i:73422382 original size:18 final size:18
Alignment explanation
Indices: 73422359--73422393 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
73422349 CCTTTAAATC
73422359 CAGGATTAGATTCTTTTG
1 CAGGATTAGATTCTTTTG
73422377 CAGGATTAGATTCTTTT
1 CAGGATTAGATTCTTTT
73422394 ATTAGCTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (18 bp):
CAGGATTAGATTCTTTTG
Found at i:73425259 original size:18 final size:19
Alignment explanation
Indices: 73425225--73425267 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
73425215 TTGATTTTTT
73425225 ATTCGAGTTAATCCAAATA
1 ATTCGAGTTAATCCAAATA
73425244 ATTCGA-TTAA-CTCAAATA
1 ATTCGAGTTAATC-CAAATA
*
73425262 ACTCGA
1 ATTCGA
73425268 ACTATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (19 bp):
ATTCGAGTTAATCCAAATA
Found at i:73430301 original size:94 final size:92
Alignment explanation
Indices: 73430180--73430348 Score: 239
Period size: 94 Copynumber: 1.8 Consensus size: 92
73430170 AATTGTGTAC
**
73430180 TAGTGCAAGACATGTATGGGACATGCATCGGCCACATTACGGGAACCAGTGTAAGACCATGTCTG
1 TAGTGCAAGACATGTATGGGACATGCATCGGCCACAAAACGGG--CCAGTGTAAGACCATGTCTG
73430245 GGACATGGCATCGGCATTGAGACGAGAGT
64 GGACATGGCATCGGCATTGAGACGAGAGT
* * * * * * *
73430274 TAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAAATGTGTCAGTGTAAGACCATGTTTGGG
1 TAGTGCAAGACATGTATGGGACATGCATCGGCCACAAAACGGGCCAGTGTAAGACCATGTCTGGG
73430339 ACATGGCATC
66 ACATGGCATC
73430349 AGCACAGATA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
92 30 0.45
94 36 0.55
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (92 bp):
TAGTGCAAGACATGTATGGGACATGCATCGGCCACAAAACGGGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGGCATTGAGACGAGAGT
Found at i:73430366 original size:94 final size:93
Alignment explanation
Indices: 73430180--73430392 Score: 230
Period size: 94 Copynumber: 2.3 Consensus size: 93
73430170 AATTGTGTAC
* **
73430180 TAGTGCAAGACATGTATGGGACATGCATCGGCCACATTACGGGAACCAGTGTAAGACCATGTCTG
1 TAGTGTAAGACATGTATGGGACATGCATCGGCCACAAAACGGG-ACCAGTGTAAGACCATGTCTG
* **
73430245 GGACATGGCATCGGCATTGAGACGAGAGT
65 GGACATGGCATCAGCACAGAGACGAGAGT
* * * * * *
73430274 TAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAAATGTG-TCAGTGTAAGACCATGTTTGG
1 TAGTGTAAGACATGTATGGGACATGCATCGGCCACAAAACGGGACCAGTGTAAGACCATGTCTGG
* *
73430338 GACATGGCATCAGCACAGATATGTGAGAGT
66 GACATGGCATCAGCACAGAGA--CGAGAGT
* * *
73430368 CAGTGTAAGACCATGTTTGAGACAT
1 TAGTGTAAGA-CATGTATGGGACAT
73430393 TTCATCGACA
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
92 36 0.36
94 51 0.52
95 12 0.12
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (93 bp):
TAGTGTAAGACATGTATGGGACATGCATCGGCCACAAAACGGGACCAGTGTAAGACCATGTCTGG
GACATGGCATCAGCACAGAGACGAGAGT
Found at i:73430378 original size:50 final size:50
Alignment explanation
Indices: 73430226--73430392 Score: 172
Period size: 50 Copynumber: 3.5 Consensus size: 50
73430216 TTACGGGAAC
** * *
73430226 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--CGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAAATGTGAGAGT
*
73430274 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACA-AAATGT----GT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAAATGTGAGAGT
* * *
73430318 CAGTGTAAGACCATGTTTGGGACATGGCATCAGCACAGATATGTGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAAATGTGAGAGT
* *
73430368 CAGTGTAAGACCATGTTTGAGACAT
1 CAGTGTAAGACCATGTCTGGGACAT
73430393 TTCATCGACA
Statistics
Matches: 99, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
44 11 0.11
45 16 0.16
46 22 0.22
47 15 0.15
48 9 0.09
50 26 0.26
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (50 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAAATGTGAGAGT
Found at i:73433594 original size:82 final size:82
Alignment explanation
Indices: 73433492--73433649 Score: 246
Period size: 82 Copynumber: 1.9 Consensus size: 82
73433482 TTAGGGGGGC
* * * *
73433492 TAAAGTGTAATTTTATTATATATTAATTTATAA-TTTCTTTATTTACAAGAGGATTGAATTGAAA
1 TAAAGTGTAATTTCACTATATATTAATTTATAATTTTCTTTATTTACAAGAGGAGTAAATTGAAA
73433556 ACTTTTCATTTTGAAGGG
66 A-TTTTCATTTTGAAGGG
* *
73433574 TAAAGTGTAATTTCACTATATATTAATTTATAATTTTTTTTATTTATAAGAGGAGTAAATTGAAA
1 TAAAGTGTAATTTCACTATATATTAATTTATAATTTTCTTTATTTACAAGAGGAGTAAATTGAAA
73433639 ATTTTCATTTT
66 ATTTTCATTTT
73433650 CTGGGAGGGC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
82 41 0.59
83 28 0.41
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.48
Consensus pattern (82 bp):
TAAAGTGTAATTTCACTATATATTAATTTATAATTTTCTTTATTTACAAGAGGAGTAAATTGAAA
ATTTTCATTTTGAAGGG
Found at i:73433855 original size:21 final size:22
Alignment explanation
Indices: 73433820--73433860 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
73433810 CGAACTTTTC
73433820 ATATTATTATATTAT-TAAAAT
1 ATATTATTATATTATATAAAAT
73433841 ATATTATTA-ATTTATATAAA
1 ATATTATTATA-TTATATAAA
73433861 TAAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 13 0.72
22 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTATTATATTATATAAAAT
Found at i:73434989 original size:28 final size:28
Alignment explanation
Indices: 73434949--73435006 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
73434939 GGAGTAATGA
73434949 TGAAGATTTGCAACACAAATTTGGTTGT
1 TGAAGATTTGCAACACAAATTTGGTTGT
73434977 TGAAGATTTGCAACACAAATTTGGTTGT
1 TGAAGATTTGCAACACAAATTTGGTTGT
73435005 TG
1 TG
73435007 TAATATAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.36
Consensus pattern (28 bp):
TGAAGATTTGCAACACAAATTTGGTTGT
Found at i:73444064 original size:21 final size:19
Alignment explanation
Indices: 73444019--73444060 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
73444009 TTCAATTCAA
*
73444019 TCTCAACTCTCTCTCATAT
1 TCTCAACTCTCTCTCAAAT
* *
73444038 TATCAATTCTCTCTCAAAT
1 TCTCAACTCTCTCTCAAAT
73444057 TCTC
1 TCTC
73444061 TCAAAATTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43
Consensus pattern (19 bp):
TCTCAACTCTCTCTCAAAT
Found at i:73450724 original size:39 final size:39
Alignment explanation
Indices: 73450679--73450758 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
73450669 CTCCACACAT
73450679 TTCTAAATGTTTCCAATGTATTTGTGTTAATTTAAAGGG
1 TTCTAAATGTTTCCAATGTATTTGTGTTAATTTAAAGGG
73450718 TTCTAAATGTTTCCAATGTATTTGTGTTAATTTAAAGGG
1 TTCTAAATGTTTCCAATGTATTTGTGTTAATTTAAAGGG
73450757 TT
1 TT
73450759 ACATACATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.47
Consensus pattern (39 bp):
TTCTAAATGTTTCCAATGTATTTGTGTTAATTTAAAGGG
Found at i:73451025 original size:27 final size:25
Alignment explanation
Indices: 73450974--73451027 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
73450964 TTCTCGACAA
73450974 TTTTGAAATTTAGTCATTGTATTTT
1 TTTTGAAATTTAGTCATTGTATTTT
* *
73450999 TTTTTAAAGTTTAGTTCATT-TACTTT
1 TTTTGAAA-TTTAG-TCATTGTATTTT
73451025 TTT
1 TTT
73451028 AGATTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 13 0.52
