Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 130 of 352
Found at i:41972055 original size:16 final size:16
Alignment explanation
Indices: 41972013--41972055 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
41972003 GCAGCCAAAC
*
41972013 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
* *
41972029 TTTCTGATTTTCGGCA
1 TTTCAGCTTTTCGGCA
41972045 TTTCAGCTTTT
1 TTTCAGCTTTT
41972056 GCCGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.21, G:0.19, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:41975723 original size:27 final size:27
Alignment explanation
Indices: 41975693--41975747 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
41975683 GTGTTGAAGA
*
41975693 GGCTACATGGGGACTCGAGGAAGCTAT
1 GGCTACATGGGAACTCGAGGAAGCTAT
41975720 GGCTACATGGGAACTCGAGGAAGCTAT
1 GGCTACATGGGAACTCGAGGAAGCTAT
41975747 G
1 G
41975748 AGAAAACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.36, T:0.18
Consensus pattern (27 bp):
GGCTACATGGGAACTCGAGGAAGCTAT
Found at i:41978844 original size:40 final size:40
Alignment explanation
Indices: 41978750--41978894 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
41978740 TACTCGAATG
*
41978750 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
41978791 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
41978831 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
41978871 ATATCCAGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
41978895 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:41991870 original size:15 final size:16
Alignment explanation
Indices: 41991847--41991891 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
41991837 ATATGGATAT
*
41991847 ATATTATTTTA-AAAA
1 ATATAATTTTATAAAA
41991862 ATATAATTTTATTAAAA
1 ATATAATTTTA-TAAAA
41991879 A-ATAATTTT-TAAA
1 ATATAATTTTATAAA
41991892 TTGCAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 4 0.15
15 10 0.37
16 8 0.30
17 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAATTTTATAAAA
Found at i:41992224 original size:15 final size:15
Alignment explanation
Indices: 41992204--41992233 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
41992194 GAACCTATAT
41992204 AGCAATCATCCAAAG
1 AGCAATCATCCAAAG
41992219 AGCAATCATCCAAAG
1 AGCAATCATCCAAAG
41992234 GGTTAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (15 bp):
AGCAATCATCCAAAG
Found at i:41993978 original size:37 final size:37
Alignment explanation
Indices: 41993928--41994006 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
41993918 TTATTACGAA
* *
41993928 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
41993965 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
41994002 GTCTT
1 GTCTT
41994007 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:41994194 original size:47 final size:47
Alignment explanation
Indices: 41994125--41994331 Score: 405
Period size: 47 Copynumber: 4.4 Consensus size: 47
41994115 CCCTTCGGGA
41994125 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41994172 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41994219 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41994266 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41994313 CTTATCACATATATACACT
1 CTTATCACATATATACACT
41994332 GTCTTGGCTG
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 158 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41996923 original size:222 final size:222
Alignment explanation
Indices: 41996531--41996970 Score: 765
Period size: 222 Copynumber: 2.0 Consensus size: 222
41996521 GGGTGTCACA
*
41996531 GATTTAGCTAGCCTATGGGTTAATTTGTTCAATTGTTGAATTTTTAGCAAGTTGTCATTGTTGAA
1 GATTTAGCTAGCCTATGGATTAATTTGTTCAATTGTTGAATTTTTAGCAAGTTGTCATTGTTGAA
*
41996596 AAATTGATGAATTAGGCTTGCAATTTATAGAAATTAAGCTTAGATCATGATAAGAACTAAATTGT
