Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 82 of 279
Found at i:27242706 original size:82 final size:81
Alignment explanation
Indices: 27242592--27242742 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
27242582 AAACTGTACA
* *
27242592 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
27242656 TGCGAAATGATCATGCG
65 TGCGAAATGATCATGCG
* ** *
27242673 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
27242738 TGCGA
65 TGCGA
27242743 GTTGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAAATGATCATGCG
Found at i:27242759 original size:82 final size:81
Alignment explanation
Indices: 27242588--27242768 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
27242578 GATTAAACTG
* *
27242588 TACAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27242653 GTGTGCGAAATGATCA
66 GTGTGCGAAATGATCA
* * * ** *
27242669 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
** *
27242733 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAAATGATCA
* *
27242751 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27242769 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAAATGATCA
Found at i:27250685 original size:27 final size:27
Alignment explanation
Indices: 27250654--27250831 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27250644 TAAATTGTAC
27250654 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27250681 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27250707 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27250735 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27250763 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27250790 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27250817 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27250832 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27250768 original size:82 final size:81
Alignment explanation
Indices: 27250655--27250810 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27250645 AAATTGTACA
* *
27250655 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27250719 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27250736 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27250801 TGCGAGTTGA
65 TGCGAATTGA
27250811 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27250822 original size:82 final size:81
Alignment explanation
Indices: 27250651--27250831 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27250641 GATTAAATTG
* *
27250651 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27250716 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27250732 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27250796 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27250814 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27250832 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27251050 original size:43 final size:43
Alignment explanation
Indices: 27250989--27251076 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
27250979 CTATGTGACA
27250989 AATATGCTTGAAGTCGTACATAAAATTTATCGTAGGATGGGTG
1 AATATGCTTGAAGTCGTACATAAAATTTATCGTAGGATGGGTG
27251032 AATATGCTTGAAGTCGTACATAAAATTTATCGTAGGATGGGTG
1 AATATGCTTGAAGTCGTACATAAAATTTATCGTAGGATGGGTG
27251075 AA
1 AA
27251077 AGGCCATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (43 bp):
AATATGCTTGAAGTCGTACATAAAATTTATCGTAGGATGGGTG
Found at i:27260884 original size:28 final size:28
Alignment explanation
Indices: 27260849--27260908 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
27260839 ATTAAGAAAG
27260849 TAGTTTGGATTTTCAACTAAGTTTTCAA
1 TAGTTTGGATTTTCAACTAAGTTTTCAA
*
27260877 TAGTTTGGATTTTCAACTAAGTTTTCAT
1 TAGTTTGGATTTTCAACTAAGTTTTCAA
27260905 TAGT
1 TAGT
27260909 AAACACCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (28 bp):
TAGTTTGGATTTTCAACTAAGTTTTCAA
Found at i:27261767 original size:33 final size:32
Alignment explanation
Indices: 27261725--27261809 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 32
27261715 TTCGCCCAAA
*
27261725 GATGACATTGAGTTAGTTTCGATATGCGGTAGG
1 GATGACATTGA-TTAGTTTCGATATGAGGTAGG
*
27261758 GATGACATTGTATTAGTTTCGCTATGAGGTAGG
1 GATGACATTG-ATTAGTTTCGATATGAGGTAGG
27261791 GATGACATTGAATTAGTTT
1 GATGACATTG-ATTAGTTT
27261810 AAGCCTCAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
33 47 0.98
34 1 0.02
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.36
Consensus pattern (32 bp):
GATGACATTGATTAGTTTCGATATGAGGTAGG
Found at i:27267983 original size:27 final size:27
Alignment explanation
Indices: 27267953--27268130 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
27267943 ATATTGAGCC
* *
27267953 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
27267980 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
27268007 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
27268035 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
27268062 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
27268089 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
27268116 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27268131 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:27268092 original size:82 final size:81
Alignment explanation
Indices: 27267974--27268129 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
27267964 TGCTATATAA
* * *
27267974 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
27268039 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27268056 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
27268120 CACTTAGTGC
65 CACTTAGTGC
27268130 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27275194 original size:34 final size:34
Alignment explanation
Indices: 27275151--27275217 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
27275141 GAGAAATAAG
27275151 GTTAGAGACATTGCTTTTAATGAGGAATTGAATT
1 GTTAGAGACATTGCTTTTAATGAGGAATTGAATT
27275185 GTTAGAGACATTGCTTTTAATGAGGAATTGAAT
1 GTTAGAGACATTGCTTTTAATGAGGAATTGAAT
27275218 GCTAACTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (34 bp):
GTTAGAGACATTGCTTTTAATGAGGAATTGAATT
Found at i:27275214 original size:17 final size:17
Alignment explanation
Indices: 27275160--27275214 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
27275150 GGTTAGAGAC
27275160 ATTGCTTTTAATGAGGA
1 ATTGCTTTTAATGAGGA
*
27275177 ATTGAATTGTT-A-GA-GA
1 ATTG-CTT-TTAATGAGGA
27275193 CATTGCTTTTAATGAGGA
1 -ATTGCTTTTAATGAGGA
27275211 ATTG
1 ATTG
27275215 AATGCTAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
15 2 0.07
16 5 0.17
17 16 0.53
18 5 0.17
19 2 0.07
ACGTcount: A:0.31, C:0.05, G:0.24, T:0.40
Consensus pattern (17 bp):
ATTGCTTTTAATGAGGA
Found at i:27283798 original size:59 final size:60
Alignment explanation
Indices: 27283707--27283857 Score: 186
Period size: 58 Copynumber: 2.5 Consensus size: 60
27283697 TTTTTCTAAT
*
27283707 ATTATAT-ATTATGATTCTTATT-AATTCATATTTTAAAAATAATTATATTAAGAATGTTATTAA
1 ATTATATCATTAT--TT-TTATTAAATT-ATATTTTAAAAATAATTATATTAA-AATATTATTAA
* * *
27283770 ATTATAT-ATTA-TTTTATTAAATTGTA-TTTAATAATAATTATGTTAAAATATTATTAA
1 ATTATATCATTATTTTTATTAAATTATATTTTAAAAATAATTATATTAAAATATTATTAA
27283827 ATTATATCATTATTTTTATTAAATTATATTT
1 ATTATATCATTATTTTTATTAAATTATATTT
27283858 AGTAATAATC
Statistics
Matches: 79, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
57 17 0.22
58 22 0.28
59 21 0.27
60 8 0.10
63 11 0.14
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (60 bp):
ATTATATCATTATTTTTATTAAATTATATTTTAAAAATAATTATATTAAAATATTATTAA
Found at i:27283858 original size:59 final size:59
Alignment explanation
Indices: 27283707--27283874 Score: 200
Period size: 59 Copynumber: 2.8 Consensus size: 59
27283697 TTTTTCTAAT
* *
27283707 ATTATATATTATGATTCTTATT-AATTCATATTTTAAAAATAATTATATTAAGAATGTTATTAA
1 ATTATATATTAT--TT-TTATTAAATT-ATA-TTTAATAATAATTATATTAAGAATATTATTAA
* *
27283770 ATTATATATTA-TTTTATTAAATTGTATTTAATAATAATTATGTTAA-AATATTATTAA
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATTATTAA
*
27283827 ATTATATCATTATTTTTATTAAATTATATTTAGTAATAATCT-TATTAA
1 ATTATAT-ATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAA
27283875 AATCTAATAA
Statistics
Matches: 94, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
57 17 0.18
58 22 0.23
59 37 0.39
60 7 0.07
63 11 0.12
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (59 bp):
ATTATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATTATTAA
Found at i:27284066 original size:16 final size:16
Alignment explanation
Indices: 27284045--27284111 Score: 62
Period size: 16 Copynumber: 4.2 Consensus size: 16
27284035 TGAATTACTG
*
27284045 ATTACAACTCTATTTC
1 ATTACAACTCTATTCC
** *
27284061 ATTACAGTTATATTCC
1 ATTACAACTCTATTCC
* *
27284077 ATTACATCTCTATTCT
1 ATTACAACTCTATTCC
* *
27284093 ATTACAGCCCTATTCC
1 ATTACAACTCTATTCC
27284109 ATT
1 ATT
27284112 CACCCCAACC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:27284107 original size:32 final size:32
Alignment explanation
Indices: 27284045--27284111 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
27284035 TGAATTACTG
**
27284045 ATTACAACTCTATTTCATTACAGTTATATTCC
1 ATTACAACTCTATTTCATTACAGCCATATTCC
* *
27284077 ATTACATCTCTA-TTCTATTACAGCCCTATTCC
1 ATTACAACTCTATTTC-ATTACAGCCATATTCC
27284109 ATT
1 ATT
27284112 CACCCCAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 3 0.10
32 27 0.90
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.43
Consensus pattern (32 bp):
ATTACAACTCTATTTCATTACAGCCATATTCC
Found at i:27285544 original size:27 final size:28
Alignment explanation
Indices: 27285514--27285569 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
27285504 TAAAAACACC
27285514 CTTAAAATAATATGA-TGTCTTGTTATA
1 CTTAAAATAATATGATTGTCTTGTTATA
27285541 CTTAAAATAATATGATTTGTCTTGTTATA
1 CTTAAAATAATATGA-TTGTCTTGTTATA
27285570 ACCCAGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 15 0.56
29 12 0.44
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (28 bp):
CTTAAAATAATATGATTGTCTTGTTATA
Found at i:27289674 original size:16 final size:15
Alignment explanation
Indices: 27289638--27289673 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
27289628 AAAATTTAAA
27289638 TAAAAATAAATATTT
1 TAAAAATAAATATTT
* *
27289653 TAAAAATAGATGTTT
1 TAAAAATAAATATTT
27289668 TAAAAA
1 TAAAAA