27 5 0.20
ACGTcount: A:0.22, C:0.06, G:0.09, T:0.63
Consensus pattern (25 bp):
TTTTGAAATTTAGTCATTGTATTTT
Found at i:73453509 original size:119 final size:120
Alignment explanation
Indices: 73453365--73453603 Score: 462
Period size: 120 Copynumber: 2.0 Consensus size: 120
73453355 TGGAAATAGA
73453365 AATAATTAAAAGATGATAAATAATTAAAAAGAAATTAACATCTTA-TTTATGTCATCTTCTTCCC
1 AATAATTAAAAGATGATAAATAATTAAAAAGAAATTAACATCTTATTTTATGTCATCTTCTTCCC
73453429 TAAAATACATGGAAACCCTAGGAAAGAGAAAACAATCTTTCTTGTCTTAATTGGG
66 TAAAATACATGGAAACCCTAGGAAAGAGAAAACAATCTTTCTTGTCTTAATTGGG
73453484 AATAATTAAAAGATGATAAATAATTAAAAAGAAATTAACATCTTATTTTATGTCATCTTCTTCCC
1 AATAATTAAAAGATGATAAATAATTAAAAAGAAATTAACATCTTATTTTATGTCATCTTCTTCCC
*
73453549 TAAAATACATGGAAACCTTAGGAAAGAGAAAACAATCTTTCTTGTCTTAATTGGG
66 TAAAATACATGGAAACCCTAGGAAAGAGAAAACAATCTTTCTTGTCTTAATTGGG
73453604 TAAGTTTTCT
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
119 45 0.38
120 73 0.62
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.33
Consensus pattern (120 bp):
AATAATTAAAAGATGATAAATAATTAAAAAGAAATTAACATCTTATTTTATGTCATCTTCTTCCC
TAAAATACATGGAAACCCTAGGAAAGAGAAAACAATCTTTCTTGTCTTAATTGGG
Found at i:73454121 original size:90 final size:89
Alignment explanation
Indices: 73454012--73454184 Score: 328
Period size: 90 Copynumber: 1.9 Consensus size: 89
73454002 TTTACCTAGG
73454012 ATGTAAATTGAGTCCAAATAAATATGAAATGTGATAAATTGATGATTAAATTCATTTATATAGAT
1 ATGTAAATTGAGTCCAAATAAATATGAAATGTGATAAATTGATGATT-AATTCATTTATATAGAT
*
73454077 CTGGATAACACAAATTCGAAGTAGA
65 CCGGATAACACAAATTCGAAGTAGA
73454102 ATGTAAATTGAGTCCAAATAAATATGAAATGTGATAAATTGATGATTAATTCATTTATATAGATC
1 ATGTAAATTGAGTCCAAATAAATATGAAATGTGATAAATTGATGATTAATTCATTTATATAGATC
73454167 CGGATAACACAAATTCGA
66 CGGATAACACAAATTCGA
73454185 GGCTAGATCG
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 35 0.43
90 47 0.57
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (89 bp):
ATGTAAATTGAGTCCAAATAAATATGAAATGTGATAAATTGATGATTAATTCATTTATATAGATC
CGGATAACACAAATTCGAAGTAGA
Found at i:73454315 original size:18 final size:18
Alignment explanation
Indices: 73454292--73454354 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
73454282 ATGTTAAATT
*
73454292 GAATGTTGTGTTTGTATG
1 GAATGTTGTGTTTGTATA
* *
73454310 GAATG-TGTTTTATGTTAAATT
1 GAATGTTGTGTT-TG-T--ATA
73454331 GAATGTTGTGTTTGTATA
1 GAATGTTGTGTTTGTATA
73454349 GAATGT
1 GAATGT
73454355 GTTTTATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 5 0.14
18 15 0.42
19 1 0.03
20 1 0.03
21 9 0.25
22 5 0.14
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (18 bp):
GAATGTTGTGTTTGTATA
Found at i:73454335 original size:21 final size:21
Alignment explanation
Indices: 73454281--73454342 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 21
73454271 AGCTTGTAAA
73454281 TATGTTAAATTGAATGTTGTGT
1 TATGTTAAATTGAATG-TGTGT
* *
73454303 T-TG-T--ATGGAATGTGTTT
1 TATGTTAAATTGAATGTGTGT
73454320 TATGTTAAATTGAATGTTGTGT
1 TATGTTAAATTGAATG-TGTGT
73454342 T
1 T
73454343 TGTATAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
17 5 0.16
18 9 0.29
19 1 0.03
20 1 0.03
21 9 0.29
22 6 0.19
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (21 bp):
TATGTTAAATTGAATGTGTGT
Found at i:73454335 original size:39 final size:39
Alignment explanation
Indices: 73454281--73454361 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
73454271 AGCTTGTAAA
*
73454281 TATGTTAAATTGAATGTTGTGTTTGTATGGAATGTGTTT
1 TATGTTAAATTGAATGTTGTGTTTGTATAGAATGTGTTT
73454320 TATGTTAAATTGAATGTTGTGTTTGTATAGAATGTGTTT
1 TATGTTAAATTGAATGTTGTGTTTGTATAGAATGTGTTT
73454359 TAT
1 TAT
73454362 ATTTATGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (39 bp):
TATGTTAAATTGAATGTTGTGTTTGTATAGAATGTGTTT
Found at i:73460218 original size:36 final size:36
Alignment explanation
Indices: 73460170--73460243 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
73460160 TAGAGTAAGG
* ** *
73460170 TCATTTATTCAAATCAATAGTGGGCACATGGATCTA
1 TCATTTAATCAAAAAAAGAGTGGGCACATGGATCTA
* *
73460206 TCATTTAATCAAAAAAAGGGTGGGCACATGGGTCTA
1 TCATTTAATCAAAAAAAGAGTGGGCACATGGATCTA
73460242 TC
1 TC
73460244 CACTTGCAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (36 bp):
TCATTTAATCAAAAAAAGAGTGGGCACATGGATCTA
Found at i:73465397 original size:21 final size:20
Alignment explanation
Indices: 73465350--73465403 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
73465340 ACCATTATTT
*
73465350 CTAATCTCACCATTACAGTA
1 CTAATCTCACCGTTACAGTA
*
73465370 TTCAATCTCACCGTTACAGTAA
1 CT-AATCTCACCGTTACAGT-A
73465392 CTAATCTCACCG
1 CTAATCTCACCG
73465404 CCACCGCTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.30
Consensus pattern (20 bp):
CTAATCTCACCGTTACAGTA
Found at i:73465958 original size:20 final size:20
Alignment explanation
Indices: 73465937--73466006 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
73465927 GAATTGAGTT
*
73465937 AAACAACAAAGAATCTATTT
1 AAACAACAAAGAATCTATTC
* * * *
73465957 AAGCAATAATGAATCGATTC
1 AAACAACAAAGAATCTATTC
* *
73465977 AAACAATAAACAATCTATTC
1 AAACAACAAAGAATCTATTC
73465997 AAACAACAAA
1 AAACAACAAA
73466007 AATAATCGAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.56, C:0.17, G:0.06, T:0.21
Consensus pattern (20 bp):
AAACAACAAAGAATCTATTC
Found at i:73468147 original size:47 final size:45
Alignment explanation
Indices: 73468068--73468156 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 45
73468058 ACAATAATTC
73468068 TAAAAAAATTAAAAAATCTTTAAAATAAATATAAATTATCAAAATTAT
1 TAAAAAAATTAAAAAATCTTTAAAAT-AATAT-AATT-TCAAAATTAT
*
73468116 TAAAAATATT-AAAAATCATGTTAAAAT-ATATAATTTCAAAA
1 TAAAAAAATTAAAAAATC-T-TTAAAATAATATAATTTCAAAA
73468157 CACATGGAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
45 6 0.16
46 4 0.11
47 11 0.29
48 10 0.26
49 7 0.18
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (45 bp):
TAAAAAAATTAAAAAATCTTTAAAATAATATAATTTCAAAATTAT
Found at i:73481237 original size:13 final size:13
Alignment explanation
Indices: 73481202--73481237 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
73481192 CTCCTCCTTA
*
73481202 AACAAAAAAAAAT
1 AACAATAAAAAAT
73481215 AACAATTAAAAAAT
1 AACAA-TAAAAAAT
73481229 AACAATAAA
1 AACAATAAA
73481238 CACTAACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (13 bp):
AACAATAAAAAAT
Found at i:73481375 original size:33 final size:34
Alignment explanation
Indices: 73481312--73481380 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
73481302 CCAAACTAAA
* *
73481312 CCCTAGATCTTCTTTTTTTTCTTTTCCTTTCAAG
1 CCCTAGATCTTCTTCTTCTTCTTTTCCTTTCAAG
73481346 CCCTAGATCTTCTTCTTCTT-TTTTCCTTTCAAG
1 CCCTAGATCTTCTTCTTCTTCTTTTCCTTTCAAG
73481379 CC
1 CC
73481381 TTCTTCTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
33 15 0.45
34 18 0.55
ACGTcount: A:0.12, C:0.30, G:0.06, T:0.52
Consensus pattern (34 bp):
CCCTAGATCTTCTTCTTCTTCTTTTCCTTTCAAG
