Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 252 of 322
Found at i:83618012 original size:31 final size:31
Alignment explanation
Indices: 83617964--83618032 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
83617954 ACCTGATCAT
* * *
83617964 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* * *
83617995 CGGCTACCTGATCAGTGAATAGTGATAGCTT
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
83618026 CGGCTAC
1 CGGCTAC
83618033 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:83622075 original size:27 final size:27
Alignment explanation
Indices: 83622045--83622222 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
83622035 ATATTGAGCC
* *
83622045 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
83622072 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
83622099 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
83622127 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
83622154 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
83622181 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
83622208 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
83622223 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:83622157 original size:55 final size:54
Alignment explanation
Indices: 83622045--83622222 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
83622035 ATATTGAGCC
* * * * *
83622045 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
83622099 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
83622154 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
83622208 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
83622223 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:83630084 original size:27 final size:27
Alignment explanation
Indices: 83630054--83630231 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
83630044 ATATTGAGCC
* *
83630054 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
83630081 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
83630108 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
83630136 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
83630163 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
83630190 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
83630217 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
83630232 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:83630166 original size:55 final size:54
Alignment explanation
Indices: 83630054--83630231 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
83630044 ATATTGAGCC
* * * * *
83630054 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
83630108 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
83630163 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
83630217 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
83630232 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:83638684 original size:40 final size:40
Alignment explanation
Indices: 83638640--83638940 Score: 313
Period size: 40 Copynumber: 7.5 Consensus size: 40
83638630 AGCATGATTA
* * * *
83638640 CTCTTCGGGACCTAGTCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* ** *
83638680 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
83638720 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * * *
83638760 CTCCTCGGGACTTAGCCCGAATATATCACTAGTATGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
83638800 CTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * * *
83638840 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAATG
* * * *
83638881 C-CTTC-GGATCTTAGTCTGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAATG
83638921 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
83638941 CATCATTCGA
Statistics
Matches: 215, Mismatches: 41, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.01
40 192 0.89
41 20 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:83639289 original size:29 final size:28
Alignment explanation
Indices: 83639255--83639328 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 28
83639245 TAATCAACCA
*
83639255 CGCACACTTAGTGCCATGTACTTTAAAC
1 CGCACACTTAGTGCCATGCACTTTAAAC
* *
83639283 TCGCACACTTAGTGCCATGCATTTTAAGC
1 -CGCACACTTAGTGCCATGCACTTTAAAC
83639312 CGGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
83639329 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 1 0.02
29 40 0.98
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGCACTTTAAAC
Found at i:83641296 original size:37 final size:37
Alignment explanation
Indices: 83641237--83641313 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
83641227 ATTACAAAGA
* * *
83641237 CTTACCCGGACATAATCTCCACACGAAGTTATCGGGT
1 CTTACCCGGACAAAATCCCCACACGAAGTCATCGGGT
*
83641274 CTTACCCGGACAAAATCCCCACACGTAGTCATCGGGT
1 CTTACCCGGACAAAATCCCCACACGAAGTCATCGGGT
83641311 CTT
1 CTT
83641314 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
CTTACCCGGACAAAATCCCCACACGAAGTCATCGGGT
Found at i:83641542 original size:47 final size:47
Alignment explanation
Indices: 83641431--83641747 Score: 553
Period size: 47 Copynumber: 6.7 Consensus size: 47
83641421 GCCCTTCGGG
*
83641431 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
83641481 ACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
83641528 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
83641575 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
83641622 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATACAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
83641669 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
83641716 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
83641748 ATACTATCAT
Statistics
Matches: 260, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
47 223 0.86
49 33 0.13
50 4 0.02
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:83641662 original size:22 final size:23
Alignment explanation
Indices: 83641582--83641709 Score: 82
Period size: 22 Copynumber: 5.5 Consensus size: 23
83641572 TACACTTTCA
83641582 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
* *** ***
83641605 CCTT-ATCACATATACACACTTTCA
1 CATTCATCACATCGGC-CA-TTAGG
83641629 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
*** ***
83641652 CATT-ATCACATATACACACTTTCA
1 CATTCATCACATCGGC-CA-TTAGG
83641676 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
83641699 CATT-ATCACAT
1 CATTCATCACAT
83641710 ATATACACTT
Statistics
Matches: 73, Mismatches: 26, Indels: 13
0.65 0.23 0.12
Matches are distributed among these distances:
22 23 0.32
23 19 0.26
24 15 0.21
25 16 0.22
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.30
Consensus pattern (23 bp):
CATTCATCACATCGGCCATTAGG
Found at i:83643156 original size:80 final size:80
Alignment explanation
Indices: 83643022--83643181 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
83643012 TTTTTTTTTT
*
83643022 ATTTACTTCATGATACATTCGGCCTTGGCAACAATTTCATTAGAAATCCCTATTAGCCACTTCAT
1 ATTTACTTCATGATACATTCGACCTTGGCAACAATTTCATTAGAAATCCCTATTAGCCACTTCAT
83643087 CAATCAATTATATCA
66 CAATCAATTATATCA
*
83643102 ATTTACTTCATGATACATTCGACCTTGGCAACAATTTCATTAGAAATCCTTATTAGCCACTTCAT
1 ATTTACTTCATGATACATTCGACCTTGGCAACAATTTCATTAGAAATCCCTATTAGCCACTTCAT
83643167 CAATCAATTATATCA
66 CAATCAATTATATCA
83643182 TCTACTTAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (80 bp):
ATTTACTTCATGATACATTCGACCTTGGCAACAATTTCATTAGAAATCCCTATTAGCCACTTCAT
CAATCAATTATATCA
Found at i:83657847 original size:43 final size:43
Alignment explanation
Indices: 83657800--83658068 Score: 328
Period size: 43 Copynumber: 6.3 Consensus size: 43
83657790 CTAAAGGTTG
*
83657800 TGACCTTTAGCGGTGCTTT-TCCAACAAACGCCGCTAAAGAACA
1 TGACCTTTAGCGGTGCTTTCCCCAA-AAACGCCGCTAAAGAACA
*
83657843 TGACCTTTAGCGGTGCTTTCCCCAAAAACGTCG-TGAAAGAACA
1 TGACCTTTAGCGGTGCTTTCCCCAAAAACGCCGCT-AAAGAACA
* * ** * *
83657886 TAATCTTTAGCGGTGCTTTTTCTAAAAACACCGCTAAAGAACA
1 TGACCTTTAGCGGTGCTTTCCCCAAAAACGCCGCTAAAGAACA
* * * *
83657929 TGACCTTTAGCGGTGTTTTTCCTAAAAACGCCACTAAAGAACA
1 TGACCTTTAGCGGTGCTTTCCCCAAAAACGCCGCTAAAGAACA
* * * * *
83657972 AGACATTTAGCGGCGCTTTCCCCAAAATCGCCGCTAAAGAAAAA
1 TGACCTTTAGCGGTGCTTTCCCCAAAAACGCCGCTAAAG-AACA
*
83658016 T-ACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACA
1 TGACCTTTAGCGGTGCTTTCCCCAAAAACGCCGCTAAAGAACA
83658058 TGACCTTTAGC
1 TGACCTTTAGC
83658069 TAAAGGTCAT
Statistics
Matches: 193, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
42 5 0.03
43 180 0.93
44 8 0.04
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
TGACCTTTAGCGGTGCTTTCCCCAAAAACGCCGCTAAAGAACA
Found at i:83658023 original size:129 final size:129
Alignment explanation
Indices: 83657800--83658068 Score: 366
Period size: 129 Copynumber: 2.1 Consensus size: 129
83657790 CTAAAGGTTG
* * * *
83657800 TGACCTTTAGCGGTGCTTTTCCAACAAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTCCC
1 TGACCTTTAGCGGTGCTTTTCCAACAAACGCCACTAAAGAACAAGACATTTAGCGGCGCTTTCCC
* * ** *
83657865 CAAAAACGTCGTGAAAGAACATAATCTTTAGCGGTGCTTTTTCTAAAAACACCGCTAAAGAACA
66 CAAAAACGCCGTGAAAGAACATAATCTTTAGCGGCGCTTTCCCCAAAAACACCGCTAAAGAACA
*
83657929 TGACCTTTAGCGGTGTTTTTCCTAA-AAACGCCACTAAAGAACAAGACATTTAGCGGCGCTTTCC
1 TGACCTTTAGCGGTGCTTTTCC-AACAAACGCCACTAAAGAACAAGACATTTAGCGGCGCTTTCC
* *
83657993 CCAAAATCGCCGCT-AAAGAA-A-AATACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGA
65 CCAAAAACGCCG-TGAAAGAACATAAT--CTTTAGCGGCGCTTTCCCCAAAAACACCGCTAAAGA
83658055 ACA
127 ACA
83658058 TGACCTTTAGC
1 TGACCTTTAGC
83658069 TAAAGGTCAT
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
127 3 0.02
128 1 0.01
129 117 0.94
130 3 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (129 bp):
TGACCTTTAGCGGTGCTTTTCCAACAAACGCCACTAAAGAACAAGACATTTAGCGGCGCTTTCCC
CAAAAACGCCGTGAAAGAACATAATCTTTAGCGGCGCTTTCCCCAAAAACACCGCTAAAGAACA
Found at i:83658960 original size:23 final size:23
Alignment explanation
Indices: 83658926--83659337 Score: 251
Period size: 23 Copynumber: 18.0 Consensus size: 23
83658916 AATGGAAAGT
*
83658926 AGCACTTT-AACACTTTAATTTAC
1 AGCA-TTTAAACACTTCAATTTAC
83658949 AGCATTTAAACACTTCAATTTAC
1 AGCATTTAAACACTTCAATTTAC
*
83658972 AGCACTTT-AACA-TATCAATTAAC