27289674 ACCTTAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (15 bp):
TAAAAATAAATATTT
Found at i:27290008 original size:22 final size:22
Alignment explanation
Indices: 27289959--27290008 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
27289949 GGGTCACACG
*
27289959 CCCGTGTGGACACAATGACACA
1 CCCGTGTGGACACAATGACAAA
*
27289981 CTCGTGTGGACACAATGACAAA
1 CCCGTGTGGACACAATGACAAA
27290003 CCCGTG
1 CCCGTG
27290009 CGCCTTTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (22 bp):
CCCGTGTGGACACAATGACAAA
Found at i:27291375 original size:48 final size:48
Alignment explanation
Indices: 27291290--27291613 Score: 375
Period size: 48 Copynumber: 6.8 Consensus size: 48
27291280 ATAAGTACTA
* * * * *
27291290 ATGCCATGTCCCCGACATGGTCTTACA-T-GAATCCACATCTCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CATATATCATCGCCG
* * * * *
27291338 ATGTCATGTCCCGGACATGGTCTTACACTGGCACACATACCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCG
* *
27291386 ATGCCATGTCCCAGACATAGTCTTACACTGGCACATATATCATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCG
* *
27291434 ATGCCATATCCCAGACATGGTCTTACACTGGCACATATATCATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCG
* * * **
27291482 ATGCCATGTCCCAGACATGGTCTTACATTAGCAAATATATCATCGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCG
* * * *
27291530 ATGACATGTCCTAGACATAGTCTTACATTGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCG
* *
27291578 ATGCCATGTCCTAGACATTGTCTTACA-TAGGCACAT
1 ATGCCATGTCCCAGACATGGTCTTACACT-GGCACAT
27291614 TTAGTACGGT
Statistics
Matches: 241, Mismatches: 32, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
47 1 0.00
48 237 0.98
49 1 0.00
50 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCG
Found at i:27294435 original size:46 final size:46
Alignment explanation
Indices: 27294382--27294553 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
27294372 AACCAGCCCC
* *
27294382 TAAGTGAACTCGGACTCAACTCAAGGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
27294428 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
27294476 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
27294521 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
27294554 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 59 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:27294495 original size:93 final size:93
Alignment explanation
Indices: 27294387--27294557 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
27294377 GCCCCTAAGT
* * *
27294387 GAACTCGGACTCAACTCAAGGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27294452 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
27294480 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27294545 CGAGTTCGGATGC
66 CGAGTTCGGATGC
27294558 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:27295011 original size:30 final size:30
Alignment explanation
Indices: 27294977--27295036 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
27294967 ATTTAATACG
27294977 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
27295007 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
27295037 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:27300446 original size:33 final size:32
Alignment explanation
Indices: 27300386--27300482 Score: 106
Period size: 32 Copynumber: 3.0 Consensus size: 32
27300376 TCTTTCTGAG
**
27300386 TGGTACACACAAAGTATACCTTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTAACCTTTTCA-A
* * *
27300419 TGGTATACATAAAGTATACCTAACCTTTCCAA
1 TGGTACACACAAAGTATACCTAACCTTTTCAA
* *
27300451 -GTGTACACACAAAGTGTACATAACCTTTTCAA
1 TG-GTACACACAAAGTATACCTAACCTTTTCAA
27300483 ATTGTACCAT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
31 1 0.02
32 26 0.49
33 26 0.49
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (32 bp):
TGGTACACACAAAGTATACCTAACCTTTTCAA
Found at i:27306815 original size:32 final size:32
Alignment explanation
Indices: 27306779--27306902 Score: 119
Period size: 32 Copynumber: 3.9 Consensus size: 32
27306769 TATTTCTGAG
**
27306779 TGGTACACACAAAGTATACCTTTCCTTT-CATA
1 TGGTACACACAAAGTATACCTAACCTTTCCA-A
*
27306811 TGGTATACACAAAGTATACCTAACCTTTCCAA
1 TGGTACACACAAAGTATACCTAACCTTTCCAA
* * *
27306843 -GTGTACACACAAAGTGTACATAACCTTTTCAA
1 TG-GTACACACAAAGTATACCTAACCTTTCCAA
* * *
27306875 -GTGTGCACACAAAGTGTACATAACCTTT
1 TG-GTACACACAAAGTATACCTAACCTTT
27306903 TCAAATTGTA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
31 1 0.01
32 79 0.96
33 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (32 bp):
TGGTACACACAAAGTATACCTAACCTTTCCAA
Found at i:27306903 original size:32 final size:32
Alignment explanation
Indices: 27306817--27306906 Score: 144
Period size: 32 Copynumber: 2.8 Consensus size: 32
27306807 CATATGGTAT
* * *
27306817 ACACAAAGTATACCTAACCTTTCCAAGTGTAC
1 ACACAAAGTGTACATAACCTTTTCAAGTGTAC
*
27306849 ACACAAAGTGTACATAACCTTTTCAAGTGTGC
1 ACACAAAGTGTACATAACCTTTTCAAGTGTAC
27306881 ACACAAAGTGTACATAACCTTTTCAA
1 ACACAAAGTGTACATAACCTTTTCAA
27306907 ATTGTACCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (32 bp):
ACACAAAGTGTACATAACCTTTTCAAGTGTAC
Found at i:27314609 original size:7 final size:7
Alignment explanation
Indices: 27314597--27314621 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27314587 ATCACTAAGA
27314597 GTTATGG
1 GTTATGG
27314604 GTTATGG
1 GTTATGG
27314611 GTTATGG
1 GTTATGG
27314618 GTTA
1 GTTA
27314622 ATATTGAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
GTTATGG
Found at i:27317710 original size:231 final size:230
Alignment explanation
Indices: 27317308--27317765 Score: 781
Period size: 231 Copynumber: 2.0 Consensus size: 230
27317298 GTCGTCAAAA
* * * * *
27317308 GTGGTATTGTGGGTAGCGCACGGACGTGGCAGGTAGGGCGTGTGAAGTTGTAGTGGCTAGGGTTA
1 GTGGTATTGTGGGCAGCGCACAGACGTGGCAGGTAAGACGTGTGAAGTTGCAGTGGCTAGGGTTA
*
27317373 GGGTTTTGGGGAAGGGGATGATGAATAGTGAGGGGCATTTATAGATTTTAGGACACATGGCCATG
66 GGGTTTTGGGGAAGGGGATGATGAATAGTGAGGGGCATTTATAGATTTTAGGACACACGGCCATG
* *
27317438 GGGCACGCCCGTGTACCCTAATTTTTGCCGTGTCGAACGACTGTGTCCTACTTCGTTTACTTCTC
131 GGGCAAGCCCATGTACCCTAATTTTTGCCGTGTCGAACGACTGTGTCCTACTTCGTTTACTTCTC
27317503 CCACGCCCGTGTTGTTTTATCAGTCTTGAGCACGG
196 CCACGCCCGTGTTGTTTTATCAGTCTTGAGCACGG
* *
27317538 GTGGTATTGTGGGCGGTGCACAGACGTGGCAGGTAAGACGTGTGAAGTTGCAGTGGCTAGGGTTA
1 GTGGTATTGTGGGCAGCGCACAGACGTGGCAGGTAAGACGTGTGAAGTTGCAGTGGCTAGGGTTA
*
27317603 GGGATTTTGGGGAAGGGGATGATGAATAGTGAGGGGCATTTATAGATTTTGGGACACACGGCCAT
66 GGG-TTTTGGGGAAGGGGATGATGAATAGTGAGGGGCATTTATAGATTTTAGGACACACGGCCAT
* *
27317668 GGGGCAAGCCCATGTGCCCTAATTTTTGCCGTGTCGAACGACTGTGTTCTACTTCGTTTACTTCT
130 GGGGCAAGCCCATGTACCCTAATTTTTGCCGTGTCGAACGACTGTGTCCTACTTCGTTTACTTCT
*
27317733 CCCATGCCCGTGTTGTTTTATCAGTCTTGAGCA
195 CCCACGCCCGTGTTGTTTTATCAGTCTTGAGCA
27317766 TAGGTGGTGG
Statistics
Matches: 213, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
230 61 0.29
231 152 0.71
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (230 bp):
GTGGTATTGTGGGCAGCGCACAGACGTGGCAGGTAAGACGTGTGAAGTTGCAGTGGCTAGGGTTA
GGGTTTTGGGGAAGGGGATGATGAATAGTGAGGGGCATTTATAGATTTTAGGACACACGGCCATG
GGGCAAGCCCATGTACCCTAATTTTTGCCGTGTCGAACGACTGTGTCCTACTTCGTTTACTTCTC
CCACGCCCGTGTTGTTTTATCAGTCTTGAGCACGG
Found at i:27330506 original size:48 final size:48
Alignment explanation
Indices: 27330425--27330598 Score: 194
Period size: 48 Copynumber: 3.6 Consensus size: 48
27330415 GTACCAATCC
* * *
27330425 CATGTCCCCA-ACATGGTCTTACA-T-GAATCCACATCTCATCACCAATGA
1 CATGT-CCCAGACATGGTCTTACACTGGCA--CACATATCATCACCGATGA
27330473 CATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCGAT-A
1 CATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCGATGA
* * * *
27330520 CCATGTCTCAGACATGGTCTTACACTAGCACATATATCATCACCGATGC
1 -CATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCGATGA
** *
27330569 CATGTCCCAGTTATGGTCTTACACAGGCAC
1 CATGTCCCAGACATGGTCTTACACTGGCAC
27330599 TTTTAGTACG
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
47 5 0.05
48 101 0.93
49 1 0.01
50 2 0.02
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCGATGA
Found at i:27333871 original size:16 final size:16
Alignment explanation
Indices: 27333850--27333881 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27333840 TTAGACTAAG
27333850 AACATGTTTGAATTAT
1 AACATGTTTGAATTAT
27333866 AACATGTTTGAATTAT
1 AACATGTTTGAATTAT
27333882 CTACTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
AACATGTTTGAATTAT
Found at i:27340503 original size:25 final size:25
Alignment explanation
Indices: 27340469--27340521 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
27340459 ACGAACACTT
27340469 AACAGTGTTTAAAGAAATTCTCTCA
1 AACAGTGTTTAAAGAAATTCTCTCA
27340494 AACAGTGTTTAAAGAAATTCTCTCA
1 AACAGTGTTTAAAGAAATTCTCTCA
27340519 AAC
1 AAC
27340522 TTAGAGGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (25 bp):
AACAGTGTTTAAAGAAATTCTCTCA
Found at i:27344406 original size:16 final size:18
Alignment explanation
Indices: 27344371--27344408 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27344361 ATCCTTATTT
*
27344371 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
27344389 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
27344405 AAAT
1 AAAT
27344409 CCCTATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:27345531 original size:19 final size:18
Alignment explanation
Indices: 27345497--27345533 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
27345487 TATTATTTAC
27345497 TTATTATTTAAGTAAATA
1 TTATTATTTAAGTAAATA
*
27345515 TTATTATATTAATTAAATA
1 TTATTAT-TTAAGTAAATA
27345534 AAATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATTATTTAAGTAAATA
Found at i:27346961 original size:44 final size:44
Alignment explanation
Indices: 27346881--27346981 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
27346871 TGTTCAGGGA
* * * *
27346881 TACTTCGACCTT-TAGTCGATGAGGCACTATAAGTGTCGTACTAT
1 TACTTCGA-CTTCGAGTCGATGAGCCACCATAAGTGTCATACTAT
** *
27346925 TACTTCGACTTCGAGTCGATGAGCCACCATGTGTGTCATACTGT
1 TACTTCGACTTCGAGTCGATGAGCCACCATAAGTGTCATACTAT
27346969 TACTGT-GACTTCG
1 TACT-TCGACTTCG
27346982 GTTTAATCTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
43 3 0.06
44 44 0.92
45 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATGAGCCACCATAAGTGTCATACTAT
Found at i:27347151 original size:18 final size:18
Alignment explanation