66 AAATTGATGAATTAGGCTTGCAATTTATAGAAATTAAGCTTAGATCATGATAAAAACTAAATTGT
* *
41996661 AAAGCTACATAAGCTTGATAGATAACTTTCTAACATTAGGAACTAAATTGAATAAATTCAAAATC
131 AAAGCTAAATAAGCTTGATAGATAACTTTCTAACATTAGGAACTAAACTGAATAAATTCAAAATC
*
41996726 TGCAATGAAATTATACTAGGAATGCTT
196 TACAATGAAATTATACTAGGAATGCTT
* *
41996753 GATTTAGCTAGACC-ATGTATTAATTTGTTCAATTGTTGAATTTTTAGCAAGTTTTCATTGTTGA
1 GATTTAGCTAG-CCTATGGATTAATTTGTTCAATTGTTGAATTTTTAGCAAGTTGTCATTGTTGA
* *
41996817 GAAATTGATGAATTAGGCTTGCAATTTATAGAAATTAAGCTTAGATCATGATAAAAATTAAATTG
65 AAAATTGATGAATTAGGCTTGCAATTTATAGAAATTAAGCTTAGATCATGATAAAAACTAAATTG
* *
41996882 TAAAGCTAAATAAGCTTGATAGATAACTTTGTAATATTAGGAACTAAACTGAATAAATTCAAAAT
130 TAAAGCTAAATAAGCTTGATAGATAACTTTCTAACATTAGGAACTAAACTGAATAAATTCAAAAT
41996947 CTACAATGAAATTATACTAGGAAT
195 CTACAATGAAATTATACTAGGAAT
41996971 AGAAAGTATA
Statistics
Matches: 206, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
222 204 0.99
223 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.36
Consensus pattern (222 bp):
GATTTAGCTAGCCTATGGATTAATTTGTTCAATTGTTGAATTTTTAGCAAGTTGTCATTGTTGAA
AAATTGATGAATTAGGCTTGCAATTTATAGAAATTAAGCTTAGATCATGATAAAAACTAAATTGT
AAAGCTAAATAAGCTTGATAGATAACTTTCTAACATTAGGAACTAAACTGAATAAATTCAAAATC
TACAATGAAATTATACTAGGAATGCTT
Found at i:42000310 original size:30 final size:30
Alignment explanation
Indices: 42000276--42000333 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
42000266 ATTTTCGGGC
* *
42000276 CTAGGGGTAAAAGGGTCATTTTATCAAAGT
1 CTAGGGGCAAAAGGGTCATTTTACCAAAGT
42000306 CTAGGGGCAAAAGGGTCATTTTACCAAA
1 CTAGGGGCAAAAGGGTCATTTTACCAAA
42000334 TATATGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (30 bp):
CTAGGGGCAAAAGGGTCATTTTACCAAAGT
Found at i:42003490 original size:47 final size:47
Alignment explanation
Indices: 42003430--42003614 Score: 271
Period size: 47 Copynumber: 3.9 Consensus size: 47
42003420 GATAATTGTG
**
42003430 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
42003477 ATGTGAACATGCATATATGTGATAAGGTCAAATGGCCAATGTGATAA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
42003524 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
42003571 ATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
42003615 AATATATGTA
Statistics
Matches: 122, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 122 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:42003521 original size:22 final size:22
Alignment explanation
Indices: 42003446--42003523 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
42003436 ATGTGCATAT
* *
42003446 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGTCAAATGGCCA
* * *
42003468 ATGTGATGAATGTGAACAT-GCATA
1 ATGTGAT-AAGGTCAA-ATGGC-CA
42003492 TATGTGATAAGGTCAAATGGCCA
1 -ATGTGATAAGGTCAAATGGCCA
42003515 ATGTGATAA
1 ATGTGATAA
42003524 ATGTGAGCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
22 16 0.37
23 9 0.21
24 11 0.26
25 7 0.16
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGTCAAATGGCCA
Found at i:42003874 original size:37 final size:37
Alignment explanation
Indices: 42003823--42003968 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
42003813 ATATATTCCA
42003823 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
* *
42003860 GGTAAGACCTGATGACTACGTGTGAAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
*
42003897 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
* * *
42003934 GGTAAGACCCGATAACTTCGTGTGGAGATTTTGTC
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTC
42003969 TGAGCTAAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
Found at i:42005301 original size:40 final size:40
Alignment explanation
Indices: 42005243--42005490 Score: 424
Period size: 40 Copynumber: 6.2 Consensus size: 40
42005233 AGTGGTATAC
*
42005243 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
