Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 236 of 410
Found at i:73012648 original size:28 final size:28
Alignment explanation
Indices: 73012617--73012773 Score: 145
Period size: 28 Copynumber: 5.5 Consensus size: 28
73012607 CTGACAGATT
*
73012617 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
73012645 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
*
73012674 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
73012702 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * *
73012731 TGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
73012759 TTGCACACACAGTGC
1 TCGCACACATAGTGC
73012774 CTCATAACTC
Statistics
Matches: 101, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
27 1 0.01
28 55 0.54
29 44 0.44
30 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:73012677 original size:29 final size:29
Alignment explanation
Indices: 73012644--73012745 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
73012634 GATTAAAGAA
73012644 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* **
73012673 CTCGCACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
73012701 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
73012730 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
73012746 TCGGTTGAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
28 23 0.38
29 38 0.62
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:73012684 original size:57 final size:57
Alignment explanation
Indices: 73012617--73012777 Score: 241
Period size: 57 Copynumber: 2.8 Consensus size: 57
73012607 CTGACAGATT
* * *
73012617 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
**
73012674 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * *
73012731 TGGCACACATAGTGCTCGGTTGAAGAACTTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
73012778 TAACTCCAGC
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 95 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:73012849 original size:40 final size:40
Alignment explanation
Indices: 73012805--73013056 Score: 441
Period size: 40 Copynumber: 6.3 Consensus size: 40
73012795 CCTTCGAGGT
*
73012805 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
73012845 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
73012885 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
73012925 TTAGCCCGGATACATCACTTGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
73012965 TTAGCCCGGATACATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
73013005 TTAGCCCGGACACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
73013045 TTAGCCCGGATA
1 TTAGCCCGGATA
73013057 TATATAACTC
Statistics
Matches: 200, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 200 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:73014609 original size:48 final size:48
Alignment explanation
Indices: 73014551--73014757 Score: 351
Period size: 48 Copynumber: 4.3 Consensus size: 48
73014541 ATATACACAC
* *
73014551 ATCTCCTACATATTTCCCACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
73014599 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
73014647 ATCTCATAAATATTTCACATTAGCCATTCGGCTTTACCACATGTACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
73014695 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
73014743 ATCTCATACATATTT
1 ATCTCATACATATTT
73014758 TTTATTCATG
Statistics
Matches: 151, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 151 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:73017452 original size:2 final size:2
Alignment explanation
Indices: 73017434--73017471 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
73017424 TGATGGCCGA
* *
73017434 AT AT GT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73017472 CAACTATACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73023801 original size:50 final size:50
Alignment explanation
Indices: 73023747--73023945 Score: 211
Period size: 50 Copynumber: 4.0 Consensus size: 50
73023737 CTGAAGCTCC
* * * **
73023747 CTGGTACCCATTGTAGCCTGTACTTAGTACTACACATACGACCTAACAAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAAT
* * *
73023797 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAAT
* * * * * *
73023847 C-GGATACACGTAGTAGCCTGCACTTAGTACTATACACGTGATCGAAGCTAT
1 CTGG-TACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-CAAT
* * * *
73023898 CGGGCACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACA
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
73023946 CTACAGGAAA
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 83 0.66
51 39 0.31
52 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (50 bp):
CTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAAT
Found at i:73024137 original size:42 final size:42
Alignment explanation
Indices: 73024064--73024307 Score: 274
Period size: 43 Copynumber: 5.7 Consensus size: 42
73024054 GCCGGTAAAA
* *
73024064 TTAGCGGCGTTTTTTTAAAAAGACGCCGCTAAAGACAAGGACTT
1 TTAGCGGCG-CTTTTTAAAAA-ACGCCGCTAAAGACCAGGACTT
* * *
73024108 TTAGTGGCACTTTTTAAAAAACGCCGCTAAAGACTAGGACTT
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGACCAGGACTT
* * *
73024150 TTAGCGGCGCTTTTTTAAAAAACACCGCTAAATACCTGGACTT
1 TTAGCGGCGC-TTTTTAAAAAACGCCGCTAAAGACCAGGACTT
* * *
73024193 TTAGCGGTGCTTTTTTAAAAAACGCCGCTAAATACCTGGACTT
1 TTAGCGGCGC-TTTTTAAAAAACGCCGCTAAAGACCAGGACTT
* ** * **
73024236 TTAACGATGCTTTTTTAAAAAATGCCGCTAAAGACCACCACTT
1 TTAGCGGCGC-TTTTTAAAAAACGCCGCTAAAGACCAGGACTT
*
73024279 TTAGCGACGC-TTTTAAAAAACGCCGCTAA
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAA
73024308 TTTGCCCAGT
Statistics
Matches: 177, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
41 18 0.10
42 29 0.16
43 123 0.69
44 7 0.04
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (42 bp):
TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGACCAGGACTT
Found at i:73024164 original size:86 final size:85
Alignment explanation
Indices: 73024064--73024307 Score: 303
Period size: 86 Copynumber: 2.9 Consensus size: 85
73024054 GCCGGTAAAA
* * * *
73024064 TTAGCGGCGTTTTTTTAAAAAGACGCCGCTAAAGACAAGGACTTTTAGTGGCACTTTTTAAAAAA
1 TTAGCGGCGCTTTTTTAAAAA-ACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTTAAAAAA
73024129 CGCCGCTAAAGA-CTAGGACTT
65 CGCCGCTAAAGACCT-GGACTT
* * * *
73024150 TTAGCGGCGCTTTTTTAAAAAACACCGCTAAATACCTGGACTTTTAGCGGTGCTTTTTTAAAAAA
1 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC-TTTTTAAAAAA
*
73024215 CGCCGCTAAATACCTGGACTT
65 CGCCGCTAAAGACCTGGACTT
* ** * ** *
73024236 TTAACGATGCTTTTTTAAAAAATGCCGCTAAAGACCACCACTTTTAGCGACGC-TTTTAAAAAAC
1 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTTAAAAAAC
73024300 GCCGCTAA
66 GCCGCTAA
73024308 TTTGCCCAGT
Statistics
Matches: 136, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
84 19 0.14
85 25 0.18
86 90 0.66
87 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (85 bp):
TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTTAAAAAAC
GCCGCTAAAGACCTGGACTT
Found at i:73030280 original size:53 final size:49
Alignment explanation
Indices: 73030205--73030309 Score: 129
Period size: 53 Copynumber: 2.1 Consensus size: 49
73030195 GTGAGTTATG
* ** *
73030205 TAATTTATTTAAGTAATGATCAATATTAATACTATTTTGATAAAAATTAGTTA
1 TAATATATTTAAACAATGATCAATATT-AT--TATATTGAT-AAAATTAGTTA
*
73030258 TAATATATTTAAACAATGATCAATATTATTATATTGATAAAATTATTTA
1 TAATATATTTAAACAATGATCAATATTATTATATTGATAAAATTAGTTA
73030307 TAA
1 TAA
73030310 GTGGCCCTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
49 13 0.28
50 8 0.17
52 2 0.04
53 24 0.51
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (49 bp):
TAATATATTTAAACAATGATCAATATTATTATATTGATAAAATTAGTTA
Found at i:73030992 original size:15 final size:15
Alignment explanation
Indices: 73030972--73031000 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
73030962 TAAATTTTGA
73030972 AATAAAACGTACCTT
1 AATAAAACGTACCTT
73030987 AATAAAACGTACCT
1 AATAAAACGTACCT
73031001 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:73035091 original size:27 final size:27
Alignment explanation
Indices: 73035043--73035317 Score: 174
Period size: 27 Copynumber: 9.8 Consensus size: 27
73035033 ATTACCAAAG
* *
73035043 TACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
73035069 TACCCTCGATTTATAGAAGTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
73035096 TACCTTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
73035123 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
73035150 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * **
73035177 TACCCCCGTTTTACCCTCGACTTACAGAATTATTGTTT
1 TACCCTCG-ATT----T--A--TAG--AATTACCGTTT
* * **
73035215 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