Indices: 27347125--27347206 Score: 92
Period size: 18 Copynumber: 4.6 Consensus size: 18
27347115 TGAATAAAGG
*
27347125 TACTAAATGACTGATTGT
1 TACTGAATGACTGATTGT
* *
27347143 TACTGAATGATTGATTAT
1 TACTGAATGACTGATTGT
* *
27347161 TACTGAATAACTGATTGC
1 TACTGAATGACTGATTGT
* * *
27347179 TACTGAATAATTAATTGT
1 TACTGAATGACTGATTGT
27347197 TACTGAATGA
1 TACTGAATGA
27347207 TATTGATAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (18 bp):
TACTGAATGACTGATTGT
Found at i:27347174 original size:36 final size:36
Alignment explanation
Indices: 27347125--27347204 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
27347115 TGAATAAAGG
* * * * *
27347125 TACTAAATGACTGATTGTTACTGAATGATTGATTAT
1 TACTGAATAACTGATTGCTACTGAATAATTAATTAT
*
27347161 TACTGAATAACTGATTGCTACTGAATAATTAATTGT
1 TACTGAATAACTGATTGCTACTGAATAATTAATTAT
27347197 TACTGAAT
1 TACTGAAT
27347205 GATATTGATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (36 bp):
TACTGAATAACTGATTGCTACTGAATAATTAATTAT
Found at i:27354421 original size:27 final size:26
Alignment explanation
Indices: 27354378--27354432 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
27354368 AATACTCATA
27354378 TTTATATAATTAAAATAT-TCATATT
1 TTTATATAATTAAAATATGTCATATT
*
27354403 TTTATATTAGATTATAATATGTCATATT
1 TTTATA-TA-ATTAAAATATGTCATATT
27354431 TT
1 TT
27354433 GTTAAATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 6 0.23
26 2 0.08
27 9 0.35
28 9 0.35
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTATATAATTAAAATATGTCATATT
Found at i:27354694 original size:15 final size:16
Alignment explanation
Indices: 27354674--27354723 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
27354664 ACTACAAAAC
27354674 ATTTATTATTAAT-AT
1 ATTTATTATTAATAAT
*
27354689 ATTTATAATTTTAATAAAT
1 ATTTAT--TATTAAT-AAT
27354708 ATTTATTATTAA-AAT
1 ATTTATTATTAATAAT
27354723 A
1 A
27354724 CTAATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 10 0.34
17 11 0.38
19 8 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTATTATTAATAAT
Found at i:27354784 original size:15 final size:16
Alignment explanation
Indices: 27354764--27354793 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27354754 AAGAATATTA
27354764 TTTAAAA-TTATTATC
1 TTTAAAATTTATTATC
27354779 TTTAAAATTTATTAT
1 TTTAAAATTTATTAT
27354794 TAAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAAATTTATTATC
Found at i:27355556 original size:15 final size:16
Alignment explanation
Indices: 27355538--27355593 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 16
27355528 TTAAAATGAC
27355538 AATATAAAAAATT-TT
1 AATATAAAAAATTATT
*
27355553 AATATATAAAATTATT
1 AATATAAAAAATTATT
**
27355569 AA-ATATGAAATTAAATT
1 AATATAAAAAATT--ATT
27355586 AATATAAA
1 AATATAAA
27355594 TATTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 21 0.64
16 4 0.12
17 5 0.15
18 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AATATAAAAAATTATT
Found at i:27357294 original size:35 final size:35
Alignment explanation
Indices: 27357207--27357302 Score: 99
Period size: 34 Copynumber: 2.8 Consensus size: 35
27357197 ATATTTACGC
* * * *
27357207 CCAGCGCTAGTCGGATAAACTGACGAATGTGTGC-
1 CCAGCACTAGTCGAATAAACTGATGAAGGTGTGCG
*
27357241 CCAACACTAGTC-AGATAAACTGATGAAGGT-TGCG
1 CCAGCACTAGTCGA-ATAAACTGATGAAGGTGTGCG
*
27357275 CCTAGCACTAGTCGAATAAACCGATGAA
1 CC-AGCACTAGTCGAATAAACTGATGAA
27357303 TAATTTAGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
33 3 0.06
34 26 0.51
35 21 0.41
36 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (35 bp):
CCAGCACTAGTCGAATAAACTGATGAAGGTGTGCG
Found at i:27359877 original size:46 final size:46
Alignment explanation
Indices: 27359804--27359893 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
27359794 CAAAAATTTC
27359804 ATTCACTTCTAATATAAATCTCTAAATATTTTTATTAAATATTTTA
1 ATTCACTTCTAATATAAATCTCTAAATATTTTTATTAAATATTTTA
*
27359850 ATTCACTTCTAATATAACTCTAC-AAATATTTTTATTAAATATTT
1 ATTCACTTCTAATATAAATCT-CTAAATATTTTTATTAAATATTT
27359894 ACGAATCTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 41 0.98
47 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (46 bp):
ATTCACTTCTAATATAAATCTCTAAATATTTTTATTAAATATTTTA
Found at i:27360830 original size:6 final size:6
Alignment explanation
Indices: 27360819--27360843 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27360809 AATTGATTGG
27360819 TTTGAT TTTGAT TTTGAT TTTGAT T
1 TTTGAT TTTGAT TTTGAT TTTGAT T
27360844 AAGATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TTTGAT
Found at i:27364606 original size:47 final size:44
Alignment explanation
Indices: 27364408--27364703 Score: 206
Period size: 47 Copynumber: 6.5 Consensus size: 44
27364398 AGACATTTTG
* * * * *
27364408 GACATGTCTGGGACATGCATCAGCCACATTATGA-TAGCCAGTGCAA
1 GACATGTCTGGGACATGCATCGGCTA-A-GATGAGT-GCTAGTGTAA
* *
27364454 AACATGTCTGGGACATGCATCGGCTAAGA-GTTGTGCTAGTGTAA
1 GACATGTCTGGGACATGCATCGGCTAAGATG-AGTGCTAGTGTAA
* * * * * *
27364498 GACATGTATGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAA
1 GACATGTCTGGGACATGCATCGGCTA-A-GATGAGTGCTAGTGTAA
*
27364544 GACCATTTCTGGGACATGACATCGGCGTAGAGATGAGTGCTAGTGTAA
1 GA-CATGTCTGGGACATG-CATCGGC-TA-AGATGAGTGCTAGTGTAA
* *
27364592 GACATGTCTAGGACATGCATTGGCCTCGACA-ATGA-TAGCTAGTGTAA
1 GACATGTCTGGGACATGCATCGG-CT--A-AGATGAGT-GCTAGTGTAA
* * * *
27364639 GACGTGACTGGGACATGCATCGACTAAGA-GTTGTGCTAGTGTAA
1 GACATGTCTGGGACATGCATCGGCTAAGATG-AGTGCTAGTGTAA
* * *
27364683 AACATGTATAGGACATGCATC
1 GACATGTCTGGGACATGCATC
27364704 ATGTAACACC
Statistics
Matches: 197, Mismatches: 38, Indels: 32
0.74 0.14 0.12
Matches are distributed among these distances:
43 3 0.02
44 59 0.30
45 4 0.02
46 45 0.23
47 60 0.30
48 24 0.12
49 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (44 bp):
GACATGTCTGGGACATGCATCGGCTAAGATGAGTGCTAGTGTAA
Found at i:27369970 original size:49 final size:49
Alignment explanation
Indices: 27369894--27370081 Score: 268
Period size: 49 Copynumber: 3.8 Consensus size: 49
27369884 TAGCCAAAGC
* *
27369894 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
27369943 TATCTGGTACACTTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* *
27369994 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
27370043 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
27370082 CGTGACCTCA
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
49 76 0.62
50 6 0.05
51 40 0.33
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:27370034 original size:100 final size:100
Alignment explanation
Indices: 27369894--27370086 Score: 350
Period size: 100 Copynumber: 1.9 Consensus size: 100
27369884 TAGCCAAAGC
* * *
27369894 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCTGGTACACTTAG
1 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
27369959 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
*
27369994 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
27370059 TAGCCTGCACTTAGTACTACACACGTGA
66 TAGCCTGCACTTAGTACTACACACGTGA
27370087 CCTCACAATA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 89 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:27370846 original size:21 final size:21
Alignment explanation
Indices: 27370822--27370864 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
27370812 AGAATATTAA
27370822 AAACGGAACTCGGAATCACTT
1 AAACGGAACTCGGAATCACTT
*
27370843 AAACGGAGCTCGGAATCACTT
1 AAACGGAACTCGGAATCACTT
27370864 A
1 A
27370865 CTATTAAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (21 bp):
AAACGGAACTCGGAATCACTT
Found at i:27373318 original size:31 final size:31
Alignment explanation
Indices: 27373259--27373337 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
27373249 AAAATGAGCT
* *
27373259 CACACGCCCATGTGGCCTGCTTGGGTGGGCC
1 CACACGCCCATATGGCCTGCTCGGGTGGGCC
* * * *
27373290 CACATGCCCATATGGCTTGCTCGTGTGGGCT
1 CACACGCCCATATGGCCTGCTCGGGTGGGCC
* *
27373321 CATACGCCCATGTGGCC
1 CACACGCCCATATGGCC
27373338 CTCACGGCCC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.13, C:0.34, G:0.30, T:0.23
Consensus pattern (31 bp):
CACACGCCCATATGGCCTGCTCGGGTGGGCC
Found at i:27380099 original size:79 final size:82
Alignment explanation
Indices: 27379988--27380172 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
27379978 GCTCCTCGTT
* *
27379988 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
27380051 GGATTTAAT-ACCTCGCA
65 GGATATAATCACCTCGCA
* **
27380068 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
** * *
27380131 GATATGGTCACTTCGTA
66 GATATAATCACCTCGCA
27380148 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27380173 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.57
80 36 0.40
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAATCACCTCGCA
Found at i:27380172 original size:40 final size:40
Alignment explanation
Indices: 27379988--27380172 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
27379978 GCTCCTCGTT
* *
27379988 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
* * * *
27380028 CAAATGCCTTCGGGACTTAACCCGGATTTAATACCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
27380068 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
27380107 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
27380148 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27380173 CATCATTCAA
Statistics
Matches: 123, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.61
41 13 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:27387515 original size:19 final size:19
Alignment explanation
Indices: 27387491--27387554 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
27387481 TAATTTATTC
27387491 ACTATTTAATTCCATTCCT
1 ACTATTTAATTCCATTCCT
** *
27387510 ACTATTTAATAATTTATT--A
1 ACTATTTAAT--TCCATTCCT
27387529 ACTATTTAATTCCATTCCT
1 ACTATTTAATTCCATTCCT
27387548 ACTATTT
1 ACTATTT
27387555 TTAGAGAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 4 0.11
19 27 0.77
21 4 0.11
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (19 bp):
ACTATTTAATTCCATTCCT
Found at i:27387533 original size:38 final size:39
Alignment explanation
Indices: 27387475--27387554 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 39
27387465 TCAAGGTTCG
*
27387475 TTTACATAATTTATTCACTATTTAATTCCATTCCTACTA
1 TTTACATAATTTATTAACTATTTAATTCCATTCCTACTA
27387514 TTTA-ATAATTTATTAACTATTTAATTCCATTCCTACTA