42005283 CCAGGCTAAGCCCCGAAGAGCATTCGTTCTAGTGATGTAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
42005323 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
42005363 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
42005403 CCGGGCTAAGCCCCGAAGAGTATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
42005443 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
42005483 CCGGGCTA
1 CCGGGCTA
42005491 GGTAAATAGC
Statistics
Matches: 195, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 195 1.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:42011529 original size:15 final size:15
Alignment explanation
Indices: 42011511--42011542 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
42011501 ACCTTTTCTT
*
42011511 TTCTTTTTTTTTTCC
1 TTCTTTTTCTTTTCC
42011526 TTCTTTTTCTTTTCC
1 TTCTTTTTCTTTTCC
42011541 TT
1 TT
42011543 TTACATGCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTCTTTTTCTTTTCC
Found at i:42011758 original size:15 final size:16
Alignment explanation
Indices: 42011740--42011773 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
42011730 TTTAAAGACA
42011740 TTTTTTTTCAAAGA-T
1 TTTTTTTTCAAAGAGT
*
42011755 TTTTTTTTCTAAGAGT
1 TTTTTTTTCAAAGAGT
42011771 TTT
1 TTT
42011774 ACAAATCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.65
Consensus pattern (16 bp):
TTTTTTTTCAAAGAGT
Found at i:42012108 original size:12 final size:12
Alignment explanation
Indices: 42012091--42012117 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
42012081 TAAAAATTTG
42012091 AAATTTCAAATT
1 AAATTTCAAATT
42012103 AAATTTCAAATT
1 AAATTTCAAATT
42012115 AAA
1 AAA
42012118 CAAAATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATTTCAAATT
Found at i:42012174 original size:19 final size:19
Alignment explanation
Indices: 42012147--42012194 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
42012137 ATTTTTTTCA
*
42012147 ATAAAAATACA-AAAGATT
1 ATAAAAATACATAAAAATT
*
42012165 TTATAAAATACATAAAAATT
1 ATA-AAAATACATAAAAATT
42012185 ATAAAAATAC
1 ATAAAAATAC
42012195 TTATAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.60
20 8 0.32
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (19 bp):
ATAAAAATACATAAAAATT
Found at i:42013098 original size:12 final size:12
Alignment explanation
Indices: 42013081--42013112 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
42013071 ACGACTCCTT
42013081 GAAGAAAATCAA
1 GAAGAAAATCAA
42013093 GAAGAAAATCAA
1 GAAGAAAATCAA
42013105 GAAGAAAA
1 GAAGAAAA
42013113 CTACTTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.06, G:0.19, T:0.06
Consensus pattern (12 bp):
GAAGAAAATCAA
Found at i:42014262 original size:24 final size:24
Alignment explanation
Indices: 42014235--42014296 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
42014225 TCACAAAGTT
* * *
42014235 CACTATCACTATCATCATAGTTTG
1 CACTATTACTATCATCATAGCTCG
*
42014259 CACTATTATTATCATCATAGCTCG
1 CACTATTACTATCATCATAGCTCG
42014283 CACTATTACTATCA
1 CACTATTACTATCA
42014297 ACTTTTTCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (24 bp):
CACTATTACTATCATCATAGCTCG
Found at i:42017516 original size:17 final size:16
Alignment explanation
Indices: 42017494--42017545 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
42017484 TGTCTGTGGG
42017494 TTTTTAAAAAATATAT
1 TTTTTAAAAAATATAT
*
42017510 ATTTTTATAAAAT-TAT
1 -TTTTTAAAAAATATAT
* *
42017526 TGTTTTAATAAATAAAT
1 T-TTTTAAAAAATATAT
42017543 TTT
1 TTT
42017546 ATGTTAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 1 0.03
16 14 0.48
17 14 0.48
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TTTTTAAAAAATATAT
Found at i:42023832 original size:169 final size:168
Alignment explanation
Indices: 42023379--42023839 Score: 619
Period size: 166 Copynumber: 2.7 Consensus size: 168
42023369 AAATAAATGA
* * * *
42023379 AACTTAATAGGGACTAATTTGACTA-TTTTTTAGTAAAAGATGAAAAATGTAATTTGATTCCTAG