Found at i:73483261 original size:56 final size:55
Alignment explanation
Indices: 73483196--73483349 Score: 195
Period size: 55 Copynumber: 2.8 Consensus size: 55
73483186 CATAACATAG
* * *
73483196 CACGCCTCTCAACAGGGCTACATAAGAGCACCCGGACCTAGCATGCAACACATAA-C
1 CACGCCTCTCAATAGGGCTACAT-A-AGCTCCCGGACCTAGCATGCAACACATAATA
* *
73483252 CACGCCTCTCAATAGGGCTACATAAGCTCCCGGACCTAGCGT-CTACACATAATTA
1 CACGCCTCTCAATAGGGCTACATAAGCTCCCGGACCTAGCATGCAACACATAA-TA
* * *
73483307 CATGCCTCTCAATGGGGCTACACAAGCTCCCGGACCTAGCATG
1 CACGCCTCTCAATAGGGCTACATAAGCTCCCGGACCTAGCATG
73483350 TATCATGTCA
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
53 9 0.10
54 16 0.19
55 39 0.45
56 22 0.26
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (55 bp):
CACGCCTCTCAATAGGGCTACATAAGCTCCCGGACCTAGCATGCAACACATAATA
Found at i:73485884 original size:14 final size:14
Alignment explanation
Indices: 73485865--73485922 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
73485855 TTAAAACAAT
73485865 AAAGTAAATAAAAG
1 AAAGTAAATAAAAG
73485879 AAAGTAAATAAAAG
1 AAAGTAAATAAAAG
* *
73485893 AAACTAAA-GAAAG
1 AAAGTAAATAAAAG
73485906 AAAAG-AAATAAAAG
1 -AAAGTAAATAAAAG
73485920 AAA
1 AAA
73485923 CAAAAAGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
13 10 0.26
14 28 0.74
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.10
Consensus pattern (14 bp):
AAAGTAAATAAAAG
Found at i:73485927 original size:9 final size:9
Alignment explanation
Indices: 73485888--73485927 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
73485878 GAAAGTAAAT
73485888 AAAAGAAAC
1 AAAAGAAAC
* *
73485897 TAAAGAAAG
1 AAAAGAAAC
*
73485906 AAAAGAAAT
1 AAAAGAAAC
73485915 AAAAGAAAC
1 AAAAGAAAC
73485924 AAAA
1 AAAA
73485928 AGAACAGCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.78, C:0.05, G:0.12, T:0.05
Consensus pattern (9 bp):
AAAAGAAAC
Found at i:73485939 original size:27 final size:26
Alignment explanation
Indices: 73485875--73485926 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
73485865 AAAGTAAATA
73485875 AAAG-AAAGTAAATAAAAGAAACTAAAG
1 AAAGAAAAG-AAATAAAAGAAAC-AAAG
73485902 AAAGAAAAGAAATAAAAGAAACAAA
1 AAAGAAAAGAAATAAAAGAAACAAA
73485927 AAGAACAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 3 0.12
27 17 0.71
28 4 0.17
ACGTcount: A:0.75, C:0.04, G:0.13, T:0.08
Consensus pattern (26 bp):
AAAGAAAAGAAATAAAAGAAACAAAG
Found at i:73486830 original size:44 final size:44
Alignment explanation
Indices: 73486781--73486872 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
73486771 TGTTCAGGGA
73486781 TACTTCGACCTT-GAGTCGATGAGGCA-CT-ATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAGTCGATGAGGCACCTCAT--GTGTCGTACTGT
* *
73486825 TACTTCGACTTCGAGTTGATGAGGCACCTCGTGTGTCGTACTGT
1 TACTTCGACTTCGAGTCGATGAGGCACCTCATGTGTCGTACTGT
73486869 TACT
1 TACT
73486873 GTTATTTCGG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
43 3 0.07
44 37 0.86
45 2 0.05
46 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.34
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATGAGGCACCTCATGTGTCGTACTGT
Found at i:73488046 original size:61 final size:62
Alignment explanation
Indices: 73487993--73488129 Score: 204
Period size: 62 Copynumber: 2.2 Consensus size: 62
73487983 TTTTCCTGCG
* * *
73487993 ACTGCTTTGTTGCTTCACGT-CTCTGCTTCATGTCTCTGCCCTACTGTTATTTTTTTCAGCA
1 ACTGCTTTGCTGCTTCAAGTACTCTGCTTCACGTCTCTGCCCTACTGTTATTTTTTTCAGCA
* * * *
73488054 ACTGCTTTGCTGCTTCAATTACTCTGCTTCACGTCTTTGCCTTGCTGTTATTTTTTTCAGCA
1 ACTGCTTTGCTGCTTCAAGTACTCTGCTTCACGTCTCTGCCCTACTGTTATTTTTTTCAGCA
73488116 ACTGCTTTGCTGCT
1 ACTGCTTTGCTGCT
73488130 GATTTGCTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
61 17 0.25
62 51 0.75
ACGTcount: A:0.12, C:0.27, G:0.15, T:0.46
Consensus pattern (62 bp):
ACTGCTTTGCTGCTTCAAGTACTCTGCTTCACGTCTCTGCCCTACTGTTATTTTTTTCAGCA
Found at i:73488267 original size:49 final size:51
Alignment explanation
Indices: 73488174--73488273 Score: 134
Period size: 49 Copynumber: 2.0 Consensus size: 51
73488164 ATCTATCTTC
*
73488174 ACGTCTCTGCCCTGCTGCTATTAATTTTTTTTCGGCAACTGCTTTGCTGCTTT
1 ACGTCTCTGCCCTGCTG--ATTAATTTTTTTTCAGCAACTGCTTTGCTGCTTT
*
73488227 ACGTCTCTGCCCTGCTG-TT-A-TTTTTTTCTAGTAACTGCTTTGCTGCT
1 ACGTCTCTGCCCTGCTGATTAATTTTTTTTC-AGCAACTGCTTTGCTGCT
73488274 GATTTGCTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
48 8 0.18
49 17 0.39
50 2 0.05
53 17 0.39
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (51 bp):
ACGTCTCTGCCCTGCTGATTAATTTTTTTTCAGCAACTGCTTTGCTGCTTT
Found at i:73493707 original size:24 final size:24
Alignment explanation
Indices: 73493628--73493707 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
73493618 GATTTGTGAT
* *
73493628 TAAAAAGTCTAATTAAATAAGGTG
1 TAAAAAATCTAATTAAATGAGGTG
* * *
73493652 TAAATGAGATATGTCATTAAATGATGAT-
1 TAAA--A-A-ATCTAATTAAATGA-GGTG
73493680 TAAAAAATCTAATTAAATGAGGTG
1 TAAAAAATCTAATTAAATGAGGTG
73493704 TAAA
1 TAAA
73493708 TGACATGTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
23 2 0.05
24 20 0.48
25 1 0.02
26 2 0.05
27 1 0.02
28 14 0.33
29 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (24 bp):
TAAAAAATCTAATTAAATGAGGTG
Found at i:73509095 original size:30 final size:30
Alignment explanation
Indices: 73509037--73509098 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
73509027 GATCAATTAA
*
73509037 ATCTCCATCTAACATATTCATCAAAAAAAT
1 ATCTCCATCTAACATATTCACCAAAAAAAT
* *
73509067 ATCTCCATCTAACATCTGT-ACCACAAAAAT
1 ATCTCCATCTAACATAT-TCACCAAAAAAAT
73509097 AT
1 AT
73509099 AAAATACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.29
Consensus pattern (30 bp):
ATCTCCATCTAACATATTCACCAAAAAAAT
Found at i:73511918 original size:3 final size:3
Alignment explanation
Indices: 73511910--73511937 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
73511900 ACCAAAAGTT
73511910 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
73511938 AGTATGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:73514331 original size:55 final size:55
Alignment explanation
Indices: 73514266--73514428 Score: 254
Period size: 55 Copynumber: 3.0 Consensus size: 55
73514256 AGCCAACCCT
* *
73514266 AATATGAAAATATCTTGTTCAAGGCCCAACTTTTAGATAAGTTTACTAATAATCC
1 AATATGAAAATATCTTGTCCAAGGCCCAACTTTTAGATAGGTTTACTAATAATCC
* * ** *
73514321 AATATGAAAATACCTTGTCCAAAGCCCAACTTTTAGATAGGCCTACTAATAATCT
1 AATATGAAAATATCTTGTCCAAGGCCCAACTTTTAGATAGGTTTACTAATAATCC
*
73514376 AATATGAAAATATATTGTCCAAGGCCCAACTTTTAGATAGGTTTACTAATAAT
1 AATATGAAAATATCTTGTCCAAGGCCCAACTTTTAGATAGGTTTACTAATAAT
73514429 GGGCTGCCAA
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 96 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (55 bp):
AATATGAAAATATCTTGTCCAAGGCCCAACTTTTAGATAGGTTTACTAATAATCC
Found at i:73526229 original size:150 final size:150
Alignment explanation
Indices: 73525953--73526255 Score: 516
Period size: 150 Copynumber: 2.0 Consensus size: 150