73035242 TACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * **
73035269 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
73035296 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
73035318 AGAAATACCC
Statistics
Matches: 203, Mismatches: 34, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
26 5 0.02
27 173 0.85
28 2 0.01
29 1 0.00
31 1 0.00
32 1 0.00
33 1 0.00
34 1 0.00
36 1 0.00
37 2 0.01
38 15 0.07
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:73035116 original size:54 final size:54
Alignment explanation
Indices: 73035016--73035317 Score: 237
Period size: 54 Copynumber: 5.4 Consensus size: 54
73035006 ATTATTGAAA
* * * *** * *
73035016 TACCCTCGACTTGTAAAATTACCAAAGTACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
* * * * *
73035069 TACCCTCGATTTATAGAAGTACCGTTTTACCTTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
* * *
73035123 TACCCTTGATTTATAGAATTACCATTTTACCCCCGATTTACATAATTACCATTTTACCCCCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTA-C----T------GTTT
* * *** * *
73035188 TACCCTCGACTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
* * * *
73035242 TACCGTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
* *
73035296 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
73035318 AGAAATACCC
Statistics
Matches: 195, Mismatches: 42, Indels: 23
0.75 0.16 0.09
Matches are distributed among these distances:
53 23 0.12
54 125 0.64
55 1 0.01
59 1 0.01
60 1 0.01
65 44 0.23
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
Found at i:73035226 original size:92 final size:92
Alignment explanation
Indices: 73035090--73035273 Score: 224
Period size: 92 Copynumber: 2.0 Consensus size: 92
73035080 TATAGAAGTA
* * * * * * *
73035090 CCGTTTTACCTTTGATTTATAGAATTACTGTTTTACCCTTGATTTATAGAATTACCATTTTACCC
1 CCGTTTTACCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCC
*
73035155 CCGATTTACATAATTACCATTTTACCC
66 CCGATTTACAGAATTACCATTTTACCC
* *** *
73035182 CCGTTTTACCCTCGACTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTATTGTTTTACCG
1 CCGTTTTACCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCC
* * *
73035247 TCGATTTATAGAATTACTATTTTACCC
66 CCGATTTACAGAATTACCATTTTACCC
73035274 TTGATTTACA
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (92 bp):
CCGTTTTACCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCC
CCGATTTACAGAATTACCATTTTACCC
Found at i:73035280 original size:119 final size:119
Alignment explanation
Indices: 73035063--73035309 Score: 323
Period size: 119 Copynumber: 2.1 Consensus size: 119
73035053 TACATAATTA
* * * * * *
73035063 CCGTTTTACCCTCGATTTATAGAAGTACCGTTTTACCTTTGATTTATAGAATTACTGTTTTACCC
1 CCGTTTTACCCTCGACTTACAGAAGTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCC
* *
73035128 TTGATTTATAGAATTACCATTTTACCCCCGATTTACATAATTACCATTTTACCC
66 TCGATTTATAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCC
* ** * *
73035182 CCGTTTTACCCTCGACTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTATTGTTTTACCG
1 CCGTTTTACCCTCGACTTACAGAAGTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCC
* ** *
73035247 TCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCC
66 TCGATTTATAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCC
* *
73035301 TCGATTTAC
1 CCGTTTTAC
73035310 AAAATTACAG
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
119 109 1.00
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (119 bp):
CCGTTTTACCCTCGACTTACAGAAGTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCC
TCGATTTATAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCC
Found at i:73035316 original size:146 final size:145
Alignment explanation
Indices: 73035043--73035317 Score: 397
Period size: 146 Copynumber: 1.9 Consensus size: 145
73035033 ATTACCAAAG
* * * * * *
73035043 TACCCCGATTTACATAATTACCGTTTTACCCTCGATTTATAGAAGTACCGTTTTACCTTTGATTT
1 TACCCCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCGTTTTACCGTCGATTT
* * *
73035108 ATAGAATTACTGTTTTACCCTTGATTTATAGAATTACCATTTTACCCCCGATTTACATAATTACC
66 ATAGAATTACTATTTTACCCTTGATTTACAGAATTACCATTTTACCCCCGATTTACAAAATTACC
73035173 ATTTTACCCCCGTTT
131 ATTTTACCCCCGTTT
** * **
73035188 TACCCTCGACTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTATTGTTTTACCGTCGATT
1 TACCC-CGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCGTTTTACCGTCGATT
* *
73035253 TATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
65 TATAGAATTACTATTTTACCCTTGATTTACAGAATTACCATTTTACCCCCGATTTACAAAATTAC
73035318 AGAAATACCC
Statistics
Matches: 113, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
145 5 0.04
146 108 0.96
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (145 bp):
TACCCCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCGTTTTACCGTCGATTT
ATAGAATTACTATTTTACCCTTGATTTACAGAATTACCATTTTACCCCCGATTTACAAAATTACC
ATTTTACCCCCGTTT
Found at i:73035327 original size:54 final size:54
Alignment explanation
Indices: 73035215--73035344 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 54
73035205 ATTATTGTTT
* * * * * ***
73035215 TACCCTCGATTTACAAAATTATTGTTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTAAAA
* *
73035269 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC-AGAAA
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTA-AAA
* **
73035323 TACCCTCAATTTGTAAAATTAC
1 TACCCTCGATTTACAAAATTAC
73035345 CAAAATACCC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:73035354 original size:81 final size:81
Alignment explanation
Indices: 73035188--73035445 Score: 207
Period size: 81 Copynumber: 3.2 Consensus size: 81
73035178 ACCCCCGTTT
* * * * ** *** * *
73035188 TACCCTCGACTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTATTGTTTTACCGTCGATT
1 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
* * ***
73035253 TATAGAATTACTATTT
66 TATAAAATTACCAAAA
73035269 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
1 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
*
73035334 TGTAAAATTACCAAAA
66 TATAAAATTACCAAAA
* * * *** * *** *
73035350 TACCCCTAGTTTGTA-A-AATTACCAAAATACCACT-GGTTTGTGAAATTACCGAAATACCCTCA
1 TA-CCCTTGATT-TACAGAATTACTATTTTACC-CTCGATTTACAAAATTACAGAAATACCCTCA
*
73035412 ATTTTTAAAATTACCAAAA
63 ATTTATAAAATTACCAAAA
73035431 TACCCTTGATTTACA
1 TACCCTTGATTTACA
73035446 AAGTTACAGA
Statistics
Matches: 142, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.01
80 8 0.06
81 120 0.85
82 10 0.07
83 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (81 bp):
TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
TATAAAATTACCAAAA
Found at i:73035525 original size:27 final size:27
Alignment explanation
Indices: 73035269--73035521 Score: 145
Period size: 27 Copynumber: 9.3 Consensus size: 27
73035259 ATTACTATTT
* * **
73035269 TACCCTTGATTTACAGAATTA-CTATTT
1 TACCCTTGATTTACAAAATTACCGA-AA
* *
73035296 TACCCTCGATTTACAAAATTACAGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
** ** *
73035323 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* ** *
73035350 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCGAAA
* ***
73035377 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGATTTACAAAATTACCGAAA
** ** *
73035404 TACCCTCAATTTTTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* *
73035431 TACCCTTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
**
73035458 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTGA-TTTAC--AAAATTACCGAAA
* * *
73035487 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
73035514 TACCCTTG
1 TACCCTTG
73035522 GTTTGTAGAT
Statistics
Matches: 181, Mismatches: 36, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
26 2 0.01
27 152 0.84
28 8 0.04
29 19 0.10
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCGAAA
Found at i:73035600 original size:27 final size:27
Alignment explanation
Indices: 73035578--73035670 Score: 152
Period size: 27 Copynumber: 3.4 Consensus size: 27
73035568 TACCCCTATT
73035578 AGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAGTGACCGTAAAGCCCCTGTA
73035605 AGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAGTGACCGTAAAGCCCCTGTA
73035632 AGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAGTGACCGTAA-AGCCCCTGTA
* *
73035659 TGGTAAAATGAC
1 AGGTAAAGTGAC
73035671 GAATATGCCC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 62 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
AGGTAAAGTGACCGTAAAGCCCCTGTA
Found at i:73037418 original size:29 final size:29
Alignment explanation
Indices: 73037385--73037458 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
73037375 CCTTCGAGCT
73037385 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
73037414 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
73037443 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