1 AACTTAATAGGGACTAATTTGCCTATTTTTTTAGTAAAAGATGAAAAATGAAATCTAATTCCTAG
* * *
42023443 TATAAAGGCCTATATGTTACTTTTGTCTAATTCTACT-ATCCTTCAATTCCATGTCACTTACATA
66 TAT-AAGGCCTATATGGTACTTTTGTCTAATCCTACTCATCCTTAAATTCCATGTCACTTACATA
42023507 AATTTTTTTTAACAAAAAGGCGAGTTTGATCTTTGATCT
130 AATTTTTTTTAACAAAAAGGCGAGTTTGATCTTTGATCT
42023546 AACTT-ATAGGGACTAATTTGCCT-TTTTTTTAGTAAAAGATGAAAAATGAAATCTAATTCCTAG
1 AACTTAATAGGGACTAATTTGCCTATTTTTTTAGTAAAAGATGAAAAATGAAATCTAATTCCTAG
* * *
42023609 TATAAGGGCCTATACGGTACTTTTATGTAATCCTAC-CATCCTTAAAATATTCCATGTCACTTAC
66 TATAA-GGCCTATATGGTACTTTTGTCTAATCCTACTCATCCTT--AA-ATTCCATGTCACTTAC
* * *
42023673 AT-AATTTTTTTCTAACAAAAGGGTGAGTTTGCTCTTTGATCT
127 ATAAATTTTTTT-TAACAAAAAGGCGAGTTTGATCTTTGATCT
* * * * * *
42023715 AACTTAATAAGAACTAATTTGCCTATTTTTTTAGTAAAAGAGGCAAAATGCAATCTAATTCCTAA
1 AACTTAATAGGGACTAATTTGCCTATTTTTTTAGTAAAAGATGAAAAATGAAATCTAATTCCTAG
* * *
42023780 TATAAGGACCTTTATGGTACTTTTGTCTAACCCTACTCATCCTTTAATTCCATGTCACTT
66 TATAAGG-CCTATATGGTACTTTTGTCTAATCCTACTCATCCTTAAATTCCATGTCACTT
42023840 GCACTTTTTT
Statistics
Matches: 258, Mismatches: 25, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
165 2 0.01
166 87 0.34
167 5 0.02
168 10 0.04
169 64 0.25
170 19 0.07
171 64 0.25
172 7 0.03
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (168 bp):
AACTTAATAGGGACTAATTTGCCTATTTTTTTAGTAAAAGATGAAAAATGAAATCTAATTCCTAG
TATAAGGCCTATATGGTACTTTTGTCTAATCCTACTCATCCTTAAATTCCATGTCACTTACATAA
ATTTTTTTTAACAAAAAGGCGAGTTTGATCTTTGATCT
Found at i:42026244 original size:118 final size:118
Alignment explanation
Indices: 42026036--42026272 Score: 429
Period size: 118 Copynumber: 2.0 Consensus size: 118
42026026 CGATTACAAG
*
42026036 TCCAACACATTAATATTATTTTGCACAGGACCTCACCTATAAAGAGCCCCTAAAACAATGAAGAG
1 TCCAACACATTAATATTATTCTGCACAGGACCTCACCTATAAAGAGCCCCTAAAACAATGAAGAG
*
42026101 AGGACCAGCTCTTGAATATACTTGCCTATACTTTGCCAACTTACCTTCAGCAC
66 AGGACCAGCTCTTGAATATACTTGCCTATACTCTGCCAACTTACCTTCAGCAC
* *
42026154 TCCAACACATTAATATTATTCTGCACAGGACCTCACCTATAAAGAGCCCCTAAAACGATGAAGTG
1 TCCAACACATTAATATTATTCTGCACAGGACCTCACCTATAAAGAGCCCCTAAAACAATGAAGAG
*
42026219 AGGACTAGCTCTTGAATATACTTGCCTATACTCTGCCAACTTACCTTCAGCAC
66 AGGACCAGCTCTTGAATATACTTGCCTATACTCTGCCAACTTACCTTCAGCAC
42026272 T
1 T
42026273 TAGTCTTCAT
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 114 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (118 bp):
TCCAACACATTAATATTATTCTGCACAGGACCTCACCTATAAAGAGCCCCTAAAACAATGAAGAG
AGGACCAGCTCTTGAATATACTTGCCTATACTCTGCCAACTTACCTTCAGCAC
Found at i:42033101 original size:23 final size:23
Alignment explanation
Indices: 42033073--42033143 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
42033063 ATGTTCGTTT
*
42033073 ATTTAATCTTCAT-GAACATGTTC
1 ATTTAA-CTTAATCGAACATGTTC
*
42033096 ATTTAACTTAATCGAACATTTTC
1 ATTTAACTTAATCGAACATGTTC
** *
42033119 A-CGAACATTAAACGAACATGTTC
1 ATTTAAC-TTAATCGAACATGTTC
42033142 AT
1 AT
42033144 GAACATATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 8 0.21
23 31 0.79
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (23 bp):
ATTTAACTTAATCGAACATGTTC
Found at i:42033147 original size:23 final size:23
Alignment explanation
Indices: 42033086--42033172 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
42033076 TAATCTTCAT
**
42033086 GAACATGTTCATTTAAC-TTAATC
1 GAACATGTTCA-CGAACATTAATC
* *
42033109 GAACATTTTCACGAACATTAAAC
1 GAACATGTTCACGAACATTAATC
* *
42033132 GAACATGTTCATGAACATATAATT
1 GAACATGTTCACGAACAT-TAATC
*
42033156 GAATATGTTCACGAACA
1 GAACATGTTCACGAACA
42033173 ATGTTAATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.06
23 31 0.60
24 18 0.35
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (23 bp):
GAACATGTTCACGAACATTAATC
Found at i:42035229 original size:17 final size:17
Alignment explanation