73525943 ACCATGTTAA
*
73525953 ACATACTTGAATTGTTATGTAAATGTTCATGTGATGACTTTATTTGTATATGGCTTACTAAGCTT
1 ACATACTTGAATTGATATGTAAATGTTCATGTGATGACTTTATTTGTATATGGCTTACTAAGCTT
* * * *
73526018 TTAAAGCTTACTTTGTGTGTTCTTTCCATGTTTTATAGATTATCAAAGCTAGCTTGGACATCAGG
66 TTAAAGCTTACTTTGTGTGTTCTTTCCATGTTTTATAGATTACCAAAGCTAGCTCGAACATCAAG
* *
73526083 GATCATCAGGAACTATCATC
131 GATCATCAGGAACCATAATC
*
73526103 ACATACTTGAATTGATATGTAAATGTTCATTTGATGACTTTATTTGTATATGGCTTACTAAGCTT
1 ACATACTTGAATTGATATGTAAATGTTCATGTGATGACTTTATTTGTATATGGCTTACTAAGCTT
*
73526168 TTAAAGCTTACTTTGTGTGTTCTTTCCATGTTTTATAGATTACCGAAGCTAGCTCGAACATCAAG
66 TTAAAGCTTACTTTGTGTGTTCTTTCCATGTTTTATAGATTACCAAAGCTAGCTCGAACATCAAG
*
73526233 GATCATCGGGAACCATAATC
131 GATCATCAGGAACCATAATC
73526253 ACA
1 ACA
73526256 CTATCGACTA
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
150 143 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (150 bp):
ACATACTTGAATTGATATGTAAATGTTCATGTGATGACTTTATTTGTATATGGCTTACTAAGCTT
TTAAAGCTTACTTTGTGTGTTCTTTCCATGTTTTATAGATTACCAAAGCTAGCTCGAACATCAAG
GATCATCAGGAACCATAATC
Found at i:73530943 original size:19 final size:19
Alignment explanation
Indices: 73530915--73530971 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
73530905 TGCTAAAAAG
* *
73530915 AAATAAAAATTATAATTAA
1 AAATAGAAATTAAAATTAA
*
73530934 AAATAGAAA-TAAGAAATAA
1 AAATAGAAATTAA-AATTAA
*
73530953 AAAGAGAAAATTAAAATTA
1 AAATAG-AAATTAAAATTA
73530972 TCAACATCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 2 0.07
19 18 0.60
20 7 0.23
21 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
AAATAGAAATTAAAATTAA
Found at i:73534811 original size:14 final size:15
Alignment explanation
Indices: 73534778--73534817 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
73534768 TTTACATTTG
*
73534778 AATTATATTTTATTT
1 AATTATATTTTATAT
*
73534793 CATTAT-TTTTATAT
1 AATTATATTTTATAT
73534807 AATTATATTTT
1 AATTATATTTT
73534818 TAATTTAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
AATTATATTTTATAT
Found at i:73537240 original size:120 final size:121
Alignment explanation
Indices: 73537022--73537259 Score: 322
Period size: 120 Copynumber: 2.0 Consensus size: 121
73537012 AAAAAGTAAA
* *
73537022 TATAATAAAATGATATTAAAATAAAGTCATTAAAAACAGTAATATATATATATATACATCTAATA
1 TATAATAAAA-GATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATC-AATA
* * *
73537087 AGAATATATAATAATGTTAATGATAATAATAATAATAATATTGAAATACAAAAGCTAT
64 AGAATATACAATAATGTCAATAATAATAATAATAATAATATTGAAATACAAAAGCTAT
* * *
73537145 TATAATAAAA-ATATTAAAATAAAGT-AATAAAAATATTACTACATATATATATACAT-ACATGA
1 TATAATAAAAGATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATCA-AT-A
*
73537207 AG-ATATACACTAATGTACAATAATAATAATAATAATAATATTGAAATACAAAA
64 AGAATATACAATAATGT-CAATAATAATAATAATAATAATATTGAAATACAAAA
73537260 AAATGTAATA
Statistics
Matches: 103, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
118 1 0.01
119 14 0.14
120 63 0.61
121 15 0.15
123 10 0.10
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (121 bp):
TATAATAAAAGATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATCAATAAG
AATATACAATAATGTCAATAATAATAATAATAATAATATTGAAATACAAAAGCTAT
Found at i:73537931 original size:12 final size:12
Alignment explanation
Indices: 73537910--73537947 Score: 62
Period size: 11 Copynumber: 3.3 Consensus size: 12
73537900 TTCGAATAGG
73537910 AAAAAG-GAAGA
1 AAAAAGAGAAGA
73537921 AAAAAGAGAAGA
1 AAAAAGAGAAGA
73537933 AAAAAGA-AAGA
1 AAAAAGAGAAGA
73537944 AAAA
1 AAAA
73537948 TCGATTCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 14 0.54
12 12 0.46
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAGA
Found at i:73539221 original size:10 final size:10
Alignment explanation
Indices: 73539200--73539238 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
73539190 TTTTTGGTAC
73539200 AAAATTATTTA
1 AAAATTA-TTA
73539211 AAAATTATTA
1 AAAATTATTA
* *
73539221 ATAATTATAA
1 AAAATTATTA
73539231 AAAATTAT
1 AAAATTAT
73539239 AAGAAATATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AAAATTATTA
Found at i:73541983 original size:14 final size:14
Alignment explanation
Indices: 73541964--73541993 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
73541954 TAAACCAATT
73541964 AACCAAACTCGCAC
1 AACCAAACTCGCAC
73541978 AACCAAACTCGCAC
1 AACCAAACTCGCAC
73541992 AA
1 AA
73541994 TGGTCTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.40, G:0.07, T:0.07
Consensus pattern (14 bp):
AACCAAACTCGCAC
Found at i:73543006 original size:15 final size:15
Alignment explanation
Indices: 73542986--73543017 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
73542976 GTTTGATGGA
73542986 CCTAATTTAGGTACC
1 CCTAATTTAGGTACC
73543001 CCTAATTTAGGTACC
1 CCTAATTTAGGTACC
73543016 CC
1 CC
73543018 GGACTAGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.31
Consensus pattern (15 bp):
CCTAATTTAGGTACC
Found at i:73546679 original size:21 final size:20
Alignment explanation
Indices: 73546638--73546686 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
73546628 ATTCTCTTAG
* * *
73546638 TTTATAATAATATAAATATA
1 TTTAAAATAATAAAAAAATA
73546658 TTTAAAATAAATAAAAAAATA
1 TTTAAAAT-AATAAAAAAATA
73546679 TATTAAAA
1 T-TTAAAA
73546687 CCAATCCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 11 0.46
22 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTAAAATAATAAAAAAATA
Found at i:73569973 original size:38 final size:38
Alignment explanation
Indices: 73569930--73570005 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
73569920 AATATTACTC
73569930 TCTTCACATATTATTTCAAAATAACTCTTTTACTGCTG
1 TCTTCACATATTATTTCAAAATAACTCTTTTACTGCTG
73569968 TCTTCACATATTATTTCAAAATAACTCTTTTACTGCTG
1 TCTTCACATATTATTTCAAAATAACTCTTTTACTGCTG
73570006 AATAAGAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (38 bp):
TCTTCACATATTATTTCAAAATAACTCTTTTACTGCTG
Found at i:73571660 original size:24 final size:24
Alignment explanation
Indices: 73571611--73571660 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
73571601 TTAAATGTTA
* * *
73571611 AATAAGATACTATCTTTTTCCTGT
1 AATAAGATACTATATGTTTACTGT
73571635 AATAAGATACT-TATGTTTACTAGT
1 AATAAGATACTATATGTTTACT-GT
73571659 AA
1 AA
73571661 CAAAGAGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (24 bp):
AATAAGATACTATATGTTTACTGT
Found at i:73572373 original size:38 final size:38
Alignment explanation
Indices: 73572317--73572398 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
73572307 CTTAGAAGAT
*
73572317 TTTTGATATGGTTCAGTATTATTATTTTAACAACTTAC
1 TTTTCATATGGTTCAGTATTATTATTTTAACAACTTAC
*
73572355 TTTTCATATGGTTCAGTATTGTTATTTTAACAACTTAC
1 TTTTCATATGGTTCAGTATTATTATTTTAACAACTTAC
73572393 TTTTCA
1 TTTTCA
73572399 ATCTTGTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (38 bp):
TTTTCATATGGTTCAGTATTATTATTTTAACAACTTAC
Found at i:73581325 original size:37 final size:38
Alignment explanation
