Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 97 of 253
Found at i:30329822 original size:31 final size:31
Alignment explanation
Indices: 30329760--30329842 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
30329750 TTAGAATTAA
* *
30329760 TGTTTTTGGCTGTATTTTTTATGTTAAATTTGC
1 TGTTTTTGGCTGCA--TTTTATATTAAATTTGC
* *
30329793 TGTTTTTGGCTGCATTTTATATTATATTTGT
1 TGTTTTTGGCTGCATTTTATATTAAATTTGC
* * *
30329824 TGTATTTGGTTGGATTTTA
1 TGTTTTTGGCTGCATTTTA
30329843 ATGCAGGAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 30 0.70
33 13 0.30
ACGTcount: A:0.16, C:0.05, G:0.19, T:0.60
Consensus pattern (31 bp):
TGTTTTTGGCTGCATTTTATATTAAATTTGC
Found at i:30329990 original size:43 final size:43
Alignment explanation
Indices: 30329917--30330179 Score: 345
Period size: 43 Copynumber: 6.1 Consensus size: 43
30329907 GTAGAAAAAG
* * * *
30329917 CGCCGCTAAAAGCCTTGACCTTTA-AGGCGCTTTTCCAAAAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTTCCAACAAA
* *
30329959 CGCCGCTAAAAGCCCTGACATTTAGCGGCGCTTTTACC-ACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCG-TTTTTCCAACAAA
*
30330002 CGCCGCTAAAAAGCCCTGACCTTTAGCGGCGTTTTTACC-ATAAA
1 CGCCGCT-AAAAGCCCTGACCTTTAGCGGCGTTTTT-CCAACAAA
*
30330046 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTTCCCACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTTCCAACAAA
* * *
30330089 CGTCGCTAAAAGCCCTGACCTTTAGCGGTG-TTTTCCCACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTTCCAACAAA
*
30330131 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTTTTCCAATAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCG--TTTTTCCAACAAA
30330176 CGCC
1 CGCC
30330180 ACAAATTTTT
Statistics
Matches: 197, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
42 64 0.32
43 79 0.40
44 40 0.20
45 14 0.07
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTTCCAACAAA
Found at i:30330061 original size:87 final size:84
Alignment explanation
Indices: 30329917--30330165 Score: 356
Period size: 87 Copynumber: 2.9 Consensus size: 84
30329907 GTAGAAAAAG
* * *
30329917 CGCCGCTAAAAGCCTTGACCTTTA-AGGCGCTTTTCCAAAAAACGCCGCTAAAAGCCCTGACATT
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCG-TTTTCC-AAAAACGCCGCTAAAAGCCCTGACCTT
*
30329981 TAGCGGCGCTTTTACCACAAA
64 TAGCGGCGTTTTTACCACAAA
*
30330002 CGCCGCTAAAAAGCCCTGACCTTTAGCGGCGTTTTTACCATAAACGCCGCTAAAAGCCCTGACCT
1 CGCCGCT-AAAAGCCCTGACCTTTAGCGGCG-TTTT-CCAAAAACGCCGCTAAAAGCCCTGACCT
*
30330067 TTAGCGGCGTTTTTCCCACAAA
63 TTAGCGGCGTTTTTACCACAAA
* * *
30330089 CGTCGCTAAAAGCCCTGACCTTTAGCGGTGTTTTCCCACAAACGCCGCTAAAAGCCCTGACCTTT
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTT-CCAAAAACGCCGCTAAAAGCCCTGACCTTT
30330154 AGCGGCGTTTTT
65 AGCGGCGTTTTT
30330166 TTCCAATAAA
Statistics
Matches: 150, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
85 52 0.35
86 38 0.25
87 58 0.39
88 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (84 bp):
CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTCCAAAAACGCCGCTAAAAGCCCTGACCTTTA
GCGGCGTTTTTACCACAAA
Found at i:30332446 original size:27 final size:26
Alignment explanation
Indices: 30332398--30332457 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
30332388 GCGAGGCTAC
* *
30332398 CAGATATTGTGACGAAGTCACCGGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
30332425 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
30332451 CAGATAT
1 CAGATAT
30332458 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:30340208 original size:10 final size:10
Alignment explanation
Indices: 30340193--30340223 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
30340183 ACACACCTGG
30340193 TTGATGACGA
1 TTGATGACGA
*
30340203 TTGATGACAA
1 TTGATGACGA
30340213 TTGATGACGA
1 TTGATGACGA
30340223 T
1 T
30340224 ATCTCCCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (10 bp):
TTGATGACGA
Found at i:30341863 original size:44 final size:44
Alignment explanation
Indices: 30341703--30341865 Score: 220
Period size: 45 Copynumber: 3.7 Consensus size: 44
30341693 TGCTGATGTC
* * *
30341703 CCAGACTTGGTCTTAC-TCGTAACCACATATATCGATGCCAACAT
1 CCAGACGTGGTCTTACAT-GAAAACACATATATCGATGCCAACAT
* *
30341747 CCTAGACGTGGTCTTACACGAAAACACATATATTGATGCCAACAT
1 CC-AGACGTGGTCTTACATGAAAACACATATATCGATGCCAACAT
*
30341792 CCCAGACGTGGTCTTACATGAAAACACATATATCGATGCCAACGT
1 -CCAGACGTGGTCTTACATGAAAACACATATATCGATGCCAACAT
* *
30341837 CCAAACATGGTCTTACATGAAAACACATA
1 CCAGACGTGGTCTTACATGAAAACACATA
30341866 GCATAATCCT
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
44 29 0.27
45 75 0.71
46 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (44 bp):
CCAGACGTGGTCTTACATGAAAACACATATATCGATGCCAACAT
Found at i:30342431 original size:16 final size:15
Alignment explanation
Indices: 30342415--30342444 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30342405 CAAAAATTCA
30342415 AATACAAAACATATC
1 AATACAAAACATATC
*
30342430 AATCCAAAACATATC
1 AATACAAAACATATC
30342445 TCTCATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (15 bp):
AATACAAAACATATC
Found at i:30343285 original size:33 final size:34
Alignment explanation
Indices: 30343188--30343290 Score: 113
Period size: 33 Copynumber: 3.1 Consensus size: 34
30343178 CAGTGTTGAA
* **
30343188 CAGTCTGGG-CTTAAGCCCATATCAGTCGCAGTAT
1 CAGTGTGGGCCTT-AGCCCATATCAGTAACAGTAT
* * *
30343222 CAGTGTGGGCCTTAACCAACA-CAGTAACAGTAT
1 CAGTGTGGGCCTTAGCCCATATCAGTAACAGTAT
*
30343255 CAGTGTGGGCCTTAGCCCATTTCAGT-ACAGTAT
1 CAGTGTGGGCCTTAGCCCATATCAGTAACAGTAT
30343288 CAG
1 CAG
30343291 AAATGCATAA
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
33 37 0.65
34 17 0.30
35 3 0.05
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (34 bp):
CAGTGTGGGCCTTAGCCCATATCAGTAACAGTAT
Found at i:30343351 original size:22 final size:23
Alignment explanation
Indices: 30343312--30343355 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
30343302 AAGATCCTAC
*
30343312 CCATCCATACTTTACACTCCATT
1 CCATCCATACCTTACACTCCATT
30343335 CCATCCA-ACCTTACACTCCAT
1 CCATCCATACCTTACACTCCAT
30343356 GTGGGGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.27, C:0.43, G:0.00, T:0.30
Consensus pattern (23 bp):
CCATCCATACCTTACACTCCATT
Found at i:30350897 original size:15 final size:15
Alignment explanation
Indices: 30350877--30350924 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
30350867 TCAAAGGTGG
30350877 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
30350892 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
30350907 -TTTATGGATATAAA
1 GTTTATGGATATGAA
30350921 GTTT
1 GTTT
30350925 TTATAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:30357782 original size:27 final size:27
Alignment explanation
Indices: 30357728--30357838 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
30357718 AGCATTGCTG
* * *
30357728 CCAGAATAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
30357754 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
30357781 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
30357808 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
30357835 CCAG
1 CCAG
30357839 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 14 0.18
27 61 0.80
28 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:30359281 original size:24 final size:24
Alignment explanation
Indices: 30359248--30359342 Score: 154
Period size: 24 Copynumber: 4.0 Consensus size: 24
30359238 AACACTGTTC
* * *
30359248 TCCCTAATCAGCTCCTAAATCCTC
1 TCCCTTATCAACTCCTAAATCCTA
*
30359272 TCCCTTATCAGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
30359296 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
30359320 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
30359343 GTCCTGACAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.26, C:0.39, G:0.02, T:0.33
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:30362070 original size:47 final size:47
Alignment explanation
Indices: 30361963--30362395 Score: 708
Period size: 47 Copynumber: 9.1 Consensus size: 47
30361953 GAAATGATAG
30361963 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
30362012 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30362059 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30362106 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
30362155 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30362202 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
30362251 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30362297 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
30362345 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30362392 TAAG
1 TAAG
30362396 TCCCGAAGGG
Statistics
Matches: 366, Mismatches: 10, Indels: 18
0.93 0.03 0.05
Matches are distributed among these distances:
46 17 0.05
47 181 0.49
48 68 0.19
49 100 0.27
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:30362148 original size:96 final size:96
Alignment explanation
Indices: 30361963--30362395 Score: 748
Period size: 96 Copynumber: 4.5 Consensus size: 96
30361953 GAAATGATAG
30361963 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
30362028 ATGTGATGAATGTGAAAGTG--TATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGA
30362059 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
30362124 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
30362155 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
30362220 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
30362251 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
30362315 GTGATGAATGTG-AAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * * *
30362345 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30362396 TCCCGAAGGG
Statistics
Matches: 326, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
94 65 0.20
95 117 0.36
96 144 0.44
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:30362221 original size:143 final size:143
Alignment explanation
Indices: 30361963--30362395 Score: 730
Period size: 143 Copynumber: 3.0 Consensus size: 143
30361953 GAAATGATAG
30361963 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
30362028 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
30362093 TGTATATATGTGA
131 TGTATATATGTGA
30362106 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
30362171 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
30362236 TGTATATATATGTGA
131 TG--TATATATGTGA
30362251 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * * * *
30362313 ATGTGATGAATGTG-AAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
30362377 AGTGTATAAATGTGA
129 AGTGTATATATGTGA
30362392 TAAG
1 TAAG