Indices: 42035182--42035230 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
42035172 TTTGACACTT
42035182 TTTTGTTTTCTT-TTTC
1 TTTTGTTTTCTTATTTC
* *
42035198 TTTTATTTTCATATTTC
1 TTTTGTTTTCTTATTTC
*
42035215 TTTTGTTTTTTTATTT
1 TTTTGTTTTCTTATTT
42035231 TCATATTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTGTTTTCTTATTTC
Found at i:42035232 original size:25 final size:24
Alignment explanation
Indices: 42035188--42035248 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 24
42035178 ACTTTTTTGT
*
42035188 TTTC-TTTTTCTTTTATTTTCATA
1 TTTCTTTTTTTTTTTATTTTCATA
42035211 TTTCTTTTGTTTTTTTATTTTCATA
1 TTTCTTTT-TTTTTTTATTTTCATA
42035236 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
42035249 ACTTTTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 4 0.11
24 8 0.23
25 23 0.66
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (24 bp):
TTTCTTTTTTTTTTTATTTTCATA
Found at i:42035256 original size:25 final size:24
Alignment explanation
Indices: 42035188--42035256 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 24
42035178 ACTTTTTTGT
42035188 TTTCTTTTTCTTTTA--TTTTCATA
1 TTTCTTTTT-TTTTATTTTTTCATA
42035211 TTTCTTTTGTTTTT-TTATTTTCATA
1 TTTCTTTT-TTTTTATT-TTTTCATA
42035236 TTTCTTTTTTTTTACTTTTTT
1 TTTCTTTTTTTTTA-TTTTTT
42035257 ATTTTGTTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
23 12 0.30
24 6 0.15
25 20 0.50
26 2 0.05
ACGTcount: A:0.10, C:0.10, G:0.01, T:0.78
Consensus pattern (24 bp):
TTTCTTTTTTTTTATTTTTTCATA
Found at i:42036222 original size:28 final size:30
Alignment explanation
Indices: 42036191--42036253 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
42036181 AGATAAACCA
42036191 ATCATAATTAAAAAA-ATATATT-TATTAT
1 ATCATAATTAAAAAATATATATTATATTAT
42036219 ATCATAATTAAAAAATATATATTATATTAT
1 ATCATAATTAAAAAATATATATTATATTAT
42036249 ATCAT
1 ATCAT
42036254 TTTAAAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 15 0.45
29 7 0.21
30 11 0.33
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (30 bp):
ATCATAATTAAAAAATATATATTATATTAT
Found at i:42036390 original size:17 final size:17
Alignment explanation
Indices: 42036368--42036414 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
42036358 ATAAAAAAGT
42036368 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATATG
42036385 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATATG
42036402 AAAATAAAAGAAA
1 AAAATAAAAGAAA
42036415 AAGAAAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (17 bp):
AAAATAAAAGAAATATG
Found at i:42036428 original size:17 final size:17
Alignment explanation
Indices: 42036368--42036426 Score: 84
Period size: 17 Copynumber: 3.5 Consensus size: 17
42036358 ATAAAAAAGT
*
42036368 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATAAG
*
42036385 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATAAG
42036402 AAAATAAAAGAAA-AAG
1 AAAATAAAAGAAATAAG
*
42036418 AAAACAAAA
1 AAAATAAAA
42036427 AGGTGTGAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
16 10 0.25
17 30 0.75
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAATAAAAGAAATAAG
Found at i:42036837 original size:3 final size:3
Alignment explanation
Indices: 42036829--42036853 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
42036819 CCCTAACCCA
42036829 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
42036854 TTGTGTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:42038469 original size:25 final size:26
Alignment explanation
Indices: 42038423--42038471 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
42038413 TTCATATATA
*
42038423 TATATTTGAACCACAATCAAAGTTTC
1 TATAATTGAACCACAATCAAAGTTTC
*
42038449 TATAATTGCACCA-AATCAAAGTT
1 TATAATTGAACCACAATCAAAGTT
42038472 CATATATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (26 bp):
TATAATTGAACCACAATCAAAGTTTC
Found at i:42038477 original size:25 final size:27