1 TTTACATAATTTATTAACTATTTAATTCCATTCCTACTA
27387552 TTT
1 TTT
27387555 TTAGAGAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 36 0.90
39 4 0.10
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.51
Consensus pattern (39 bp):
TTTACATAATTTATTAACTATTTAATTCCATTCCTACTA
Found at i:27388438 original size:79 final size:81
Alignment explanation
Indices: 27388338--27388522 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
27388328 GCTCCTCGTT
* *
27388338 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
27388400 CAGATTTAGTAAC-TCGCA
63 CAGATATAGTAACTTAGCA
** *
27388418 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCAG
* *
27388482 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
27388498 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27388523 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.05
79 52 0.57
80 34 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCAG
ATATAGTAACTTAGCA
Found at i:27388522 original size:40 final size:40
Alignment explanation
Indices: 27388338--27388522 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
27388328 GCTCCTCGTT
* * *
27388338 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* * *
27388378 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
27388418 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
27388457 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
27388498 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27388523 CATCATTCAA
Statistics
Matches: 122, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
38 3 0.02
39 29 0.24
40 75 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:27392560 original size:28 final size:28
Alignment explanation
Indices: 27392522--27392703 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
27392512 TAAATTGTAC
*
27392522 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
27392550 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
27392578 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
27392606 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
27392634 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
27392662 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
27392689 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27392704 GACTTAATAT
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.16
28 125 0.84
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:27394445 original size:288 final size:287
Alignment explanation
Indices: 27393903--27394477 Score: 1105
Period size: 288 Copynumber: 2.0 Consensus size: 287
27393893 CTATAGAAAC
* * *
27393903 AAACGGCATCAGTATTGAATTCTGTGCAGGGAGATATCCTGGTCGTAATGCGCAAAGGTCAGTGT
1 AAACGGCATCAGTATTGAACTCTGTCCAGGGAGATATCCAGGTCGTAATGCGCAAAGGTCAGTGT
27393968 AGTCGATCCCTATAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATT
66 AGTCGATCCCTATAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATT
27394033 CTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGAAACTTATTTT
131 CTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGAAACTTATTTT
27394098 CGAGTTGTGAAACTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAA
196 CGAGTTGTGAAACTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAA
27394163 ATATTTTTATAAAGGGTTTGAAGTCTG
261 ATATTTTTATAAAGGGTTTGAAGTCTG
27394190 AAACGGCATCAGTATTGAAGCTCTGTCCAGGGAGATATCCAGGTCGTAATGCGCAAAGGTCAGTG
1 AAACGGCATCAGTATTGAA-CTCTGTCCAGGGAGATATCCAGGTCGTAATGCGCAAAGGTCAGTG
*
27394255 TAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAAT
65 TAGTCGATCCCTATAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAAT
27394320 TCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGAAACTTATTT
130 TCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGAAACTTATTT
27394385 TCGAGTTGTGAAACTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGA
195 TCGAGTTGTGAAACTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGA
27394450 AATATTTTTATAAAGGGTTTGAAGTCTG
260 AATATTTTTATAAAGGGTTTGAAGTCTG
27394478 TTAACACCTC
Statistics
Matches: 283, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
287 19 0.07
288 264 0.93
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (287 bp):
AAACGGCATCAGTATTGAACTCTGTCCAGGGAGATATCCAGGTCGTAATGCGCAAAGGTCAGTGT
AGTCGATCCCTATAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATT
CTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGAAACTTATTTT
CGAGTTGTGAAACTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAA
ATATTTTTATAAAGGGTTTGAAGTCTG
Found at i:27399319 original size:150 final size:150
Alignment explanation
Indices: 27399048--27399349 Score: 577
Period size: 150 Copynumber: 2.0 Consensus size: 150
27399038 AACCAAAATT
27399048 ATACAAGTCCAAAGGGTCCATGACCCACAACAAACGGGTAGTCCTATACATGCCATTTCGAAGTT
1 ATACAAGTCCAAAGGGTCCATGACCCACAACAAACGGGTAGTCCTATACATGCCATTTCGAAGTT
27399113 CAACCAAAATTGTACCAAAAGGGGGGCTTTGATAGTGTGGGCGACTTTGACTTCAAGATCCCGAG
66 CAACCAAAATTGTACCAAAAGGGGGGCTTTGATAGTGTGGGCGACTTTGACTTCAAGATCCCGAG
27399178 TCCCATAGCTGGAGAACCAA
131 TCCCATAGCTGGAGAACCAA
27399198 ATACAAGTCCAAAGGGTCCATGACCCACAACAAACGGGTAGTCCTATACATGCCATTTCGAAGTT
1 ATACAAGTCCAAAGGGTCCATGACCCACAACAAACGGGTAGTCCTATACATGCCATTTCGAAGTT
*
27399263 CAACCAAAATTGTACCAAAAGGGGGGCTTTGATAGTGTGGGCGACTTTGACTTCAAGATCCCGCG
66 CAACCAAAATTGTACCAAAAGGGGGGCTTTGATAGTGTGGGCGACTTTGACTTCAAGATCCCGAG
**
27399328 TCTGATAGCTGGAGAACCAA
131 TCCCATAGCTGGAGAACCAA
27399348 AT
1 AT
27399350 CTATAAAACA
Statistics
Matches: 149, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.22
Consensus pattern (150 bp):
ATACAAGTCCAAAGGGTCCATGACCCACAACAAACGGGTAGTCCTATACATGCCATTTCGAAGTT
CAACCAAAATTGTACCAAAAGGGGGGCTTTGATAGTGTGGGCGACTTTGACTTCAAGATCCCGAG
TCCCATAGCTGGAGAACCAA
Found at i:27399772 original size:41 final size:39
Alignment explanation
Indices: 27399739--27399897 Score: 203
Period size: 40 Copynumber: 4.0 Consensus size: 39
27399729 AATGCATTTT
* *
27399739 GGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTC
1 GGGACTTAACCCGGTT-TAGTAACTCGCACAAATGCCTTC
*
27399779 GGGACTTAACCCGAATTTAGTAACTCGCACAAATGCCTTC
1 GGGACTTAACCCG-GTTTAGTAACTCGCACAAATGCCTTC
*
27399819 GGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTC
1 GGGACTTAACCCGG-TTTAGTAACTCGCACAAATGCCTTC
* * * *
27399859 GGG-CTTAGCCCGGAATTAGTATCTCGCACAAATACCTTC
1 GGGACTTAACCCGG-TTTAGTAACTCGCACAAATGCCTTC
27399898 AGATCTTAGT
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 31 0.29
40 74 0.69
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
GGGACTTAACCCGGTTTAGTAACTCGCACAAATGCCTTC
Found at i:27399885 original size:39 final size:40
Alignment explanation
Indices: 27399756--27399897 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
27399746 AGCCCGGTTA
27399756 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-GAATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAA-T
*
27399796 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
* *
27399836 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
* *
27399875 TAGTATCTCGCACAAATACCTTC
1 TAGTAACTCGCACAAATGCCTTC
27399898 AGATCTTAGT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 31 0.33
40 61 0.65
41 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
Found at i:27401215 original size:101 final size:100
Alignment explanation
Indices: 27401040--27401243 Score: 399
Period size: 101 Copynumber: 2.0 Consensus size: 100
27401030 TTCCTTAGAA
27401040 TTTTCGGCCAAATGAAGATGAAAAAGGATGAACAAAATTTTCTCCTTTCTTTTCTTTAACTCACG
1 TTTTCGGCCAAATGAAGATGAAAAAGGATGAACAAAATTTTCTCCTTTCTTTTCTTTAACTCACG
27401105 GCAATGGGGGGGGGAAGACAACCACACACATTTTTT
66 GCAAT-GGGGGGGGAAGACAACCACACACATTTTTT
27401141 TTTTCGGCCAAATGAAGATGAAAAAGGATGAACAAAATTTTCTCCTTTCTTTTCTTTAACTCACG
1 TTTTCGGCCAAATGAAGATGAAAAAGGATGAACAAAATTTTCTCCTTTCTTTTCTTTAACTCACG
27401206 GCAATGGGGGGGGAAGACAACCACACACATTTTTT
66 GCAATGGGGGGGGAAGACAACCACACACATTTTTT
27401241 TTT
1 TTT
27401244 GTTTCCATCA
Statistics
Matches: 103, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 33 0.32
101 70 0.68
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (100 bp):
TTTTCGGCCAAATGAAGATGAAAAAGGATGAACAAAATTTTCTCCTTTCTTTTCTTTAACTCACG
GCAATGGGGGGGGAAGACAACCACACACATTTTTT
Found at i:27402901 original size:29 final size:29
Alignment explanation
Indices: 27402859--27402915 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
27402849 GTTGAGAGAA
27402859 GTTAGCTCTTTAGGACATGTAGTATCTAC
1 GTTAGCTCTTTAGGACATGTAGTATCTAC
*
27402888 GTTAGCTCTTTAGGACATTTAGTATCTA
1 GTTAGCTCTTTAGGACATGTAGTATCTA
27402916 TATCGGGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (29 bp):
GTTAGCTCTTTAGGACATGTAGTATCTAC
Found at i:27406695 original size:24 final size:24
Alignment explanation
Indices: 27406663--27406723 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
27406653 AAAATCCAAT
* * *
27406663 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
27406687 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
27406711 GCACTATGTGTGC
1 GCACTATGTGTGC
27406724 AAATACGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:27417818 original size:31 final size:31
Alignment explanation
Indices: 27417769--27417900 Score: 185
Period size: 31 Copynumber: 4.3 Consensus size: 31
27417759 TTAGTCTTGA
* * *
27417769 CATAT-ACTGGGCCGAAGCCTTTCCATAAAC
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
*
27417799 CATATCACTAGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
**
27417830 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
* *
27417861 CATATCACTGGGCTAAAGCATTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
27417892 CATATCACT
1 CATATCACT
27417901 ACCGCACTTC
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 5 0.05
31 87 0.95
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTTCATAAAT
Found at i:27421234 original size:42 final size:42
Alignment explanation
Indices: 27421175--27421287 Score: 160
Period size: 40 Copynumber: 2.7 Consensus size: 42
27421165 ATACTCAAAT
**
27421175 TCTCGCACACTAAGTGCCAATACATAGCCGAAGCTAT-TTTAA
1 TCTCGCACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAA
*
27421217 TCTCGCACACTAAGTGCCATACATAGCTGAAGCTATCTCGAA
1 TCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
*
27421259 --TCGCACACTAAGTGCCATACATAGTCGAA
1 TCTCGCACACTAAGTGCCATACATAGCCGAA