30362396 TCCCGAAGGG
Statistics
Matches: 277, Mismatches: 8, Indels: 11
0.94 0.03 0.04
Matches are distributed among these distances:
141 16 0.06
142 43 0.16
143 172 0.62
144 34 0.12
145 12 0.04
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGA
Found at i:30362570 original size:37 final size:37
Alignment explanation
Indices: 30362514--30362592 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30362504 CCGAGCTCTA
* * *
30362514 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
30362551 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30362588 AAGAC
1 AAGAC
30362593 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30364529 original size:41 final size:43
Alignment explanation
Indices: 30364441--30364575 Score: 193
Period size: 43 Copynumber: 3.4 Consensus size: 43
30364431 TGGTTTTTCA
30364441 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
30364484 GCACTAAGTGTGCGGGCAATAAGTG-TCAC-GTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
30364525 GCACTAA--------GCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
30364560 G-ACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
30364576 TTGAAATGCA
Statistics
Matches: 82, Mismatches: 0, Indels: 21
0.80 0.00 0.20
Matches are distributed among these distances:
33 10 0.12
34 9 0.11
35 13 0.16
41 19 0.23
42 6 0.07
43 25 0.30
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:30364541 original size:33 final size:34
Alignment explanation
Indices: 30364499--30364566 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 34
30364489 AAGTGTGCGG
30364499 GCAATAAGTG-TCAC-GTTGTGAGATTGGCACTAA
1 GCAATAAGTGTTCACGGTTGTGAGATTGG-ACTAA
30364532 GCAATAAGTGTTCACGGTTGTGAGATTGGACTAA
1 GCAATAAGTGTTCACGGTTGTGAGATTGGACTAA
30364566 G
1 G
30364567 TGTGCGGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 10 0.30
34 10 0.30
35 13 0.39
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.28
Consensus pattern (34 bp):
GCAATAAGTGTTCACGGTTGTGAGATTGGACTAA
Found at i:30364616 original size:29 final size:29
Alignment explanation
Indices: 30364561--30364630 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
30364551 GTGAGATTGG
* *
30364561 ACTAAGTGTGCGGGCTTGAAATGCATGGC
1 ACTAAGTGTGCGAGCTTGAAATACATGGC
*
30364590 ACTAAGTGTGCGAG-TTTAAAGTACATGGC
1 ACTAAGTGTGCGAGCTTGAAA-TACATGGC
30364619 ACTAAGTGTGCG
1 ACTAAGTGTGCG
30364631 TGGTTGATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 5 0.14
29 32 0.86
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
ACTAAGTGTGCGAGCTTGAAATACATGGC
Found at i:30365110 original size:37 final size:39
Alignment explanation
Indices: 30365016--30365119 Score: 133
Period size: 37 Copynumber: 2.7 Consensus size: 39
30365006 CTAAACCGGG
* * * **
30365016 CTAAGTCCCGAAGAGCATTCATGCTAGTGATGTTTCCGGG
1 CTAAGTTCCGAAGAGCATTCGTGCT-GTGATGTATCCGAA
30365056 CTAAGTT-CGAAGAGCATTCGTGCTGTGA-GTATCCGAA
1 CTAAGTTCCGAAGAGCATTCGTGCTGTGATGTATCCGAA
30365093 CTAAGTTCCGAAG-GCATTCGTGCTGTG
1 CTAAGTTCCGAAGAGCATTCGTGCTGTG
30365120 TTATATCCAG
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
37 27 0.47
38 9 0.16
39 16 0.28
40 6 0.10
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
CTAAGTTCCGAAGAGCATTCGTGCTGTGATGTATCCGAA
Found at i:30368417 original size:25 final size:25
Alignment explanation
Indices: 30368389--30368467 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
30368379 CTAATGGCCG
30368389 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
30368414 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
30368436 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
30368461 ATGTGAT
1 ATGTGAT
30368468 AAGGCTAATG
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:30368439 original size:47 final size:47
Alignment explanation
Indices: 30368373--30368762 Score: 552
Period size: 47 Copynumber: 8.1 Consensus size: 47
30368363 GAAATGATAG
30368373 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30368420 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30368467 TAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
30368515 TAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30368562 TAA-GCCTAACTACTGGCCGTATGTGATGAATGTGAAAGTGTATATATATTGTGA
1 TAAGGCCT-A--A-TGGCCG-ATGTGATGAATGTGAAAGTG--TATATA-TGTGA
*
30368616 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
30368663 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * *
30368712 -CAGGCCGAGTGGCCAACGTGAATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTG-ATGAATGTGAAAGTGTATATATGTGA
30368759 TAAG
1 TAAG
30368763 TCGCGAAGGG
Statistics
Matches: 313, Mismatches: 14, Indels: 31
0.87 0.04 0.09
Matches are distributed among these distances:
46 34 0.11
47 116 0.37
48 39 0.12
49 53 0.17
50 26 0.08
51 26 0.08
52 1 0.00
53 6 0.02
54 8 0.03
55 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:30368541 original size:95 final size:96
Alignment explanation
Indices: 30368373--30368762 Score: 592
Period size: 95 Copynumber: 4.0 Consensus size: 96
30368363 GAAATGATAG
30368373 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
30368436 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
30368467 TAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAGTGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
30368531 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
30368562 TAA-GCCTAACTACTGGCCGTATGTGATGAATGTGAAAGTGTATATATATTGTGATAGGGCCTAA
1 TAAGGCCT-A--A-TGGCCG-ATGTGATGAATGTGAAAGTGTATATATA-TGTGATAAGGCCTAA
30368626 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
30368663 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA-CAGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * *
30368727 ACGTGAATGGATGTGAAAGTGTATAAATGTGA
66 ATGTG-ATGAATGTGAAAGTGTATATATGTGA
30368759 TAAG
1 TAAG
30368763 TCGCGAAGGG
Statistics
Matches: 273, Mismatches: 12, Indels: 20
0.90 0.04 0.07
Matches are distributed among these distances:
93 30 0.11
94 6 0.02
95 76 0.28
96 34 0.12
97 27 0.10
98 7 0.03
99 7 0.03
100 28 0.10
101 54 0.20
102 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:30368942 original size:37 final size:37
Alignment explanation
Indices: 30368888--30368964 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
30368878 AGCTCTAAAG
* * *
30368888 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
30368925 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
30368962 GAC
1 GAC
30368965 TTCGTAATAA
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:0.22, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:30376118 original size:26 final size:26
Alignment explanation
Indices: 30376088--30376198 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
30376078 AGCATTGCTG
* *
30376088 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
30376114 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
30376141 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
30376168 CCAGATCAGATAAATATGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
30376195 CCAG
1 CCAG
30376199 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 13 0.17
27 62 0.81
28 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:30376636 original size:16 final size:15
Alignment explanation
Indices: 30376615--30376645 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30376605 TAAAATGCTG
30376615 GCTTTTCGACATTTTA
1 GCTTTTCGAC-TTTTA
30376631 GCTTTTCGACTTTTA
1 GCTTTTCGACTTTTA
30376646 CCGATCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (15 bp):
GCTTTTCGACTTTTA
Found at i:30377641 original size:24 final size:24
Alignment explanation
Indices: 30377606--30377706 Score: 166
Period size: 24 Copynumber: 4.2 Consensus size: 24
30377596 CCAACACTGT
*
30377606 TCTCCCTAATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
30377630 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
30377654 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
30377678 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
30377702 TCTCC
1 TCTCC
30377707 TGACAGATTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.26, C:0.41, G:0.01, T:0.33
Consensus pattern (24 bp):
TCTCCCTTATCAACTCCTAAATCC
Found at i:30381442 original size:25 final size:25
Alignment explanation
Indices: 30381413--30381488 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
30381403 AGACCATGGT
30381413 TGAAAGATATCATGGCAACATGATA
1 TGAAAGATATCATGGCAACATGATA
* * *
30381438 TGAAATG-TAT-A-AG-ACCATGGT-
1 TGAAA-GATATCATGGCAACATGATA
* *
30381459 TGAAAGACACCATGGCAACATGATA
1 TGAAAGATATCATGGCAACATGATA
30381484 TGAAA
1 TGAAA
30381489 TGTGTAAGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 6 0.16
22 7 0.19
23 2 0.05
24 7 0.19
25 13 0.35
26 1 0.03
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.22
Consensus pattern (25 bp):
TGAAAGATATCATGGCAACATGATA
Found at i:30381443 original size:46 final size:46
Alignment explanation
Indices: 30381391--30381847 Score: 623
Period size: 46 Copynumber: 10.0 Consensus size: 46
30381381 GCTTTCTGAA
*
30381391 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
30381437 ATGAAATGTATAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
30381483 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
30381529 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
30381575 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
30381621 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA-GTAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG-AT
* *
30381667 ATAAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *** * ** * *
30381712 CGGGAATCAATAAGACCATGGTTGAAAGATACTATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** *
30381758 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
30381804 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
30381848 TCAAAGATAA
Statistics
Matches: 367, Mismatches: 40, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
45 35 0.10
46 331 0.90
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:30381462 original size:21 final size:21
Alignment explanation
Indices: 30381392--30381463 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
30381382 CTTTCTGAAA
*
30381392 TGAAATGTGTAAGACCATGGT
1 TGAAATGTATAAGACCATGGT
* * *
30381413 TGAAA-GATATCATGGCAACATGAT
1 TGAAATG-TAT-A-AG-ACCATGGT
30381437 ATGAAATGTATAAGACCATGGT
1 -TGAAATGTATAAGACCATGGT
30381459 TGAAA
1 TGAAA
30381464 GACACCATGG
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
20 1 0.03
21 12 0.32
22 7 0.18
23 2 0.05
24 7 0.18
25 8 0.21
26 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (21 bp):
TGAAATGTATAAGACCATGGT