1 AGCA-TTTAAACACT-TCAATTTAC
* * *
83658995 AACATTTATACACATCAA-TTAC
1 AGCATTTAAACACTTCAATTTAC
* *
83659017 AACGA--TAGAACACTTCAATTTGC
1 AGC-ATTTA-AACACTTCAATTTAC
*
83659040 AGCACTTAAACACTTCAATTTAC
1 AGCATTTAAACACTTCAATTTAC
* *
83659063 AGCATTTAAACACTTAAATTTGC
1 AGCATTTAAACACTTCAATTTAC
* *
83659086 AGCACTTAAACA-TATCAATTAAC
1 AGCATTTAAACACT-TCAATTTAC
* * **
83659109 AACATTTATACAAATCAA-TTAC
1 AGCATTTAAACACTTCAATTTAC
***
83659131 AGCAAGAAAACA-TCTCAATTT-C
1 AGCATTTAAACACT-TCAATTTAC
* ** *
83659153 TAGAAACTAAACACTTCAATTTGC
1 -AGCATTTAAACACTTCAATTTAC
* *
83659177 AGCACTTAAACACTTCAATTTGC
1 AGCATTTAAACACTTCAATTTAC
*
83659200 AGCAATTT-AACA-TATCAATTAAC
1 AGC-ATTTAAACACT-TCAATTTAC
* * * *
83659223 AACATTTATACACCTCAA-TTAT
1 AGCATTTAAACACTTCAATTTAC
* *
83659245 AGCGA-TAAAACA-TCTCAATTTTC
1 AGC-ATTTAAACACT-TCAATTTAC
** * * *
83659268 AGCAACTAAATACTTGAATTTGC
1 AGCATTTAAACACTTCAATTTAC
*
83659291 AGCACTTAAACACTTCAATTTAC
1 AGCATTTAAACACTTCAATTTAC
* *
83659314 AACATTTAAACACTTAAATTTAC
1 AGCATTTAAACACTTCAATTTAC
83659337 A
1 A
83659338 AATCCACCAT
Statistics
Matches: 301, Mismatches: 62, Indels: 52
0.73 0.15 0.13
Matches are distributed among these distances:
21 2 0.01
22 57 0.19
23 231 0.77
24 11 0.04
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (23 bp):
AGCATTTAAACACTTCAATTTAC
Found at i:83659126 original size:114 final size:113
Alignment explanation
Indices: 83658934--83659325 Score: 495
Period size: 114 Copynumber: 3.4 Consensus size: 113
83658924 GTAGCACTTT
* * *
83658934 AACACTTTAATTTACAGCATTTAAACACTTCAATTTACAGCACTTTAACATATCAATTAACAACA
1 AACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCACTTAAACATATCAATTAACAACA
*
83658999 TTTATACACATCAATTACAACGATAGAACACT-TCAATTTGCAGCACTTA
66 TTTATACACATCAATTACAGCGATAGAACACTCTCAATTT-CAGCAC-TA
* * *
83659048 AACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACA
1 AACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCACTTAAACATATCAATTAACAACA
* * *
83659113 TTTATACAAATCAATTACAGC-A-AGAAAACATCTCAATTTCTAGAAACTA
66 TTTATACACATCAATTACAGCGATAGAACAC-TCTCAATTTC-AG-CACTA
* * * *
83659162 AACACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCAATTTAACATATCAATTAACAACA
1 AACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCACTTAAACATATCAATTAACAACA
* * *
83659227 TTTATACACCTCAATTATAGCGATAAAACA-TCTCAATTTTCAGCAACTA
66 TTTATACACATCAATTACAGCGATAGAACACTCTCAA-TTTCAGC-ACTA
* * * * *
83659276 AATACTTGAATTTGCAGCACTTAAACACTTCAATTTACAACATTTAAACA
1 AACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCACTTAAACA
83659326 CTTAAATTTA
Statistics
Matches: 245, Mismatches: 25, Indels: 16
0.86 0.09 0.06
Matches are distributed among these distances:
112 6 0.02
113 3 0.01
114 225 0.92
115 7 0.03
116 4 0.02
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (113 bp):
AACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCACTTAAACATATCAATTAACAACA
TTTATACACATCAATTACAGCGATAGAACACTCTCAATTTCAGCACTA
Found at i:83659134 original size:91 final size:91
Alignment explanation
Indices: 83658942--83659196 Score: 227
Period size: 91 Copynumber: 2.8 Consensus size: 91
83658932 TTAACACTTT
* ** * * *
83658942 AATTTACAGCATTTAAACACTTCAATTTACAGCACTTT-AACA-TATCAATTAACAACATTTATA
1 AATTTACAGCAATTAAACACTTCAATTTACAGCA-TTTAAACACT-TCAATTTGCAGCACTTAAA
* **
83659005 CACATCAATTACAACGATAGAACACTTC
64 CATATCAATTACAACGATAGAACAAATC
* * *
83659033 AATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTAAACA
1 AATTTACAGCAATTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACA
**
83659098 TATCAATTAACAAC-ATTTATACAAATC
66 TATCAATT-ACAACGATAGA-ACAAATC
** * **
83659125 AA-TTACAGCAAGAAAACA-TCTCAATTT-CTAGAAACTAAACACTTCAATTTGCAGCACTTAAA
1 AATTTACAGCAATTAAACACT-TCAATTTAC-AGCATTTAAACACTTCAATTTGCAGCACTTAAA
83659187 CACT-TCAATT
64 CA-TATCAATT
83659197 TGCAGCAATT
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
90 5 0.04
91 117 0.86
92 14 0.10
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (91 bp):
AATTTACAGCAATTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACA
TATCAATTACAACGATAGAACAAATC
Found at i:83662708 original size:41 final size:41
Alignment explanation
Indices: 83662662--83662784 Score: 149
Period size: 41 Copynumber: 3.0 Consensus size: 41
83662652 AAAAATAGAT
* * *
83662662 TATTAGAGGCGCTTCTTTAAAAACGCCGCTAAAGCCCCGAA
1 TATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGCCCCGAA
* * *
83662703 TATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGTCCCGAG
1 TATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGCCCCGAA
* * *
83662744 CATTAGCGGCGCTT-TTCCAAAAATACCGCTAATGCCCCGAA
1 TATTAGCGGCGCTTCTT-CAAAAATGCCGCTAAAGCCCCGAA
83662785 AACTCAGAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
40 2 0.03
41 67 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (41 bp):
TATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGCCCCGAA
Found at i:83662928 original size:40 final size:40
Alignment explanation
Indices: 83662842--83662953 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
83662832 TTGGAAAATA
*
83662842 CCGCTAATGCTC-ATTTTTAGTGGCGCTTTTTAAAAAGCG
1 CCGCTAATGCTCGATTTTTAGTGGCGTTTTTTAAAAAGCG
* * *
83662881 CCACTAATACTCGATCTTTAGTGGCGTTTTTTAAAAAGCG
1 CCGCTAATGCTCGATTTTTAGTGGCGTTTTTTAAAAAGCG
** * *
83662921 TTGCTAATGCTTGATTTTTAGCGGCGTTTTTTA
1 CCGCTAATGCTCGATTTTTAGTGGCGTTTTTTA
83662954 TCCAAACGCC
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 10 0.16
40 51 0.84
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (40 bp):
CCGCTAATGCTCGATTTTTAGTGGCGTTTTTTAAAAAGCG
Found at i:83665862 original size:27 final size:27
Alignment explanation
Indices: 83665387--83665850 Score: 561
Period size: 27 Copynumber: 17.2 Consensus size: 27
83665377 GGGTCAACAT
* **
83665387 AATGACCGAAATACCCTCGGAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
83665414 AATGACTGAAATACCTCCGA-AGGGTAA
1 AATGACCGAAATACC-CCCATAGGGTAA
* * **
83665441 ACTGATCGAAATACCCCCGGAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * * *
83665468 AATGATCAAAATACCCCGATAGGATAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * * * *
83665495 AAGGACTGAAATACCCACATAAGGTAG
1 AATGACCGAAATACCCCCATAGGGTAA
* * *
83665522 AATAACCAAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
83665549 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
** * *
83665576 AATGACTAAAATACGCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
83665603 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * * *
83665630 AATGACAGAAATAACTCCATAAGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
** *
83665657 AATGATTGAAATACCCTCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
83665684 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * *
83665711 AATGACTGAAATACCCCTAGAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
*
83665738 AATGATCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
*
83665765 AATGACCGAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
*
83665792 AATGACCGAAATACCCCAATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
*
83665819 AATGATCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
83665846 AATGA
1 AATGA
83665851 TTGTTATACC
Statistics
Matches: 367, Mismatches: 68, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 2 0.01
27 364 0.99
28 1 0.00
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAGGGTAA
Found at i:83668102 original size:79 final size:81
Alignment explanation
Indices: 83667966--83668150 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
83667956 TTGAATGATG
* *
83667966 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
83668030 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
83668045 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
83668107 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
83668125 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
83668151 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:83668164 original size:40 final size:40
Alignment explanation
Indices: 83667967--83668150 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
83667957 TGAATGATGT
* * * *
83667967 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
83668007 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
83668047 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
83668085 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
83668126 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
83668151 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:83668172 original size:79 final size:79
Alignment explanation
Indices: 83667967--83668183 Score: 192
Period size: 79 Copynumber: 2.7 Consensus size: 79
83667957 TGAATGATGT
** * * * ** *
83667967 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCAAT
*
83668030 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
83668047 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
*
83668112 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
83668126 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
83668184 TACGTGATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 70 0.61
80 42 0.37
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
GCGAGATACTAATA
Found at i:83676266 original size:40 final size:40
Alignment explanation
Indices: 83676211--83676300 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 40
83676201 NNNNNNNNNN
* *
83676211 CCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGT
1 CCCGAAGGCAATTGTGCGAGTTACTATAAT-CGGGCTAAGT
*
83676251 CCCGAAGGCAATTGTGCGAGTTACTATAATCGGGCTATGT
1 CCCGAAGGCAATTGTGCGAGTTACTATAATCGGGCTAAGT
83676291 CCCGAAGGCA
1 CCCGAAGGCA
83676301 TTTGAACGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 43 0.93
41 3 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCCGAAGGCAATTGTGCGAGTTACTATAATCGGGCTAAGT
Found at i:83686607 original size:25 final size:24
Alignment explanation
Indices: 83686573--83686619 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
83686563 TAAAGAAATG
*
83686573 GAAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAAGA-AAAAAAAATGAT
*
83686598 GAAAACAAAAGAAAAAAAAATG
1 GAAAAAAAAAGAAAAAAAAATG
83686620 TGTCCATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