27421288 TTGTCATCAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 27 0.42
41 17 0.26
42 21 0.32
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (42 bp):
TCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
Found at i:27427544 original size:42 final size:43
Alignment explanation
Indices: 27427442--27427588 Score: 179
Period size: 43 Copynumber: 3.4 Consensus size: 43
27427432 CGCGTCCATT
* * ** *
27427442 ATGAACTCGGACCACTCAACGAGCTCGTATGCTCACATCCATA
1 ATGAACTCGGACCACTCAATGAGCTCGGATGCTCACATATATC
*
27427485 ATGAACTCGAACCACTCAATGAGCTCGGATGCT-ACATATATC
1 ATGAACTCGGACCACTCAATGAGCTCGGATGCTCACATATATC
* * * *
27427527 ATGAACTTGGACCACTCAATAAGTTCGGATTCTCACATATATC
1 ATGAACTCGGACCACTCAATGAGCTCGGATGCTCACATATATC
**
27427570 ACAAACTCGGACCACTCAA
1 ATGAACTCGGACCACTCAA
27427589 CAAGCTCGAA
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 34 0.38
43 55 0.62
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (43 bp):
ATGAACTCGGACCACTCAATGAGCTCGGATGCTCACATATATC
Found at i:27430491 original size:16 final size:16
Alignment explanation
Indices: 27430470--27430517 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 16
27430460 ATATGGTACA
27430470 TAAATCATACATTACT
1 TAAATCATACATTACT
27430486 TAAATCATATAACATTACT
1 TAAATC--AT-ACATTACT
27430505 TAAATCATACATT
1 TAAATCATACATT
27430518 TCATAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 11 0.38
17 2 0.07
18 2 0.07
19 14 0.48
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATCATACATTACT
Found at i:27430726 original size:29 final size:29
Alignment explanation
Indices: 27430684--27430746 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
27430674 GTGTGCTAAA
**
27430684 CGATGGTTGAAACCATCCATTTTCATATT
1 CGATGGTCAAAACCATCCATTTTCATATT
*
27430713 CGATGGTCAAAACCATCCCTTTTCATATT
1 CGATGGTCAAAACCATCCATTTTCATATT
*
27430742 TGATG
1 CGATG
27430747 ATCTTAACAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (29 bp):
CGATGGTCAAAACCATCCATTTTCATATT
Found at i:27432137 original size:28 final size:28
Alignment explanation
Indices: 27432093--27432148 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
27432083 GGGTACCAAG
* *
27432093 GTAAGTTTGTGTGTAAATAATGGAACGT
1 GTAAGTTTGTGTATAAATAATGCAACGT
27432121 GTAAGTTTGTGTATAAATAATGCAACGT
1 GTAAGTTTGTGTATAAATAATGCAACGT
27432149 TACAATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (28 bp):
GTAAGTTTGTGTATAAATAATGCAACGT
Found at i:27432460 original size:48 final size:48
Alignment explanation
Indices: 27432408--27432543 Score: 175
Period size: 48 Copynumber: 2.8 Consensus size: 48
27432398 ATCTATATGT
* *
27432408 GATCCTATATAAGACCATGTCTAGGACATGGCATTGGCATCGATCGAC
1 GATCCTATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATAGAC
* * * *
27432456 GATCCAACGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATAT
1 GATCCTATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATAGAC
* * *
27432504 GATCCTATGTAAGACCATAT-TCGAGATATGGCATTGGCAT
1 GATCCTATGTAAGACCATGTCTAG-GACATGGCATTGGCAT
27432544 TCTACCATGT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
47 2 0.03
48 74 0.97
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (48 bp):
GATCCTATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATAGAC
Found at i:27437321 original size:13 final size:12
Alignment explanation
Indices: 27437305--27437344 Score: 57
Period size: 10 Copynumber: 3.4 Consensus size: 12
27437295 ACGTTTCCCT
27437305 TCTCCTCTCTTC
1 TCTCCTCTCTTC
27437317 T-T-CTCTCTTC
1 TCTCCTCTCTTC
27437327 TTCTCCTCTCTTC
1 -TCTCCTCTCTTC
27437340 TCTCC
1 TCTCC
27437345 CTCCATACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 8 0.32
11 2 0.08
12 7 0.28
13 8 0.32
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (12 bp):
TCTCCTCTCTTC
Found at i:27446779 original size:27 final size:27
Alignment explanation
Indices: 27446724--27446835 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
27446714 TAGCATGACT
* * *
27446724 ACCAGAACAGATAA-TGTGACAGTGTC
1 ACCAGAACAGATAATTGTGGCAGAGCC
27446750 ACCAGAACAGATAATTGTGGCAGAGCC
1 ACCAGAACAGATAATTGTGGCAGAGCC
*
27446777 ACCAGAACAGAT-ATATGTGGCAGTGCC
1 ACCAGAACAGATAAT-TGTGGCAGAGCC
* * *
27446804 ACCAGATCAAATAATTGTGGCATAGCC
1 ACCAGAACAGATAATTGTGGCAGAGCC
27446831 ACCAG
1 ACCAG
27446836 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 16 0.21
27 57 0.76
28 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
ACCAGAACAGATAATTGTGGCAGAGCC
Found at i:27446807 original size:54 final size:53
Alignment explanation
Indices: 27446724--27446835 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 53
27446714 TAGCATGACT
* *
27446724 ACCAGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCC
1 ACCAGAACAGATAATGTGACAGTGCCACCAGAACAAATAATTGTGGCAGAGCC
* * *
27446777 ACCAGAACAGATATATGTGGCAGTGCCACCAGATCAAATAATTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGACAGTGCCACCAGAACAAATAATTGTGGCAGAGCC
27446831 ACCAG
1 ACCAG
27446836 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 13 0.25
54 40 0.75
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (53 bp):
ACCAGAACAGATAATGTGACAGTGCCACCAGAACAAATAATTGTGGCAGAGCC
Found at i:27447496 original size:27 final size:28
Alignment explanation
Indices: 27447466--27447543 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 28
27447456 CACTCGATAA
27447466 AGATAATTGTGGCAGAGCCACCAGAAT-
1 AGATAATTGTGGCAGAGCCACCAGAATC
*
27447493 AGAT-ATATGTGGCAGTGCCACCA-AATC
1 AGATAAT-TGTGGCAGAGCCACCAGAATC
* *
27447520 AGATAATTGTAGCATAGCCACCAG
1 AGATAATTGTGGCAGAGCCACCAG
27447544 GACGCTTCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
26 5 0.12
27 36 0.84
28 2 0.05
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (28 bp):
AGATAATTGTGGCAGAGCCACCAGAATC
Found at i:27449798 original size:47 final size:47
Alignment explanation
Indices: 27449744--27450297 Score: 754
Period size: 47 Copynumber: 11.6 Consensus size: 47
27449734 TATTTGAATA
* * *
27449744 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27449791 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27449840 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27449889 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27449938 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
27449987 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
27450034 AATGTGAAAGTGTATATATATGTGAAAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
27450083 ATTGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27450130 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
** *
27450177 AATGTGAACA-TACATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
27450224 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATATGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
27450271 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
27450298 TCCCGAAGGG
Statistics
Matches: 476, Mismatches: 25, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 238 0.50
49 236 0.50
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:27449823 original size:49 final size:49
Alignment explanation
Indices: 27449744--27450297 Score: 764
Period size: 49 Copynumber: 11.6 Consensus size: 49
27449734 TATTTGAATA
* * *
27449744 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27449791 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27449840 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27449889 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27449938 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
27449987 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
27450034 AATGTGAAAGTGTATATATATGTGAAAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
27450083 ATTGTGAACA-TG--CATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27450130 AATGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27450177 AATGTGAACA---TACATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
27450224 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATATGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27450271 GATGTGGAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
27450298 TCCCGAAGGG
Statistics
Matches: 473, Mismatches: 22, Indels: 24
0.91 0.04 0.05
Matches are distributed among these distances:
46 1 0.00
47 232 0.49
48 1 0.00
49 238 0.50
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:27449909 original size:98 final size:96
Alignment explanation
Indices: 27449744--27450297 Score: 752
Period size: 96 Copynumber: 5.8 Consensus size: 96
27449734 TATTTGAATA
* * *
27449744 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
27449809 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27449840 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
27449905 TATATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27449938 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
27450001 TATATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
27450034 AATGTGAAAGTGTATATATATGTGAAAAGGCCGAATGGCCAATGTGATGATTGTGAACA-TG--C
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
27450096 ATATATGAGATAAGGCCGAATGGCCAATGTGATG
63 ATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
27450130 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA---TACA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
27450191 TATATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
27450224 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATATGATGGATGTGGAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
27450288 -ATGTGATAAG
66 TATGTGATAAG
27450298 TCCCGAAGGG
Statistics
Matches: 428, Mismatches: 20, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
93 2 0.00
94 133 0.31
95 1 0.00
96 146 0.34
97 2 0.00
98 144 0.34
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:27452246 original size:27 final size:27
Alignment explanation
Indices: 27452216--27452295 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
27452206 CCCACTCGAT
27452216 ACAGATAATTGTGGCAGAGCCACCAGA
1 ACAGATAATTGTGGCAGAGCCACCAGA
* *
27452243 ACAGAT-ATATGTGGTAGTGCCACCAGA
1 ACAGATAAT-TGTGGCAGAGCCACCAGA
** *
27452270 TTAGATAATTGTGGCATAGCCACCAG
1 ACAGATAATTGTGGCAGAGCCACCAG
27452296 GACGCTTCCT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.05
27 40 0.91
28 2 0.05
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (27 bp):