Found at i:30382149 original size:16 final size:17
Alignment explanation
Indices: 30382128--30382160 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30382118 ATGATGGAGC
30382128 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
30382144 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
30382161 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:30385839 original size:38 final size:38
Alignment explanation
Indices: 30385796--30385871 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
30385786 TTCATCCTTT
30385796 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
30385834 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
30385872 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:30392669 original size:16 final size:16
Alignment explanation
Indices: 30392648--30392700 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
30392638 ATGAATCAGC
*
30392648 AAAAGTCGAAATGCCA
1 AAAAGTCGAAATGCCG
*
30392664 AAAAGTCGAAATACCG
1 AAAAGTCGAAATGCCG
30392680 AAAAGTCGAAATGCCG
1 AAAAGTCGAAATGCCG
30392696 AAAAG
1 AAAAG
30392701 CTAAAAGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.51, C:0.17, G:0.21, T:0.11
Consensus pattern (16 bp):
AAAAGTCGAAATGCCG
Found at i:30392971 original size:29 final size:29
Alignment explanation
Indices: 30392916--30392986 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
30392906 GTGAGCATGA
*
30392916 ATATGAATGTGA-CTGGGCATAACGGGCC
1 ATATGAATGTGATTTGGGCATAACGGGCC
* * *
30392944 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCATAACGGGCC
*
30392973 ATATGAATATGATT
1 ATATGAATGTGATT
30392987 CGCCTTCATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 11 0.31
29 25 0.69
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCATAACGGGCC
Found at i:30396085 original size:42 final size:42
Alignment explanation
Indices: 30396026--30396110 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
30396016 GATCATGTGT
30396026 TAGGCTTATGAGCCTAATTGGGTAGTGATATAGTACGATGTA
1 TAGGCTTATGAGCCTAATTGGGTAGTGATATAGTACGATGTA
*
30396068 TAGGCTTATGAGCCTAATTGGGTTGTGATATAGTACGATGTA
1 TAGGCTTATGAGCCTAATTGGGTAGTGATATAGTACGATGTA
30396110 T
1 T
30396111 GTACTTAAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.09, G:0.28, T:0.35
Consensus pattern (42 bp):
TAGGCTTATGAGCCTAATTGGGTAGTGATATAGTACGATGTA
Found at i:30398734 original size:16 final size:18
Alignment explanation
Indices: 30398702--30398734 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
30398692 ATGTATCAAT
30398702 ATGCTCAATTCCACAAAC
1 ATGCTCAATTCCACAAAC
30398720 ATGCT-AATT-CACAAA
1 ATGCTCAATTCCACAAA
30398735 TCATCACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.24
Consensus pattern (18 bp):
ATGCTCAATTCCACAAAC
Found at i:30400685 original size:2 final size:2
Alignment explanation
Indices: 30400678--30400713 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
30400668 CGAATTCATT
30400678 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
30400714 TATATATATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:30400956 original size:39 final size:38
Alignment explanation
Indices: 30400903--30401021 Score: 132
Period size: 39 Copynumber: 3.1 Consensus size: 38
30400893 GAATACATTA
* *
30400903 CTAGCGTA-AGCCTGCGGGTCTTTAATCCGGATATTTTT
1 CTAGCATATAGCCTGCGGGTC-TCAATCCGGATATTTTT
* ** *
30400941 CTAGCATGTAGCCTGCGGACCTCAAGTCCGGATATATTT
1 CTAGCATATAGCCTGCGGGTCTCAA-TCCGGATATTTTT
* *
30400980 CTAGCATATAGCCTGCGGATCTCATGTCCGGATATTTTT
1 CTAGCATATAGCCTGCGGGTCTCA-ATCCGGATATTTTT
30401019 CTA
1 CTA
30401022 TCTCAAACAC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
38 9 0.13
39 59 0.87
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (38 bp):
CTAGCATATAGCCTGCGGGTCTCAATCCGGATATTTTT
Found at i:30404069 original size:9 final size:8
Alignment explanation
Indices: 30404053--30404087 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
30404043 TATGATGTGA
*
30404053 TTAATTTT
1 TTAAATTT
30404061 TTAAATTT
1 TTAAATTT
30404069 TTAAATTT
1 TTAAATTT
30404077 TTAAATGTT
1 TTAAAT-TT
30404086 TT
1 TT
30404088 TGATTGTACG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 21 0.84
9 4 0.16
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (8 bp):
TTAAATTT
Found at i:30407077 original size:20 final size:19
Alignment explanation
Indices: 30407038--30407077 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
30407028 TCCCCTGTAG
*
30407038 TTTGAAAAATTTTCTAAGT
1 TTTGAAAAATTTCCTAAGT
*
30407057 TTTGTAAAAATTTCCTGAGT
1 TTTG-AAAAATTTCCTAAGT
30407077 T
1 T
30407078 ATCAGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTGAAAAATTTCCTAAGT
Found at i:30411722 original size:42 final size:42
Alignment explanation
Indices: 30411648--30411800 Score: 155
Period size: 42 Copynumber: 3.6 Consensus size: 42
30411638 GATGCCAATT
* * * ** *
30411648 CCATGTCCCAAACATGGTCTTACATGGGATCTCACATCGATG
1 CCATATCCCAAATATGGTCTTACACGAAATCTCATATCGATG
* * * *
30411690 CCATATCCCATATATAGTCTTATACGAAATCTCATTTCGATG
1 CCATATCCCAAATATGGTCTTACACGAAATCTCATATCGATG
* * * *
30411732 CCATGTCCCAAACT-TGGTCTTACACAAAATCTCATATCAACG
1 CCATATCCCAAA-TATGGTCTTACACGAAATCTCATATCGATG
*
30411774 CCATATCCCAGATATGGTCTTACACGA
1 CCATATCCCAAATATGGTCTTACACGA
30411801 TAACACATAA
Statistics
Matches: 88, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
41 1 0.01
42 86 0.98
43 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (42 bp):
CCATATCCCAAATATGGTCTTACACGAAATCTCATATCGATG
Found at i:30413907 original size:45 final size:46
Alignment explanation
Indices: 30413807--30413937 Score: 139
Period size: 45 Copynumber: 3.0 Consensus size: 46
30413797 TTTTCTCAAA
* *
30413807 TCACCGGCATT-TTGCCTGTTAGGCTCG-AGGCCCG-ATA-TCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTCAGT
30413849 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTCAGT
** * * **
30413893 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCTGGAATAGTCA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTCA
30413938 AGTCAACAAG
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 40 0.53
46 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (46 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTCAGT
Found at i:30414378 original size:38 final size:38
Alignment explanation
Indices: 30414322--30414561 Score: 345
Period size: 38 Copynumber: 6.3 Consensus size: 38
30414312 GGCATGAAGG
* * * *
30414322 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
30414360 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* **
30414398 CCCGGATATAATACTAGCACGAAGCCTGTAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
30414436 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
* *
30414475 GCCCGGATATAATACCAACACGAAGCCTGCGAGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
30414514 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
30414552 CCCGGATATA
1 CCCGGATATA
30414562 CATCGAATAT
Statistics
Matches: 179, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
38 141 0.79
39 10 0.06
40 28 0.16
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:30414535 original size:116 final size:114
Alignment explanation
Indices: 30414333--30414560 Score: 366
Period size: 116 Copynumber: 2.0 Consensus size: 114
30414323 CCGAATATAA
* * * * *
30414333 TACCAGCACTAGGCCTGCGGGATTTATCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 TACCAGCACGAAGCCTGCGGGATTTAGCCCGGATATAATACCAACACGAAGCCTGCGAGATTTAA
*
30414398 CCCGGATATAATACTAGCACGAAGCCTGTAGGATTTAACCCGGATATTT
66 CCCGGATATAATACCAGCACGAAGCCTGTAGGATTTAACCCGGATATTT
*
30414447 TACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATAATACCAACACGAAGCCTGCGAGATTT
1 TACCAGCACGAAGCCTGCGGG-ATTT-AGCCCGGATATAATACCAACACGAAGCCTGCGAGATTT
*
30414512 AACCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGGATAT
64 AACCCGGATATAATACCAGCACGAAGCCTGTAGGATTTAACCCGGATAT
30414561 ACATCGAATA
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
114 19 0.18
115 3 0.03
116 82 0.79
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (114 bp):
TACCAGCACGAAGCCTGCGGGATTTAGCCCGGATATAATACCAACACGAAGCCTGCGAGATTTAA
CCCGGATATAATACCAGCACGAAGCCTGTAGGATTTAACCCGGATATTT
Found at i:30418941 original size:16 final size:17
Alignment explanation
Indices: 30418916--30418965 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
30418906 TTTTCTTACT
30418916 TTAT-TAAATTATTATA
1 TTATATAAATTATTATA
*
30418932 TTATAT-AATTATTATT
1 TTATATAAATTATTATA
* *
30418948 TTATTTAAATTATAATA
1 TTATATAAATTATTATA
30418965 T
1 T
30418966 GAATTATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATAAATTATTATA
Found at i:30419944 original size:51 final size:51
Alignment explanation
Indices: 30419822--30419944 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
30419812 AAAACTAAGT
* * *
30419822 TATCCAGATGAAATATGAAGCTCTTGCTGAAACTAGAACAATAAAGTAATA
1 TATCCAGATGAAATATGAAGTTCTTGCTGAAACCAGAACAACAAAGTAATA
* * *
30419873 TATCCGGATGAAATATGAAGTTCTTGTTGAAGCCAGAACAACAAAGTAATA
1 TATCCAGATGAAATATGAAGTTCTTGCTGAAACCAGAACAACAAAGTAATA
* *
30419924 -ATTCCAAATGAAGTATGAAGT
1 TA-TCCAGATGAAATATGAAGT
30419945 AAGTTTGGGA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 1 0.02
51 61 0.98
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (51 bp):
TATCCAGATGAAATATGAAGTTCTTGCTGAAACCAGAACAACAAAGTAATA
Found at i:30420543 original size:30 final size:27
Alignment explanation
Indices: 30420480--30420548 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 27
30420470 ATGCCTTATT
*
30420480 GGTGTGTTTGGGAGGATATGATATACT
1 GGTGTGTTTGGGAGGATATGATATACG
* *
30420507 GGTGTGTTTGGGAGGATTTGTAATATTCAG
1 GGTGTGTTTGGGAGGATATG--ATATAC-G
30420537 GGTGTGTTTGGG
1 GGTGTGTTTGGG
30420549 TTGGATATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.53
29 5 0.14
30 12 0.33
ACGTcount: A:0.17, C:0.03, G:0.41, T:0.39
Consensus pattern (27 bp):
GGTGTGTTTGGGAGGATATGATATACG
Found at i:30421023 original size:2 final size:2
Alignment explanation
Indices: 30421016--30421041 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30421006 ACATGAGTTT
30421016 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
30421042 GGTTAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30426507 original size:16 final size:15
Alignment explanation
Indices: 30426483--30426548 Score: 55
Period size: 16 Copynumber: 4.4 Consensus size: 15
30426473 TAAAAATAAA
*
30426483 TAATTTAATCATAATT
1 TAATATAAT-ATAATT
*
30426499 TAATATAATTATTATT
1 TAATATAA-TATAATT
* *
30426515 AAATATAATTTAA--
1 TAATATAATATAATT
*
30426528 TAATATAATATAATA
1 TAATATAATATAATT
30426543 TAATAT
1 TAATAT
30426549 TTAATAATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