GAAAAAAAAAGAAAAAAAAATGAT
Found at i:83690210 original size:15 final size:15
Alignment explanation
Indices: 83690190--83690267 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
83690180 TTTATGGAAA
83690190 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
83690205 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
83690219 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
83690235 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
83690249 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
83690265 ATC
1 ATC
83690268 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:83690219 original size:30 final size:30
Alignment explanation
Indices: 83690183--83690267 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
83690173 ATCCATATTT
*
83690183 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
83690213 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
83690243 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
83690268 GAGATATTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:83694873 original size:15 final size:15
Alignment explanation
Indices: 83694853--83694930 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
83694843 TTTATGGAAA
83694853 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
83694868 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
83694882 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
83694898 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
83694912 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
83694928 ATC
1 ATC
83694931 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:83694882 original size:30 final size:30
Alignment explanation
Indices: 83694846--83694930 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
83694836 ATCCATATTT
*
83694846 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
83694876 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
83694906 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
83694931 GAGATATTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:83713591 original size:20 final size:20
Alignment explanation
Indices: 83713545--83713591 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
83713535 AGCTCGTTTC
*
83713545 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
83713565 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
83713585 CAGCTCA
1 CAGCTCA
83713592 ATATTAACTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:83716281 original size:48 final size:47
Alignment explanation
Indices: 83716202--83716307 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
83716192 GAGTGTCATG
*
83716202 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
83716250 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
83716298 GAAAAAGAAA
1 GAAAAAGAAA
83716308 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:83718024 original size:20 final size:20
Alignment explanation
Indices: 83717978--83718024 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
83717968 AGCTCGTTTC
*
83717978 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
83717998 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
83718018 CAGCTCA
1 CAGCTCA
83718025 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:83722152 original size:151 final size:151
Alignment explanation
Indices: 83721878--83722173 Score: 583
Period size: 151 Copynumber: 2.0 Consensus size: 151
83721868 GTAGGAGTAA
83721878 TAGTAAATTTTTAGTTGCTTTGTATTTTATTTAAATTTTCTACGTAGGAACCCAACACAAAGGAG
1 TAGTAAATTTTTAGTTGCTTTGTATTTTATTTAAATTTTCTACGTAGGAACCCAACACAAAGGAG
83721943 ACAACAATTTGAGCTATTAACGAACAAAAGAGGAAGCACCAACCATTAGCAGTTGGAACTACCAC
66 ACAACAATTTGAGCTATTAACGAACAAAAGAGGAAGCACCAACCATTAGCAGTTGGAACTACCAC
83722008 GATTAATTGGGTAACCATTAG
131 GATTAATTGGGTAACCATTAG
83722029 TAGTAAATTTTTAGTTGCTTTGTATTTTATTTAAATTTTCTACGTAGGAACCCAACACAAAGGAG
1 TAGTAAATTTTTAGTTGCTTTGTATTTTATTTAAATTTTCTACGTAGGAACCCAACACAAAGGAG
*
83722094 ACAACAATTTGAGCTATTAACGAACAAAAGAGGAAGCACCAACCATTAGTAGTTGGAACTACCAC
66 ACAACAATTTGAGCTATTAACGAACAAAAGAGGAAGCACCAACCATTAGCAGTTGGAACTACCAC
83722159 GATTAATTGGGTAAC
131 GATTAATTGGGTAAC
83722174 TTCTTTACGT
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 144 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (151 bp):
TAGTAAATTTTTAGTTGCTTTGTATTTTATTTAAATTTTCTACGTAGGAACCCAACACAAAGGAG
ACAACAATTTGAGCTATTAACGAACAAAAGAGGAAGCACCAACCATTAGCAGTTGGAACTACCAC
GATTAATTGGGTAACCATTAG
Found at i:83723796 original size:23 final size:23
Alignment explanation
Indices: 83723736--83723798 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
83723726 GGACTCACCA
* * *
83723736 CAGCTCGTAAGAGCTTACTATTT
1 CAGCTCGAAAGAGCTTACCAATT
**
83723759 CAGCTC-ATTGAAGCTTACCAATT
1 CAGCTCGAAAG-AGCTTACCAATT
83723782 CAGCTCGAAAGAGCTTA
1 CAGCTCGAAAGAGCTTA
83723799 TGTTCATTAG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
22 1 0.03
23 28 0.90
24 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (23 bp):
CAGCTCGAAAGAGCTTACCAATT
Found at i:83724854 original size:29 final size:27
Alignment explanation
Indices: 83724804--83724864 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
83724794 TCTATTTGTC
**
83724804 GTGTGTGTCACATGGATTCACACATGG
1 GTGTGTGTCACACAGATTCACACATGG
83724831 GTGTGTGTCACACAGATTCACACATGG
1 GTGTGTGTCACACAGATTCACACATGG
83724858 GTGTGTG
1 GTGTGTG
83724865 ATTGACCGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (27 bp):
GTGTGTGTCACACAGATTCACACATGG
Found at i:83725398 original size:45 final size:45
Alignment explanation
Indices: 83725333--83725442 Score: 202
Period size: 45 Copynumber: 2.4 Consensus size: 45
83725323 GTTACAATTC
*
83725333 AGACCACAACTCAATAAGTTCGGATGTCACATATATCATGAACTT
1 AGACCACAACTCAATGAGTTCGGATGTCACATATATCATGAACTT
83725378 AGACCACAACTCAATGAGTTCGGATGTCACATATATCATGAACTT
1 AGACCACAACTCAATGAGTTCGGATGTCACATATATCATGAACTT
*
83725423 AGACCACAACTTAATGAGTT
1 AGACCACAACTCAATGAGTT
83725443 TAGATTACTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (45 bp):
AGACCACAACTCAATGAGTTCGGATGTCACATATATCATGAACTT
Found at i:83725504 original size:63 final size:63
Alignment explanation
Indices: 83725433--83725560 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
83725423 AGACCACAAC
83725433 TTAATGAGTTTAGATTACTTAATTCCTAGTGACATGTCACTTGTATCCTAACTATTCCTAAGG
1 TTAATGAGTTTAGATTACTTAATTCCTAGTGACATGTCACTTGTATCCTAACTATTCCTAAGG
83725496 TTAATGAGTTTAGATTACTTAATTCCTAGTGACATGTCACTTGTATCCTAACTATTCCTAAGG
1 TTAATGAGTTTAGATTACTTAATTCCTAGTGACATGTCACTTGTATCCTAACTATTCCTAAGG
83725559 TT
1 TT
83725561 CAAATGGGAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (63 bp):
TTAATGAGTTTAGATTACTTAATTCCTAGTGACATGTCACTTGTATCCTAACTATTCCTAAGG
Found at i:83736239 original size:44 final size:45
Alignment explanation
Indices: 83736126--83736256 Score: 219
Period size: 44 Copynumber: 2.9 Consensus size: 45
83736116 GCCAAACATG
* *
83736126 TGTCACATATATCACGAACTCAGACCACAAATCAATGAGTTCGGA
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGGA
*
83736171 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTC-GC
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGGA
*
83736215 TGTCCCATATATCATGAACTCAGACCACAACTCAATGAGTTC
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTC
83736257 AGATTACTCA
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
44 42 0.51
45 40 0.49
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (45 bp):
TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGGA
Found at i:83741923 original size:49 final size:47
Alignment explanation
Indices: 83741776--83741941 Score: 167
Period size: 49 Copynumber: 3.5 Consensus size: 47
83741766 TATGTGTGCT
* * * *
83741776 AGTGTAAGACATGTCTGGGACATGCATTGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGATATATGAAAG-C
* * *
83741822 AGTGTAAGACATGTCTAGGACATACATCGACCTCGAGATAT-ACAAGC
1 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGATATATGA-AAGC
* *
83741869 TAGTGTAAGACTTGTCTGGGACACAACATCGGCCTCGATATATGAAAGTC
1 -AGTGTAAGACATGTCTGGGACA-TACATCGGCCTCGATATATGAAAG-C
* *
83741919 AGTGTAAGACCTATCTGGGACAT
1 AGTGTAAGACATGTCTGGGACAT
83741942 GGCATTGACT
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
46 29 0.30
47 3 0.03
48 25 0.26
49 39 0.40
50 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATACATCGGCCTCGATATATGAAAGC
Found at i:83766732 original size:36 final size:36
Alignment explanation
Indices: 83766684--83766755 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
83766674 GGATTATTAC
*
83766684 AGCCAGTTACGATACCAGAATGGAAATGGGAAAGAG
1 AGCCAGTGACGATACCAGAATGGAAATGGGAAAGAG
*
83766720 AGCCAGTGACGATACCGGAATGGAAATGGGAAAGAG
1 AGCCAGTGACGATACCAGAATGGAAATGGGAAAGAG
83766756 CTACTATGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.40, C:0.14, G:0.33, T:0.12
Consensus pattern (36 bp):
AGCCAGTGACGATACCAGAATGGAAATGGGAAAGAG
Found at i:83767982 original size:44 final size:44
Alignment explanation
Indices: 83767932--83768020 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
83767922 TTACATGGTC
*
83767932 TATATTATGATAGGAAAGACGTATGAAAATTTCGATAAGAAAAT
1 TATATTATGATAGGAAAGACGTATAAAAATTTCGATAAGAAAAT
83767976 TATATTATGATAGGAAAGACGTATAAAAATTTCGATAAGAAAAT
1 TATATTATGATAGGAAAGACGTATAAAAATTTCGATAAGAAAAT
83768020 T
1 T
83768021 TTATCGATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.30
Consensus pattern (44 bp):
TATATTATGATAGGAAAGACGTATAAAAATTTCGATAAGAAAAT
Found at i:83769237 original size:31 final size:31
Alignment explanation
Indices: 83769179--83769239 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
83769169 TCCTGAACGG
* * * *
83769179 TAGTGATTCTGCATGTGCTGCGGACTACCGA
1 TAGTGATCCTACATGTGCTACGAACTACCGA
*
83769210 TAGTGATCCTACATGTGTTACGAACTACCG
1 TAGTGATCCTACATGTGCTACGAACTACCG
83769240 CAGCTCTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (31 bp):
TAGTGATCCTACATGTGCTACGAACTACCGA
Found at i:83771533 original size:36 final size:36
Alignment explanation
Indices: 83771486--83771559 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
83771476 CGGCACTCGG
83771486 TTTGCAAAATGTACTCGACTAGTCGGTTTAGTCGAC
1 TTTGCAAAATGTACTCGACTAGTCGGTTTAGTCGAC