ACAGATAATTGTGGCAGAGCCACCAGA
Found at i:27452443 original size:26 final size:27
Alignment explanation
Indices: 27452399--27452473 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 27
27452389 CAAAAGTAAC
* *
27452399 CCTAGGGGTATAAT-GGTAATTT-TACA
1 CCTAGGGGTAT-ATCAGTAATTTCCACA
*
27452425 CCTAGGGGTATATCAGTAATTTCCATA
1 CCTAGGGGTATATCAGTAATTTCCACA
*
27452452 CATAGGGGTAT-TCAAGTAATTT
1 CCTAGGGGTATATC-AGTAATTT
27452474 AAATATTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.05
26 20 0.48
27 20 0.48
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (27 bp):
CCTAGGGGTATATCAGTAATTTCCACA
Found at i:27453506 original size:24 final size:24
Alignment explanation
Indices: 27453481--27453568 Score: 149
Period size: 24 Copynumber: 3.7 Consensus size: 24
27453471 CCCTAATTAG
*
27453481 CTCCTAAATCCTCTCCCTTATCAG
1 CTCCTAAATCCTCTCCCTTATCAA
27453505 CTCCTAAATCCTCTCCCTTATCAA
1 CTCCTAAATCCTCTCCCTTATCAA
* *
27453529 CTCCTAAATCCTATCTCTTATCAA
1 CTCCTAAATCCTCTCCCTTATCAA
27453553 CTCCTAAATCCTCTCC
1 CTCCTAAATCCTCTCC
27453569 TGATAGACTT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.24, C:0.41, G:0.01, T:0.34
Consensus pattern (24 bp):
CTCCTAAATCCTCTCCCTTATCAA
Found at i:27465096 original size:30 final size:30
Alignment explanation
Indices: 27465062--27465122 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27465052 TCCTTAACTC
27465062 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
27465092 AAACTTTTGCATATTTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
27465122 A
1 A
27465123 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:27468027 original size:20 final size:20
Alignment explanation
Indices: 27468002--27468040 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27467992 AGGGACTAAA
* *
27468002 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
27468022 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
27468041 TACAAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:27469893 original size:79 final size:79
Alignment explanation
Indices: 27469792--27470107 Score: 623
Period size: 79 Copynumber: 4.0 Consensus size: 79
27469782 GCCCAAAACA
27469792 TACATTGAGTGTGGTTCGGGACTAAACCGAGAACTTCTAAAACTTTTGCAACACCTAGAAAATTT
1 TACATTGAGTGTGGTTCGGGACTAAACCGAGAACTTCTAAAACTTTTGCAACACCTAGAAAATTT
27469857 TCTTCTTTTGGAGG
66 TCTTCTTTTGGAGG
27469871 TACATTGAGTGTGGTTCGGGACTAAACCGAGAACTTCTAAAACTTTTGCAACACCTAGAAAATTT
1 TACATTGAGTGTGGTTCGGGACTAAACCGAGAACTTCTAAAACTTTTGCAACACCTAGAAAATTT
27469936 TCTTCTTTTGGAGG
66 TCTTCTTTTGGAGG
27469950 TACATTGAGTGTGGTTCGGGACTAAACCGAGAACTTCTAAAACTTTTGCAACACCTAGAAAATTT
1 TACATTGAGTGTGGTTCGGGACTAAACCGAGAACTTCTAAAACTTTTGCAACACCTAGAAAATTT
27470015 TCTTCTTTTGGAGG
66 TCTTCTTTTGGAGG
27470029 TACATTGAGTGTGGTTCGGGACTAAACCGAGAACTTCTAAAACTTTTGCAACACCTAGAAAATTT
1 TACATTGAGTGTGGTTCGGGACTAAACCGAGAACTTCTAAAACTTTTGCAACACCTAGAAAATTT
*
27470094 TCTTGTTTTGGAGG
66 TCTTCTTTTGGAGG
27470108 GTTTAATAGC
Statistics
Matches: 236, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 236 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (79 bp):
TACATTGAGTGTGGTTCGGGACTAAACCGAGAACTTCTAAAACTTTTGCAACACCTAGAAAATTT
TCTTCTTTTGGAGG
Found at i:27481852 original size:43 final size:42
Alignment explanation
Indices: 27481795--27481947 Score: 136
Period size: 43 Copynumber: 3.6 Consensus size: 42
27481785 AATGCCAACG
* *
27481795 TCCCAGAC-GTGGTCTTACATGTAATCAAATATTGATGCC-ACTA
1 TCCCAGACAG-GGTCTTACATGAAATCAAATA-CGATGCCGA-TA
*
27481838 TCCCAGACAGGGTCTTACATGAAATCAAATACGATGCCGATG
1 TCCCAGACAGGGTCTTACATGAAATCAAATACGATGCCGATA
* * *
27481880 TCCCAGACATGGTCTTACACAT-AAATCATAAGT-CGATGCCAACA
1 TCCCAGACAGGGTCTT--ACATGAAATCA-AA-TACGATGCCGATA
*
27481924 TCCCAGAC-GTGGTCTTACACGAAA
1 TCCCAGACAG-GGTCTTACATGAAA
27481948 ACACATATTG
Statistics
Matches: 93, Mismatches: 9, Indels: 16
0.79 0.08 0.14
Matches are distributed among these distances:
42 25 0.27
43 38 0.41
44 29 0.31
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACATGAAATCAAATACGATGCCGATA
Found at i:27481930 original size:44 final size:42
Alignment explanation
Indices: 27481786--27481943 Score: 135
Period size: 44 Copynumber: 3.7 Consensus size: 42
27481776 AGCTCGTACA
* * ** *
27481786 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATTG
1 ATGCCAACATCCCAGACATGGTCTTACACATAAATC-AA-ATCG
*
27481829 ATGCC-ACTATCCCAGACAGGGTCTT--ACATGAAATCAAATACG
1 ATGCCAAC-ATCCCAGACATGGTCTTACACAT-AAATCAAAT-CG
* **
27481871 ATGCCGATGTCCCAGACATGGTCTTACACATAAATCATAAGTCG
1 ATGCCAACATCCCAGACATGGTCTTACACATAAATCA-AA-TCG
*
27481915 ATGCCAACATCCCAGACGTGGTCTTACAC
1 ATGCCAACATCCCAGACATGGTCTTACAC
27481944 GAAAACACAT
Statistics
Matches: 93, Mismatches: 13, Indels: 17
0.76 0.11 0.14
Matches are distributed among these distances:
41 4 0.04
42 25 0.27
43 30 0.32
44 33 0.35
45 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACATCCCAGACATGGTCTTACACATAAATCAAATCG
Found at i:27493340 original size:27 final size:27
Alignment explanation
Indices: 27493302--27493523 Score: 204
Period size: 27 Copynumber: 8.3 Consensus size: 27
27493292 TTGGGTTCTT
*
27493302 AATACCCTCGGTTTGTAAAATTACCAA
1 AATACCCTCAGTTTGTAAAATTACCAA
* **
27493329 AATACCCTCGGTTTGTAAAATTACCGT
1 AATACCCTCAGTTTGTAAAATTACCAA
**
27493356 AATACCC-CAAGTTTGTAAAATTATAAA
1 AATACCCTC-AGTTTGTAAAATTACCAA
**
27493383 AATACCCTC-GATTTGTAAAATTACTGA
1 AATACCCTCAG-TTTGTAAAATTACCAA
* **
27493410 AATACCC-CTAATTTGTAAAATTATTAA
1 AATACCCTC-AGTTTGTAAAATTACCAA
*
27493437 AATACCC-CTAATTTGTAAAATTACCAA
1 AATACCCTC-AGTTTGTAAAATTACCAA
* *
27493464 GAT-CCCTCAGTTCGTAAAATTACCAA
1 AATACCCTCAGTTTGTAAAATTACCAA
* * *
27493490 AATACCCTC-GTAGTGTAAAATTATCGA
1 AATACCCTCAGT-TTGTAAAATTACCAA
27493517 AATACCC
1 AATACCC
27493524 ATGTAGGATA
Statistics
Matches: 164, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
26 26 0.16
27 137 0.84
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AATACCCTCAGTTTGTAAAATTACCAA
Found at i:27493385 original size:54 final size:54
Alignment explanation
Indices: 27493312--27493523 Score: 238
Period size: 54 Copynumber: 3.9 Consensus size: 54
27493302 AATACCCTCG
* *
27493312 GTTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCGTAATACCCCAA
1 GTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCCAA
** *
27493366 GTTTGTAAAATTATAAAAATACCCTCGATTTGTAAAATTACTGAAATACCCCTAA
1 GTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCC-AA
** *
27493421 -TTTGTAAAATTATTAAAATACCC-CTAATTTGTAAAATTACC-AAGAT-CCCTC-A
1 GTTTGTAAAATTACCAAAATACCCTC-GATTTGTAAAATTACCGAA-ATACCC-CAA
* * *
27493473 GTTCGTAAAATTACCAAAATACCCTCG-TAGTGTAAAATTATCGAAATACCC
1 GTTTGTAAAATTACCAAAATACCCTCGAT-TTGTAAAATTACCGAAATACCC
27493524 ATGTAGGATA
Statistics
Matches: 135, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
52 2 0.01
53 39 0.29
54 92 0.68
55 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
GTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCCAA
Found at i:27493860 original size:26 final size:26
Alignment explanation
Indices: 27493822--27493873 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
27493812 TTTGCCACAT
* *
27493822 TTACTGTTGCTGGCAGCTATGCTGCA
1 TTACTATTACTGGCAGCTATGCTGCA
*
27493848 TTACTATTACTGGCAGCTTTGCTGCA
1 TTACTATTACTGGCAGCTATGCTGCA
27493874 ATATTGTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
TTACTATTACTGGCAGCTATGCTGCA
Found at i:27494021 original size:28 final size:28
Alignment explanation
Indices: 27493974--27494030 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
27493964 CCTGTTATTG
* *
27493974 ACACTGTTACTGTATTGGGCCTA-GGCCC
1 ACACTGTTACTATATAGGG-CTATGGCCC
*
27494002 ACACTGTTGCTATATAGGGCTATGGCCC
1 ACACTGTTACTATATAGGGCTATGGCCC
27494030 A
1 A
27494031 AACTATACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (28 bp):
ACACTGTTACTATATAGGGCTATGGCCC
Found at i:27504833 original size:37 final size:37
Alignment explanation
Indices: 27504783--27504861 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
27504773 TTATTACGAA
* * *
27504783 GTCTTACTCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
27504820 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
27504857 GTCTT
1 GTCTT
27504862 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:27505058 original size:47 final size:47
Alignment explanation
Indices: 27504980--27505353 Score: 546
Period size: 47 Copynumber: 8.1 Consensus size: 47
27504970 CCCTTCGGGA
* * * * * * *
27504980 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27505027 CCTCTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27505074 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27505121 CTTATTACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27505168 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27505215 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27505262 CTTAT--C----ATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27505303 CTTCA-CATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTT-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27505350 CTTA
1 CTTA
27505354 CTATCATTTC
Statistics
Matches: 301, Mismatches: 19, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
41 38 0.13
42 1 0.00
45 1 0.00
46 1 0.00
47 260 0.86
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27512357 original size:23 final size:23
Alignment explanation
Indices: 27512331--27512376 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
27512321 TTATGTAACG
27512331 TATGCTCAAAAGAGCTCAACTAT
1 TATGCTCAAAAGAGCTCAACTAT
27512354 TATGCTCAAAAGAGCTCAACTAT
1 TATGCTCAAAAGAGCTCAACTAT
27512377 GATTACCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (23 bp):
TATGCTCAAAAGAGCTCAACTAT
Found at i:27516224 original size:21 final size:21
Alignment explanation
Indices: 27516200--27516243 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
27516190 CATTATTAAT
* *
27516200 CAACACAGGCTGAACAGAGGC
1 CAACACAAGCTAAACAGAGGC
27516221 CAACACAAGCTAAACAGAGGC
1 CAACACAAGCTAAACAGAGGC
27516242 CA
1 CA
27516244 CACGGGCGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.30, G:0.23, T:0.05
Consensus pattern (21 bp):
CAACACAAGCTAAACAGAGGC
Found at i:27516864 original size:16 final size:17
Alignment explanation
Indices: 27516843--27516880 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