73037459 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:73037419 original size:58 final size:58
Alignment explanation
Indices: 73037326--73037458 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
73037316 ATACTCGATT
* * * * *
73037326 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
73037384 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
73037442 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
73037459 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:73045294 original size:29 final size:29
Alignment explanation
Indices: 73045261--73045334 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
73045251 CCTTCGAGCT
73045261 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
73045290 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
73045319 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
73045335 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:73045295 original size:58 final size:58
Alignment explanation
Indices: 73045202--73045334 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
73045192 ATACTCGATT
* * * * *
73045202 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
73045260 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
73045318 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
73045335 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:73050365 original size:46 final size:46
Alignment explanation
Indices: 73050315--73050490 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
73050305 TGGTTGAGCA
73050315 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73050361 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
73050406 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73050454 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73050491 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73050471 original size:93 final size:93
Alignment explanation
Indices: 73050312--73050483 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
73050302 GGATGGTTGA
* *
73050312 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73050377 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
73050405 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73050470 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
73050484 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73057946 original size:46 final size:46
Alignment explanation
Indices: 73057896--73058071 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
73057886 TGGTTGAGCA
73057896 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73057942 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
73057987 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73058035 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73058072 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73058052 original size:93 final size:93
Alignment explanation
Indices: 73057893--73058064 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
73057883 GGATGGTTGA
* *
73057893 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73057958 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
73057986 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73058051 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
73058065 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73063127 original size:46 final size:46
Alignment explanation
Indices: 73063077--73063252 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
73063067 TGGTTGAGCA
73063077 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73063123 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
73063168 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73063216 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73063253 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73063233 original size:93 final size:93
Alignment explanation
Indices: 73063074--73063245 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
73063064 GGATGGTTGA
* *
73063074 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73063139 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
73063167 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73063232 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
73063246 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73070704 original size:46 final size:46
Alignment explanation
Indices: 73070654--73070829 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
73070644 TGGTTGAGCA
73070654 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73070700 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
73070745 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73070793 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73070830 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73070810 original size:93 final size:93
Alignment explanation
Indices: 73070651--73070822 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
73070641 GGATGGTTGA
* *
73070651 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73070716 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
73070744 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73070809 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
73070823 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73083321 original size:21 final size:21
Alignment explanation
Indices: 73083297--73083341 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
73083287 TGTGCCTAAG
73083297 CCATATGGTAGGAGGTTGGAC
1 CCATATGGTAGGAGGTTGGAC
73083318 CCATATGGTAGGAGGTTGGAC
1 CCATATGGTAGGAGGTTGGAC
73083339 CCA
1 CCA
73083342 GAGACTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (21 bp):
CCATATGGTAGGAGGTTGGAC
Found at i:73084499 original size:14 final size:14
Alignment explanation
Indices: 73084476--73084506 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
73084466 TTTAATAAAA
*
73084476 TAAACGAAATTAGT
1 TAAACAAAATTAGT
73084490 TAAACAAAATTAGT
1 TAAACAAAATTAGT
73084504 TAA
1 TAA
73084507 TTAATATGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.29
Consensus pattern (14 bp):
TAAACAAAATTAGT
Found at i:73086108 original size:15 final size:15
Alignment explanation
Indices: 73086088--73086117 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
73086078 TATTAGTATC
*
73086088 TTTCCTAACTTAGAG
1 TTTCCTAAATTAGAG
73086103 TTTCCTAAATTAGAG
1 TTTCCTAAATTAGAG
73086118 ACATAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (15 bp):
TTTCCTAAATTAGAG
Found at i:73088284 original size:46 final size:46
Alignment explanation
Indices: 73088137--73088353 Score: 187
Period size: 46 Copynumber: 4.7 Consensus size: 46
73088127 TTTGTGTGCT
* * * *
73088137 AGTGTAAGACATGTCTAGGACATGCA-CTGGCCAC-ATTAT-TAAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCCTCGA-GATGT-AAGCC
* * * ** *
73088183 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGA-CAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCC
*
73088231 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* *
73088277 AGTGTAAGACATGTCTGGGACATGCATC-GACTACGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
73088321 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
73088354 ACGGATATCT
Statistics
Matches: 142, Mismatches: 18, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
44 11 0.08
45 17 0.12
46 64 0.45
47 29 0.20
48 19 0.13
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
Found at i:73093922 original size:15 final size:17
Alignment explanation
Indices: 73093902--73093938 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
73093892 TTAAGAATTT
*
73093902 TTTATAT-CTTTTAT-A
1 TTTATATACTTTAATAA
73093917 TTTATATACTTTAATAA
1 TTTATATACTTTAATAA
73093934 TTTAT
1 TTTAT
73093939 TTAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 6 0.32
17 6 0.32
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATATACTTTAATAA
Found at i:73093959 original size:22 final size:21
Alignment explanation
Indices: 73093915--73093957 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
73093905 ATATCTTTTA
73093915 TATTTATATACTTTAATAATT
1 TATTTATATACTTTAATAATT
*
73093936 TATTTAATATATTTTAA-AATT
1 TATTT-ATATACTTTAATAATT
73093957 T
1 T
73093958 TAAATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTATATACTTTAATAATT
Found at i:73094567 original size:29 final size:30
Alignment explanation
Indices: 73094508--73094573 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
73094498 TGTTAACTCT
*
73094508 ACCACAAAAAATTGCATTACCAGAACAAAAA
1 ACCA-AAAAAATTGCATTACCAAAACAAAAA
73094539 ACCAAAAAAATTGCATTACCAAAACAAAAA
1 ACCAAAAAAATTGCATTACCAAAACAAAAA
73094569 ACCAA
1 ACCAA
73094574 CAACACTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.61, C:0.23, G:0.05, T:0.12