83771522 TTTGCAAAATGTACTCGACTAGTCGGTTTAGTCGAC
1 TTTGCAAAATGTACTCGACTAGTCGGTTTAGTCGAC
83771558 TT
1 TT
83771560 ACTTAGCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (36 bp):
TTTGCAAAATGTACTCGACTAGTCGGTTTAGTCGAC
Found at i:83772991 original size:26 final size:26
Alignment explanation
Indices: 83772962--83773043 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
83772952 TGATACAAAT
*
83772962 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83772988 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83773014 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83773040 TGAT
1 TGAT
83773044 GGGAATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83775707 original size:49 final size:49
Alignment explanation
Indices: 83775650--83775748 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
83775640 TGAAACTATT
83775650 ACAGCAAGGTCGCTCATTCACAAGCCAAGTACCTTCGGGATTTAACCGG
1 ACAGCAAGGTCGCTCATTCACAAGCCAAGTACCTTCGGGATTTAACCGG
*
83775699 ACAGCAAGGTCGCTCATTCCCAAGCCAAGTACCTTCGGGATTTAACCGG
1 ACAGCAAGGTCGCTCATTCACAAGCCAAGTACCTTCGGGATTTAACCGG
83775748 A
1 A
83775749 TATAGCTACT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (49 bp):
ACAGCAAGGTCGCTCATTCACAAGCCAAGTACCTTCGGGATTTAACCGG
Found at i:83775801 original size:40 final size:40
Alignment explanation
Indices: 83775730--83775943 Score: 229
Period size: 40 Copynumber: 5.4 Consensus size: 40
83775720 AAGCCAAGTA
* * *
83775730 CCTTCGGGATTTAACC-GGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCTGGATATAG-TAACTCGCACGAATG
* * *
83775769 CCTTTGGGACATAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACGAATG
83775809 CCTTCGGGACTTAG-CTCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCT-GGATATAGTAACTCGCACGAATG
* * * * *
83775849 CCTTCGGAACTTAGCCCGGATATAGTAACTAGTACAAATG
1 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACGAATG
* * * * *
83775889 CCTTCGGAACTTAGCCTGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCTGGATA-TAGTAACTCGCACGAATG
83775929 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
83775944 TCGGTTATCA
Statistics
Matches: 151, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 16 0.11
40 134 0.89
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACGAATG
Found at i:83777233 original size:11 final size:10
Alignment explanation
Indices: 83777203--83777237 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
83777193 ACATGAGAGC
83777203 CTTTCTTTTT
1 CTTTCTTTTT
*
83777213 TTTTCTTTTT
1 CTTTCTTTTT
83777223 CTTTCTCTTTT
1 CTTTCT-TTTT
83777234 CTTT
1 CTTT
83777238 TTTCATCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:83783826 original size:40 final size:40
Alignment explanation
Indices: 83783764--83783981 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
83783754 AAGCCAAGTA
* * * *
83783764 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
83783803 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
83783843 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
83783883 CCTTTGGGACTTAGCCCGGATATAGTAACTC-CAACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGC-ACAAATG
* * * *
83783923 CCTTCGGGACTTAGCCCAGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
83783963 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
83783982 TTATCATCCA
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 14 0.09
40 142 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:83785255 original size:10 final size:10
Alignment explanation
Indices: 83785240--83785274 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
83785230 CATGAGAGCC
83785240 TTTCTTTTTT
1 TTTCTTTTTT
83785250 TTTCTTTTTT
1 TTTCTTTTTT
83785260 TTTCTCTTTTCT
1 TTTCT-TTTT-T
83785272 TTT
1 TTT
83785275 TTCATCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 15 0.65
11 4 0.17
12 4 0.17
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:83785261 original size:12 final size:12
Alignment explanation
Indices: 83785244--83785277 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
83785234 AGAGCCTTTC
83785244 TTTTTTTTTCTT
1 TTTTTTTTTCTT
*
83785256 TTTTTTTCTCTT
1 TTTTTTTTTCTT
*
83785268 TTCTTTTTTC
1 TTTTTTTTTC
83785278 ATCATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:83786046 original size:27 final size:27
Alignment explanation
Indices: 83786006--83786164 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
83785996 AGGAAGCGTC
*
83786006 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
83786033 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
83786059 CCTGGTGGCTATGCCACAATTATTTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
83786087 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
83786114 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
83786141 TTGGTGACTTTGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
83786165 GCAGCCTCGC
Statistics
Matches: 112, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 11 0.10
27 97 0.87
28 4 0.04
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:83786087 original size:54 final size:54
Alignment explanation
Indices: 83786003--83786164 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 54
83785993 TGGAGGAAGC
83786003 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
83786057 GTCCTGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * * * *
83786111 GTTCTGGTGGCTCTACCACAA-TATCTGTATTTGGTGACTTTGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
83786164 G
1 G
83786165 GCAGCCTCGC
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 12 0.12
54 86 0.88
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:83790259 original size:48 final size:48
Alignment explanation
Indices: 83790183--83790274 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
83790173 CATTAGGGGA
* * *
83790183 TTCACTGATTTTGCTTCAAGCCATGATATTGGCACTTCGGGTGCAAGC
1 TTCACTGATTTGGCTTCAAGCCATGATATTAGCACTTAGGGTGCAAGC
* *
83790231 TTCATTGATTTGGCTTCGAGCCATGATATTAGCACTTAGGGTGC
1 TTCACTGATTTGGCTTCAAGCCATGATATTAGCACTTAGGGTGC
83790275 GAGACTCCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (48 bp):
TTCACTGATTTGGCTTCAAGCCATGATATTAGCACTTAGGGTGCAAGC
Found at i:83800707 original size:233 final size:231
Alignment explanation
Indices: 83800295--83800760 Score: 871
Period size: 233 Copynumber: 2.0 Consensus size: 231
83800285 TGGGTTATGA
83800295 CACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTGTAAGACCATAGCTGGGC
1 CACTATGAACGTAAGACCATGGTTGGACCATG--AGTGTTTATATGTGTAAGACCATAGCTGGGC
83800360 TATGGAATTTTGATAATAAGACCATAACTGGGTTATGGCACTACGAATGTAAGACCATGGCAGGG
64 TATGGAATTTTGATAATAAGACCATAACTGGGTTATGGCACTACGAATGTAAGACCATGGCAGGG
83800425 CTATGGCATTGCATGTGTAAGACCATAGTTGGACTATGGCACAAAGAAAACGATGTACTCATATC
129 CTATGGCATTGCATGTGTAAGACCATAGTTGGACTATGGCACAAAGAAAACGATGTACTCATATC
83800490 TGTAAGTCATTCCTCGAATGGTAAGTTATCGGGAGTTG
194 TGTAAGTCATTCCTCGAATGGTAAGTTATCGGGAGTTG
*
83800528 CACTTTGAACGTAAGACCATGGTTGGACCATG-GTGATATATATATGTGTAAGACCATAGCTGGG
1 CACTATGAACGTAAGACCATGGTTGGACCATGAGTG-T-T-TATATGTGTAAGACCATAGCTGGG
83800592 CTATGGAATTTTGATAATAAGACCATAACTGGGTTATGGCACTACGAATGTAAGACCATGGCAGG
63 CTATGGAATTTTGATAATAAGACCATAACTGGGTTATGGCACTACGAATGTAAGACCATGGCAGG
83800657 GCTATGGCATTGCATGTGTAAGACCATAGTTGGACTATGGCACAAAGAAAACGATGTACTCATAT
128 GCTATGGCATTGCATGTGTAAGACCATAGTTGGACTATGGCACAAAGAAAACGATGTACTCATAT
83800722 CTGTAAGTCATTCCTCGAATGGTAAGTTATCGGGAGTTG
193 CTGTAAGTCATTCCTCGAATGGTAAGTTATCGGGAGTTG
83800761 TCTTGAATGA
Statistics
Matches: 229, Mismatches: 1, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
230 3 0.01
231 1 0.00
232 1 0.00
233 224 0.98
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (231 bp):
CACTATGAACGTAAGACCATGGTTGGACCATGAGTGTTTATATGTGTAAGACCATAGCTGGGCTA
TGGAATTTTGATAATAAGACCATAACTGGGTTATGGCACTACGAATGTAAGACCATGGCAGGGCT
ATGGCATTGCATGTGTAAGACCATAGTTGGACTATGGCACAAAGAAAACGATGTACTCATATCTG
TAAGTCATTCCTCGAATGGTAAGTTATCGGGAGTTG
Found at i:83800786 original size:2 final size:2
Alignment explanation
Indices: 83800781--83800850 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
83800771 TACATATATA
83800781 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
83800823 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
83800851 AAGGAATAGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:83802267 original size:14 final size:14
Alignment explanation
Indices: 83802248--83802274 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
83802238 TTATGTATTG
83802248 AAATATCTTAAATA
1 AAATATCTTAAATA
83802262 AAATATCTTAAAT
1 AAATATCTTAAAT
83802275 GTTATTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATATCTTAAATA
Found at i:83807813 original size:27 final size:27
Alignment explanation
Indices: 83807783--83807840 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
83807773 CATTAGATTG
83807783 AAAATGAAATTTAATAAAAATTTTATT
1 AAAATGAAATTTAATAAAAATTTTATT
* * **
83807810 AAAATTAAATTTATTTTAAATTTTATT
1 AAAATGAAATTTAATAAAAATTTTATT
83807837 AAAA
1 AAAA
83807841 ATGTATTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
AAAATGAAATTTAATAAAAATTTTATT
Found at i:83807848 original size:27 final size:27
Alignment explanation
Indices: 83807800--83807857 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
83807790 AATTTAATAA
*
83807800 AAATTTTATTAAAATTAAATTTATTTT
1 AAATTTTATTAAAAATAAATTTATTTT
** *
83807827 AAATTTTATTAAAAATGTATTTCTTTT
1 AAATTTTATTAAAAATAAATTTATTTT
83807854 AAAT
1 AAAT
83807858 AATAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
AAATTTTATTAAAAATAAATTTATTTT
Found at i:83808846 original size:13 final size:13
Alignment explanation
Indices: 83808796--83808846 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
83808786 TTTGGTAATA
83808796 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
83808809 CTGTGGAAAAGTG
1 CTTTTGAAAAGTG
83808822 CTTTT-AAGAAGTG
1 CTTTTGAA-AAGTG
*
83808835 TTTTTGAAAAGT
1 CTTTTGAAAAGT
83808847 TTAGTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 2 0.06
13 27 0.87
14 2 0.06
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:83809074 original size:24 final size:24
Alignment explanation
Indices: 83809040--83809085 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