27516833 TATTAGTTAA
27516843 ATTATTTTATTTCC-TT
1 ATTATTTTATTTCCATT
27516859 ATTA-TTTATTTCCATT
1 ATTATTTTATTTCCATT
27516875 ATTATT
1 ATTATT
27516881 AATCAAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 10 0.50
17 1 0.05
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTATTTTATTTCCATT
Found at i:27518525 original size:6 final size:6
Alignment explanation
Indices: 27518505--27518563 Score: 77
Period size: 6 Copynumber: 10.2 Consensus size: 6
27518495 TTTGAGTCCA
*
27518505 TTTA-T TTTA-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTAGT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
27518551 TTCAGT TTTATT T
1 TTTATT TTTATT T
27518564 CTACTTATTC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
5 9 0.18
6 40 0.82
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:27520533 original size:47 final size:47
Alignment explanation
Indices: 27520474--27520595 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
27520464 GCATTGGCAC
27520474 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
*
27520521 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
* *
27520568 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
27520596 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
Found at i:27520538 original size:95 final size:92
Alignment explanation
Indices: 27520340--27520546 Score: 213
Period size: 95 Copynumber: 2.2 Consensus size: 92
27520330 ATTGACGGTT
** * * * *
27520340 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTCGTAAGGCAAGGATCCCATGTAAGACCG
1 AAGGATACCATGTAAGACCACATCAAGACATGGCATTCCTAAGACAAGGATACCATGTAAGACCA
* *
27520405 TGTCAAAACATGGCATTGACATTGATT
66 TGTCAAAACATGGCATTGACATAGATC
**
27520432 AAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAGGATACCATGTAAG
1 AAGGA-TACCATGTAAGACCACATCAAGACATGGCATT--C-CTAAGACAAGGATACCATGTAAG
*** *
27520496 ACCATGTTTGGAACATGGCATTTGATA-AGA-C
62 ACCATG-TCAAAACATGGCA-TTGACATAGATC
27520527 AAGGATACCATGTAAGACCA
1 AAGGATACCATGTAAGACCA
27520547 TGTTTGGAAC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
92 31 0.33
93 1 0.01
94 2 0.02
95 43 0.46
96 12 0.13
97 5 0.05
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (92 bp):
AAGGATACCATGTAAGACCACATCAAGACATGGCATTCCTAAGACAAGGATACCATGTAAGACCA
TGTCAAAACATGGCATTGACATAGATC
Found at i:27520695 original size:55 final size:54
Alignment explanation
Indices: 27520582--27520903 Score: 319
Period size: 55 Copynumber: 6.0 Consensus size: 54
27520572 ATAAGGATAT
* * * *
27520582 CATGTAAGACCATGCCAAGGCATGGCAATGATAAGTTCTATAAGGC-AAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAAGG-TAC
* * * * *
27520636 CATGTAGGATCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGCAAAGGTAC
* * * *
27520691 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAAGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAAGGTAC
* * * * *
27520744 CATGTAAGACCATGTCAAGACATGGCATTAATAAGTTAGTATAAGGCATAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGCAAAGGTAC
* * *
27520799 CATGTAAGACCATGCCAAGGCATGGCATTGGTTAGTTC-ATAAGGC-AAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAAGG-TAC
* * * * * * * *
27520852 CACGTACGACCATGTCAAGACATGGCAATGGTAAGTTCAAAAAGGAAAAGGT
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAAGGT
27520904 TCCCGAGTAA
Statistics
Matches: 220, Mismatches: 41, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
52 3 0.01
53 86 0.39
54 38 0.17
55 89 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAAGGTAC
Found at i:27520751 original size:53 final size:53
Alignment explanation
Indices: 27520577--27520890 Score: 313
Period size: 53 Copynumber: 5.8 Consensus size: 53
27520567 GTAAGATAAG
* * * *
27520577 GATATCATGTAAGACCATGCCAAGGCATGGCAATGATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC-ATAAGGCAAA
* * * * * *
27520631 GAAATCATGTAGGATCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-C-ATAAGGCAAA
* * * * *
27520686 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGCAAA
* * * *
27520739 GATACCATGTAAGACCATGTCAAGACATGGCATTAATAAGTTAGTATAAGGCATA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT--CATAAGGCAAA
* * * * * *
27520794 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTTAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGCAAA
* * * * *
27520847 GATACCACGTACGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCA
27520891 AAAAGGAAAA
Statistics
Matches: 213, Mismatches: 44, Indels: 7
0.81 0.17 0.03
Matches are distributed among these distances:
53 89 0.42
54 36 0.17
55 88 0.41
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGCAAA
Found at i:27520887 original size:108 final size:108
Alignment explanation
Indices: 27520582--27520888 Score: 452
Period size: 108 Copynumber: 2.8 Consensus size: 108
27520572 ATAAGGATAT
* * * * * *
27520582 CATGTAAGACCATGCCAAGGCATGGCAATGATAAGTTCTATAAGGCAAGGAAATCATGTAGGATC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-ATAAGGCAAGGATACCATGTAAGACC
*
27520647 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
65 ATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCC
* *
27520691 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAAGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCA
* * *
27520756 TGTCAAGACATGGCATTAATAAGTTAGTATAAGGCATAGGTCC
66 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCC
* * *
27520799 CATGTAAGACCATGCCAAGGCATGGCATTGGTTAGTTCATAAGGCAAGGATACCACGTACGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCA
* *
27520864 TGTCAAGACATGGCAATGGTAAGTT
66 TGTCAAGACATGGCATTGATAAGTT
27520889 CAAAAAGGAA
Statistics
Matches: 179, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
108 144 0.80
109 35 0.20
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCC
Found at i:27530109 original size:18 final size:17
Alignment explanation
Indices: 27530074--27530106 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27530064 CTTTTTATTC
27530074 TTTTATTATTTCATTTA
1 TTTTATTATTTCATTTA
27530091 TTTTACTTATTT-ATTT
1 TTTTA-TTATTTCATTT
27530107 TATCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTTCATTTA
Found at i:27530436 original size:46 final size:46
Alignment explanation
Indices: 27530379--27530537 Score: 127
Period size: 46 Copynumber: 3.5 Consensus size: 46
27530369 ATCTTATAAT
*
27530379 TTAATTATTT-AATTAACAAATATCTTTATACTTAAATTATAAGTAA
1 TTAAATATTTAAATT-ACAAATATCTTTATACTTAAATTATAAGTAA
* ** * *
27530425 TTAAATATTTAAATTACAAATGTAC-CCATAC--AATTCTTACACATGTATA
1 TTAAATATTTAAATTACAAATAT-CTTTATACTTAA--ATTATA-A-GTA-A
*
27530474 TT---TATTT-AATTAAAAAATATCTTTATACTTAAATTATAAGTAA
1 TTAAATATTTAAATT-ACAAATATCTTTATACTTAAATTATAAGTAA
27530517 TTAAATATTTAAATTACAAAT
1 TTAAATATTTAAATTACAAAT
27530538 GTACCCATAC
Statistics
Matches: 85, Mismatches: 13, Indels: 30
0.66 0.10 0.23
Matches are distributed among these distances:
43 3 0.04
44 5 0.06
45 6 0.07
46 53 0.62
47 10 0.12
48 5 0.06
49 3 0.04
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (46 bp):
TTAAATATTTAAATTACAAATATCTTTATACTTAAATTATAAGTAA
Found at i:27530480 original size:92 final size:92
Alignment explanation
Indices: 27530383--27530568 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 92
27530373 TATAATTTAA
*
27530383 TTATTTAATTAACAAATATCTTTATACTTAAATTATAAGTAATTAAATATTTAAATTACAAATGT
1 TTATTTAATTAAAAAATATCTTTATACTTAAATTATAAGTAATTAAATATTTAAATTACAAATGT
27530448 ACCCATACAATTCTTACACATGTATAT
66 ACCCATACAATTCTTACACATGTATAT
27530475 TTATTTAATTAAAAAATATCTTTATACTTAAATTATAAGTAATTAAATATTTAAATTACAAATGT
1 TTATTTAATTAAAAAATATCTTTATACTTAAATTATAAGTAATTAAATATTTAAATTACAAATGT
27530540 ACCCATACAATTCTTACACATGTATAT
66 ACCCATACAATTCTTACACATGTATAT
27530567 TT
1 TT
27530569 TATTACCATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (92 bp):
TTATTTAATTAAAAAATATCTTTATACTTAAATTATAAGTAATTAAATATTTAAATTACAAATGT
ACCCATACAATTCTTACACATGTATAT
Found at i:27534059 original size:149 final size:150
Alignment explanation
Indices: 27533788--27534062 Score: 374
Period size: 149 Copynumber: 1.8 Consensus size: 150
27533778 CATTACAAAC
* * * * * * *
27533788 AATTTTAACTATTTCAATAATTCTTAATAAAAAGAGAATCCAGTAAAATTAATACTAGCTTACTT
1 AATTTTAACGATTTCAACAATTCTTAATAAAAAGAGAATACAATAAAATTAATACCAACTTACTG
* * *
27533853 TAATGGCAACCATGAATAAAAACAGAACTTGCTCATAACATATGTAGAGCATATTCAACAAACGT
66 CAATGGCAACCATGAATAAAAACAGAACTTGCTCATAACATATGAAGAACATATTCAACAAACGT
27533918 AACAACAGTACTAACATAAT
131 AACAACAGTACTAACATAAT
* *
27533938 AATTTTAACGATTTTAACAATTTTTAATAAAAA-AGAATACAATAAAATTAATACCAACTTACTG
1 AATTTTAACGATTTCAACAATTCTTAATAAAAAGAGAATACAATAAAATTAATACCAACTTACTG
* * * * *
27534002 CAATGGCAACCAT-ATATAAAAATAGATCTTTCTCGTACCATATGAAGAACATATTCAACAA
66 CAATGGCAACCATGA-ATAAAAACAGAACTTGCTCATAACATATGAAGAACATATTCAACAA
27534063 CAACAATAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
148 1 0.01
149 77 0.72
150 29 0.27
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (150 bp):
AATTTTAACGATTTCAACAATTCTTAATAAAAAGAGAATACAATAAAATTAATACCAACTTACTG
CAATGGCAACCATGAATAAAAACAGAACTTGCTCATAACATATGAAGAACATATTCAACAAACGT
AACAACAGTACTAACATAAT
Found at i:27534514 original size:24 final size:24
Alignment explanation
Indices: 27534481--27534533 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
27534471 CTGAAGATAC
*
27534481 AAAATGCAAAATTCTAAGTATTGA
1 AAAATACAAAATTCTAAGTATTGA
27534505 AAAATACAAAATTCTAAGTATTGA
1 AAAATACAAAATTCTAAGTATTGA
27534529 AAAAT
1 AAAAT
27534534 GGTCAAAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (24 bp):
AAAATACAAAATTCTAAGTATTGA
Found at i:27534612 original size:20 final size:20
Alignment explanation
Indices: 27534584--27534625 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
27534574 GAATTCAAGA
*
27534584 TCATAATAA-TGAAATGTTTT
1 TCATAATAAGT-AAATGGTTT
*
27534604 TCATCATAAGTAAATGGTTT
1 TCATAATAAGTAAATGGTTT
27534624 TC
1 TC
27534626 TATGTTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.43
Consensus pattern (20 bp):
TCATAATAAGTAAATGGTTT
Found at i:27538024 original size:20 final size:20
Alignment explanation
Indices: 27537999--27538037 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27537989 TAAATTTCAA
*
27537999 ATATAAAATATTCATCAATT
1 ATATAAAATACTCATCAATT
*
27538019 ATATAAAATGCTCATCAAT
1 ATATAAAATACTCATCAAT
27538038 AAACTTCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.36