13 11 0.28
15 9 0.22
16 19 0.47
17 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATATAATATAATT
Found at i:30426535 original size:5 final size:5
Alignment explanation
Indices: 30426478--30426548 Score: 51
Period size: 5 Copynumber: 14.4 Consensus size: 5
30426468 AAAAATAAAA
* * *
30426478 ATAA- ATAAT TTAAT CATAAT TTAAT ATAAT -TATT ATTAAAT ATAAT
1 ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT A-T-AAT ATAAT
*
30426524 -TTA- ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
30426549 TTAATAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
4 11 0.21
5 32 0.62
6 6 0.12
7 3 0.06
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (5 bp):
ATAAT
Found at i:30426546 original size:60 final size:62
Alignment explanation
Indices: 30426437--30426614 Score: 179
Period size: 60 Copynumber: 2.8 Consensus size: 62
30426427 GTTATTAAAT
* *
30426437 TTTAAT-TGAATTATTATTAAA-ATAAATTAAGAAAAATAAAAATAAAT-A-ATTTAATCATA-A
1 TTTAATAT-AATTATTATTAAATAT-AATTAA-TAAAATAAAAATAAATAATATTTAATAATATA
* * *
30426497 TTTAATATAATTATTATTAAATATAATTTAATAATAT-AATATAATATAATATTTAATAATATT
1 TTTAATATAATTATTATTAAATATAA-TTAATAAAATAAAAATAA-ATAATATTTAATAATATA
* *
30426560 TTTAATATAATTACTATTAAAATATGAATTAATAAAAATAAAAATATATAATATT
1 TTTAATATAATTATTATT-AAATAT-AATTAAT-AAAATAAAAATAAATAATATT
30426615 AGAAAATTAA
Statistics
Matches: 98, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
59 6 0.06
60 27 0.28
61 8 0.08
62 10 0.10
63 17 0.17
64 11 0.11
65 14 0.14
66 5 0.05
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (62 bp):
TTTAATATAATTATTATTAAATATAATTAATAAAATAAAAATAAATAATATTTAATAATATA
Found at i:30433896 original size:40 final size:40
Alignment explanation
Indices: 30433838--30433918 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
30433828 TTAATGATGA
* * *
30433838 TTTTGCTGGAGACGTAGATAGAATGAGATCTCTTATAGGT
1 TTTTGCTGGAAACCTAGATAGAAGGAGATCTCTTATAGGT
30433878 TTTTGCTGGAAACCTAGATAGAAGGAGATCTCTTATAGGT
1 TTTTGCTGGAAACCTAGATAGAAGGAGATCTCTTATAGGT
30433918 T
1 T
30433919 ATGTCTTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (40 bp):
TTTTGCTGGAAACCTAGATAGAAGGAGATCTCTTATAGGT
Found at i:30434921 original size:6 final size:6
Alignment explanation
Indices: 30434910--30434939 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
30434900 TCGACTGAGG
30434910 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
30434940 GTGGGGGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:30436077 original size:15 final size:15
Alignment explanation
Indices: 30436057--30436088 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
30436047 GAAAAGAAAG
30436057 AAAGGAAATAAAATA
1 AAAGGAAATAAAATA
30436072 AAAGGAAATAAAATA
1 AAAGGAAATAAAATA
30436087 AA
1 AA
30436089 TTCAATCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAGGAAATAAAATA
Found at i:30436102 original size:7 final size:7
Alignment explanation
Indices: 30436090--30436121 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
30436080 TAAAATAAAT
30436090 TCAATCA
1 TCAATCA
30436097 TCAATCA
1 TCAATCA
30436104 TCAATCA
1 TCAATCA
30436111 TCAATCA
1 TCAATCA
30436118 TCAA
1 TCAA
30436122 GCAAAAAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
TCAATCA
Found at i:30441778 original size:17 final size:17
Alignment explanation
Indices: 30441752--30441785 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30441742 ATACTTTATA
*
30441752 TTTCAAGTTTTCCATAT
1 TTTCAAGTTTTACATAT
*
30441769 TTTCATGTTTTACATAT
1 TTTCAAGTTTTACATAT
30441786 ACATGCAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTCAAGTTTTACATAT
Found at i:30444578 original size:277 final size:276
Alignment explanation
Indices: 30444074--30444841 Score: 1205
Period size: 277 Copynumber: 2.8 Consensus size: 276
30444064 GTTTCTGCTA
* *
30444074 CTCATCAATGTGGATGATTCTGTCTAGCAAAATATTATCTAATGCTTAAACTGCCATTGACCATT
1 CTCATCAATGTGGATGATTCTGTCTAGCAAAATATTATCCAATGCTT-AACAGCCATTGACCATT
* *
30444139 CTACTTCCAA-CTAGACTACCAGTCATGTGGATAGGATTTTCTACTGAGTAACCTTTTGCTCAAT
65 CTACTTCCAAGC-AGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACCTTTTGCTCAAT
* * * *
30444203 GATCCATCTTTTTGGTCTAGCTGATTTATGGCAACCCTTTTAAGCAGTTCCAATGGTACAAAATG
129 GATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAAAAG
* *
30444268 TAGTTTGACCCATACCCATTCACGTGGATAGGATTTTCTACCAAGTAGCCTTATGCTCAATGATC
194 TAGTTTGACCCATACCCATTCACGTGAATAGGATTTTCTA-CAAGTAACCTTATGCTCAATGATC
30444333 CATCTTTTTGATCTAGCTG
258 CATCTTTTTGATCTAGCTG
* * * * ** *
30444352 TTCGTCAATGTCGATGATTCTGTCTGGCAAAATATTATCCAATGCTTGGCAACCATTGACCATTC
1 CTCATCAATGTGGATGATTCTGTCTAGCAAAATATTATCCAATGCTTAACAGCCATTGACCATTC
* *
30444417 TACTTCCAAGCAGACTACCATTCATGTGGATAGGATTTTCTACCGGGTAGCCTTTTGCTCAATGA
66 TACTTCCAAGCAGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACCTTTTGCTCAATGA
**
30444482 TCCATCTTTTTGATCTAGCTGATTTATGGTAGTCCTTTTAAGCAGTTCCAATGATACAAAAAGTA
131 TCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAAAAGTA
* * *
30444547 GTTTGACCCATACCCATTCATGTGAATAGGATTTTCTACGAGTAACCTTTTGCTCAATGATCCAT
196 GTTTGACCCATACCCATTCACGTGAATAGGATTTTCTACAAGTAACCTTATGCTCAATGATCCAT
30444612 CTTTTTGATCTAGCTG
261 CTTTTTGATCTAGCTG
* * *
30444628 CTCATCAGTGTGGATTATTCTGTCTAGCAAAATATTATCCAATGCTAAACAGCCATTGACCATTC
1 CTCATCAATGTGGATGATTCTGTCTAGCAAAATATTATCCAATGCTTAACAGCCATTGACCATTC
* * *
30444693 TACTTACAAGTAGACTACCATTCATGTGGATAGGATTTCCTACCGAGTAACCTTTTTGCTCAATG
66 TACTTCCAAGCAGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACC-TTTTGCTCAATG
* *
30444758 ATCCATCTTTTTGATCTAGCTGATTTATAGTAACCCTTGTAAGCAGTTCCAATGATACAAAAAGT
130 ATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAAAAGT
30444823 AGTTTGACCCATACCCATT
195 AGTTTGACCCATACCCATT
30444842 AGCTGGATCC
Statistics
Matches: 445, Mismatches: 43, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
276 142 0.32
277 260 0.58
278 43 0.10
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (276 bp):
CTCATCAATGTGGATGATTCTGTCTAGCAAAATATTATCCAATGCTTAACAGCCATTGACCATTC
TACTTCCAAGCAGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACCTTTTGCTCAATGA
TCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAAAAGTA
GTTTGACCCATACCCATTCACGTGAATAGGATTTTCTACAAGTAACCTTATGCTCAATGATCCAT
CTTTTTGATCTAGCTG
Found at i:30448220 original size:20 final size:20
Alignment explanation
Indices: 30448192--30448231 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30448182 CTCTAATTAG
*
30448192 AATCTCTAAAAATCAGCTAT
1 AATCCCTAAAAATCAGCTAT
* *
30448212 AATCCCTAAAGATTAGCTAT
1 AATCCCTAAAAATCAGCTAT
30448232 TCAATGCTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (20 bp):
AATCCCTAAAAATCAGCTAT
Found at i:30455840 original size:16 final size:17
Alignment explanation
Indices: 30455804--30455840 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
30455794 AGTATACTTA
*
30455804 ATAATATTTATAGTAAT
1 ATAATATTTATAGAAAT
30455821 -TAATATTTA-AGAAAT
1 ATAATATTTATAGAAAT
30455836 ATAAT
1 ATAAT
30455841 TTATATTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (17 bp):
ATAATATTTATAGAAAT
Found at i:30457441 original size:136 final size:135
Alignment explanation
Indices: 30457281--30457555 Score: 523
Period size: 136 Copynumber: 2.0 Consensus size: 135
30457271 ATGATTCCTG
30457281 TTTTGAAAGATTAATTTTTTATACATTAAGATGAAAAATGGTTCTCTTTACTATTTTCTTTTCTC
1 TTTTGAAAGATTAATTTTTTATACATTAAGATGAAAAATGGTTCTCTTTACTATTTTCTTTTCTC
*
30457346 TTACTCTTATTATCTGTCAAGCACATTCAATATTTATTTATTTTTTTATTTTTCTCTTCTCTCTT
66 TTACTCTCATTATCTGTCAAGCACATTCAATATTTATTTA-TTTTTTATTTTTCTCTTCTCTCTT
30457411 CTCATC
130 CTCATC
*
30457417 TTTTGAAAGATTGATTTTTTATACATTAAGATGAAAAATGGTTCTCTTTACTATTTTCTTTTCTC
1 TTTTGAAAGATTAATTTTTTATACATTAAGATGAAAAATGGTTCTCTTTACTATTTTCTTTTCTC
30457482 TTACTCTCATTATCTGTCAAGCACATTCAATATTTATTTATTTTTTATTTTTCTCTTCTCTCTTC
66 TTACTCTCATTATCTGTCAAGCACATTCAATATTTATTTATTTTTTATTTTTCTCTTCTCTCTTC
30457547 TCATC
131 TCATC
30457552 TTTT
1 TTTT
30457556 TATTTTTCCA
Statistics
Matches: 137, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
135 34 0.25
136 103 0.75
ACGTcount: A:0.24, C:0.16, G:0.06, T:0.54
Consensus pattern (135 bp):
TTTTGAAAGATTAATTTTTTATACATTAAGATGAAAAATGGTTCTCTTTACTATTTTCTTTTCTC
TTACTCTCATTATCTGTCAAGCACATTCAATATTTATTTATTTTTTATTTTTCTCTTCTCTCTTC
TCATC
Found at i:30458258 original size:24 final size:24
Alignment explanation
Indices: 30458214--30458259 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
30458204 ACATACAAAG
* *
30458214 TTATGCTTTTTTTTTCCAAAAATT
1 TTATGCTTTTTTCTACCAAAAATT
30458238 TTATGC-TTTTTCTACCTAAAAA
1 TTATGCTTTTTTCTACC-AAAAA
30458260 AAAGCCGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.52
Consensus pattern (24 bp):
TTATGCTTTTTTCTACCAAAAATT
Found at i:30461878 original size:30 final size:31
Alignment explanation
Indices: 30461839--30461901 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
30461829 TGGAGAGGAA
30461839 AGAAAAAAAATAAAAACAAAAGGTGTAATTC
1 AGAAAAAAAATAAAAACAAAAGGTGTAATTC
30461870 AGAAAAAAAATAAAAACAAAAGGTGTAATTC
1 AGAAAAAAAATAAAAACAAAAGGTGTAATTC
30461901 A
1 A
30461902 CCTTGTCTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (31 bp):
AGAAAAAAAATAAAAACAAAAGGTGTAATTC
Found at i:30463189 original size:10 final size:10
Alignment explanation
Indices: 30463176--30463211 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
30463166 GAGCTCCATC
*
30463176 CAGCTCAATT
1 CAGCTCATTT
30463186 CAGCTCATTT
1 CAGCTCATTT
*
30463196 AAGCTCATTT
1 CAGCTCATTT
30463206 CAGCTC
1 CAGCTC
30463212 GTTTGAGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (10 bp):
CAGCTCATTT
Found at i:30467632 original size:48 final size:48
Alignment explanation
Indices: 30467554--30467872 Score: 428
Period size: 48 Copynumber: 6.6 Consensus size: 48
30467544 AACCCGTATA
* *
30467554 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCCAATGTGAAATATATGTGTGATATG
* * * *
30467604 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCCAATGTGAAATATATGTGTGATATG
* *
30467652 TATATGTGGTAAAGCCGAATGACTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCCAATGTGAAATATATGTGTGATATG
* * * *
30467700 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCCAATGTGAAATATATGTGTGATATG
30467748 TATATGTGGTAAAGCCGAATGGCCAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCCAATGTGAAATATATGTGTGATATG
* * *
30467796 TATATGTGGTAAAGCCGAATGGCCAATGTG--ATAAATGTGAG-CATG
1 TATATGTGGTAAAGCCGAATGGCCAATGTGAAATATATGTGTGATATG
* *
30467841 CATATATGTGATAAGGCCGAATGGCCAATGTG
1 --TATATGTGGTAAAGCCGAATGGCCAATGTG
30467873 GTGAATATGA
Statistics
Matches: 243, Mismatches: 24, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
45 3 0.01
46 9 0.04
47 28 0.12
48 194 0.80
49 1 0.00