Indices: 73581284--73581361 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
73581274 TAAAGGGTCA
*
73581284 TTTGAGGATTATATATTTT-CATCCATATTCAAATATG
1 TTTGAGGATTATATATTTTACACCCATATTCAAATATG
* *
73581321 TTTGAGGGTTATATATTTTGACACCCATATTTAAATATG
1 TTTGAGGATTATATATTTT-ACACCCATATTCAAATATG
73581360 TT
1 TT
73581362 CAAGTGTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 18 0.50
39 18 0.50
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (38 bp):
TTTGAGGATTATATATTTTACACCCATATTCAAATATG
Found at i:73582487 original size:28 final size:27
Alignment explanation
Indices: 73582447--73582500 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
73582437 TTATTTTCGA
*
73582447 GGCCCCCAGTGTTTGACTGTCGGAGAT
1 GGCCCCCACTGTTTGACTGTCGGAGAT
* *
73582474 GGCCTCCCACTGTTTGATTGTTGGAGA
1 GGCC-CCCACTGTTTGACTGTCGGAGA
73582501 AGACATGAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.15, C:0.24, G:0.31, T:0.30
Consensus pattern (27 bp):
GGCCCCCACTGTTTGACTGTCGGAGAT
Found at i:73583153 original size:27 final size:27
Alignment explanation
Indices: 73583122--73583174 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
73583112 AACACAAAAG
73583122 AATATTTTTCCAATTTATTTAAAGATT
1 AATATTTTTCCAATTTATTTAAAGATT
73583149 AATATTTTTCCAATTTATTTAAAGAT
1 AATATTTTTCCAATTTATTTAAAGAT
73583175 ATGATTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.51
Consensus pattern (27 bp):
AATATTTTTCCAATTTATTTAAAGATT
Found at i:73584070 original size:31 final size:31
Alignment explanation
Indices: 73584030--73584088 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
73584020 GTGTAATTCA
* *
73584030 TATTTGAGTTAAACCGAAAAACTTAATTTTT
1 TATTCGAGTTAAACCGAAAAACTAAATTTTT
* *
73584061 TATTCGAGTTGATCCGAAAAACTAAATT
1 TATTCGAGTTAAACCGAAAAACTAAATT
73584089 AACTAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (31 bp):
TATTCGAGTTAAACCGAAAAACTAAATTTTT
Found at i:73589281 original size:55 final size:54
Alignment explanation
Indices: 73589194--73589448 Score: 224
Period size: 55 Copynumber: 4.8 Consensus size: 54
73589184 ATTAAGGTTT
* * *
73589194 AAGGATGCCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGATTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG-TTTCTAAGGC
* * ** * *
73589249 AAGGAAATCATGTAAGACCATGTTAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
73589304 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * * *
73589357 AAGGCTACCATGTAAGACCATGTCAAGACACGTCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
73589406 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
73589449 GTACCCGTGT
Statistics
Matches: 163, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
49 37 0.23
52 7 0.04
53 38 0.23
54 13 0.08
55 64 0.39
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:73589400 original size:108 final size:109
Alignment explanation
Indices: 73589204--73589401 Score: 283
Period size: 108 Copynumber: 1.8 Consensus size: 109
73589194 AAGGATGCCG
* *
73589204 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGATTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGT-AGAGTTCTAAGGCAAGGAAACCATGTAAGACCA
* * *
73589269 TGTTAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
65 TGTCAAGACACGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
**
73589314 TGTAAGACCATGCCAAGGCATGGC-ATTGGT-GAGTTCATAAGGCAAGGCTACCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAGAGTTC-TAAGGCAAGGAAACCATGTAAGACCA
* *
73589377 TGTCAAGACACGTCAATGGTAAGTT
65 TGTCAAGACACGGCAATGATAAGTT
73589402 TCAAAAGGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 5 0.06
108 43 0.55
109 6 0.08
110 24 0.31
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (109 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAGAGTTCTAAGGCAAGGAAACCATGTAAGACCAT
GTCAAGACACGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:73589661 original size:16 final size:16
Alignment explanation
Indices: 73589640--73589670 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
73589630 ATAAATTTGA
73589640 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
73589656 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
73589671 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:73593192 original size:33 final size:32
Alignment explanation
Indices: 73593150--73593227 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 32
73593140 CTCATAAATT
*
73593150 TATATATTATATAAAACCATAACCAT-AATTATA
1 TATATATTATATAAAA-CAAAACCATGAA-TATA
*
73593183 TATATATTATATACAACAAAACCATGAATATA
1 TATATATTATATAAAACAAAACCATGAATATA
73593215 TATTATATTATAT
1 TA-TATATTATAT
73593228 TATATTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 14 0.34
33 27 0.66
ACGTcount: A:0.50, C:0.10, G:0.01, T:0.38
Consensus pattern (32 bp):
TATATATTATATAAAACAAAACCATGAATATA
Found at i:73593223 original size:5 final size:5
Alignment explanation
Indices: 73593213--73593256 Score: 81
Period size: 5 Copynumber: 9.0 Consensus size: 5
73593203 ACCATGAATA
73593213 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA- TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
73593257 AACACCAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:73595502 original size:35 final size:35
Alignment explanation
Indices: 73595455--73595553 Score: 103
Period size: 35 Copynumber: 2.8 Consensus size: 35
73595445 TATATCTGAG
* *
73595455 TATACAATTTCAATATAAGTTCACATGTAATCGAA
1 TATACAAATTCAATATAAGTTCACATGTAACCGAA
** * *
73595490 TACTA-AAATTCAATATAACCTCACATGCAGCCGAA
1 TA-TACAAATTCAATATAAGTTCACATGTAACCGAA
*
73595525 TATACAAGTTCAATATAAGCTT-ACATGTA
1 TATACAAATTCAATATAAG-TTCACATGTA
73595554 CTTACCTATG
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
34 2 0.04
35 46 0.90
36 3 0.06
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (35 bp):
TATACAAATTCAATATAAGTTCACATGTAACCGAA
Found at i:73603248 original size:20 final size:21
Alignment explanation
Indices: 73603204--73603248 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
73603194 TTCTTTATTT
* *
73603204 ATTTT-TGTTTATTTTCTTTT
1 ATTTTGTGTTTATTATCTTTG
73603224 A-TTTGTGTTTATTAT-TTTG
1 ATTTTGTGTTTATTATCTTTG
73603243 ATTTTG
1 ATTTTG
73603249 AGTTGGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.13, C:0.02, G:0.11, T:0.73
Consensus pattern (21 bp):
ATTTTGTGTTTATTATCTTTG
Found at i:73604808 original size:12 final size:12
Alignment explanation
Indices: 73604776--73604815 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
73604766 TTTGAGTCCA
73604776 TTTAATTTATTAT
1 TTTAATTT-TTAT
73604789 TATTAATTTTTAT
1 T-TTAATTTTTAT
*
73604802 TTTAATTTTAAT
1 TTTAATTTTTAT
73604814 TT
1 TT
73604816 CCTTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 12 0.48
13 6 0.24
14 7 0.28
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTAATTTTTAT
Found at i:73612907 original size:34 final size:34
Alignment explanation