83809030 TATATGAAAT
* *
83809040 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
83809064 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
83809086 ATTTAACTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:83811437 original size:47 final size:45
Alignment explanation
Indices: 83811369--83811493 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 45
83811359 TGTGTGAGCT
83811369 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CACATTATGAGAACC
*
83811415 AGTGTAAGACCATGTCTGGGACATGACATCGG--CATTGA-GACGAGTACT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCACATT-ATGA-GA--ACC
83811463 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
83811494 TACAAGATGT
Statistics
Matches: 71, Mismatches: 1, Indels: 13
0.84 0.01 0.15
Matches are distributed among these distances:
45 6 0.08
46 18 0.25
47 30 0.42
48 17 0.24
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACATTATGAGAACC
Found at i:83811563 original size:94 final size:93
Alignment explanation
Indices: 83811367--83811580 Score: 234
Period size: 94 Copynumber: 2.3 Consensus size: 93
83811357 CTTGTGTGAG
**
83811367 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAACCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAG-ACCAGTGTAAGACCATGTCT
* ** *
83811432 GGGACATGACATCGGCATTGAGACGAGTA
65 GGGACATGACATCGACACAGAGACGAGAA
* * * *
83811461 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTG-TCAGTGTAAGACCATGTTTG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGACCAGTGTAAGACCATGTCTG
* * * *
83811525 GGACATGGCATTGACACAGATATACTAGAA
66 GGACATGACATCGACACAG--AGACGAGAA
*
83811555 CTTA-TGTAAGACCATGTCTGAGACAT
1 C-TAGTGTAAGA-CATGTCTGGGACAT
83811581 CACGTCAATG
Statistics
Matches: 101, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
92 32 0.32
94 54 0.53
95 15 0.15
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (93 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGACCAGTGTAAGACCATGTCTG
GGACATGACATCGACACAGAGACGAGAA
Found at i:83818704 original size:47 final size:45
Alignment explanation
Indices: 83818636--83818757 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 45
83818626 TTGTGTGAGA
* *
83818636 TAGTGTAAGACATGTTTGGGACATGCATCGGCCATATTATGA-GA-GC
1 TAGTGTAAGACATGTTTGGGACATGCATC-GACAT-TGA-GACGAGGC
* *
83818682 TAGTGTAAGACCATGTCTGGGACATGGTATCGACATTGAGACGAGGGC
1 TAGTGTAAGA-CATGTTTGGGACAT-GCATCGACATTGAGACGA-GGC
83818730 TAGTGTAAGACATGTTTGGGACATGCAT
1 TAGTGTAAGACATGTTTGGGACATGCAT
83818758 TAGGTACGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
45 2 0.03
46 17 0.26
47 30 0.46
48 16 0.25
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (45 bp):
TAGTGTAAGACATGTTTGGGACATGCATCGACATTGAGACGAGGC
Found at i:83824294 original size:108 final size:108
Alignment explanation
Indices: 83823927--83824417 Score: 574
Period size: 109 Copynumber: 4.5 Consensus size: 108
83823917 GTATGATTTG
* * * * ** * * * **
83823927 TTTGTTCTATTATTGTTTTTATGATATCTTATAACAGTTTTTTGTGTTTGAAAGAAAAA-AATTT
1 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTTTTTCGTATTT-AAGGAAAAAGTTTTT
* * ** * * *
83823991 TGTTGTGTTTTATTAGACTTAAGTTTGTATTAA-ATATATGATTAG
65 TTTTCTGTTTTATTAGGTTTAAGTTTGTATTAAGGT-T-TCATTAA
*
83824036 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTGTTTCGTATTTAAGGAAAAAGTTATTT
1 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTTTTTCGTATTTAAGGAAAAAGTT-TTT
83824101 TTTTCTGTTTTATTAGGTTTAAGTTTTGTATTAAGGTTTCATTAA
65 TTTTCTGTTTTATTAGGTTTAAG-TTTGTATTAAGGTTTCATTAA
* *
83824146 -TTGTTTAATTAATATTTTTGTGGTATCTTATATTAGTTTTTCGTATTTAAGGAAAAAGTTTTTT
1 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTTTTTCGTATTTAAGGAAAAAGTTTTTT
83824210 TTTCTGTTTTATTAGGTTTAAGTTTTGTATTAAGGTTTCATTAA
66 TTTCTGTTTTATTAGGTTTAAG-TTTGTATTAAGGTTTCATTAA
* * *
83824254 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTATTTTTTTGTATTTAAGGTAAAAAATATTT
1 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTTTTTCGTATTTAAGG--AAAAA-GTTT
* *
83824319 TTGTTGTTGTGTTTTATTAGGTTTAAGTTTGTATTAAGGTTTGATTAA
63 TT-TT-TTCTGTTTTATTAGGTTTAAGTTTGTATTAAGGTTTCATTAA
* * ** * *
83824367 TATATTTTATTAATGTTTTTGAAGAATCTTATATCAGTTTTTCGTATTTAA
1 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTTTTTCGTATTTAA
83824418 CGTATGAGCG
Statistics
Matches: 335, Mismatches: 37, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
108 56 0.17
109 145 0.43
110 27 0.08
111 16 0.05
112 6 0.02
113 65 0.19
114 20 0.06
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (108 bp):
TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTTTTTCGTATTTAAGGAAAAAGTTTTTT
TTTCTGTTTTATTAGGTTTAAGTTTGTATTAAGGTTTCATTAA
Found at i:83828034 original size:19 final size:17
Alignment explanation
Indices: 83827997--83828029 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
83827987 CGCCTACACC
83827997 TCCCATTTTACAATCTT
1 TCCCATTTTACAATCTT
83828014 TCCCATTTTACAATCT
1 TCCCATTTTACAATCT
83828030 CTTTCTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.45
Consensus pattern (17 bp):
TCCCATTTTACAATCTT
Found at i:83829992 original size:20 final size:20
Alignment explanation
Indices: 83829940--83829992 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
83829930 AGATAAAGGC
* *
83829940 ACATGCCCGTGTGGCTTGGG
1 ACATGCCCGTGTGGCATGGA
* *
83829960 ACACGGCCGTGTGGCATGGA
1 ACATGCCCGTGTGGCATGGA
*
83829980 ACATGCCCATGTG
1 ACATGCCCGTGTG
83829993 CTGCAGCCGT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.17, C:0.26, G:0.36, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTGTGGCATGGA
Found at i:83830834 original size:46 final size:49
Alignment explanation
Indices: 83830784--83830897 Score: 144
Period size: 53 Copynumber: 2.3 Consensus size: 49
83830774 TAGCCTTGCC
* *
83830784 ATGGTCTTGTACGGATCACA-TAT-CA-TACCGATGCCATATCCCAGAT
1 ATGGTCTTATACGGATCACATTATACATTACCGATGCCATAGCCCAGAT
*
83830830 ATGGTCTTATACGGAATCACATTATCACATTGTACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGG-ATCACATTAT-ACA-T-TACCGATGCCATAGCCCAGAT
83830883 ATGGTCTTATACGGA
1 ATGGTCTTATACGGA
83830898 AGTACATATC
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
46 13 0.22
47 6 0.10
48 3 0.05
50 2 0.03
52 1 0.02
53 33 0.57
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (49 bp):
ATGGTCTTATACGGATCACATTATACATTACCGATGCCATAGCCCAGAT
Found at i:83830880 original size:53 final size:52
Alignment explanation
Indices: 83830809--83830911 Score: 163
Period size: 53 Copynumber: 2.0 Consensus size: 52
83830799 TCACATATCA
*
83830809 TACCGATGCCATATCCCAGATATGGTCTTATACGGAA-TCACATTATCACATTG
1 TACCGATGCCATAGCCCAGATATGGTCTTATACGGAAGT-ACA-TATCACATTG
*
83830862 TACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGTACATATCACAT
1 TACCGATGCCATAGCCCAGATATGGTCTTATACGGAAGTACATATCACAT
83830912 CTTTTCCGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
52 8 0.17
53 38 0.81
54 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (52 bp):
TACCGATGCCATAGCCCAGATATGGTCTTATACGGAAGTACATATCACATTG
Found at i:83852025 original size:27 final size:27
Alignment explanation
Indices: 83851995--83852070 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
83851985 TTCCAGTAGA
*
83851995 CTTGACGA-TGGGGTGTTCACCAAATGG
1 CTTGACGAGT-GGGTGTTCACCAAAAGG
*
83852022 CTTGACGAGTTGGTGTTCACCAAAAGG
1 CTTGACGAGTGGGTGTTCACCAAAAGG
* * *
83852049 TTTGACGAGTTGGTATTCACCA
1 CTTGACGAGTGGGTGTTCACCA
83852071 GTGGGCCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (27 bp):
CTTGACGAGTGGGTGTTCACCAAAAGG
Found at i:83854985 original size:39 final size:39
Alignment explanation
Indices: 83854922--83855046 Score: 169
Period size: 39 Copynumber: 3.2 Consensus size: 39
83854912 GGACTTTTGC
* * * *
83854922 CCGGACATATTTCCTGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
*
83854961 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
* * *
83855000 CCGGATATAATTCCAGCATATAGCCTGCGGGACTTTAAGC
1 CCGGATATAATTCCAGCACATAGCCTGC-GGACCTTAAGT
83855040 CCGGATA
1 CCGGATA
83855047 CACATCAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
39 60 0.79
40 16 0.21
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
Found at i:83860629 original size:25 final size:23
Alignment explanation
Indices: 83860587--83860712 Score: 112
Period size: 23 Copynumber: 5.4 Consensus size: 23
83860577 GTCATGGTCG
*
83860587 GTAAGCTCCTCTTAAGCTGATGAACA
1 GTAAGCT-CTATTAAGCTGA--AACA
* *
83860613 GTAAGCTTTATTAAGCTGAAACG
1 GTAAGCTCTATTAAGCTGAAACA
*
83860636 GTAAGCTCTATTGAGCTG-AACA
1 GTAAGCTCTATTAAGCTGAAACA
* * *
83860658 GTAAGCTCT-TTCGAGCTGAATCG
1 GTAAGCTCTATT-AAGCTGAAACA
* * *
83860681 GTAAGCTCCAATGAGCTGAAACA
1 GTAAGCTCTATTAAGCTGAAACA
83860704 GTAAGCTCT
1 GTAAGCTCT
83860713 TACGAGCTGT
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
21 2 0.02
22 18 0.21
23 46 0.55
24 1 0.01
25 10 0.12
26 7 0.08
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (23 bp):
GTAAGCTCTATTAAGCTGAAACA
Found at i:83860647 original size:23 final size:23
Alignment explanation
Indices: 83860609--83860712 Score: 122
Period size: 23 Copynumber: 4.6 Consensus size: 23
83860599 TAAGCTGATG
* *
83860609 AACAGTAAGCTTTATTAAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
*
83860632 AACGGTAAGCTCTATTGAGCTG-
1 AACAGTAAGCTCTATTGAGCTGA
83860654 AACAGTAAGCTCT-TTCGAGCTGA
1 AACAGTAAGCTCTATT-GAGCTGA
* * * *
83860677 ATCGGTAAGCTCCAATGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
83860700 AACAGTAAGCTCT
1 AACAGTAAGCTCT
83860713 TACGAGCTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.03
22 18 0.27
23 46 0.69
24 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:83860661 original size:45 final size:45
Alignment explanation
Indices: 83860607--83860713 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
83860597 CTTAAGCTGA
* * *
83860607 TGAACAGTAAGCT-TTATTAAGCTGAAACGGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTT-TCAAGCTGAAACGGTAAGCTCCAATGAGC
* *
83860652 TGAACAGTAAGCTCTTTCGAGCTGAATCGGTAAGCTCCAATGAGC
1 TGAACAGTAAGCTCTTTCAAGCTGAAACGGTAAGCTCCAATGAGC
83860697 TGAAACAGTAAGCTCTT
1 TG-AACAGTAAGCTCTT
83860714 ACGAGCTGTG
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 39 0.71
46 16 0.29
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