50 8 0.03
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCCAATGTGAAATATATGTGTGATATG
Found at i:30467682 original size:96 final size:96
Alignment explanation
Indices: 30467554--30467872 Score: 493
Period size: 96 Copynumber: 3.3 Consensus size: 96
30467544 AACCCGTATA
*
30467554 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
30467619 CGAATGGCGAATGTGAAATATGTATGAGATATG
64 CGAATGGCGAATGTGAAATATGTATGAGATATG
*
30467652 TATATGTGGTAAAGCCGAATGACTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
30467717 AATGGCGAATGTGAAATATGTATGAGATATG
66 AATGGCGAATGTGAAATATGTATGAGATATG
*
30467748 TATATGTGGTAAAGCCGAATGGCCAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
* *
30467813 AATGGCCAATGTGATAA-ATG--TGAG-CATG
66 AATGGCGAATGTGA-AATATGTATGAGATATG
* * *
30467841 CATATATGTGATAAGGCCGAATGGCCAATGTG
1 --TATATGTGGTAAAGCCGAATGGCTAATGTG
30467873 GTGAATATGA
Statistics
Matches: 210, Mismatches: 8, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
93 3 0.01
94 4 0.02
95 28 0.13
96 164 0.78
97 3 0.01
98 8 0.04
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (96 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
AATGGCGAATGTGAAATATGTATGAGATATG
Found at i:30467729 original size:144 final size:146
Alignment explanation
Indices: 30467554--30467925 Score: 447
Period size: 144 Copynumber: 2.6 Consensus size: 146
30467544 AACCCGTATA
* * * *
30467554 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
1 TATATGTGTGATAAAGCCGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGC
* * *
30467619 CGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGACTAATGTGAA
66 CGAATGGCCAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGACCAATGTGAA
30467684 ATATATGTGTGATATG
131 ATATATGTGTGATATG
*
30467700 TATATGTG-G-TAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGC
1 TATATGTGTGATAAAGCCGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGC
* * *
30467763 CGAATGGCCAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCCAATGTG--
66 CGAATGGCCAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGACCAATGTGAA
* * *
30467826 ATAAATGTGAG-CATG
131 ATATATGTGTGATATG
* * * * * * *
30467841 CATATATGTGATAAGGCCGAATGGCCAATGTG--GTGA-ATATGA-AAATGCATATATGCGGTAA
1 TATATGTGTGATAAAGCCGAATGGCGAATGTGAAAT-ATATATGAGATATG--TATATGTGGTAA
* *
30467902 AGCCGAATGGCTAGTGTGAAATAT
63 AGCCGAATGGCCAATGTGAAATAT
30467926 GTAGGCGATG
Statistics
Matches: 197, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
140 4 0.02
141 15 0.08
142 44 0.22
143 19 0.10
144 106 0.54
145 1 0.01
146 8 0.04
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (146 bp):
TATATGTGTGATAAAGCCGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGC
CGAATGGCCAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGACCAATGTGAA
ATATATGTGTGATATG
Found at i:30468125 original size:37 final size:37
Alignment explanation
Indices: 30468075--30468226 Score: 250
Period size: 37 Copynumber: 4.1 Consensus size: 37
30468065 GGAAATATAT
*
30468075 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
30468112 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
30468149 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
** * *
30468186 TCCGGGTAAGACCCGACAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
30468223 TCCG
1 TCCG
30468227 AGCTAAAGGT
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 108 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:30469812 original size:40 final size:40
Alignment explanation
Indices: 30469511--30469800 Score: 449
Period size: 40 Copynumber: 7.2 Consensus size: 40
30469501 GGGCTAAATC
30469511 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
30469551 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
30469591 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
30469631 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
*
30469671 CCGAAGAGCATTCGTGCTAGTGATGTATCTGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
* * * *
30469711 CCGAAGAGCATTCGTTCTAGTGATATATCTGTG-CTAAACTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCG-GACT-AAGTT
* * * * * *
30469752 -CGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
30469791 CCGAAGAGCA
1 CCGAAGAGCA
30469801 ATCATGCTGG
Statistics
Matches: 235, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
39 3 0.01
40 227 0.97
41 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
Found at i:30473909 original size:48 final size:48
Alignment explanation
Indices: 30473831--30474102 Score: 422
Period size: 48 Copynumber: 5.6 Consensus size: 48
30473821 AACCCGTATA
* *
30473831 TATATGTGTGATAAGGCTGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* * * *
30473881 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
30473929 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* *
30473977 TATATGTGGTAAAGCCGAATGGCGAATGTG-AA-ATATGATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATG-TGTGATATG
30474024 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
*
30474072 TATATGTGGTAAAGCCGAATGGCCAATGTGA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGA
30474103 TAAATGTGAG
Statistics
Matches: 204, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
46 5 0.02
47 39 0.19
48 146 0.72
49 6 0.03
50 8 0.04
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
Found at i:30474040 original size:47 final size:47
Alignment explanation
Indices: 30473831--30474202 Score: 395
Period size: 48 Copynumber: 7.8 Consensus size: 47
30473821 AACCCGTATA
* * *
30473831 TATATGTGTGATAAGGCTGAATGGCTAATGTGAAATAT-ATGTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATGA--TGAGATATG
*
30473881 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG-ATGAGATATG
*
30473929 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT-ATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGA--TGAGATATG
*
30473977 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGATGAGATATG
*
30474024 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT-ATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGA--TGAGATATG
* *
30474072 TATATGTGGTAAAGCCGAATGGCCAATGTGATAA-ATG-TGAG-CATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGATGAGATATG
* * * *
30474117 CATATATGTGATAAGGCCGAATGGCCAATGTGGTGAATATGA--A-A-ATG
1 --TATATGTGGTAAAGCCGAATGGCTAATGT-G-AAATATGATGAGATATG
* *
30474164 CATATATGCGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 --TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
30474203 TAGGCGATGT
Statistics
Matches: 284, Mismatches: 22, Indels: 37
0.83 0.06 0.11
Matches are distributed among these distances:
45 9 0.03
46 6 0.02
47 99 0.35
48 154 0.54
49 7 0.02
50 9 0.03
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGATGAGATATG
Found at i:30474082 original size:95 final size:95
Alignment explanation
Indices: 30473831--30474148 Score: 498
Period size: 95 Copynumber: 3.3 Consensus size: 95
30473821 AACCCGTATA
* *
30473831 TATATGTGTGATAAGGCTGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
30473896 CGAATGGCGAATGTGAAATATGTATGAGATATG
64 CGAATGGCGAATGTGAAATATG-ATGAGATATG
30473929 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
30473994 AATGGCGAATGTGAAATATGATGAGATATG
66 AATGGCGAATGTGAAATATGATGAGATATG
30474024 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
* *
30474089 AATGGCCAATGTGATAA-ATG-TGAG-CATG
66 AATGGCGAATGTGA-AATATGATGAGATATG
* * *
30474117 CATATATGTGATAAGGCCGAATGGCCAATGTG
1 --TATATGTGGTAAAGCCGAATGGCTAATGTG
30474149 GTGAATATGA
Statistics
Matches: 210, Mismatches: 7, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
93 3 0.01
94 4 0.02
95 118 0.56
96 76 0.36
97 1 0.00
98 8 0.04
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.31
Consensus pattern (95 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
AATGGCGAATGTGAAATATGATGAGATATG
Found at i:30474401 original size:37 final size:37
Alignment explanation
Indices: 30474351--30474502 Score: 232
Period size: 37 Copynumber: 4.1 Consensus size: 37
30474341 GGAAATATAT
* *
30474351 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
*
30474388 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
* *
30474425 TCCGGGTAAGACCCGATAACTACGTGTGGATATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
* * *
30474462 TCCGGGTAAGACCCGACAACTTCGTGTGGAGATTAAG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
30474499 TCCG
1 TCCG
30474503 AGCTAGAGGT
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:30480500 original size:40 final size:40
Alignment explanation
Indices: 30480355--30480500 Score: 188
Period size: 40 Copynumber: 3.6 Consensus size: 40
30480345 GCTCCTCGTT
* *
30480355 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
30480395 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
30480435 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
30480476 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30480501 CATCATTCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:30484138 original size:40 final size:41
Alignment explanation
Indices: 30484108--30484292 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
30484098 GCTCCTCGTT
*
30484108 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* *
30484148 CAAATGCCTTCAGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
*
30484188 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * * *
30484227 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
30484268 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30484293 CATCATTCAA
Statistics
Matches: 128, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 2 0.02
39 35 0.27
40 78 0.61
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:30484211 original size:79 final size:81
Alignment explanation
Indices: 30484108--30484292 Score: 245
Period size: 79 Copynumber: 2.3 Consensus size: 81
30484098 GCTCCTCGTT
* *
30484108 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
30484171 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
**
30484188 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
30484252 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
30484268 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30484293 CATCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.60
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:30489457 original size:29 final size:29
Alignment explanation
Indices: 30489418--30489496 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
30489408 CTTAATAATC
*
30489418 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
30489448 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