Indices: 73612869--73612940 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
73612859 AGTGAAAAGT
73612869 TGGATGATTTTCCTACTGCTGCTAGAAAGTATCC
1 TGGATGATTTTCCTACTGCTGCTAGAAAGTATCC
73612903 TGGATGATTTTCCTACTGCTGCTAGAAAGTATCC
1 TGGATGATTTTCCTACTGCTGCTAGAAAGTATCC
73612937 TGGA
1 TGGA
73612941 AAGAATGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (34 bp):
TGGATGATTTTCCTACTGCTGCTAGAAAGTATCC
Found at i:73613496 original size:10 final size:10
Alignment explanation
Indices: 73613481--73613522 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
73613471 ATAGTTATAA
73613481 ATATGTACAT
1 ATATGTACAT
73613491 ATATGT--AT
1 ATATGTACAT
73613499 ATATGTACAT
1 ATATGTACAT
*
73613509 ATATTTACAT
1 ATATGTACAT
73613519 ATAT
1 ATAT
73613523 ATCATCAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.28
10 21 0.72
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (10 bp):
ATATGTACAT
Found at i:73613520 original size:18 final size:18
Alignment explanation
Indices: 73613481--73613520 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
73613471 ATAGTTATAA
*
73613481 ATATGTACATATATGTAT
1 ATATGTACATATATGTAC
*
73613499 ATATGTACATATATTTAC
1 ATATGTACATATATGTAC
73613517 ATAT
1 ATAT
73613521 ATATCATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (18 bp):
ATATGTACATATATGTAC
Found at i:73619526 original size:41 final size:41
Alignment explanation
Indices: 73619469--73619549 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
73619459 AAAACATATT
73619469 ACTGCATGATTAATTGAGAATAATACCTTACAAATTTTGGC
1 ACTGCATGATTAATTGAGAATAATACCTTACAAATTTTGGC
73619510 ACTGCATGATTAATTGAGAATAATACCTTACAAATTTTGG
1 ACTGCATGATTAATTGAGAATAATACCTTACAAATTTTGG
73619550 TTCAAACTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (41 bp):
ACTGCATGATTAATTGAGAATAATACCTTACAAATTTTGGC
Found at i:73620155 original size:46 final size:46
Alignment explanation
Indices: 73620102--73620194 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
73620092 AGCTTGAAAA
*
73620102 TATACTTGAATTTTCCTATCAATTGATTAGAAAATCAATTTATTCT
1 TATACTTGAATTTGCCTATCAATTGATTAGAAAATCAATTTATTCT
73620148 TATACTTGAATTTGCCTATCAATTGATTAGAAAATCAATTTATTCT
1 TATACTTGAATTTGCCTATCAATTGATTAGAAAATCAATTTATTCT
73620194 T
1 T
73620195 CTTTCTTATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (46 bp):
TATACTTGAATTTGCCTATCAATTGATTAGAAAATCAATTTATTCT
Found at i:73622030 original size:22 final size:21
Alignment explanation
Indices: 73622003--73622057 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
73621993 CACATGGGTA
73622003 TAACAATGAAAGACACAT-GATC
1 TAACAATGAAA-ACA-ATAGATC
73622025 TAACAATGACGAAACAATAGATC
1 TAACAATGA--AAACAATAGATC
73622048 -AACAATGAAA
1 TAACAATGAAA
73622058 TGGCGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 2 0.07
22 19 0.63
23 7 0.23
24 2 0.07
ACGTcount: A:0.55, C:0.16, G:0.13, T:0.16
Consensus pattern (21 bp):
TAACAATGAAAACAATAGATC
Found at i:73625188 original size:16 final size:16
Alignment explanation
Indices: 73625167--73625200 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
73625157 TTCATGGATG
73625167 AACAATAAAAATTAAA
1 AACAATAAAAATTAAA
73625183 AACAATAAAAATTAAA
1 AACAATAAAAATTAAA
73625199 AA
1 AA
73625201 GAAAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (16 bp):
AACAATAAAAATTAAA
Found at i:73629221 original size:47 final size:46
Alignment explanation
Indices: 73629167--73629278 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 46
73629157 AAATGAATAG
* *
73629167 AAATAGAGAAATGGAAAAAAAATTAGAAATCATTATGGTTTTCTCCA
1 AAATAGAGAAATGGAAAAAAAATTAGAAATAAATATGGTTTTCT-CA
* * * *
73629214 AAATAGAGAAAT-G-AAATAATTTGGAAATAAATGTGGTTTTCTCA
1 AAATAGAGAAATGGAAAAAAAATTAGAAATAAATATGGTTTTCTCA
73629258 AAAT-G-GAAATGGAAATAAAAA
1 AAATAGAGAAATGGAAA-AAAAA
73629279 ATGATTCATT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
42 5 0.09
43 2 0.04
44 8 0.15
45 26 0.48
46 1 0.02
47 12 0.22
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (46 bp):
AAATAGAGAAATGGAAAAAAAATTAGAAATAAATATGGTTTTCTCA
Found at i:73633401 original size:22 final size:21
Alignment explanation
Indices: 73633371--73633417 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
73633361 TACAAATTAA
73633371 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
73633393 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
73633414 ATCT
1 ATCT
73633418 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:73633411 original size:16 final size:16
Alignment explanation
Indices: 73633390--73633440 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
73633380 ATTACAAGAT
73633390 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
73633406 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
73633425 CATATGCTTAAAGATT
1 CATAT-CTTCAAGATT
73633441 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:73633423 original size:19 final size:21
Alignment explanation
Indices: 73633388--73633429 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
73633378 AGATTACAAG
73633388 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
73633409 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
73633428 AT
1 AT
73633430 GCTTAAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:73643579 original size:36 final size:36
Alignment explanation
Indices: 73643539--73643621 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
73643529 TTGTGAACCA
* *
73643539 TGTTAACTTGGTGAAT-TATATTATTATAGCGAACTG
1 TGTTAACTTGCTG-ATCTATATTAATATAGCGAACTG
* * *
73643575 TGTTAATTTGCTGATCTGTATTAATATGGCGAACTG
1 TGTTAACTTGCTGATCTATATTAATATAGCGAACTG
* *
73643611 TATTAATTTGC
1 TGTTAACTTGC
73643622 CAAACTGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
35 2 0.05
36 38 0.95
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (36 bp):
TGTTAACTTGCTGATCTATATTAATATAGCGAACTG
Found at i:73643598 original size:18 final size:17
Alignment explanation
Indices: 73643567--73643631 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 17
73643557 TATTATTATA
*
73643567 GCGAACTGTGTTAATTT
1 GCGAACTGTATTAATTT
* *
73643584 GCTGATCTGTATTAATATG
1 GC-GAACTGTATTAAT-TT
73643603 GCGAACTGTATTAATTT
1 GCGAACTGTATTAATTT
*
73643620 GCCAAACTGTAT
1 G-CGAACTGTAT
73643632 ATTGTGAGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 4 0.10
18 32 0.82
19 3 0.08
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (17 bp):
GCGAACTGTATTAATTT
Found at i:73643630 original size:36 final size:36
Alignment explanation
Indices: 73643557--73643631 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
73643547 TGGTGAATTA
* * ** *
73643557 TATTATTATAGCGAACTGTGTTAATTTGCTGATCTG
1 TATTAATATAGCGAACTGTATTAATTTGCCAAACTG
*
73643593 TATTAATATGGCGAACTGTATTAATTTGCCAAACTG
1 TATTAATATAGCGAACTGTATTAATTTGCCAAACTG
73643629 TAT
1 TAT
73643632 ATTGTGAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (36 bp):
TATTAATATAGCGAACTGTATTAATTTGCCAAACTG