Consensus pattern (30 bp):
ACCAAAAAAATTGCATTACCAAAACAAAAA
Found at i:73094795 original size:2 final size:2
Alignment explanation
Indices: 73094788--73094813 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
73094778 TCTCCATCTC
73094788 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
73094814 TTAATATCGA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73094879 original size:20 final size:21
Alignment explanation
Indices: 73094849--73094893 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
73094839 GAGCATTGCT
*
73094849 TTTTCCTTGTTATAGTTATTC
1 TTTTCCTTGTTATAATTATTC
73094870 TTTT-CTTGTTATAATTATTC
1 TTTTCCTTGTTATAATTATTC
73094890 TTTT
1 TTTT
73094894 TAGTTTTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.16, C:0.11, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTCCTTGTTATAATTATTC
Found at i:73098357 original size:48 final size:48
Alignment explanation
Indices: 73098303--73098398 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
73098293 ATACTAAAGT
*
73098303 CCATACTCATGAGTTCTACATACATACCTGTACCAACTCATAACATAG
1 CCATACTCATGAGTTCTACATACATACCTGTAACAACTCATAACATAG
*
73098351 CCATACTCATGAGTTCTACATACATACCTGTAATAACTCATAACATAG
1 CCATACTCATGAGTTCTACATACATACCTGTAACAACTCATAACATAG
73098399 TTGCATACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.28
Consensus pattern (48 bp):
CCATACTCATGAGTTCTACATACATACCTGTAACAACTCATAACATAG
Found at i:73110592 original size:28 final size:27
Alignment explanation
Indices: 73110529--73110598 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
73110519 ATAGTGAGTC
73110529 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
73110556 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
73110584 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73110599 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:73117420 original size:27 final size:28
Alignment explanation
Indices: 73117364--73117433 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
73117354 AAATTTGTAC
73117364 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
73117392 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
73117419 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73117434 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:73117444 original size:27 final size:27
Alignment explanation
Indices: 73117364--73117445 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
73117354 AAATTTGTAC
* *
73117364 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
73117392 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
73117419 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
73117446 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:73125244 original size:27 final size:28
Alignment explanation
Indices: 73125188--73125257 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
73125178 AAATTTGTAC
73125188 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
73125216 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
73125243 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73125258 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:73125268 original size:27 final size:27
Alignment explanation
Indices: 73125188--73125269 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
73125178 AAATTTGTAC
* *
73125188 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
73125216 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
73125243 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
73125270 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:73128436 original size:39 final size:40
Alignment explanation
Indices: 73128336--73128517 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
73128326 TCAAATGATG
* * *
73128336 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
73128376 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
73128416 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
73128454 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
73128495 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
73128518 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:73128481 original size:78 final size:80
Alignment explanation
Indices: 73128336--73128517 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
73128326 TCAAATGATG
* * * *
73128336 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
73128401 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
73128416 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
73128478 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
73128495 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
73128518 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:73130619 original size:19 final size:19
Alignment explanation
Indices: 73130597--73130640 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
73130587 ATTTGTTACA
73130597 GTGTTTACATTTTGGCTTC
1 GTGTTTACATTTTGGCTTC
73130616 GTGTTTACATTTTGGCTTC
1 GTGTTTACATTTTGGCTTC
73130635 GTGTTT
1 GTGTTT
73130641 CCCACACTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.09, C:0.14, G:0.23, T:0.55
Consensus pattern (19 bp):
GTGTTTACATTTTGGCTTC
Found at i:73133279 original size:28 final size:27
Alignment explanation
Indices: 73133216--73133285 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
73133206 ATAGTGAGTC
73133216 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
73133243 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
73133271 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73133286 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:73141891 original size:40 final size:39
Alignment explanation
Indices: 73141846--73141975 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
73141836 CGGAATACAA
73141846 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
73141886 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
73141926 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
73141966 CCGGATATAA
1 CCGGATATAA
73141976 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:73149953 original size:40 final size:39
Alignment explanation
Indices: 73149908--73150037 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
73149898 CGGAATACAA
73149908 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
73149948 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
73149988 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
73150028 CCGGATATAA
1 CCGGATATAA
73150038 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:73152819 original size:47 final size:47
Alignment explanation
Indices: 73152765--73152958 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
73152755 TTAGGATTTT
** * *
73152765 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
73152812 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
73152859 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** * * *
73152906 ATGTGATGAACATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
73152953 ATGTGA
1 ATGTGA
73152959 AATATATATA
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:73152865 original size:22 final size:22
Alignment explanation
Indices: 73152794--73152912 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
73152784 GTATATATGA
73152794 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
73152816 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
73152841 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* *
73152863 GATGAATGTG-AGCAT-G-CATATGTGT
1 GAT-AA-G-GCCGAATGGCCA-A--TGT
73152888 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
73152910 GAT
1 GAT
73152913 GAACATGAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 20 0.28
23 17 0.24
24 17 0.24
25 17 0.24
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:73153271 original size:37 final size:37
Alignment explanation
Indices: 73153163--73153271 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
73153153 GGAAATATAT
* *
73153163 TCCGGGCAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
73153200 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
73153237 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
73153272 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:73158640 original size:2 final size:2
Alignment explanation
Indices: 73158633--73158659 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
73158623 ACTCAACTTC
73158633 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
73158660 ACCGAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:73167133 original size:9 final size:9
Alignment explanation
Indices: 73167121--73167150 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
73167111 TAAAAATATA
*