30489477 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30489497 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:30496454 original size:51 final size:51
Alignment explanation
Indices: 30496337--30496584 Score: 274
Period size: 49 Copynumber: 4.9 Consensus size: 51
30496327 GAAGCTATCT
* * *
30496337 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATAATTT--
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT--TTTCG
* * *
30496386 GGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * * * * *
30496437 GGTACGCATAGTAGCCTGCACTTAGTACTACGCATGCGA-C-CAATTATCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
30496486 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
30496537 GGTACGCAAAGTAGCCTGCACTTAGTACTATACACGTGACCTCACAGT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA--TCACAGT
30496585 AGTTCATTTG
Statistics
Matches: 164, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
49 77 0.47
50 3 0.02
51 77 0.47
53 7 0.04
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (51 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:30496454 original size:100 final size:100
Alignment explanation
Indices: 30496337--30496566 Score: 406
Period size: 100 Copynumber: 2.3 Consensus size: 100
30496327 GAAGCTATCT
**
30496337 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATTTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
30496402 TGTACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
30496437 GGTACGCATAGTAGCCTGCACTTAGTACTACGCATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
30496502 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
*
30496537 GGTACGCAAAGTAGCCTGCACTTAGTACTA
1 GGTACGCATAGTAGCCTGCACTTAGTACTA
30496567 TACACGTGAC
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 124 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:30499086 original size:15 final size:15
Alignment explanation
Indices: 30499037--30499092 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
30499027 CAAGCAAACC
30499037 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
30499052 -AGATAGAA-AAA-CCTA
1 GA-ATA-AAGAAATCC-A
30499067 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
30499082 GAATAAAGAAA
1 GAATAAAGAAA
30499093 CCCAAGATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 5 0.14
15 25 0.71
16 5 0.14
ACGTcount: A:0.62, C:0.11, G:0.14, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:30501262 original size:49 final size:48
Alignment explanation
Indices: 30501190--30501380 Score: 195
Period size: 49 Copynumber: 3.9 Consensus size: 48
30501180 CGAAGCTACC
* * *
30501190 TGGTACGCATAGTAGCCTGCACTTAGTAGTACACATGTGACCAATAATT
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT-ATT
* * *
30501239 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCACAGT-TT
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATATT
* * * * * *
30501288 TCGGGTACGCATAGTAGCCTACGCTTAGTACTACACATGCGACCAATTATC
1 T--GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA-TATT
* *
30501339 TGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
30501381 TCACAATAGT
Statistics
Matches: 114, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
49 74 0.65
50 3 0.03
51 37 0.32
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATATT
Found at i:30501305 original size:100 final size:100
Alignment explanation
Indices: 30501191--30501374 Score: 305
Period size: 100 Copynumber: 1.8 Consensus size: 100
30501181 GAAGCTACCT
* * * *
30501191 GGTACGCATAGTAGCCTGCACTTAGTAGTACACATGTGACCAATAATTTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
30501256 TGCACTTAGTACTACACACATGATCACAGTTTTCG
66 TGCACTTAGTACTACACACATGATCACAGTTTTCG
* * *
30501291 GGTACGCATAGTAGCCTACGCTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCT
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
30501356 TGCACTTAGTACTACACAC
66 TGCACTTAGTACTACACAC
30501375 GTGACCTCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACATGATCACAGTTTTCG
Found at i:30506346 original size:39 final size:39
Alignment explanation
Indices: 30506292--30506509 Score: 303
Period size: 39 Copynumber: 5.5 Consensus size: 39
30506282 TAATGGAGTA
* * *
30506292 TTATATCTGGGCTAAGTCCCAAAGGCATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
30506331 TTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
30506370 TTATATCTGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
30506409 TTATATCCGGGCTAAGCCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
30506448 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
30506487 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
30506510 CATGCTTTGT
Statistics
Matches: 161, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 140 0.87
40 21 0.13
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:30511218 original size:23 final size:23
Alignment explanation
Indices: 30511184--30511229 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
30511174 TTCAACATGT
*
30511184 ACTTTTACTATTTTAACAAATAA
1 ACTTTTAATATTTTAACAAATAA
30511207 ACTTTTAATATTTTAACAAATAA
1 ACTTTTAATATTTTAACAAATAA
30511230 GTCCCTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (23 bp):
ACTTTTAATATTTTAACAAATAA
Found at i:30515967 original size:40 final size:40
Alignment explanation
Indices: 30515889--30516112 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
30515879 ACCCAAGTAT
* *
30515889 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
30515928 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30515968 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
30516008 CTTCGGGACTTAGCCTGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
30516051 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30516091 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
30516113 CATCCGAATA
Statistics
Matches: 164, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 12 0.07
40 116 0.71
41 1 0.01
43 35 0.21
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30516074 original size:83 final size:80
Alignment explanation
Indices: 30515889--30516112 Score: 301
Period size: 83 Copynumber: 2.8 Consensus size: 80
30515879 ACCCAAGTAT
* * *
30515889 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
30515952 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
* *
30515968 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCTGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
30516032 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
30516051 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
30516113 CATCCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
79 13 0.10
80 48 0.38
81 1 0.01
83 66 0.52
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:30524190 original size:40 final size:40
Alignment explanation
Indices: 30524112--30524335 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
30524102 ACCCAAGTAT
* *
30524112 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
30524151 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30524191 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30524231 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
30524274 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30524314 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
30524336 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30524308 original size:83 final size:80
Alignment explanation
Indices: 30524112--30524335 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
30524102 ACCCAAGTAT
* * * *
30524112 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
30524176 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
30524191 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
30524255 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
30524274 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
30524336 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:30528003 original size:43 final size:43
Alignment explanation
Indices: 30527940--30528053 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
30527930 AAATGTGAAT
* * *
30527940 AATATTATCGGGCTTGGGGCCTAGCAGGCTATAATGCCAGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCACTGA
*
30527983 GATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCACTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCACTGA
* **
30528026 AATGATATCGGGCTTCAAGCCTAGCAGG
1 AATAATATCGGGCTTCGGGCCTAGCAGG
30528054 TGAAATGCCG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCACTGA
Found at i:30530182 original size:25 final size:25
Alignment explanation
Indices: 30530148--30530221 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 25
30530138 CCACAACTCG
30530148 TGAGAGCATACCAATTTACAGCTCA
1 TGAGAGCATACCAATTTACAGCTCA
* *
30530173 TGAGAGCATACCTATTTATAGCTCA
1 TGAGAGCATACCAATTTACAGCTCA
*
30530198 TGTA-AGCATACCAATTCACAGCTC
1 TG-AGAGCATACCAATTTACAGCTC
30530222 GTATGAGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
25 42 0.98
26 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (25 bp):
TGAGAGCATACCAATTTACAGCTCA
Found at i:30530230 original size:25 final size:25
Alignment explanation
Indices: 30530151--30530232 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
30530141 CAACTCGTGA
30530151 GAGCATACCAATTTACAGCTCATGA-
1 GAGCATACCAATTTACAGCTCAT-AT
* * *
30530176 GAGCATACCTATTTATAGCTCATGT
1 GAGCATACCAATTTACAGCTCATAT
* * *
30530201 AAGCATACCAATTCACAGCTCGTAT
1 GAGCATACCAATTTACAGCTCATAT
30530226 GAGCATA
1 GAGCATA
30530233 AATGTACAAG
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (25 bp):
GAGCATACCAATTTACAGCTCATAT
Found at i:30534666 original size:31 final size:31
Alignment explanation
Indices: 30534609--30534669 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
30534599 AGACCATGTC
* *
30534609 TGGGACATTGGCATTGTATTATGATTACGTT
1 TGGGACATTGGCATCGTATAATGATTACGTT
30534640 TGGGACATTGGCATCGT-TAATCGATTACGT
1 TGGGACATTGGCATCGTATAAT-GATTACGT
30534670 GTAAGACCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (31 bp):
TGGGACATTGGCATCGTATAATGATTACGTT
Found at i:30546639 original size:18 final size:18
Alignment explanation
Indices: 30546595--30546645 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
30546585 CTTAGCCCAT
* *
30546595 TGCAGTAACAATAAACAG
1 TGCAGTAATAGTAAACAG
*
30546613 TGCAGTAATAGTAATCAG
1 TGCAGTAATAGTAAACAG
30546631 TGCAGTAATAGTAAA
1 TGCAGTAATAGTAAA
30546646 AATATAGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.24
Consensus pattern (18 bp):
TGCAGTAATAGTAAACAG
Found at i:30548676 original size:28 final size:28
Alignment explanation