Found at i:73644421 original size:18 final size:18
Alignment explanation
Indices: 73644368--73644423 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
73644358 ATGTGATCCA
* * *
73644368 CTTATTTTATGCGAATTA
1 CTTATTTTATGAGAACTG
* * *
73644386 CTTATTATATGTGCACTG
1 CTTATTTTATGAGAACTG
73644404 CTTATTTTATGAGAACTG
1 CTTATTTTATGAGAACTG
73644422 CT
1 CT
73644424 ATGTCGTGTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (18 bp):
CTTATTTTATGAGAACTG
Found at i:73651516 original size:30 final size:31
Alignment explanation
Indices: 73651480--73651539 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
73651470 CAGGTTAAAA
73651480 TACGGGTGTAGGT-AAAAAATGCAAAACAGT
1 TACGGGTGTAGGTCAAAAAATGCAAAACAGT
73651510 TACGGGTGTAGGTCAAAAAATGCAAAACAG
1 TACGGGTGTAGGTCAAAAAATGCAAAACAG
73651540 CAAGGTGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.43, C:0.12, G:0.27, T:0.18
Consensus pattern (31 bp):
TACGGGTGTAGGTCAAAAAATGCAAAACAGT
Found at i:73657228 original size:14 final size:14
Alignment explanation
Indices: 73657209--73657240 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
73657199 ATCAAAACAC
73657209 ATAAATATAATACA
1 ATAAATATAATACA
*
73657223 ATAAATATAGTACA
1 ATAAATATAATACA
73657237 ATAA
1 ATAA
73657241 TATCATTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.28
Consensus pattern (14 bp):
ATAAATATAATACA
Found at i:73657515 original size:18 final size:18
Alignment explanation
Indices: 73657480--73657515 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
73657470 TAAGGGTCAA
*
73657480 GTCCCATCACCCAGCAAC
1 GTCCCATCACCCAACAAC
*
73657498 GTCCCATCATCCAACAAC
1 GTCCCATCACCCAACAAC
73657516 ATCAGGAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.47, G:0.08, T:0.14
Consensus pattern (18 bp):
GTCCCATCACCCAACAAC
Found at i:73658063 original size:13 final size:13
Alignment explanation
Indices: 73658047--73658093 Score: 69
Period size: 13 Copynumber: 3.6 Consensus size: 13
73658037 TTATTTTATT
73658047 TTATTTAGTTTTA
1 TTATTTAGTTTTA
*
73658060 TTATTTATTTTTA
1 TTATTTAGTTTTA
73658073 TTATTTA-TTTTA
1 TTATTTAGTTTTA
73658085 TTAATTTAG
1 TT-ATTTAG
73658094 CTTTGGCCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
12 7 0.23
13 24 0.77
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (13 bp):
TTATTTAGTTTTA
Found at i:73658085 original size:9 final size:9
Alignment explanation
Indices: 73658041--73658091 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
73658031 AAGATATTAT
73658041 TTTATTTTA
1 TTTATTTTA
73658050 TTTAGTTTTA
1 TTTA-TTTTA
73658060 -TTA-TTTA
1 TTTATTTTA
73658067 TTT-TTATTA
1 TTTATT-TTA
73658076 TTTATTTTA
1 TTTATTTTA
*
73658085 TTAATTT
1 TTTATTT
73658092 AGCTTTGGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
7 4 0.11
8 3 0.08
9 22 0.61
10 7 0.19
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:73659689 original size:13 final size:13
Alignment explanation
Indices: 73659663--73659712 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
73659653 ATAGAAGATA
*
73659663 TTATTTTATTTTAT
1 TTATTTT-TATTAT
*
73659677 TTAGTTTTATTAT
1 TTATTTTTATTAT
73659690 TTATTTTTATT-T
1 TTATTTTTATTAT
73659702 TTATTTTTATT
1 TTATTTTTATT
73659713 TTATTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
12 12 0.36
13 15 0.45
14 6 0.18
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:73659690 original size:23 final size:22
Alignment explanation
Indices: 73659661--73659717 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
73659651 AAATAGAAGA
73659661 TATTATTTTATTTTATTTAGTT-T
1 TATTATTTTATTTTATTT--TTAT
73659684 TATTA-TTTATTTTTATTTTTAT
1 TATTATTTTA-TTTTATTTTTAT
*
73659706 TTTTATTTTATT
1 TATTATTTTATT
73659718 AATTTAGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.07
22 11 0.37
23 17 0.57
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (22 bp):
TATTATTTTATTTTATTTTTAT
Found at i:73659717 original size:5 final size:6
Alignment explanation
Indices: 73659676--73659714 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
73659666 TTTTATTTTA
*
73659676 TTTAGT TTTATT ATTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT -TTTATT TTTATT TTTATT TTTATT TT
73659715 ATTAATTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:73668400 original size:11 final size:11
Alignment explanation
Indices: 73668384--73668426 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
73668374 TAGAATATAT
73668384 CCCATACCTTG
1 CCCATACCTTG
*
73668395 CCCATACCTTT
1 CCCATACCTTG
*
73668406 CCCATACC-TA
1 CCCATACCTTG
73668416 CCCATACCTTG
1 CCCATACCTTG
73668427 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:73668411 original size:22 final size:21
Alignment explanation
Indices: 73668383--73668425 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
73668373 TTAGAATATA
*
73668383 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
73668405 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
73668426 GGAAAGGTCA
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:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:73668987 original size:18 final size:18
Alignment explanation
Indices: 73668960--73669052 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
73668950 TACGACCGTT
73668960 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
73668978 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
73668996 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
73669014 TACGGAACTATTCACGTA
1 TACGGTACTATTCACGTA
*
73669032 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
73669050 TAC
1 TAC
73669053 AGTAGTTGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:73673116 original size:11 final size:11
Alignment explanation
Indices: 73673100--73673141 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
73673090 TAGAATATAT
73673100 CCATACCTTGC
1 CCATACCTTGC
*
73673111 CCATACCTTTC
1 CCATACCTTGC
*
73673122 CCATACC-TAC
1 CCATACCTTGC
73673132 CCATACCTTG
1 CCATACCTTG
73673142 GAAAGGTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.21, C:0.45, G:0.05, T:0.29
Consensus pattern (11 bp):
CCATACCTTGC
Found at i:73673136 original size:21 final size:22
Alignment explanation
Indices: 73673100--73673140 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
73673090 TAGAATATAT
*
73673100 CCATACCTTGCCCATACCTTTC
1 CCATACCTTACCCATACCTTTC
73673122 CCATACC-TACCCATACCTT
1 CCATACCTTACCCATACCTT
73673141 GGAAAGGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.22, C:0.46, G:0.02, T:0.29
Consensus pattern (22 bp):
CCATACCTTACCCATACCTTTC
Found at i:73686910 original size:23 final size:23
Alignment explanation
Indices: 73686863--73686930 Score: 82
Period size: 24 Copynumber: 2.9 Consensus size: 23
73686853 AAAAAGATTT
*
73686863 TTATACTAATAAATTTCAAATATA
1 TTATACTAATAAATCT-AAATATA
* *
73686887 TTTTGCTAATAAATCTAAATATA
1 TTATACTAATAAATCTAAATATA
*