73167121 TAAAATTCT
1 TAAAATTTT
73167130 TAAAATTTT
1 TAAAATTTT
73167139 TAAAATTTT
1 TAAAATTTT
73167148 TAA
1 TAA
73167151 CAAAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (9 bp):
TAAAATTTT
Found at i:73167636 original size:116 final size:118
Alignment explanation
Indices: 73167486--73167757 Score: 311
Period size: 123 Copynumber: 2.3 Consensus size: 118
73167476 AATTTTTCTT
* * * *
73167486 TTACATTTGACATTAAATTAGTTGACATATGTTCAAACCCCTTTTGTCTTATTTGGTTAAT-AA-
1 TTACATTTGGCATTAAATAAGTTGACACATGTTCAAACCCCTTTTGTCTTATTTAGTTAATAAAT
* *
73167549 GT-TA-TAT-TATATTATAATGTTTTATAAAAAAAATTCTTTAACTATGTTGACA
66 GTATATTATATATATTATAATGTTTTAT-AAAAAAA-TCTTTAACTATATTCACA
* * *
73167601 TTACATTTGGTATTAAACTAAGTTGACACATGTTCAAACCCTTTTTGTTTTATTTAGTTAATAAA
1 TTACATTTGGCATTAAA-TAAGTTGACACATGTTCAAACCCCTTTTGTCTTATTTAGTTAATAAA
* ***
73167666 TTCTTTATATTATACTATATTATAATGTTTTATAAAAAAATCTTTGGTTATATTCACA
65 ---TGTATATTATA-TATATTATAATGTTTTATAAAAAAATCTTTAACTATATTCACA
*
73167724 TTATATTTGGCATTAAATTAAGTTGACACATGTT
1 TTACATTTGGCATTAAA-TAAGTTGACACATGTT
73167758 TATATCATTT
Statistics
Matches: 131, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
115 15 0.11
116 39 0.30
117 2 0.02
121 1 0.01
122 2 0.02
123 47 0.36
124 7 0.05
125 18 0.14
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (118 bp):
TTACATTTGGCATTAAATAAGTTGACACATGTTCAAACCCCTTTTGTCTTATTTAGTTAATAAAT
GTATATTATATATATTATAATGTTTTATAAAAAAATCTTTAACTATATTCACA
Found at i:73167793 original size:123 final size:125
Alignment explanation
Indices: 73167550--73167811 Score: 298
Period size: 123 Copynumber: 2.1 Consensus size: 125
73167540 GGTTAATAAG
* * * *
73167550 TTATATTATATTATAATGTTTTATAAAAAAAATTCTTTAACTATGTTGACATTACATTTGGTATT
1 TTATACTATATTATAATGTTTTATAAAAAAAATTCTTTAACTATATTCACATTACATTTGGCATT
* * *
73167615 AAACTAAGTTGACACATGTTCAAACCCTTTTTGTTTTATTTAGTTAATAAATTCTTTATA
66 AAACTAAGTTGACACATGTTCAAACCATTTTTGTCTTATTTAGTTAATAAATTCTTTAAA
*** *
73167675 TTATACTATATTATAATGTTTTAT-AAAAAAA-TCTTTGGTTATATTCACATTATATTTGGCATT
1 TTATACTATATTATAATGTTTTATAAAAAAAATTCTTTAACTATATTCACATTACATTTGGCATT
* * * * ** *
73167738 AAATTAAGTTGACACATGTTTATATCATTTTT-TACTTATTT-GCTTCTTAATTTCTTTAAA
66 AAACTAAGTTGACACATGTTCAAACCATTTTTGT-CTTATTTAG-TTAATAAATTCTTTAAA
*
73167798 TCATACTACTATTA
1 TTATACTA-TATTA
73167812 CAACAAAGTT
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
122 2 0.02
123 78 0.68
124 12 0.10
125 23 0.20
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (125 bp):
TTATACTATATTATAATGTTTTATAAAAAAAATTCTTTAACTATATTCACATTACATTTGGCATT
AAACTAAGTTGACACATGTTCAAACCATTTTTGTCTTATTTAGTTAATAAATTCTTTAAA
Found at i:73168448 original size:26 final size:26
Alignment explanation
Indices: 73168419--73168552 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
73168409 TGGTACAAAT
73168419 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
73168445 TGATAATAGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
73168471 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73168497 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73168523 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73168549 TGAT
1 TGAT
73168553 GGGCATTTCA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:73174801 original size:2 final size:2
Alignment explanation
Indices: 73174748--73174781 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
73174738 GGAGGTTGTA
73174748 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
73174782 CACACACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:73174929 original size:2 final size:2
Alignment explanation
Indices: 73174922--73174953 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
73174912 AAAATGATAG
73174922 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
73174954 AAGTAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:73177181 original size:25 final size:25
Alignment explanation
Indices: 73177111--73177185 Score: 91
Period size: 24 Copynumber: 3.0 Consensus size: 25
73177101 CTTTTAAGTT
*
73177111 AAAAATTTCTCTTTGATTTTTTCTTTC
1 AAAAATTTCT-TTTGA-GTTTTCTTTC
*
73177138 AAAAATTTC--TCGAGTTTTTCTTTC
1 AAAAATTTCTTTTGAG-TTTTCTTTC
73177162 AAAAATTTCTTTTGAGTTTTCTTT
1 AAAAATTTCTTTTGAGTTTTCTTT
73177186 TAGAAGAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
24 21 0.50
25 8 0.19
26 4 0.10
27 9 0.21
ACGTcount: A:0.24, C:0.13, G:0.07, T:0.56
Consensus pattern (25 bp):
AAAAATTTCTTTTGAGTTTTCTTTC
Found at i:73177431 original size:12 final size:13
Alignment explanation
Indices: 73177405--73177435 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
73177395 TTATTCTATT
73177405 TTATTTATCTTAG
1 TTATTTATCTTAG
73177418 TTATTTAT-TTAG
1 TTATTTATCTTAG
73177430 TTATTT
1 TTATTT
73177436 TATATGACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.68
Consensus pattern (13 bp):
TTATTTATCTTAG
Found at i:73181776 original size:32 final size:32
Alignment explanation
Indices: 73181708--73181777 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
73181698 TCATATGGGT
* * * *
73181708 GTAATTTCATATAAAGGATATTTGGTTTTAGT
1 GTAATTTCATATAAAGGACATTTGATTATAGA
*
73181740 GTAATTTCATATAAATGACATGTT-ATTATAGA
1 GTAATTTCATATAAAGGACAT-TTGATTATAGA
73181772 GTAATT
1 GTAATT
73181778 AGTATTTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (32 bp):
GTAATTTCATATAAAGGACATTTGATTATAGA
Found at i:73182505 original size:23 final size:23
Alignment explanation
Indices: 73182479--73182528 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
73182469 ACAACTTGAA
*
73182479 TTAATTAAAAAACTTATATAAAT
1 TTAATTAAAAAACTTATATAAAC
* **
73182502 TTAATTATAAATTTTATATAAAC
1 TTAATTAAAAAACTTATATAAAC
73182525 TTAA
1 TTAA
73182529 GTTGGAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAATTAAAAAACTTATATAAAC
Found at i:73182942 original size:27 final size:28
Alignment explanation
Indices: 73182899--73182957 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
73182889 ATAAATTTAG
* *
73182899 AATTTTTTTAGAATTTA-AATA-ATATA
1 AATTTTTGTAGAATTTATAAAATATATA
*
73182925 AATTTTTGTATGACTTTATAAAATATATA
1 AATTTTTGTA-GAATTTATAAAATATATA
73182954 AATT
1 AATT
73182958 ATTTATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.33
27 6 0.22
28 3 0.11
29 9 0.33
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (28 bp):
AATTTTTGTAGAATTTATAAAATATATA
Found at i:73198289 original size:94 final size:94
Alignment explanation
Indices: 73198081--73198292 Score: 257
Period size: 94 Copynumber: 2.3 Consensus size: 94
73198071 TCACCCATGT
* * * * *
73198081 TAAGTCTCACTCTAAGTGTTCCTTTGAGATCATGAGCTTTTGTGAGCCTCAATCTGCGTGCTCCT
1 TAAGTCTCACTCTAAGTGCTCCTTTAAAAACATGAGCTTTCGTGAGCCTCAATCTGCGTGCTCCT
* *
73198146 CGAGAGCATGGCTTTTATGAGTTTTGTGA
66 CGAGAGCATGGCTTTTATGAGATTTATGA
* * *
73198175 TAAGTCTTACTCTGTA-TGCTCCTTTAAAAACATGAGCTTTCGTGAGCCTCACTCTGCGTGCTCC
1 TAAGTCTCACTCT-AAGTGCTCCTTTAAAAACATGAGCTTTCGTGAGCCTCAATCTGCGTGCTCC
* *
73198239 TTGAGAGCATGGGC-TTTGTGAGATTTATGA
65 TCGAGAGCAT-GGCTTTTATGAGATTTATGA
* * *
73198269 TATGTCTCATTCTACGTGCTCCTT
1 TAAGTCTCACTCTAAGTGCTCCTT
73198293 GCGAGCTAGG
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
94 94 0.96
95 4 0.04
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (94 bp):
TAAGTCTCACTCTAAGTGCTCCTTTAAAAACATGAGCTTTCGTGAGCCTCAATCTGCGTGCTCCT
CGAGAGCATGGCTTTTATGAGATTTATGA
Found at i:73204716 original size:42 final size:41
Alignment explanation
Indices: 73204647--73204727 Score: 126
Period size: 42 Copynumber: 2.0 Consensus size: 41
73204637 CCAAGAGCTA
*
73204647 AATAGAAGCACATAAGTGCTAACGGAAACCCATAAGGGTGG
1 AATAGAAGCACATAAGAGCTAACGGAAACCCATAAGGGTGG
* *
73204688 AATAGAAGCTCGTAAGAGCTTAACGGAAACCCATAAGGGT
1 AATAGAAGCACATAAGAGC-TAACGGAAACCCATAAGGGT
73204728 TAAACAGCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 16 0.44
42 20 0.56
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (41 bp):
AATAGAAGCACATAAGAGCTAACGGAAACCCATAAGGGTGG
Found at i:73206449 original size:33 final size:33
Alignment explanation
Indices: 73206407--73206474 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
73206397 TTCCAAACTA
* *
73206407 GAGTATACAACATCTC-AGCATGTCTTTTGATAC
1 GAGTATACAACATCTCTA-CATGACTTCTGATAC
73206440 GAGTATACAACATCTCTACATGACTTCTGATAC
1 GAGTATACAACATCTCTACATGACTTCTGATAC
73206473 GA
1 GA
73206475 ACTCGGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (33 bp):
GAGTATACAACATCTCTACATGACTTCTGATAC
Found at i:73222378 original size:3 final size:3
Alignment explanation
Indices: 73222372--73222418 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
73222362 TTTAATAGTC
* * * *
73222372 GAA GAA GAA GAA GAA GAA GAA GAT GAT GAA GAA CAA GAA CAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
73222419 GGAATTTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.62, C:0.04, G:0.30, T:0.04