Indices: 30548629--30548719 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
30548619 GTGACAGAGT
*
30548629 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
* *
30548658 CACCAGAACAGATAGTTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
*
30548686 CACCAGAATAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
30548714 CACCAG
1 CACCAG
30548720 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:30550805 original size:40 final size:40
Alignment explanation
Indices: 30550700--30550916 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
30550690 CGGATGATAA
* *
30550700 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
30550740 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
30550779 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
30550819 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
30550859 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
30550899 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
30550917 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
39 52 0.31
40 116 0.69
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:30559046 original size:40 final size:40
Alignment explanation
Indices: 30558989--30559203 Score: 310
Period size: 40 Copynumber: 5.4 Consensus size: 40
30558979 CGGATGATAA
* *
30558989 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
30559029 CTGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
30559069 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
30559109 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
30559149 CTGGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
30559189 CC-GGCTAAATCCCGA
1 CCGGGCTAAGTCCCGA
30559204 GGGTACTAGG
Statistics
Matches: 160, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 145 0.91
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:30560661 original size:28 final size:28
Alignment explanation
Indices: 30560614--30560681 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
30560604 AAATAAACCC
* *
30560614 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
30560642 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
30560670 TAGGGGTATAAT
1 TAGGGGTATAAT
30560682 AGTATATCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:30568253 original size:28 final size:28
Alignment explanation
Indices: 30568222--30568304 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
30568212 GCTGCTAGAT
*
30568222 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATAATTTGTGGCAGTGCCACCAGA
*
30568250 ACAGATAATTTGTGGCAGGGCCACCAGA
1 ACAGATAATTTGTGGCAGTGCCACCAGA
30568278 ACAGATAATTTGTGGCA-TAGCCACCAG
1 ACAGATAATTTGTGGCAGT-GCCACCAG
30568305 GACGCTTGCT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (28 bp):
ACAGATAATTTGTGGCAGTGCCACCAGA
Found at i:30568457 original size:28 final size:28
Alignment explanation
Indices: 30568410--30568474 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
30568400 AAATTAACCC
*
30568410 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
30568438 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
30568466 TA-GGGTATA
1 TAGGGGTATA
30568475 GTAATCTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 7 0.20
28 28 0.80
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:30572474 original size:441 final size:441
Alignment explanation
Indices: 30571652--30572533 Score: 1764
Period size: 441 Copynumber: 2.0 Consensus size: 441
30571642 AAATTAGAGT
30571652 GCATGATATTCTGCTATTGATGAATGTTATAATTATATGAGTATATGAGTTGGGATATTTGGTCT
1 GCATGATATTCTGCTATTGATGAATGTTATAATTATATGAGTATATGAGTTGGGATATTTGGTCT
30571717 ATGAGCTATGTGTTAAGTACAAAAGTGATCATAAGTAAATGATTGTTAAGTATTTTGAGAATGTG
66 ATGAGCTATGTGTTAAGTACAAAAGTGATCATAAGTAAATGATTGTTAAGTATTTTGAGAATGTG
30571782 GAATTAGTAATGAATTGGCCATTCATACTAGTATGTGTGATGTGCATGTTTGTATGAGAGTTAAA
131 GAATTAGTAATGAATTGGCCATTCATACTAGTATGTGTGATGTGCATGTTTGTATGAGAGTTAAA
30571847 TTTTAGGCTTTACAACCCTCAACCCCTCATCGGTAAAGTATTGTAATGAACTTTGTAACATATAG
196 TTTTAGGCTTTACAACCCTCAACCCCTCATCGGTAAAGTATTGTAATGAACTTTGTAACATATAG
30571912 ATTAAATAAGCTTACAAGTGCGGAATTATAGAGTTTCGTGATTGAAGAATTAGTACTATGATCAG
261 ATTAAATAAGCTTACAAGTGCGGAATTATAGAGTTTCGTGATTGAAGAATTAGTACTATGATCAG
30571977 ATAAGAGAATGGGTCTACAAGTGAAGAGAGTAACAGAAAAGATATTGGATCGTGTTGAAGGCCAT
326 ATAAGAGAATGGGTCTACAAGTGAAGAGAGTAACAGAAAAGATATTGGATCGTGTTGAAGGCCAT
30572042 TTGTAATATGCAAAGTCTCTGTTAAAGAAGGAGTTGAATTCAATGAGATGA
391 TTGTAATATGCAAAGTCTCTGTTAAAGAAGGAGTTGAATTCAATGAGATGA
30572093 GCATGATATTCTGCTATTGATGAATGTTATAATTATATGAGTATATGAGTTGGGATATTTGGTCT
1 GCATGATATTCTGCTATTGATGAATGTTATAATTATATGAGTATATGAGTTGGGATATTTGGTCT
30572158 ATGAGCTATGTGTTAAGTACAAAAGTGATCATAAGTAAATGATTGTTAAGTATTTTGAGAATGTG
66 ATGAGCTATGTGTTAAGTACAAAAGTGATCATAAGTAAATGATTGTTAAGTATTTTGAGAATGTG
30572223 GAATTAGTAATGAATTGGCCATTCATACTAGTATGTGTGATGTGCATGTTTGTATGAGAGTTAAA
131 GAATTAGTAATGAATTGGCCATTCATACTAGTATGTGTGATGTGCATGTTTGTATGAGAGTTAAA
30572288 TTTTAGGCTTTACAACCCTCAACCCCTCATCGGTAAAGTATTGTAATGAACTTTGTAACATATAG
196 TTTTAGGCTTTACAACCCTCAACCCCTCATCGGTAAAGTATTGTAATGAACTTTGTAACATATAG
30572353 ATTAAATAAGCTTACAAGTGCGGAATTATAGAGTTTCGTGATTGAAGAATTAGTACTATGATCAG
261 ATTAAATAAGCTTACAAGTGCGGAATTATAGAGTTTCGTGATTGAAGAATTAGTACTATGATCAG
30572418 ATAAGAGAATGGGTCTACAAGTGAAGAGAGTAACAGAAAAGATATTGGATCGTGTTGAAGGCCAT
326 ATAAGAGAATGGGTCTACAAGTGAAGAGAGTAACAGAAAAGATATTGGATCGTGTTGAAGGCCAT
30572483 TTGTAATATGCAAAGTCTCTGTTAAAGAAGGAGTTGAATTCAATGAGATGA
391 TTGTAATATGCAAAGTCTCTGTTAAAGAAGGAGTTGAATTCAATGAGATGA
30572534 AAGTATTCAG
Statistics
Matches: 441, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
441 441 1.00
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.34
Consensus pattern (441 bp):
GCATGATATTCTGCTATTGATGAATGTTATAATTATATGAGTATATGAGTTGGGATATTTGGTCT
ATGAGCTATGTGTTAAGTACAAAAGTGATCATAAGTAAATGATTGTTAAGTATTTTGAGAATGTG
GAATTAGTAATGAATTGGCCATTCATACTAGTATGTGTGATGTGCATGTTTGTATGAGAGTTAAA
TTTTAGGCTTTACAACCCTCAACCCCTCATCGGTAAAGTATTGTAATGAACTTTGTAACATATAG
ATTAAATAAGCTTACAAGTGCGGAATTATAGAGTTTCGTGATTGAAGAATTAGTACTATGATCAG
ATAAGAGAATGGGTCTACAAGTGAAGAGAGTAACAGAAAAGATATTGGATCGTGTTGAAGGCCAT
TTGTAATATGCAAAGTCTCTGTTAAAGAAGGAGTTGAATTCAATGAGATGA
Found at i:30579616 original size:21 final size:21
Alignment explanation
Indices: 30579592--30579634 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
30579582 CAACTACATG
30579592 TTAGTCTTAATGCATTATTGT
1 TTAGTCTTAATGCATTATTGT
30579613 TTAGTCTTAATGCATTATTGT
1 TTAGTCTTAATGCATTATTGT
30579634 T
1 T
30579635 GTCCTAGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.53
Consensus pattern (21 bp):
TTAGTCTTAATGCATTATTGT
Found at i:30583482 original size:20 final size:23
Alignment explanation
Indices: 30583459--30583513 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
30583449 CAAGTTGGAG
*
30583459 TTAATTTGTCTTAG-T-T-GAAT
1 TTAATTTGTCCTAGCTGTCGAAT
*
30583479 TTAAGTTGTCCTAGCTGTCGAAT
1 TTAATTTGTCCTAGCTGTCGAAT
30583502 TTAATTTGTCCT
1 TTAATTTGTCCT
30583514 TAAGATTGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.41
21 1 0.03
22 1 0.03
23 15 0.52
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (23 bp):
TTAATTTGTCCTAGCTGTCGAAT
Found at i:30587428 original size:27 final size:27
Alignment explanation
Indices: 30587398--30587620 Score: 209
Period size: 27 Copynumber: 8.3 Consensus size: 27
30587388 GGGGCAAAAT
* * *
30587398 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
30587425 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
30587452 AGTATTTCTACCCTACAACGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
30587479 GGTAATTCTACCCT-TTAGCGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* * *
30587506 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
30587533 AGTAATTCTACCCTAC-AGGGCTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
** *
30587560 AATAATTCTACCCTA-TAGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* * *
30587587 AGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
30587614 GGTAATT
1 GGTAATT
30587621 TTATAAATCG
Statistics
Matches: 161, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.02
27 151 0.94
28 6 0.04
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:30587444 original size:54 final size:54
Alignment explanation
Indices: 30587386--30587492 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
30587376 TTTAACACCC
* *
30587386 TAGGGGCAAAATGGTAATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTA
1 TAGGGGCAAAATAGT-ATTTCTACCCCACAACGGTATCTCGGTAATTCTACCCTA
* *** * *
30587440 TAGGGGTATTTTAGTATTTCTACCCTACAACGGTATTTCGGTAATTCTACCCT
1 TAGGGGCAAAATAGTATTTCTACCCCACAACGGTATCTCGGTAATTCTACCCT
30587493 TTAGCGGTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 4 0.09
54 40 0.91
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (54 bp):
TAGGGGCAAAATAGTATTTCTACCCCACAACGGTATCTCGGTAATTCTACCCTA
Found at i:30587511 original size:81 final size:80
Alignment explanation
Indices: 30587415--30587620 Score: 270
Period size: 81 Copynumber: 2.5 Consensus size: 80
30587405 TTACCCCACA
* * *
30587415 AGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTTAGTATTTCTACCCTACAACGG-TATTTC
1 AGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTAC-ACGGCTATTTC
** *
30587479 GGTAATTCTACCCTTT
65 AATAATTCTACCCTAT
* *
30587495 AGCGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGCTATTTC
1 AG-GGTATTTCAGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACACGGCTATTTC
30587560 AATAATTCTACCCTAT
65 AATAATTCTACCCTAT
* * * *
30587576 AGGGATATTTCAGTATTTCTACCCTACAAGGGTATTTTGGTAATT
1 AGGG-TATTTCAGTAATTCTACCCTATAGGGGTATTTTAGTAATT
30587621 TTATAAATCG
Statistics
Matches: 110, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
80 7 0.06
81 103 0.94
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACACGGCTATTTCA
ATAATTCTACCCTAT
Found at i:30587634 original size:27 final size:27
Alignment explanation
Indices: 30587604--30587864 Score: 247
Period size: 27 Copynumber: 9.7 Consensus size: 27
30587594 CTACCCTACA
*
30587604 AGGGTATTTTGGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
** * *
30587631 AGGGTATTTCAGTAATTTTATAAACCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
30587658 GGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
** *
30587685 AGGGTATTTCAGTAATTTTGCAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
*** **
30587712 AGGGTATTTCAATAATTTTACAAATTA
1 AGGGTATTTTGGTAATTTTACAAATCG
30587739 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
**
30587766 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * * * *
30587792 ATGGTATTTTGATAAATTTATAAACCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
30587819 GGGGTACTTTGGTAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTACAAATCG
*
30587845 AGGGGTATTTTTGGTGATTT
1 A-GGGTA-TTTTGGTAATTT
30587865 GGTAAACTAA
Statistics
Matches: 187, Mismatches: 44, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
26 21 0.11
27 156 0.83
28 10 0.05
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:30587639 original size:54 final size:53
Alignment explanation
Indices: 30587576--30587842 Score: 175
Period size: 54 Copynumber: 4.9 Consensus size: 53
30587566 TCTACCCTAT
** * *
30587576 AGGGATATTTCAGTATTTCTACCCTA-CAAGGGTATTTTGGTAATTTTATAAATCG
1 AGGG-TATTTCAGTATTT-TA-CAAACCAAGGGTACTTTGGTAATTTTACAAATCG
* ** *
30587631 AGGGTATTTCAGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTCAGT-ATTTTACAAACCAAGGGTACTTTGGTAATTTTACAAATCG
* * * ** **
30587685 AGGGTATTTCAGTAATTTTGCAAATCGAGGGTA-TTTCAATAATTTTACAAATTA
1 AGGGTATTTCAGT-ATTTTACAAACCAAGGGTACTTT-GGTAATTTTACAAATCG
** * * *
30587739 AGGGTATTTTGGTAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGT-ATTTTACAAACCAAGGGTACTTT-GGTAATTTTACAAATCG
* * * * **
30587792 ATGGTATTT-TGATAAATTTATAAACCGGGGGTACTTTGGTAATTTTACAAA
1 AGGGTATTTCAG-T-ATTTTACAAACCAAGGGTACTTTGGTAATTTTACAAA
30587843 CTAGGGGTAT
Statistics
Matches: 176, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.01
53 42 0.24
54 125 0.71
55 8 0.05
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
AGGGTATTTCAGTATTTTACAAACCAAGGGTACTTTGGTAATTTTACAAATCG
Found at i:30587639 original size:81 final size:80
Alignment explanation
Indices: 30587417--30587647 Score: 205
Period size: 81 Copynumber: 2.9 Consensus size: 80
30587407 ACCCCACAAG
* * * * * * *** * *
30587417 GGTATCTCGGTAATTCTACCCTATAGGGGTATTTTAGTATTTCTACCCTACAACGGTATTTCGGT
1 GGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAAAATAC-AGGGTATTTCAGT
*
30587482 AATTCTACCCTTTAGC
65 AATTCTACCCTATAGC
* * *** *
30587498 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGCTATTTCAAT
1 GGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAAAATACAGGG-TATTTCAGT
30587563 AATTCTACCCTATAG-
65 AATTCTACCCTATAGC
* ** *
30587578 GGATATTTCAGTATTTCTACCCTACAAGGGTATTTTGGTAATTTTATAAAT-CGAGGGTATTTCA
1 GG-TATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTA-AAATAC-AGGGTATTTCA
30587642 GTAATT
63 GTAATT
30587648 TTATAAACCG
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
80 5 0.04
81 118 0.92
82 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.39
Consensus pattern (80 bp):
GGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAAAATACAGGGTATTTCAGTA
ATTCTACCCTATAGC
Found at i:30587689 original size:81 final size:80
Alignment explanation
Indices: 30587604--30587842 Score: 309
Period size: 81 Copynumber: 3.0 Consensus size: 80
30587594 CTACCCTACA
**
30587604 AGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTATAAACCGGGGGTACTTTG
1 AGGGTATTTCAGTAATTTTA-AAATCGAGGGTATTTCAGTAATTTTATAAACCGGGGGTACTTTG
*
30587669 GTAATTTTACAAGTCG
65 GTAATTTTACAAATCG
* * * **** *
30587685 AGGGTATTTCAGTAATTTTGCAAATCGAGGGTATTTCAATAATTTTACAAATTAAGGGTATTTTG
1 AGGGTATTTCAGTAATTTT-AAAATCGAGGGTATTTCAGTAATTTTATAAACCGGGGGTACTTTG
30587750 GTAATTTTACAAATCG
65 GTAATTTTACAAATCG
* * * *
30587766 AGGGTATTTCAGTAATTTTACAATCGATGGTATTT-TGATAAATTTATAAACCGGGGGTACTTTG
1 AGGGTATTTCAGTAATTTTAAAATCGAGGGTATTTCAG-TAATTTTATAAACCGGGGGTACTTTG
30587830 GTAATTTTACAAA
65 GTAATTTTACAAA
30587843 CTAGGGGTAT
Statistics
Matches: 133, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
80 45 0.34
81 88 0.66
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (80 bp):
AGGGTATTTCAGTAATTTTAAAATCGAGGGTATTTCAGTAATTTTATAAACCGGGGGTACTTTGG
TAATTTTACAAATCG
Found at i:30600425 original size:15 final size:15
Alignment explanation
Indices: 30600407--30600466 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
30600397 GATAAGAAGA
30600407 CCAAAATA-AAGAAAT
1 CCAAAATAGAA-AAAT
*
30600422 CCAAGATAGAAAAAT
1 CCAAAATAGAAAAAT
*
30600437 CCAAGA-AGAATAAAT
1 CCAAAATAGAA-AAAT
* *
30600452 CCAAGATACAAAAAT
1 CCAAAATAGAAAAAT
30600467 ACAATATACG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.10
15 31 0.77
16 5 0.12
ACGTcount: A:0.62, C:0.15, G:0.10, T:0.13
Consensus pattern (15 bp):
CCAAAATAGAAAAAT
Found at i:30604300 original size:43 final size:43
Alignment explanation
Indices: 30604239--30604320 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
30604229 CACATGTATT
*
30604239 GCATCCATTATGAACTCAGACCACTCAACGAGCTCGGATTCTC
1 GCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATTCTC
*
30604282 GCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGAT
1 GCATCCATAATGAACTCAGACCACTCAACGAGCTCGGAT
30604321 GCCACATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (43 bp):
GCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATTCTC
Found at i:30604352 original size:42 final size:43
Alignment explanation
Indices: 30604257--30604449 Score: 122
Period size: 42 Copynumber: 4.5 Consensus size: 43
30604247 TATGAACTCA
* * ** * * **
30604257 GACCACTCAACGAGCTCGGATTCTCGCATCCATAATGAACTCA
1 GACCACTCAACGAGCTCGGATGCTCACATATATCACGAACTTG
*
30604300 GACCTCTCAACGAGCTCGGATGC-CACATATATCACGAACTTG
1 GACCACTCAACGAGCTCGGATGCTCACATATATCACGAACTTG
* * * * * * *
30604342 GACCACTCAACAAGTTTGAATTTCTCATATATATATCATGAAC-TG
1 GACCACTCAACGAGCTCGGA-TGCTC--ACATATATCACGAACTTG
* * * * * *
30604387 AAACAGCTCAACGAGCTCAGATG-TCATATATGTCACGAACCTG
1 GACCA-CTCAACGAGCTCGGATGCTCACATATATCACGAACTTG
*
30604430 GACCACTCAACGAGTTCGGA
1 GACCACTCAACGAGCTCGGA
30604450 CTTCTTAATT
Statistics
Matches: 113, Mismatches: 31, Indels: 13
0.72 0.20 0.08
Matches are distributed among these distances:
42 53 0.47
43 28 0.25
44 3 0.03
45 6 0.05
46 23 0.20
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
GACCACTCAACGAGCTCGGATGCTCACATATATCACGAACTTG
Found at i:30608659 original size:29 final size:28
Alignment explanation
Indices: 30608622--30608706 Score: 81
Period size: 27 Copynumber: 3.1 Consensus size: 28
30608612 ATTATTTATC
*
30608622 ATTTCAATATATAATTTATATATATATAA
1 ATTTTAATATATAATTTA-ATATATATAA
*
30608651 ATTTTAATATATTAA--TAATAT-TTTAA
1 ATTTTAATATA-TAATTTAATATATATAA
30608677 TATTTTAATA-AT-ATTTAATAATATATAA
1 -ATTTTAATATATAATTTAAT-ATATATAA
30608705 AT
1 AT
30608707 AATATTAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
24 1 0.02
25 1 0.02
26 9 0.19
27 17 0.36
28 6 0.13
29 10 0.21
30 3 0.06
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTTAATATATAATTTAATATATATAA
Found at i:30608671 original size:11 final size:11
Alignment explanation
Indices: 30608655--30608727 Score: 77
Period size: 11 Copynumber: 7.2 Consensus size: 11
30608645 ATATAAATTT
30608655 TAATATATTAA
1 TAATATATTAA
30608666 TAATAT-TT--
1 TAATATATTAA
*
30608674 TAATATTTTAA
1 TAATATATTAA
30608685 TAATAT-TTAA
1 TAATATATTAA
*
30608695 TAATATATAAA
1 TAATATATTAA
30608706 T-A-ATATTAA
1 TAATATATTAA
*
30608715 TAATATAATAA
1 TAATATATTAA
30608726 TA
1 TA
30608728 TAGAAAGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
8 6 0.11
9 9 0.17
10 14 0.26
11 24 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TAATATATTAA
Found at i:30608725 original size:21 final size:21
Alignment explanation
Indices: 30608639--30608721 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 21
30608629 TATATAATTT
*
30608639 ATATATATATAA-ATTT--TA
1 ATATATAAATAATATTTAATA
*
30608657 ATATATTAATAATATTT--TA
1 ATATATAAATAATATTTAATA
* *
30608676 ATATTTTAATAATATTTAATA
1 ATATATAAATAATATTTAATA
30608697 ATATATAAATAATA-TTAATA
1 ATATATAAATAATATTTAATA
30608717 ATATA
1 ATATA
30608722 ATAATATAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
18 10 0.18
19 22 0.39
20 11 0.19
21 14 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATATAAATAATATTTAATA
Found at i:30608741 original size:30 final size:29
Alignment explanation
Indices: 30608681--30608741 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 29
30608671 TTTTAATATT
* *
30608681 TTAATAATATTTAATAATATATAAATAATA
1 TTAATAATA-TTAATAATATAAAAAAAATA
30608711 TTAATAATA-TAATAATATAGAAAGAAAATA
1 TTAATAATATTAATAATATA-AAA-AAAATA
30608741 T
1 T
30608742 GTGTTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 10 0.37
29 2 0.07
30 15 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
TTAATAATATTAATAATATAAAAAAAATA
Found at i:30609393 original size:68 final size:67
Alignment explanation
Indices: 30609316--30609465 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
30609306 CATCATGCGT
* * * *
30609316 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
30609378 ATGTAG
62 ATGTAG
** * *
30609384 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
30609449 AG
66 AG
30609451 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
30609466 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:30609421 original size:64 final size:64
Alignment explanation
Indices: 30609340--30609523 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
30609330 AGACATTATG
* *
30609340 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
30609404 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
30609469 AA
63 AA
* * * *
30609471 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
30609524 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30615527 original size:46 final size:46
Alignment explanation
Indices: 30615472--30615599 Score: 220
Period size: 46 Copynumber: 2.8 Consensus size: 46
30615462 ATTTGGGCAT
* *
30615472 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
30615518 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
30615564 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30615600 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:30618553 original size:15 final size:15
Alignment explanation
Indices: 30618533--30618601 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
30618523 GTATCTTGGG
30618533 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
30618548 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
30618563 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
30618578 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
30618593 TTTCTTTAT
1 TTTCTTTAT
30618602 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:30618602 original size:30 final size:30
Alignment explanation
Indices: 30618524--30618611 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
30618514 CATAGTATTG
* * * *
30618524 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
30618554 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
30618584 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
30618612 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Done.