73686910 TTATACTAAAAAATACTAAAT
1 TTATACTAATAAAT-CTAAAT
73686931 CTTCTAGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
23 18 0.49
24 19 0.51
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.40
Consensus pattern (23 bp):
TTATACTAATAAATCTAAATATA
Found at i:73688700 original size:23 final size:23
Alignment explanation
Indices: 73688655--73688700 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
73688645 TTATCAACAA
* * * *
73688655 CTGAAAATCACATAATGAGTAAG
1 CTGAAAATAAAATAATAAATAAG
73688678 CTGAAAATAAAATAATAAATAAG
1 CTGAAAATAAAATAATAAATAAG
73688701 AAAGAAGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.22
Consensus pattern (23 bp):
CTGAAAATAAAATAATAAATAAG
Found at i:73688713 original size:21 final size:20
Alignment explanation
Indices: 73688687--73688734 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
73688677 GCTGAAAATA
*
73688687 AAATAATAAATAAGAA-AGAAG
1 AAATAAGAAATAA-AATA-AAG
73688708 AAATAAAGAAATAAAATAAAG
1 AAAT-AAGAAATAAAATAAAG
73688729 AAATAA
1 AAATAA
73688735 AGAATGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 13 0.54
22 9 0.38
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (20 bp):
AAATAAGAAATAAAATAAAG
Found at i:73688726 original size:13 final size:13
Alignment explanation
Indices: 73688708--73688735 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
73688698 AAGAAAGAAG
73688708 AAATAAAGAAATA
1 AAATAAAGAAATA
73688721 AAATAAAGAAATA
1 AAATAAAGAAATA
73688734 AA
1 AA
73688736 GAATGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (13 bp):
AAATAAAGAAATA
Found at i:73693634 original size:30 final size:30
Alignment explanation
Indices: 73693593--73693649 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
73693583 CATGGATTGC
*
73693593 CACATGGGCGTGTGGCT-AGCCCGTGTGGCT
1 CACACGGGCGTGT-GCTCAGCCCGTGTGGCT
*
73693623 CACACGGGCGTGTGCTCAGCCTGTGTG
1 CACACGGGCGTGTGCTCAGCCCGTGTG
73693650 TAAATGGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.11, C:0.28, G:0.39, T:0.23
Consensus pattern (30 bp):
CACACGGGCGTGTGCTCAGCCCGTGTGGCT
Found at i:73700244 original size:9 final size:9
Alignment explanation
Indices: 73700230--73700267 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
73700220 TTATACTTTA
73700230 TTTATAATT
1 TTTATAATT
73700239 TTTATAATT
1 TTTATAATT
73700248 TTTATAATT
1 TTTATAATT
73700257 TTTATAATT
1 TTTATAATT
73700266 TT
1 TT
73700268 AATTTAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTATAATT
Found at i:73704457 original size:30 final size:30
Alignment explanation
Indices: 73704403--73704463 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
73704393 ACTAAGCAAT
73704403 TTTCATATACATGTATCATCCATTT-CATG
1 TTTCATATACATGTATCATCCATTTCCATG
73704432 TTTCAATATATCATGTAAT-AT-CATTTCCATG
1 TTTC-ATATA-CATGT-ATCATCCATTTCCATG
73704463 T
1 T
73704464 ATTTCATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
29 4 0.14
30 10 0.36
31 12 0.43
32 2 0.07
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTCATATACATGTATCATCCATTTCCATG
Found at i:73709346 original size:35 final size:35
Alignment explanation
Indices: 73709306--73709378 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
73709296 GGTACGTGAT
73709306 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
73709341 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
73709376 ATA
1 ATA
73709379 AAGAATGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTGATCTGACGAGA
Found at i:73721642 original size:25 final size:26
Alignment explanation
Indices: 73721606--73721659 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
73721596 ATATATTTAT
*
73721606 CATCTAATCATCATTTATGTAATTAA
1 CATCTAATCATCATTTATGAAATTAA
*
73721632 CATCT-ATCATCATTTATGAAATTTA
1 CATCTAATCATCATTTATGAAATTAA
73721657 CAT
1 CAT
73721660 ACCTCGCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.37, C:0.17, G:0.04, T:0.43
Consensus pattern (26 bp):
CATCTAATCATCATTTATGAAATTAA
Found at i:73725118 original size:20 final size:19
Alignment explanation
Indices: 73725074--73725120 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
73725064 CAAAAACAAA
*
73725074 AATAAAATAAGAGAAAACT
1 AATAAAATAAGAGAAAAAT
*
73725093 ACTAAAATAA-ATGGAAAAAT
1 AATAAAATAAGA--GAAAAAT
73725113 AATAAAAT
1 AATAAAAT
73725121 TAGGTTGCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 9 0.39
20 13 0.57
ACGTcount: A:0.68, C:0.04, G:0.09, T:0.19
Consensus pattern (19 bp):
AATAAAATAAGAGAAAAAT
Found at i:73728169 original size:15 final size:16
Alignment explanation
Indices: 73728136--73728177 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
73728126 CGAGTTATCC
73728136 AAAAATAATTAAAAGAT
1 AAAAAT-ATTAAAAGAT
73728153 -AAAATATTAGAAA-AT
1 AAAAATATTA-AAAGAT
73728168 AAAAATATTA
1 AAAAATATTA
73728178 TGCTAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (16 bp):
AAAAATATTAAAAGAT
Found at i:73742508 original size:20 final size:17
Alignment explanation
Indices: 73742470--73742505 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
73742460 CCATTCATTC
73742470 AAATCAAAACAAAGAAG
1 AAATCAAAACAAAGAAG
73742487 AAATCAAAACAAAGAAG
1 AAATCAAAACAAAGAAG
73742504 AA
1 AA
73742506 GAAGTTAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.72, C:0.11, G:0.11, T:0.06
Consensus pattern (17 bp):
AAATCAAAACAAAGAAG
Found at i:73751427 original size:21 final size:21
Alignment explanation
Indices: 73751403--73751472 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
73751393 TGATCTAAAC
73751403 TCATTGAGTTATGGTCTGAGT
1 TCATTGAGTTATGGTCTGAGT
* *
73751424 TCA-TGA-TATATGTGACATCTAAGC
1 TCATTGAGT-TATG-G---TCTGAGT
*
73751448 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTATGGTCTGAGT
73751469 TCAT
1 TCAT
73751473 GATGTATGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
19 1 0.03
20 7 0.19
21 13 0.35
24 9 0.24
25 6 0.16
26 1 0.03
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (21 bp):
TCATTGAGTTATGGTCTGAGT
Found at i:73751451 original size:45 final size:45
Alignment explanation
Indices: 73751395--73751485 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
73751385 GGACTATGTG
73751395 ATCTAAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGAC
1 ATCTAAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGAC
* * *
73751440 ATCTAAGCTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTGAC
1 ATCTAAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGAC
73751485 A
1 A
73751486 CATGTTTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGAC
Found at i:73756892 original size:18 final size:18
Alignment explanation
Indices: 73756869--73756903 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
73756859 AAAGTGATAA
73756869 AATTAAA-AGATAATAAAT
1 AATTAAATAGA-AATAAAT
73756887 AATTAAATAGAAATAAA
1 AATTAAATAGAAATAAA
73756904 AATAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
AATTAAATAGAAATAAAT
Done.