Consensus pattern (3 bp):
GAA
Found at i:73222799 original size:46 final size:46
Alignment explanation
Indices: 73222731--73222821 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
73222721 GTGGTTACTG
* *
73222731 TTGTTTAAGAGTGTATTTTATATACTTCTCTAGAATGTTGATTTTC
1 TTGTTTAAGAGTGTAGTATATATACTTCTCTAGAATGTTGATTTTC
73222777 TTGTTTAAGAGTGTAGTATATATACTTCTCTAGAATGTTGATTTT
1 TTGTTTAAGAGTGTAGTATATATACTTCTCTAGAATGTTGATTTT
73222822 TTTTTGTTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (46 bp):
TTGTTTAAGAGTGTAGTATATATACTTCTCTAGAATGTTGATTTTC
Found at i:73237302 original size:22 final size:22
Alignment explanation
Indices: 73237267--73237308 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
73237257 AAAATATTAG
* *
73237267 TTAATTAATTAATTTAACTAAA
1 TTAATTAATCAATTAAACTAAA
*
73237289 TTAATTTATCAATTAAACTA
1 TTAATTAATCAATTAAACTA
73237309 TTTTTTCAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAATTAATCAATTAAACTAAA
Found at i:73237904 original size:57 final size:56
Alignment explanation
Indices: 73237840--73237955 Score: 223
Period size: 57 Copynumber: 2.1 Consensus size: 56
73237830 AATATAGAAT
73237840 AAAAACTTATATTCGTAGATAATCTAAGCATGTCATTAGTCTAATCGGAAATGAGCA
1 AAAAACTTATATTCGTAGATAATCTAAGCATGTCATTAGTCTAATCGGAAATGAG-A
73237897 AAAAACTTATATTCGTAGATAATCTAAGCATGTCATTAGTCTAATCGGAAATGAGA
1 AAAAACTTATATTCGTAGATAATCTAAGCATGTCATTAGTCTAATCGGAAATGAGA
73237953 AAA
1 AAA
73237956 CTGATTTGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 4 0.07
57 55 0.93
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (56 bp):
AAAAACTTATATTCGTAGATAATCTAAGCATGTCATTAGTCTAATCGGAAATGAGA
Found at i:73239802 original size:26 final size:26
Alignment explanation
Indices: 73239753--73239803 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
73239743 TACTTTCCAC
*
73239753 ATCACATATTTATATAACATGTATAA
1 ATCACATATTTATATAACAAGTATAA
* **
73239779 ATCATATATTTATATTTCAAGTATA
1 ATCACATATTTATATAACAAGTATA
73239804 TTTTCATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (26 bp):
ATCACATATTTATATAACAAGTATAA
Found at i:73241498 original size:24 final size:25
Alignment explanation
Indices: 73241471--73241519 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
73241461 CTTTTTTTAT
*
73241471 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
73241495 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
73241520 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:73241512 original size:25 final size:23
Alignment explanation
Indices: 73241483--73241547 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
73241473 AATAAAAAAC
*
73241483 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
73241508 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
73241529 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
73241548 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:73241546 original size:19 final size:20
Alignment explanation
Indices: 73241509--73241547 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
73241499 TCAAATACAT
73241509 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
73241529 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
73241548 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:73242030 original size:27 final size:27
Alignment explanation
Indices: 73241999--73242052 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
73241989 ATTGTATTTG
73241999 CTAGTAGGTCTGGCGAGCTGGTGTACA
1 CTAGTAGGTCTGGCGAGCTGGTGTACA
*
73242026 CTAGTAGGTTTGGCGAGCTGGTGTACA
1 CTAGTAGGTCTGGCGAGCTGGTGTACA
73242053 GCAAAAGGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.17, G:0.37, T:0.28
Consensus pattern (27 bp):
CTAGTAGGTCTGGCGAGCTGGTGTACA
Found at i:73242061 original size:27 final size:27
Alignment explanation
Indices: 73242004--73242074 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
73241994 ATTTGCTAGT
**
73242004 AGGTCTGGCGAGCTGGTGTACACTAGT
1 AGGTCTGGCGAGCTGGTGTACACTAAA
*
73242031 AGGTTTGGCGAGCTGGTGTACAGC-AAA
1 AGGTCTGGCGAGCTGGTGTACA-CTAAA
* *
73242058 AGGTCTGGTGAGTTGGT
1 AGGTCTGGCGAGCTGGT
73242075 ATATGCTAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.14, G:0.39, T:0.27
Consensus pattern (27 bp):
AGGTCTGGCGAGCTGGTGTACACTAAA
Found at i:73245870 original size:47 final size:47
Alignment explanation
Indices: 73245811--73245933 Score: 237
Period size: 47 Copynumber: 2.6 Consensus size: 47
73245801 ATCCATAAGT
73245811 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
*
73245858 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
73245905 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
73245934 CATTCGCATC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:73245972 original size:46 final size:45
Alignment explanation
Indices: 73245761--73245979 Score: 182
Period size: 47 Copynumber: 4.8 Consensus size: 45
73245751 AACCCGCCCC
* * *
73245761 TAAGTGAACTCGGACTCAAC-CAACGAGCTCGGGC--GTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTAGTT-ACAT--A
*
73245806 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---CTAGTTACATA
* * * *
73245854 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GACTAGTTACATA
* * *
73245901 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-A-TTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTAGTT-ACAT--A
73245946 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
73245980 TGCTCAACCA
Statistics
Matches: 149, Mismatches: 12, Indels: 25
0.80 0.06 0.13
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 2 0.01
45 22 0.15
46 41 0.28
47 67 0.45
48 3 0.02
49 1 0.01
50 4 0.03
51 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTAGTTACATA
Found at i:73256255 original size:21 final size:20
Alignment explanation
Indices: 73256231--73256277 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
73256221 AATAGAAACC
73256231 AATAAAATTGTTATTCTGA-AA
1 AATAAAA-T-TTATTCTGAGAA
* *
73256252 AATAGAATTTATTCTTAGAA
1 AATAAAATTTATTCTGAGAA
73256272 AATAAA
1 AATAAA
73256278 TTCTCACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 8 0.36
20 8 0.36
21 6 0.27
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (20 bp):
AATAAAATTTATTCTGAGAA
Found at i:73256265 original size:19 final size:19
Alignment explanation
Indices: 73256241--73256279 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
73256231 AATAAAATTG
73256241 TTATTCTGA-AAAATAGAAT
1 TTATTCTGAGAAAATA-AAT
*
73256260 TTATTCTTAGAAAATAAAT
1 TTATTCTGAGAAAATAAAT
73256279 T
1 T
73256280 CTCACTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (19 bp):
TTATTCTGAGAAAATAAAT
Found at i:73259021 original size:14 final size:16
Alignment explanation
Indices: 73258993--73259024 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
73258983 ATTTTTGTAA
73258993 AAAAAAATTACAAATG
1 AAAAAAATTACAAATG
73259009 AAAAAAA-TA-AAATG
1 AAAAAAATTACAAATG
73259023 AA
1 AA
73259025 TGAAACAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAAAATTACAAATG
Found at i:73259696 original size:26 final size:26
Alignment explanation
Indices: 73259647--73259696 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
73259637 TAGATTACTC
* **
73259647 TTATGCTTAAATTTGTAATTTAATAT
1 TTATACTTAAATTTGTAACATAATAT
*
73259673 TTATACTTAAATTTTTAACATAAT
1 TTATACTTAAATTTGTAACATAAT
73259697 TTTGTCCCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (26 bp):
TTATACTTAAATTTGTAACATAATAT
Found at i:73261299 original size:38 final size:39
Alignment explanation
Indices: 73261207--73261300 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 39
73261197 CGGTACCTTT
* * *
73261207 TGGTTTGTAGGGTTGGATGGGTTGATTATATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCA-ACA
* *
73261247 TGGTGTGTAAGGTTGGGTGGGTCGATTCA-ATCCCC-ACA
1 TGGTGTGTAGGGTTGGATGGGTCGATT-ATATCCCCAACA
*
73261285 TGGTGTGTTGGGTTGG
1 TGGTGTGTAGGGTTGG
73261301 TTGGAGATGG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 16 0.35
40 29 0.63
41 1 0.02
ACGTcount: A:0.15, C:0.13, G:0.36, T:0.36
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCAACA
Found at i:73262810 original size:15 final size:13
Alignment explanation
Indices: 73262779--73262803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73262769 ATTCTTGAAG
73262779 TTAAAAAAATAAA
1 TTAAAAAAATAAA
73262792 TTAAAAAAATAA
1 TTAAAAAAATAA
73262804 CTCTTAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TTAAAAAAATAAA
Found at i:73262826 original size:34 final size:34
Alignment explanation
Indices: 73262746--73262826 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
73262736 ATTACATGTG
* * *
73262746 AAAAATAATAAAATAAATAAATAATTCTTGAAGTT
1 AAAAA-AATAAATTAAAAAAATAACTCTTGAAGTT
*
73262781 AAAAAAATAAATTAAAAAAATAACTCTT-AATTT