TGAACAGTAAGCTCTTTCAAGCTGAAACGGTAAGCTCCAATGAGC
Found at i:83862573 original size:17 final size:17
Alignment explanation
Indices: 83862547--83862579 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
83862537 TGACCTTTTA
*
83862547 AAAATTAAAATATTAAT
1 AAAATCAAAATATTAAT
83862564 AAAATCAAAATATTAA
1 AAAATCAAAATATTAA
83862580 AATCAAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATCAAAATATTAAT
Found at i:83867038 original size:25 final size:25
Alignment explanation
Indices: 83866991--83867038 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
83866981 CAAAGTAGAC
*
83866991 TGACATCAATGAAACTTATTAATAT
1 TGACATCAATGAAACTTAATAATAT
*
83867016 TGACATCCATGAAGA-TTAATAAT
1 TGACATCAATGAA-ACTTAATAAT
83867039 GATTTCTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (25 bp):
TGACATCAATGAAACTTAATAATAT
Found at i:83873058 original size:20 final size:20
Alignment explanation
Indices: 83873033--83873087 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
83873023 GACAAAATAG
*
83873033 TCACTCAAATTTTAATTCAA
1 TCACTCAAATTTCAATTCAA
*
83873053 TCACTCAAATTTCAATTCAG
1 TCACTCAAATTTCAATTCAA
* *
83873073 TCACTGAACTTTCAA
1 TCACTCAAATTTCAA
83873088 AAAATAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (20 bp):
TCACTCAAATTTCAATTCAA
Found at i:83874067 original size:27 final size:27
Alignment explanation
Indices: 83874029--83874084 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
83874019 AAATTGATAC
*
83874029 TTTCCTTACTAAATTTGAAGGCTGCAG
1 TTTCCCTACTAAATTTGAAGGCTGCAG
83874056 TTTCCCTACTAAATTTGAAGGCTGCAG
1 TTTCCCTACTAAATTTGAAGGCTGCAG
83874083 TT
1 TT
83874085 CTGAAAGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (27 bp):
TTTCCCTACTAAATTTGAAGGCTGCAG
Found at i:83874877 original size:15 final size:16
Alignment explanation
Indices: 83874846--83874909 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 16
83874836 ATTAAAATTG
83874846 TTTTAAAAATATTTAA
1 TTTTAAAAATATTTAA
83874862 TTTT-AAAAT-TTCTAA
1 TTTTAAAAATATT-TAA
*
83874877 TTTTTAAGAAATACTTTTATT
1 -TTTTAA-AAATA--TTTA-A
83874898 TTTTAAAAATAT
1 TTTTAAAAATAT
83874910 GTAACCATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
14 2 0.05
15 8 0.21
16 8 0.21
17 2 0.05
18 4 0.10
19 5 0.13
20 8 0.21
21 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (16 bp):
TTTTAAAAATATTTAA
Found at i:83878535 original size:43 final size:44
Alignment explanation
Indices: 83878464--83878598 Score: 175
Period size: 43 Copynumber: 3.1 Consensus size: 44
83878454 TATCGAAATG
* *
83878464 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
83878508 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
83878551 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
83878596 TGA
1 TGA
83878599 AATGTTATGT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.47
44 8 0.10
45 31 0.40
46 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:83878580 original size:45 final size:43
Alignment explanation
Indices: 83878481--83878598 Score: 157
Period size: 45 Copynumber: 2.7 Consensus size: 43
83878471 CGGGCTTCGG
*
83878481 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
* * *
83878524 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
*
83878569 GCCTAGCAGGCTATAATGTCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
83878599 AATGTTATGT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
42 1 0.02
43 27 0.43
44 3 0.05
45 31 0.49
46 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:83878910 original size:38 final size:38
Alignment explanation
Indices: 83878868--83879065 Score: 247
Period size: 38 Copynumber: 5.2 Consensus size: 38
83878858 ATGATATTTG
* * * *
83878868 TATCCGGCTTAAATACCGCAGGCTAT-ATGTTGG-AATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAA-TA
*
83878906 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
83878944 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * *
83878982 TATCCGGGTTAATTCTCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
83879020 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
83879058 TATTCGGG
1 TATCCGGG
83879066 CCTTTAAGCC
Statistics
Matches: 144, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
37 1 0.01
38 141 0.98
39 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:83879183 original size:45 final size:45
Alignment explanation
Indices: 83879058--83879230 Score: 183
Period size: 45 Copynumber: 3.9 Consensus size: 45
83879048 GCTAGTATTA
* * * * *
83879058 TATTCGGGCCTTTAAGCCTAACAGGCTATTATGCCAGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
83879103 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
83879148 TATTCGGG-CTTTCGAGCCTAGTAGGCTATAATGCCGATGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-AC
* * * *
83879193 TAATCGGGCC-TCGATCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
83879231 TTTGAGAAAA
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
43 10 0.09
44 16 0.15
45 81 0.74
46 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:83879439 original size:10 final size:10
Alignment explanation
Indices: 83879424--83879454 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
83879414 CGGGTCAGGG
83879424 TGTGAAAGTA
1 TGTGAAAGTA
83879434 TGTGAAAGTA
1 TGTGAAAGTA
83879444 TGTGAAAGTA
1 TGTGAAAGTA
83879454 T
1 T
83879455 TTGAGTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
TGTGAAAGTA
Found at i:83880466 original size:34 final size:33
Alignment explanation
Indices: 83880375--83880476 Score: 141
Period size: 34 Copynumber: 3.0 Consensus size: 33
83880365 TTCTTTTTTT
* ** *
83880375 AAAATTAATTAAATTAGGGTTTAAAGATTTTAA
1 AAAATTAATTAAATTTGGGTTTAGTGTTTTTAA
83880408 ATAAATTAATTAAATTTGGGTTTAGTGTTTTTAA
1 A-AAATTAATTAAATTTGGGTTTAGTGTTTTTAA
*
83880442 GAAAATTAATTAAATTTGGGTTTAGTTTTTTTAA
1 -AAAATTAATTAAATTTGGGTTTAGTGTTTTTAA
83880476 A
1 A
83880477 TAATATTGTG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
33 2 0.03
34 59 0.95
35 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (33 bp):
AAAATTAATTAAATTTGGGTTTAGTGTTTTTAA
Found at i:83883796 original size:24 final size:24
Alignment explanation
Indices: 83883750--83883797 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
83883740 ATTTTATAAA
* *
83883750 AAAATATAAAAATAATTTATTATT
1 AAAATATAAAAACAACTTATTATT
83883774 AAAATATTAAAAACAACTT-TTATT
1 AAAATA-TAAAAACAACTTATTATT
83883798 TTATTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAATATAAAAACAACTTATTATT
Found at i:83886045 original size:30 final size:30
Alignment explanation
Indices: 83886009--83886072 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
83885999 TTAATTAAAT
83886009 AGAGCTTTAAGAAATTTA-AGGAGAAATTTG
1 AGAGCTTTAAGAAATTTAGA-GAGAAATTTG
*
83886039 AGAGCTTTGAGAAATTTAGAGAGAAATTTG
1 AGAGCTTTAAGAAATTTAGAGAGAAATTTG
83886069 AGAG
1 AGAG
83886073 TTTTTTGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.42, C:0.03, G:0.27, T:0.28
Consensus pattern (30 bp):
AGAGCTTTAAGAAATTTAGAGAGAAATTTG
Found at i:83888995 original size:60 final size:61
Alignment explanation
Indices: 83888901--83889049 Score: 221
Period size: 60 Copynumber: 2.4 Consensus size: 61
83888891 CCTAAAATTT
*
83888901 AAAAAAGA-AAAAGAAAAAAAAAAACAAAACAAAACAGCAGAAATTAATAAAAGAGTGACATTG
1 AAAAAA-ACAAAA-AAAAAAAAAAA-AAAACAAAACAGCAGAAATTAAAAAAAGAGTGACATTG
* *
83888964 CAACAAACAAAAAAAAAAAAAAAAAAA-AAAACAGCAGAAATTAAAAAAAGAGTGACATTG
1 AAAAAAACAAAAAAAAAAAAAAAAAAACAAAACAGCAGAAATTAAAAAAAGAGTGACATTG
*
83889024 AAAAAAACCAAAAAAAAAAAAAAAAA
1 AAAAAAACAAAAAAAAAAAAAAAAAA
83889050 CCTACCTTCG
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
60 55 0.70
61 4 0.05
62 12 0.15
63 8 0.10
ACGTcount: A:0.74, C:0.09, G:0.09, T:0.07
Consensus pattern (61 bp):
AAAAAAACAAAAAAAAAAAAAAAAAAACAAAACAGCAGAAATTAAAAAAAGAGTGACATTG
Found at i:83890120 original size:16 final size:17
Alignment explanation
Indices: 83890099--83890131 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
83890089 TAATTTTAAA
*
83890099 TTAAAT-TATAATAATT
1 TTAAATGTATAACAATT
83890115 TTAAATGTATAACAATT
1 TTAAATGTATAACAATT
83890132 ATCACAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAATGTATAACAATT
Found at i:83905662 original size:47 final size:47
Alignment explanation
Indices: 83905553--83905663 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
83905543 CCGGGATAAG
* *
83905553 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
83905600 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
83905647 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
83905664 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:83906436 original size:8 final size:8
Alignment explanation
Indices: 83906419--83906456 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
83906409 TCAAATTTCC
83906419 CTTT-TCT
1 CTTTCTCT
83906426 CTTTCTCT
1 CTTTCTCT
*
83906434 CTTTCTTT
1 CTTTCTCT
*
83906442 CTTTCTTT
1 CTTTCTCT
83906450 CTTTCTC
1 CTTTCTC
83906457 ACGTTTGCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
7 4 0.14
8 24 0.86
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (8 bp):
CTTTCTCT
Found at i:83906442 original size:4 final size:4
Alignment explanation
Indices: 83906425--83906455 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
83906415 TTCCCTTTTC
*
83906425 TCTT TCTC TCTT TCTT TCTT TCTT TCTT TCT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT
83906456 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TCTT
Found at i:83908168 original size:14 final size:14
Alignment explanation
Indices: 83908149--83908177 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
83908139 CTCGATTTAT
83908149 GGATTGCCCTATTA
1 GGATTGCCCTATTA
83908163 GGATTGCCCTATTA
1 GGATTGCCCTATTA
83908177 G
1 G
83908178 ATTTTACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (14 bp):
GGATTGCCCTATTA
Found at i:83918843 original size:33 final size:33
Alignment explanation
Indices: 83918801--83918868 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
83918791 TAAGAATGAG
*
83918801 ATTAAAATATGTTACTTTTATGGCTTATCCGGT
1 ATTAAAATATGTTACTTTTATGGCTTATCCAGT
83918834 ATTAAAATATGTTACTTTTATGGCTTATCCAGT
1 ATTAAAATATGTTACTTTTATGGCTTATCCAGT
83918867 AT
1 AT