Consensus pattern (20 bp):
ATATAAAATACTCATCAATT
Found at i:27540537 original size:23 final size:22
Alignment explanation
Indices: 27540498--27540542 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
27540488 GATGATAAGT
* *
27540498 ATTTCTACAAATTATAAGAAAA
1 ATTTCTAAAAATGATAAGAAAA
*
27540520 ATTTCTAGAAAATGATAATAAAA
1 ATTTCTA-AAAATGATAAGAAAA
27540543 GAAAATCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (22 bp):
ATTTCTAAAAATGATAAGAAAA
Found at i:27545580 original size:27 final size:27
Alignment explanation
Indices: 27545497--27545582 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 27
27545487 AAGAATGGTT
* * *
27545497 GAGGGCTTGTCAGAGGCGGCACCGGTG
1 GAGGGCATGCCAGAGGCGGCACCAGTG
*
27545524 GAAGGCATGCCAGAGGCGGCACCAGTG
1 GAGGGCATGCCAGAGGCGGCACCAGTG
* *
27545551 GAGGGCATGCTAGAGGCGGCACTAGTG
1 GAGGGCATGCCAGAGGCGGCACCAGTG
27545578 GAGGG
1 GAGGG
27545583 GTTGTCAGAG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.21, C:0.21, G:0.47, T:0.12
Consensus pattern (27 bp):
GAGGGCATGCCAGAGGCGGCACCAGTG
Found at i:27545592 original size:27 final size:27
Alignment explanation
Indices: 27545497--27545603 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 27
27545487 AAGAATGGTT
* *
27545497 GAGGGCTTGTCAGAGGCGGCACCGGTG
1 GAGGGCATGTCAGAGGCGGCACCAGTG
* *
27545524 GAAGGCATGCCAGAGGCGGCACCAGTG
1 GAGGGCATGTCAGAGGCGGCACCAGTG
*
27545551 GAGGGCATG-CTAGAGGCGGCACTAGTG
1 GAGGGCATGTC-AGAGGCGGCACCAGTG
** **
27545578 GAGGGGTTGTCAGAGGCAACACCAGT
1 GAGGGCATGTCAGAGGCGGCACCAGT
27545604 TGTGCCTATC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.01
27 65 0.97
28 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.43, T:0.13
Consensus pattern (27 bp):
GAGGGCATGTCAGAGGCGGCACCAGTG
Found at i:27545737 original size:18 final size:19
Alignment explanation
Indices: 27545716--27545751 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
27545706 GAGAAGAGAA
27545716 GAGAAGAAAG-AAAGAAAT
1 GAGAAGAAAGAAAAGAAAT
27545734 GAGAAGAAAGAAAAGAAA
1 GAGAAGAAAGAAAAGAAA
27545752 AGGTAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (19 bp):
GAGAAGAAAGAAAAGAAAT
Found at i:27545950 original size:27 final size:27
Alignment explanation
Indices: 27545920--27545977 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
27545910 GAATGTTATC
*** *
27545920 TTGTAAAAAATTTTAATATATTTGATA
1 TTGTAAAAAATGACAATAAATTTGATA
* *
27545947 TTGTTAGAAATGACAATAAATTTGATA
1 TTGTAAAAAATGACAATAAATTTGATA
27545974 TTGT
1 TTGT
27545978 TAGAAATGGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (27 bp):
TTGTAAAAAATGACAATAAATTTGATA
Found at i:27545978 original size:27 final size:27
Alignment explanation
Indices: 27545934--27545985 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
27545924 AAAAAATTTT
*
27545934 AATATATTTGATATTGTTAGAAATGAC
1 AATAAATTTGATATTGTTAGAAATGAC
27545961 AATAAATTTGATATTGTTAGAAATG
1 AATAAATTTGATATTGTTAGAAATG
27545986 GACTATTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.40
Consensus pattern (27 bp):
AATAAATTTGATATTGTTAGAAATGAC
Found at i:27547584 original size:126 final size:125
Alignment explanation
Indices: 27547423--27547651 Score: 370
Period size: 126 Copynumber: 1.8 Consensus size: 125
27547413 AGCTTTAAGA
* *
27547423 GGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACTCAGTACATTAGGGCACGATCCTCTG
1 GGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACATTAGGGCACAATCCTCTG
* *
27547488 AATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACCGGTAAAG
66 AATTCTTTAAATACCAAACATTGCCATTATTTT-AAAAATTTTGAGAGTGAACCGGTAAAG
* * *
27547549 GGATATTCTG-ATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACAATCCTTT
1 GGATATTC-GAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACATTAGGGCACAATCCTCT
27547613 GAATTCTTTAAATACCAAACATTGCCATTATTTTAAAAA
65 GAATTCTTTAAATACCAAACATTGCCATTATTTTAAAAA
27547652 CAATTGAGAA
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
125 5 0.05
126 89 0.94
127 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (125 bp):
GGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACATTAGGGCACAATCCTCTG
AATTCTTTAAATACCAAACATTGCCATTATTTTAAAAATTTTGAGAGTGAACCGGTAAAG
Found at i:27549297 original size:17 final size:15
Alignment explanation
Indices: 27549264--27549299 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
27549254 GAGGTTTAGG
27549264 TGGGTTTTGGGGTAT
1 TGGGTTTTGGGGTAT
27549279 TGGGTTATTGGGTGTAT
1 TGGGTT-TTGGG-GTAT
27549296 TGGG
1 TGGG
27549300 CTTAGAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.08, C:0.00, G:0.47, T:0.44
Consensus pattern (15 bp):
TGGGTTTTGGGGTAT
Found at i:27549704 original size:85 final size:85
Alignment explanation
Indices: 27549588--27550059 Score: 797
Period size: 85 Copynumber: 5.6 Consensus size: 85
27549578 AGCGAAGATA
* ** * * *
27549588 AGATCTGT-AATTTTAGCCTGTTACCCTACTGCTTAAAGGGTTAAGACGGGTCTTCGACCTGCTC
1 AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCTC
*
27549652 CACCACTGCTCGG-AGAG-CC
66 CACCACTGTTCGGTA-AGCCC
*
27549671 AGGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCT
1 A-GATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCT
27549736 CCACCACTGTTCGGTAAGCCC
65 CCACCACTGTTCGGTAAGCCC
27549757 AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCTC
1 AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCTC
27549822 CACCACTGTTCGGTAAGCCC
66 CACCACTGTTCGGTAAGCCC
27549842 AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCTC
1 AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCTC
27549907 CACCACTGTTCGGTAAGCCC
66 CACCACTGTTCGGTAAGCCC
*
27549927 AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCTC
* *
27549992 CACCACTGCTCGGTGAGCCC
66 CACCACTGTTCGGTAAGCCC
*
27550012 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
27550060 TTGTATCTTT
Statistics
Matches: 374, Mismatches: 11, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
83 1 0.00
84 7 0.02
85 362 0.97
86 4 0.01
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (85 bp):
AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCTC
CACCACTGTTCGGTAAGCCC
Found at i:27550133 original size:87 final size:87
Alignment explanation
Indices: 27549587--27550149 Score: 578
Period size: 85 Copynumber: 6.6 Consensus size: 87
27549577 CAGCGAAGAT
* ** * *
27549587 AAGATCTGT-AATTTTAGCCTGTTACCCTACTGCTTAAAGGGTTAAGAC--GGGTCTTCGACCTG
1 AAGATCTGTAAATTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGAGTCTTCGACCTG
* * *
27549649 CTCCACCACTGCTCGGAGAGCC
66 CTCCACCACTGCTAGGTGAGAC
* * *
27549671 AGGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC--GAGTCTTCGACTTG
1 AAGATCTGTAAATTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGAGTCTTCGACCTG
* * * *
27549734 CTCCACCACTGTTCGGTAAGCC
66 CTCCACCACTGCTAGGTGAGAC
* * * *
27549756 CAGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC--GAGTCTTCGACTTG
1 AAGATCTGTAAATTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGAGTCTTCGACCTG
* * * *
27549819 CTCCACCACTGTTCGGTAAGCC
66 CTCCACCACTGCTAGGTGAGAC
* * * *
27549841 CAGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC--GAGTCTTCGACTTG
1 AAGATCTGTAAATTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGAGTCTTCGACCTG
* * * *
27549904 CTCCACCACTGTTCGGTAAGCC
66 CTCCACCACTGCTAGGTGAGAC
* * *
27549926 CAGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC--GAGTCTTCGACCTG
1 AAGATCTGTAAATTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGAGTCTTCGACCTG
* *
27549989 CTCCACCACTGCTCGGTGAGCC
66 CTCCACCACTGCTAGGTGAGAC
* * * *
27550011 CAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTA-TCTTTGATCT
1 AAGATCTGTAAATTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG-AGTCTTCGACCT
* * *
27550075 GCTCCACTATTGCTTAGG-GAGAT
65 GCTCCACCACTGC-TAGGTGAGAC
* * * *
27550098 AAGATCTGT-AATCTTCAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCTTG
1 AAGATCTGTAAAT-TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
27550150 CTGAAATTTT
Statistics
Matches: 444, Mismatches: 29, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
84 8 0.02
85 364 0.82
86 3 0.01
87 65 0.15
88 4 0.01
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (87 bp):
AAGATCTGTAAATTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGAGTCTTCGACCTG
CTCCACCACTGCTAGGTGAGAC
Found at i:27552484 original size:18 final size:20
Alignment explanation
Indices: 27552448--27552488 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
27552438 GTATACGGTC
*
27552448 AAAATGTTTATGAAGTGAAA
1 AAAATGTGTATGAAGTGAAA
27552468 AAAATGTGT-TGAA-TGAAA
1 AAAATGTGTATGAAGTGAAA
27552486 AAA
1 AAA
27552489 TGATGACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.27
Consensus pattern (20 bp):
AAAATGTGTATGAAGTGAAA
Found at i:27553034 original size:24 final size:24
Alignment explanation
Indices: 27553002--27553062 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
27552992 AAAATCCAAT
* * *
27553002 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
27553026 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
27553050 GCACTATGTGTGC
1 GCACTATGTGTGC
27553063 AAATACGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:27555563 original size:40 final size:40
Alignment explanation
Indices: 27555504--27555651 Score: 251
Period size: 40 Copynumber: 3.7 Consensus size: 40
27555494 GAGCATTGGA
* *
27555504 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
*
27555544 ATATATCCGGGCTATGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
27555584 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
27555624 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
27555652 ATGTGTTTGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:27563268 original size:64 final size:64
Alignment explanation
Indices: 27563195--27563322 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
27563185 TATAAAAACA
*
27563195 AAAGAGTTACCGATCTTGAGATATTTGAAGTATTGTGGGGCTGAGTCAAAATGACTACTGGATT
1 AAAGAGTTACCGATCTTGAGATATTTGAAGTATTGTGGGGCTGAGTCAAAATGACTACTAGATT
*
27563259 AAAGAGTTACCGATCTTGAGATATTTGAAGTATTGTGGGGCTGAGTCAAAATGATTACTAGATT
1 AAAGAGTTACCGATCTTGAGATATTTGAAGTATTGTGGGGCTGAGTCAAAATGACTACTAGATT
27563323 CTCTGTTCTG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (64 bp):
AAAGAGTTACCGATCTTGAGATATTTGAAGTATTGTGGGGCTGAGTCAAAATGACTACTAGATT
Done.