1 AAAAAAATAAATTAAAAAAATAACTCTTGAAGTT
73262814 AAAGAAAATAAAT
1 AAA-AAAATAAAT
73262827 GTAATTATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
33 7 0.17
34 29 0.71
35 5 0.12
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (34 bp):
AAAAAAATAAATTAAAAAAATAACTCTTGAAGTT
Found at i:73263821 original size:24 final size:24
Alignment explanation
Indices: 73263793--73263844 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
73263783 TTCGTAGGTC
* *
73263793 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
73263817 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
73263841 AAAT
1 AAAT
73263845 CTTATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:73264837 original size:20 final size:20
Alignment explanation
Indices: 73264809--73264851 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
73264799 CCCACCCCAT
*
73264809 ATACTGATACAAAAATATAG
1 ATACAGATACAAAAATATAG
* * *
73264829 ATACAGATATACAGATATAG
1 ATACAGATACAAAAATATAG
73264849 ATA
1 ATA
73264852 TAGAAATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (20 bp):
ATACAGATACAAAAATATAG
Found at i:73264844 original size:14 final size:14
Alignment explanation
Indices: 73264807--73264867 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
73264797 ATCCCACCCC
* *
73264807 ATATACTGATACAA
1 ATATACAGATACAG
* *
73264821 AAATATAGATACAG
1 ATATACAGATACAG
*
73264835 ATATACAGATATAG
1 ATATACAGATACAG
* * *
73264849 ATATAGAAATATAG
1 ATATACAGATACAG
73264863 ATATA
1 ATATA
73264868 AATACTCATA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (14 bp):
ATATACAGATACAG
Found at i:73267759 original size:21 final size:20
Alignment explanation
Indices: 73267735--73267785 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
73267725 AATTGTCCTT
73267735 TTGATTTTATCTTTATTTCAA
1 TTGATTTT-TCTTTATTTCAA
*
73267756 TTGAGTTTTTTTTTATTTCAA
1 TTGA-TTTTTCTTTATTTCAA
*
73267777 TTTATTTTT
1 TTGATTTTT
73267786 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 5 0.19
21 18 0.67
22 4 0.15
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (20 bp):
TTGATTTTTCTTTATTTCAA
Found at i:73267786 original size:21 final size:21
Alignment explanation
Indices: 73267746--73267790 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
73267736 TGATTTTATC
73267746 TTTATTTCAATTGAGTTTTTT
1 TTTATTTCAATTGAGTTTTTT
* *
73267767 TTTATTTCAATTTATTTTTTT
1 TTTATTTCAATTGAGTTTTTT
73267788 TTT
1 TTT
73267791 TTTTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTATTTCAATTGAGTTTTTT
Found at i:73267787 original size:23 final size:23
Alignment explanation
Indices: 73267761--73267806 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
73267751 TTCAATTGAG
*
73267761 TTTTTTTTTATTTCAATTTATTT
1 TTTTTTTTTATTTAAATTTATTT
*
73267784 TTTTTTTTTTTTTAAATTTATTT
1 TTTTTTTTTATTTAAATTTATTT
73267807 ATTATTCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTTTTTATTTAAATTTATTT
Found at i:73267953 original size:16 final size:16
Alignment explanation
Indices: 73267918--73267962 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
73267908 TTTTCCTTTT
*
73267918 TTTTAAAAATTTTGTTTA
1 TTTT-AAAA-TTTGTCTA
*
73267936 TTTTATAATTTGTCTA
1 TTTTAAAATTTGTCTA
73267952 TTTTAAAATTT
1 TTTTAAAATTT
73267963 TTTCTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 17 0.71
17 3 0.12
18 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (16 bp):
TTTTAAAATTTGTCTA
Found at i:73268739 original size:40 final size:38
Alignment explanation
Indices: 73268635--73268756 Score: 129
Period size: 40 Copynumber: 3.1 Consensus size: 38
73268625 GTTTAAACAA
* *
73268635 AAAACGCCGATATAGTTCAGCATTAGCGGCGTTTCTTA-
1 AAAACGCCGCTATAGATCAGCATTAGCGGCGTTT-TTAT
* * *
73268673 ACAAACGCCACTATTGATAAGACATTAGCGGCGTTTTTAT
1 A-AAACGCCGCTATAGATCAG-CATTAGCGGCGTTTTTAT
* *
73268713 AAAAGCGCCGCTATAGATCGAGCATTAGCAGCGCTTTTAT
1 AAAA-CGCCGCTATAGATC-AGCATTAGCGGCGTTTTTAT
73268753 AAAA
1 AAAA
73268757 AACGCCGCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 20 0.29
40 46 0.67
41 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (38 bp):
AAAACGCCGCTATAGATCAGCATTAGCGGCGTTTTTAT
Found at i:73269093 original size:28 final size:29
Alignment explanation
Indices: 73269048--73269102 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
73269038 CAAAAAGTAT
*
73269048 TTTATGTATATATTTATT-ATTTAAATGG
1 TTTATGTATATATTTATTGATTAAAATGG
*
73269076 TTTATTTATAT-TTATATTGATTAAAAT
1 TTTATGTATATATT-TATTGATTAAAAT
73269103 ACAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTATGTATATATTTATTGATTAAAATGG
Found at i:73269514 original size:22 final size:22
Alignment explanation
Indices: 73269450--73269517 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
73269440 GTGGTTTAAA
*
73269450 GTTTAAGGATTAGTGGGTAA-AG
1 GTTTAAGGATTA-TGGGTAATGG
* * *
73269472 G-TTAAGGGTTATGGATTATGG
1 GTTTAAGGATTATGGGTAATGG
*
73269493 GTTTAAGGATTAAGGGTAATGG
1 GTTTAAGGATTATGGGTAATGG
73269515 GTT
1 GTT
73269518 ATGGGTTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 5 0.14
21 11 0.31
22 20 0.56
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (22 bp):
GTTTAAGGATTATGGGTAATGG
Found at i:73269514 original size:29 final size:28
Alignment explanation
Indices: 73269456--73269534 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
73269446 TAAAGTTTAA
* *
73269456 GGATTAGTGGG-TAAAGGTTAAGGGTTAT
1 GGATTA-TGGGTTTAAGGTTAAGGGTAAT
73269484 GGATTATGGGTTTAAGGATTAAGGGTAAT
1 GGATTATGGGTTTAAGG-TTAAGGGTAAT
*
73269513 GGGTTATGGGTTTAATGGTTAA
1 GGATTATGGGTTTAA-GGTTAA
73269535 AGGGATATGG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 4 0.09
28 11 0.24
29 28 0.62
30 2 0.04
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (28 bp):
GGATTATGGGTTTAAGGTTAAGGGTAAT
Found at i:73270615 original size:14 final size:13
Alignment explanation
Indices: 73270578--73270611 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
73270568 CCTTAAGTGT
73270578 TTTTCCCCTAAAA
1 TTTTCCCCTAAAA
*
73270591 CTTTCCCCTAAAA
1 TTTTCCCCTAAAA
73270604 TTTTCCCC
1 TTTTCCCC
73270612 CTAACCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTTCCCCTAAAA
Found at i:73270712 original size:27 final size:27
Alignment explanation
Indices: 73270658--73270722 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
73270648 ATTTCTCCAT
* * *
73270658 CGTCGGACCCGACCATCTGTTGTATCAC
1 CGTC-GACTCGACCATCTGCTGCATCAC
*
73270686 CGTCGACTCGACCATCTGCTGCGTCAC
1 CGTCGACTCGACCATCTGCTGCATCAC
*
73270713 CTTCGCACTC
1 CGTCG-ACTC
73270723 CTCTTTCCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.15, C:0.40, G:0.20, T:0.25
Consensus pattern (27 bp):
CGTCGACTCGACCATCTGCTGCATCAC
Found at i:73274175 original size:242 final size:242
Alignment explanation
Indices: 73273750--73274371 Score: 1201
Period size: 242 Copynumber: 2.6 Consensus size: 242
73273740 GCTCCATCAG
*
73273750 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
73273815 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAATGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
73273880 AAAAATACTTGAAAAAAATTTCTATCGAGCTTATTTACTATTGAATATTTATTACCATGTAGCTT
131 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
73273945 GCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTT
196 GCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTT
73273992 ATTTTAAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
73274057 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
73274122 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
131 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
73274187 GCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTT
196 GCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTT
73274234 ATTTTAAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
73274299 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACATATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
73274364 -AAAATACT
131 AAAAATACT
73274372 GATATTGATC
Statistics
Matches: 376, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
241 8 0.02
242 368 0.98
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (242 bp):
ATTTTAAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
GCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTT
Found at i:73274410 original size:9 final size:9
Alignment explanation
Indices: 73274396--73274512 Score: 108
Period size: 9 Copynumber: 12.3 Consensus size: 9
73274386 CTTAAAGAAA
73274396 TTACATAAC
1 TTACATAAC
73274405 TTACATAAC
1 TTACATAAC
* *
73274414 TCATATAAC
1 TTACATAAC
*
73274423 TTACATAAT
1 TTACATAAC
73274432 TTACATAACAAC
1 TTACAT---AAC
73274444 TTACATAAC
1 TTACATAAC
*
73274453 TCACATAAC
1 TTACATAAC
*
73274462 TTACATAAT
1 TTACATAAC
*
73274471 TTACATATC
1 TTACATAAC
*