83918869 CCTAGTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (33 bp):
ATTAAAATATGTTACTTTTATGGCTTATCCAGT
Found at i:83921134 original size:17 final size:18
Alignment explanation
Indices: 83921114--83921150 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
83921104 TATTGATCAA
83921114 ATTTTATTTA-TTTAAAT
1 ATTTTATTTAGTTTAAAT
*
83921131 ATTTTATTTAGTTTTAAT
1 ATTTTATTTAGTTTAAAT
83921149 AT
1 AT
83921151 AATGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTATTTAGTTTAAAT
Found at i:83924406 original size:16 final size:16
Alignment explanation
Indices: 83924385--83924422 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
83924375 TATGATTAGT
*
83924385 CTATACATCATTCACC
1 CTATACATCATCCACC
*
83924401 CTATACATCATCCACG
1 CTATACATCATCCACC
83924417 CTATAC
1 CTATAC
83924423 CAACCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.37, G:0.03, T:0.29
Consensus pattern (16 bp):
CTATACATCATCCACC
Found at i:83924413 original size:202 final size:203
Alignment explanation
Indices: 83924067--83924467 Score: 707
Period size: 202 Copynumber: 2.0 Consensus size: 203
83924057 AGTTTAGCTT
* *
83924067 AATAAATAATGTAGTGACAATAAACATAAGACTAAAAGGCCAAATTTGATCATTTAAGCATATGA
1 AATAAATAATGGAGTGACAATAAACATAAGACTAAAAGGACAAATTTGATCATTTAAGCATATGA
*
83924132 TTTCCCCATTGCAATTTGGATAAATGTACTTTATAAAAACATATGTTTAGTCTATACACCATTCA
66 TTTCCCCATTGCAATTTGGATAAATGTACTTTATAAAAACATATGATTAGTCTATACACCATTCA
*
83924197 CCCTATACATCATCCACGCTATACCAGCCAAAAACCAAAATGTGAGTGAGCTATACATGAACCA-
131 CCCTATACATCATCCACGCTATACCAACCAAAAACCAAAATGTGAGTGAGCTATACATGAACCAG
83924261 AAAAGGAC
196 AAAAGGAC
83924269 AATAAATAATGCGA-TGACAATAAACATAAGACTAAAAGGACAAATTTGATCATTTAAGCATATG
1 AATAAATAATG-GAGTGACAATAAACATAAGACTAAAAGGACAAATTTGATCATTTAAGCATATG
* * * *
83924333 ATTTCCCCATTGCAATTTGTATATATGTACTTTATAAAAGCATATGATTAGTCTATACATCATTC
65 ATTTCCCCATTGCAATTTGGATAAATGTACTTTATAAAAACATATGATTAGTCTATACACCATTC
83924398 ACCCTATACATCATCCACGCTATACCAACCAAAAACCAAAATGTGAGTGAGCTATACATGAACCA
130 ACCCTATACATCATCCACGCTATACCAACCAAAAACCAAAATGTGAGTGAGCTATACATGAACCA
83924463 GAAAA
195 GAAAA
83924468 AAAACCAACA
Statistics
Matches: 189, Mismatches: 8, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
202 184 0.97
203 5 0.03
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (203 bp):
AATAAATAATGGAGTGACAATAAACATAAGACTAAAAGGACAAATTTGATCATTTAAGCATATGA
TTTCCCCATTGCAATTTGGATAAATGTACTTTATAAAAACATATGATTAGTCTATACACCATTCA
CCCTATACATCATCCACGCTATACCAACCAAAAACCAAAATGTGAGTGAGCTATACATGAACCAG
AAAAGGAC
Found at i:83927228 original size:51 final size:51
Alignment explanation
Indices: 83927151--83927298 Score: 215
Period size: 51 Copynumber: 2.9 Consensus size: 51
83927141 TAGCAACAAC
* * * *
83927151 ATTATCTAGTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGTAAT
1 ATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCATCAGCAAT
* * *
83927202 CTTATCCACTCCATCTAATGTTGCAAAATCACTAGCATATTCATTAGCAAT
1 ATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCATCAGCAAT
**
83927253 ATTATCCACTCCATCTGATACTGCAAAATCACTAGCATATTCATCA
1 ATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCATCA
83927299 ACAACAACTT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 85 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (51 bp):
ATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCATCAGCAAT
Found at i:83928317 original size:117 final size:117
Alignment explanation
Indices: 83928119--83928436 Score: 573
Period size: 117 Copynumber: 2.7 Consensus size: 117
83928109 AAATCAACGT
* * * * * * *
83928119 CATCGGGACCACTGTCGCATCACAAATCGATAAAATAAACCCTACATTGTGGAACTGAAATTGCA
1 CATCGGGACCACTATCACATCACAAATTGACAAAAAAAACCCTGCATTGTGGCACTGAAATTGCA
83928184 ATAATAAATCACAAATAACTATCTAAAAATTTAACAATAATTTTATCAACAA
66 ATAATAAATCACAAATAACTATCTAAAAATTTAACAATAATTTTATCAACAA
83928236 CATCGGGACCACTATCACATCACAAATTGACAAAAAAAACCCTGCATTGTGGCACTGAAATTGCA
1 CATCGGGACCACTATCACATCACAAATTGACAAAAAAAACCCTGCATTGTGGCACTGAAATTGCA
83928301 ATAATAAATCACAAATAACTATCTAAAAATTTAACAATAATTTTATCAACAA
66 ATAATAAATCACAAATAACTATCTAAAAATTTAACAATAATTTTATCAACAA
83928353 CATCGGGACCACTATCACATCACAAATTGACAAAAAAAACCCTGCATTGTGGCACTGAAATTGCA
1 CATCGGGACCACTATCACATCACAAATTGACAAAAAAAACCCTGCATTGTGGCACTGAAATTGCA
83928418 ATAATAAATCACAAATAAC
66 ATAATAAATCACAAATAAC
83928437 CAACAAATCA
Statistics
Matches: 194, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 194 1.00
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.24
Consensus pattern (117 bp):
CATCGGGACCACTATCACATCACAAATTGACAAAAAAAACCCTGCATTGTGGCACTGAAATTGCA
ATAATAAATCACAAATAACTATCTAAAAATTTAACAATAATTTTATCAACAA
Found at i:83928665 original size:17 final size:16
Alignment explanation
Indices: 83928625--83928669 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
83928615 GAATGCTAAT
*
83928625 GATTTATGGATTTCAA
1 GATTTAGGGATTTCAA
*
83928641 GATTTAGGGATTTGAA
1 GATTTAGGGATTTCAA
83928657 GATTTTAGGGATT
1 GA-TTTAGGGATT
83928670 CAATAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (16 bp):
GATTTAGGGATTTCAA
Found at i:83928755 original size:12 final size:12
Alignment explanation
Indices: 83928733--83928759 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
83928723 TAAAAGTTGG
83928733 GAAAAAAGTTTT
1 GAAAAAAGTTTT
83928745 GAAAAAAGTTTT
1 GAAAAAAGTTTT
83928757 GAA
1 GAA
83928760 TTTGGGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (12 bp):
GAAAAAAGTTTT
Found at i:83929696 original size:10 final size:8
Alignment explanation
Indices: 83929638--83929705 Score: 59
Period size: 8 Copynumber: 8.4 Consensus size: 8
83929628 TATAATGTAC
83929638 ATATATT-
1 ATATATTA
83929645 ATATACTTA
1 ATATA-TTA
*
83929654 GTAT-TTA
1 ATATATTA
* *
83929661 AGAAATTA
1 ATATATTA
83929669 ATATATTA
1 ATATATTA
83929677 ATATATTA
1 ATATATTA
83929685 ATATAATATA
1 ATAT-AT-TA
*
83929695 ATATAATA
1 ATATATTA
83929703 ATA
1 ATA
83929706 AAATAAAGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
7 9 0.18
8 28 0.57
9 6 0.12
10 6 0.12
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (8 bp):
ATATATTA
Found at i:83934926 original size:18 final size:19
Alignment explanation
Indices: 83934905--83934948 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
83934895 AAAAGGACCT
* *
83934905 TAAAAAG-ATAAATAAAGA
1 TAAAAAGTAAAAATAAAAA
83934923 T-AAAAGTAAAAATAAAAA
1 TAAAAAGTAAAAATAAAAA
83934941 TAAAAAGT
1 TAAAAAGT
83934949 CTTCAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 11 0.50
19 6 0.27
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (19 bp):
TAAAAAGTAAAAATAAAAA
Found at i:83945680 original size:84 final size:84
Alignment explanation
Indices: 83945584--83946417 Score: 735
Period size: 84 Copynumber: 9.9 Consensus size: 84
83945574 TAAGTCTTTG
* * *
83945584 TTTGGAAACAAAACAATA-CTGAATAAAATCTTGTTAAACGGCGAGAATAAATCCTGAAACAGAT
1 TTTGGAAACAAAATAAAATC-GAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGAT
83945648 TTTATTTAATTTAATTCTAA
65 TTTATTTAATTTAATTCTAA
* *
83945668 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGAGAATAAATCCTGAAACAGATT
1 TTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGATT
83945733 TTATTTAATTTAATTCTAA
66 TTATTTAATTTAATTCTAA
* * *
83945752 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGACAAGAATAAATCCCGAAACAGATT
1 TTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGATT
* *
83945817 TTATTTTATTTAATTTTAA
66 TTATTTAATTTAATTCTAA
* ** *
83945836 TTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAATGGC-AGGAATAAATCCTAAAACAAAT
1 TTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGA-GAATAAATCCCGAAACAGAT
*
83945900 TTAATTTAATTTAATTCTAA
65 TTTATTTAATTTAATTCTAA
* * * *
83945920 TTTGGAAACAAAATAAAAATCGAATAAAATTTTGTTAAACGACGGGAATAAATCTCG-AACAGAT
1 TTTGGAAACAAAAT-AAAATCGAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGAT
**
83945984 TTTATTTAATTTTAATTTCTCGT
65 TTTATTTAA-TTTAA-TTCT-AA
* * * ** * * *
83946007 TTTGGCAACAAAATCAAAAT-GTAATAAAAT-ATGTTGAATAGCGAGAATAAATCCCAAAATATA
1 TTTGGAAACAAAAT-AAAATCG-AATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGA
**
83946070 TTTTATTTAACTTTAATTTCTCG
64 TTTTATTTAA-TTTAA-TTCTAA
* * * *
83946093 TTTGGAAATAAAATAGAAAAAAT-GAATAAAATC-TGTTGAACGACAAGAATAAATCCCGAAACA
1 TTTGGAAACAAAAT----AAAATCGAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACA
* **
83946156 GATTTTATTTTAATTTTAATACTCGT
62 GATTTTA-TTTAA-TTTAATTCT-AA
* * * ** * * *
83946182 TTTGGAAATAAAATCAAAATTGGAATAAAATC-TGTTGAACAACGGGAATAAATCTCGAAACAAA
1 TTTGGAAACAAAAT-AAAA-TCGAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGA
**
83946246 TTTTATTTTAATTCTAATTCTTG
64 TTTTA-TTTAATT-TAATTCTAA
* * * * * *
83946269 TTTAGAAATGGAATAA-AAAAT-GCAATAAAAT-TCGTTGAACGGCAAGAATAAATCCCGAAGCA
1 TTTGGAAA--CAA-AATAAAATCG-AATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACA
* *
83946331 GATTTTA-TTCA-CT--TT-TAA
62 GATTTTATTTAATTTAATTCTAA
* * *
83946349 TTTGGAAA-AAAAT----T-GAATAAAATC-TATTAAACGGTTG-GAATAAATCCCAAAACAGAT
1 TTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGG-CGAGAATAAATCCCGAAACAGAT
83946406 TTTATTTAATTT
65 TTTATTTAATTT
83946418 TAATATTTGA
Statistics
Matches: 632, Mismatches: 90, Indels: 66
0.80 0.11 0.08
Matches are distributed among these distances:
72 37 0.06
73 5 0.01
74 1 0.00
76 2 0.00
77 2 0.00
80 8 0.01
81 2 0.00
83 2 0.00
84 259 0.41
85 43 0.07
86 40 0.06
87 98 0.16
88 99 0.16
89 32 0.05
90 2 0.00
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (84 bp):
TTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGATT
TTATTTAATTTAATTCTAA
Found at i:83947212 original size:19 final size:22
Alignment explanation
Indices: 83947172--83947214 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
83947162 TAATTAGGAT
83947172 ATATATGAATGTGTTGGTAATA
1 ATATATGAATGTGTTGGTAATA
83947194 ATATATGAAT-T-TT-GTAATA
1 ATATATGAATGTGTTGGTAATA
83947213 AT
1 AT
83947215 TTTATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 2 0.10
21 1 0.05
22 10 0.48
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (22 bp):
ATATATGAATGTGTTGGTAATA
Found at i:83948923 original size:12 final size:12
Alignment explanation
Indices: 83948908--83948943 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
83948898 GTGAAGTGCA