73274480 TCACATAAC
1 TTACATAAC
*
73274489 GTACATAACAAC
1 TTACAT---AAC
73274501 TTACATAAC
1 TTACATAAC
73274510 TTA
1 TTA
73274513 ACTAATACAT
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
9 70 0.81
12 16 0.19
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:73274454 original size:39 final size:39
Alignment explanation
Indices: 73274402--73274477 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
73274392 GAAATTACAT
*
73274402 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
73274441 AACTTACATAACTCACATAACTTACATAATTTACATA
1 AACTTACATAACTCACATAACTTACATAATTTACATA
73274478 TCTCACATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:73274486 original size:57 final size:57
Alignment explanation
Indices: 73274398--73274510 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
73274388 TAAAGAAATT
* * **
73274398 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* * *
73274455 ACATAACTTACATAATTTACATATCTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
73274511 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:73280636 original size:86 final size:85
Alignment explanation
Indices: 73280513--73280730 Score: 323
Period size: 85 Copynumber: 2.6 Consensus size: 85
73280503 GTAGAAAAAG
*
73280513 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAGCCCTGACCTT
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCT-AAAGCCCTGACCTT
* *
73280578 TAGCGGCGCTTTTCCCATAAA
65 TAGCGGCGCTTTTCACACAAA
73280599 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGCCCTGACCTTT
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGCCCTGACCTTT
*
73280664 AGCGGCGTTTTTCACACAAA
66 AGCGGCGCTTTTCACACAAA
* * * *
73280684 CG-C-CTAAAAGCACTGACCTTTAGTGGCGTTTTTTTCCAATAAACGCC
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCG--CTTTTCCAACAAACGCC
73280731 ACAAATTTTT
Statistics
Matches: 122, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
83 23 0.19
84 1 0.01
85 49 0.40
86 49 0.40
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (85 bp):
CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGCCCTGACCTTT
AGCGGCGCTTTTCACACAAA
Found at i:73280666 original size:42 final size:43
Alignment explanation
Indices: 73280513--73280730 Score: 309
Period size: 43 Copynumber: 5.1 Consensus size: 43
73280503 GTAGAAAAAG
*
73280513 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCAACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAA
* *
73280556 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCCATAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAA
73280599 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAA
*
73280642 CGCCGCT-AAAGCCCTGACCTTTAGCGGCG-TTTTTCACACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCA-ACAAA
* * * *
73280684 CG-C-CTAAAAGCACTGACCTTTAGTGGCGTTTTTTTCCAATAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCG--CTTTTCCAACAAA
73280727 CGCC
1 CGCC
73280731 ACAAATTTTT
Statistics
Matches: 159, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
40 2 0.01
41 27 0.17
42 29 0.18
43 94 0.59
44 7 0.04
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAA
Found at i:73280918 original size:22 final size:23
Alignment explanation
Indices: 73280890--73280932 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
73280880 CTCTTAAAAG
73280890 TTTTTTTTGT-TTCATT-GTCTAA
1 TTTTTTTT-TATTCATTAGTCTAA
73280912 TTTTTTTTTATTCATTAGTCT
1 TTTTTTTTTATTCATTAGTCT
73280933 TTATTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.05
22 14 0.74
23 4 0.21
ACGTcount: A:0.14, C:0.09, G:0.07, T:0.70
Consensus pattern (23 bp):
TTTTTTTTTATTCATTAGTCTAA
Found at i:73284549 original size:27 final size:27
Alignment explanation
Indices: 73284518--73284575 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
73284508 AGATGGAGAT
73284518 AAAAACTAAACCCCGAAAACCCGAAAA
1 AAAAACTAAACCCCGAAAACCCGAAAA
*
73284545 AAAAACTAAACCTCGAAAACCCGAAAA
1 AAAAACTAAACCCCGAAAACCCGAAAA
73284572 AAAA
1 AAAA
73284576 GAACCCACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.62, C:0.26, G:0.07, T:0.05
Consensus pattern (27 bp):
AAAAACTAAACCCCGAAAACCCGAAAA
Found at i:73285307 original size:16 final size:17
Alignment explanation
Indices: 73285286--73285320 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
73285276 GGCATAGCTT
73285286 AAAATGAAAATT-TAAA
1 AAAATGAAAATTATAAA
*
73285302 AAAATGAATATTATAAA
1 AAAATGAAAATTATAAA
73285319 AA
1 AA
73285321 TGGATGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
AAAATGAAAATTATAAA
Found at i:73285335 original size:14 final size:15
Alignment explanation
Indices: 73285286--73285334 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
73285276 GGCATAGCTT
* *
73285286 AAAATGAAAATTTAAA
1 AAAATGAATA-TTATA
73285302 AAAATGAATATTATA
1 AAAATGAATATTATA
* *
73285317 AAAATGGATGTTATA
1 AAAATGAATATTATA
73285332 AAA
1 AAA
73285335 TCTTAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 20 0.69
16 9 0.31
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
AAAATGAATATTATA
Found at i:73290511 original size:18 final size:17
Alignment explanation
Indices: 73290485--73290518 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
73290475 ATTGAATAAT
*
73290485 ATACAATAAGAGAAACA
1 ATACAATAAAAGAAACA
73290502 ATACACATAAAAGAAAC
1 ATACA-ATAAAAGAAAC
73290519 CTAGACTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.15, G:0.09, T:0.12
Consensus pattern (17 bp):
ATACAATAAAAGAAACA
Found at i:73292286 original size:26 final size:26
Alignment explanation
Indices: 73292250--73292305 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
73292240 GAATGGGTGT
73292250 GTTAGGCTCAACGAGGTTGACTAAGG
1 GTTAGGCTCAACGAGGTTGACTAAGG
73292276 GTTAGGCTCAACGAGGTTGACTAAGG
1 GTTAGGCTCAACGAGGTTGACTAAGG
73292302 GTTA
1 GTTA
73292306 ATTCAATAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.25
Consensus pattern (26 bp):
GTTAGGCTCAACGAGGTTGACTAAGG
Found at i:73293061 original size:5 final size:6
Alignment explanation
Indices: 73293045--73293105 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
73293035 GAAAGAAGTC
* ** *
73293045 TAAAAA TAAAAA TAAAACAA CTAAGAA GCAAAA TAAAAA TTAAAA T-AAAA
1 TAAAAA TAAAAA T-AAA-AA -TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
73293095 TAAAAA TAAAA
1 TAAAAA TAAAA
73293106 TTGAAAAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
5 5 0.11
6 29 0.66
7 5 0.11
8 4 0.09
9 1 0.02
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:73294717 original size:3 final size:3
Alignment explanation
Indices: 73294711--73294817 Score: 105
Period size: 3 Copynumber: 36.0 Consensus size: 3
73294701 ATATGAAACC
* *
73294711 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA -AC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
73294758 TAG TAA TAA CAG T-A TAA TAA AAA TAA TAAA TAA TAAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA T-AA TAA T-AA TAA
73294805 -AA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA
73294818 ATGGGGAGGG
Statistics
Matches: 87, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
2 6 0.07
3 72 0.83
4 9 0.10
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:73294790 original size:7 final size:7
Alignment explanation
Indices: 73294773--73294819 Score: 60
Period size: 7 Copynumber: 6.4 Consensus size: 7
73294763 ATAACAGTAT
73294773 AATAA-A
1 AATAATA
73294779 AATAATA
1 AATAATA
73294786 AATAATA
1 AATAATA
73294793 AATAATA
1 AATAATA
73294800 AATAAAATAA
1 AAT--AAT-A
73294810 AATAATA
1 AATAATA
73294817 AAT
1 AAT
73294820 GGGGAGGGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 5 0.14
7 22 0.59
8 3 0.08
9 3 0.08
10 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AATAATA
Found at i:73301218 original size:14 final size:13
Alignment explanation
Indices: 73301199--73301249 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
73301189 CAAACAAAAG
73301199 AAAAATTAAAATAT
1 AAAAA-TAAAATAT
*
73301213 AAAAATTAAAT-T
1 AAAAATAAAATAT
73301225 AAAACA-AAAATAT
1 AAAA-ATAAAATAT
73301238 AAAAATAAAATA
1 AAAAATAAAATA
73301250 AAATAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 10 0.31
13 17 0.53
14 5 0.16
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATAAAATAT
Found at i:73301228 original size:25 final size:23
Alignment explanation
Indices: 73301200--73301259 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 23
73301190 AAACAAAAGA
*
73301200 AAAATTAAAATATAAAAATTAAATT
1 AAAA-TAAAATATAAAAA-TAAAAT
*
73301225 AAAACAAAAATATAAAAATAAAAT
1 AAAA-TAAAATATAAAAATAAAAT
73301249 AAAATAAAATA
1 AAAATAAAATA
73301260 ATGGATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 6 0.19
24 9 0.29
25 16 0.52
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAATAAAATATAAAAATAAAAT
Done.