83948908 GCGTGATTTGGG
1 GCGTGATTTGGG
**
83948920 GCGTGAGCTGGG
1 GCGTGATTTGGG
83948932 GCGTGATTTGGG
1 GCGTGATTTGGG
83948944 CCAGCGCCGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.08, C:0.11, G:0.53, T:0.28
Consensus pattern (12 bp):
GCGTGATTTGGG
Found at i:83950984 original size:44 final size:44
Alignment explanation
Indices: 83950921--83951031 Score: 186
Period size: 44 Copynumber: 2.5 Consensus size: 44
83950911 TCACATTTAT
*
83950921 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
* *
83950965 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
83951009 CACTTATCACTTGTCACTAATCA
1 CACTTATCACTTGTCACTGATCA
83951032 AAAGTACTCA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:83953785 original size:25 final size:23
Alignment explanation
Indices: 83953746--83953813 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 23
83953736 GCTATGATTG
*
83953746 GTAAGCTCTTCTTGAGCTGATGGACA
1 GTAAGCTC-TATTGAGCTGATGG--A
83953772 GTAAGCTCTATTGAGCTGAAATGGA
1 GTAAGCTCTATTGAGCTG--ATGGA
83953797 --AAGCTCTATTGAGCTGA
1 GTAAGCTCTATTGAGCTGA
83953814 ATAATAAGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
21 1 0.03
23 16 0.41
25 10 0.26
26 8 0.21
27 4 0.10
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGATGGA
Found at i:83953836 original size:22 final size:22
Alignment explanation
Indices: 83953797--83953858 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
83953787 CTGAAATGGA
* *
83953797 AAGCTCTATTGAGCTGAATAAT
1 AAGCTCTATCGAGCTGAACAAT
* * *
83953819 AAGCTTTATCGAGTTGAACAGT
1 AAGCTCTATCGAGCTGAACAAT
83953841 AAGCTC-ATACGAGCTGAA
1 AAGCTCTAT-CGAGCTGAA
83953859 ACGGTAACCT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (22 bp):
AAGCTCTATCGAGCTGAACAAT
Found at i:83965548 original size:17 final size:16
Alignment explanation
Indices: 83965513--83965560 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
83965503 AAGAGAATTG
* *
83965513 GAAAGA-TGAAAATTT
1 GAAAGACTGAAAAATA
*
83965528 GAAAGAGTGGAAAAATA
1 GAAAGACT-GAAAAATA
83965545 GAAAGACTGAAAAATA
1 GAAAGACTGAAAAATA
83965561 TAATTTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.21
16 9 0.32
17 13 0.46
ACGTcount: A:0.58, C:0.02, G:0.23, T:0.17
Consensus pattern (16 bp):
GAAAGACTGAAAAATA
Found at i:83965686 original size:15 final size:15
Alignment explanation
Indices: 83965646--83965688 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
83965636 ATTACTTGAT
83965646 AGAATTGAAAAATAAA
1 AGAATTG-AAAATAAA
**
83965662 AGAAAAGAAAATAAA
1 AGAATTGAAAATAAA
*
83965677 ATAATTGAAAAT
1 AGAATTGAAAAT
83965689 TACATAATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.19
Consensus pattern (15 bp):
AGAATTGAAAATAAA
Found at i:83972320 original size:25 final size:25
Alignment explanation
Indices: 83972286--83972333 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
83972276 TACAAAATGA
83972286 AAGGATTT-AACCAAAGCCACACACT
1 AAGGATTTAAACC-AAGCCACACACT
83972311 AAGGATTTAAACCAAGCCACACA
1 AAGGATTTAAACCAAGCCACACA
83972334 TTTGGCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.46, C:0.27, G:0.12, T:0.15
Consensus pattern (25 bp):
AAGGATTTAAACCAAGCCACACACT
Found at i:83972877 original size:46 final size:47
Alignment explanation
Indices: 83972798--83972968 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 47
83972788 GGGATAGGAT
*
83972798 GCCGATGCCATATCCCAGACATGGTCTTACACTGACTATCATCTCGTA-
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AG
* *
83972846 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCT-TACTTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAG
* * *
83972892 GCCGATG-CATGTCCCGGACATGTCTTACACT-AGC-ACTCGTCTCGAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTCGAG
*
83972938 GCCGATGCCATGTCCCAAACATGATCTTACA
1 GCCGATGCCATGTCCCAGACATG-TCTTACA
83972969 TAGACTCTCA
Statistics
Matches: 107, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
45 2 0.02
46 64 0.60
47 27 0.25
48 14 0.13
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAG
Found at i:83978480 original size:21 final size:22
Alignment explanation
Indices: 83978454--83978494 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
83978444 CACTTGACAT
83978454 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
83978475 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
83978495 ACCAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:83979778 original size:46 final size:46
Alignment explanation
Indices: 83979697--83979812 Score: 128
Period size: 46 Copynumber: 2.5 Consensus size: 46
83979687 GTAGTTGCAT
* *
83979697 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCTGATG-
1 CATGTCCCAGACATATCTTACACTGGCTTA-GTCTCGAGGCCGATGC
* *
83979743 CATGTCCCGGACATATCTTACACTAGGACTT-GTCTCGATGCCGATGC
1 CATGTCCCAGACATATCTTACACT-GG-CTTAGTCTCGAGGCCGATGC
* *
83979790 CATATCCCATACATAGTCTTACA
1 CATGTCCCAGACATA-TCTTACA
83979813 TAGCTCTCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 35 0.59
47 14 0.24
48 10 0.17
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATATCTTACACTGGCTTAGTCTCGAGGCCGATGC
Found at i:83981223 original size:25 final size:25
Alignment explanation
Indices: 83981195--83981246 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
83981185 GATGCTCTCG
83981195 TACATAACCTATACAAGCTTCATAA
1 TACATAACCTATACAAGCTTCATAA
83981220 TACATAACCTATACAAGCTTCATAA
1 TACATAACCTATACAAGCTTCATAA
83981245 TA
1 TA
83981247 TATTTGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.29
Consensus pattern (25 bp):
TACATAACCTATACAAGCTTCATAA
Found at i:83987618 original size:21 final size:21
Alignment explanation
Indices: 83987571--83987623 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
83987561 AATAAAGAAT
* *
83987571 TAAATCAAATTCAAAATAACT
1 TAAATTAAATTCAAAATAACA
83987592 TAAATTAAATTCAAAATAACA
1 TAAATTAAATTCAAAATAACA
83987613 TAAATTGAAAT
1 TAAATT-AAAT
83987624 ACTTTAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (21 bp):
TAAATTAAATTCAAAATAACA
Found at i:84000297 original size:40 final size:40
Alignment explanation
Indices: 84000214--84000582 Score: 324
Period size: 40 Copynumber: 9.6 Consensus size: 40
84000204 CAACCAAGTA
** *
84000214 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
* * *
84000252 CCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
84000292 CCTTCGGGACTT-GCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
*
84000331 CCTTCGGGACTTAGCCCGG-T-TA-T--C-ATC-CAAA--
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
84000362 ---TAGGGACTTAGCCCGTATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
**
84000399 CCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
** * **
84000439 CCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * * *
84000479 CCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * * * *
84000519 CCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCATAAAAG
1 CCTTCGGGA-CTTAGCCCGGATATAGT-AACTAGCACAAATG
84000560 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
84000583 CATTCGAATA
Statistics
Matches: 269, Mismatches: 41, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
28 14 0.05
29 1 0.00
30 2 0.01
31 1 0.00
33 5 0.02
34 3 0.01
35 5 0.02
37 1 0.00
38 16 0.06
39 45 0.17
40 147 0.55
41 26 0.10
42 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:84002367 original size:41 final size:41
Alignment explanation
Indices: 84002310--84002392 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
84002300 ATAAGACTCG
84002310 ATTTCGTGGTCCCGAAACCACTTTCCGACTAGGGTCAATTT
1 ATTTCGTGGTCCCGAAACCACTTTCCGACTAGGGTCAATTT
84002351 ATTTCGTGGTCCCGAAACCACTTTCCGACTAGGGTCAATTT
1 ATTTCGTGGTCCCGAAACCACTTTCCGACTAGGGTCAATTT
84002392 A
1 A
84002393 GGGCTGTCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (41 bp):
ATTTCGTGGTCCCGAAACCACTTTCCGACTAGGGTCAATTT
Found at i:84007557 original size:79 final size:78
Alignment explanation
Indices: 84007455--84007677 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
84007445 GCTCCTCGTT
* *
84007455 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
84007520 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
84007535 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
84007599 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
84007613 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
84007676 GA
63 GA
84007678 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:84007572 original size:39 final size:40
Alignment explanation
Indices: 84007455--84007677 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
84007445 GCTCCTCGTT
* *
84007455 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
84007495 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
84007535 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
84007574 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
84007613 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
84007654 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
84007678 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:84014391 original size:120 final size:120
Alignment explanation
Indices: 84014178--84014423 Score: 492
Period size: 120 Copynumber: 2.0 Consensus size: 120
84014168 TCCATTTTAA
84014178 AAATTTCCAGACAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATTATATCTTGAGTTCCAAAA
1 AAATTTCCAGACAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATTATATCTTGAGTTCCAAAA
84014243 CTCGAAAATCAGTTTCGTAATTTTTCCCTGAAACTTGACTCATATATCCATCCAT
66 CTCGAAAATCAGTTTCGTAATTTTTCCCTGAAACTTGACTCATATATCCATCCAT
84014298 AAATTTCCAGACAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATTATATCTTGAGTTCCAAAA
1 AAATTTCCAGACAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATTATATCTTGAGTTCCAAAA
84014363 CTCGAAAATCAGTTTCGTAATTTTTCCCTGAAACTTGACTCATATATCCATCCAT
66 CTCGAAAATCAGTTTCGTAATTTTTCCCTGAAACTTGACTCATATATCCATCCAT
84014418 AAATTT
1 AAATTT
84014424 TTTTCTAGAA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 126 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (120 bp):
AAATTTCCAGACAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATTATATCTTGAGTTCCAAAA
CTCGAAAATCAGTTTCGTAATTTTTCCCTGAAACTTGACTCATATATCCATCCAT
Done.