Alignment explanation
Indices: 42038422--42038477 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 27
42038412 TTTCATATAT
*
42038422 ATATATTTGAACCACAATCAAAGTTTC
1 ATATAATTGAACCACAATCAAAGTTTC
*
42038449 -TATAATTGCACCA-AATCAAAG-TTC
1 ATATAATTGAACCACAATCAAAGTTTC
42038473 ATATA
1 ATATA
42038478 TCAAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 12 0.46
26 11 0.42
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (27 bp):
ATATAATTGAACCACAATCAAAGTTTC
Found at i:42039092 original size:53 final size:53
Alignment explanation
Indices: 42039022--42039126 Score: 210
Period size: 53 Copynumber: 2.0 Consensus size: 53
42039012 TGAATTTTTT
42039022 TGTTATTTTTACCAAATTCGAGATAATATGTCTATTTATAACAATGAAAATCA
1 TGTTATTTTTACCAAATTCGAGATAATATGTCTATTTATAACAATGAAAATCA
42039075 TGTTATTTTTACCAAATTCGAGATAATATGTCTATTTATAACAATGAAAATC
1 TGTTATTTTTACCAAATTCGAGATAATATGTCTATTTATAACAATGAAAATC
42039127 GGGCTCTCGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (53 bp):
TGTTATTTTTACCAAATTCGAGATAATATGTCTATTTATAACAATGAAAATCA
Found at i:42039110 original size:29 final size:29
Alignment explanation
Indices: 42039025--42039111 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
42039015 ATTTTTTTGT
42039025 TATTTTTACCAAATTCGAGATAATATGTC
1 TATTTTTACCAAATTCGAGATAATATGTC
* *
42039054 TATTTATAAC-AA-T-GA-A-AATCATGT-
1 TATTTTTACCAAATTCGAGATAAT-ATGTC
42039078 TATTTTTACCAAATTCGAGATAATATGTC
1 TATTTTTACCAAATTCGAGATAATATGTC
42039107 TATTT
1 TATTT
42039112 ATAACAATGA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
24 11 0.23
25 7 0.15
26 3 0.06
27 3 0.06
28 7 0.15
29 16 0.34
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (29 bp):
TATTTTTACCAAATTCGAGATAATATGTC
Found at i:42040202 original size:11 final size:11
Alignment explanation
Indices: 42040166--42040190 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
42040156 AAATGTTACA
42040166 TTTATAATAAT
1 TTTATAATAAT
42040177 TTTATAATAAT
1 TTTATAATAAT
42040188 TTT
1 TTT
42040191 TTTTATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATAATAAT
Found at i:42043042 original size:6 final size:6
Alignment explanation
Indices: 42043012--42043110 Score: 71
Period size: 6 Copynumber: 16.3 Consensus size: 6
42043002 AAGAAACATT
* * *
42043012 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
42043061 ATCAGA ATCAGA ATCAGA ATGAG- ATCAGGTA A-CAAA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
42043109 AT
1 AT
42043111 GTAAATGCAA
Statistics
Matches: 72, Mismatches: 12, Indels: 18
0.71 0.12 0.18
Matches are distributed among these distances:
5 7 0.10
6 57 0.79
7 6 0.08
8 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:42043496 original size:22 final size:23
Alignment explanation
Indices: 42043468--42043529 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
42043458 GCAAATACGT
*
42043468 TTGGCACACAGCCATAAT-CAGG
1 TTGGCACAAAGCCATAATGCAGG
* *
42043490 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGCAGG
*
42043512 TTGGCGCAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
42043530 TAGAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGCAGG
Found at i:42044236 original size:27 final size:27
Alignment explanation
Indices: 42044200--42044269 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
42044190 GTAAATTGGG
* * * *
42044200 GGGTACTTTGGTAATTTTA-TAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACT-AA
42044227 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAA
42044254 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
42044270 ATACCCTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAA
Found at i:42044288 original size:27 final size:27
Alignment explanation
Indices: 42044254--42044458 Score: 216
Period size: 27 Copynumber: 7.6 Consensus size: 27
42044244 TACAAACTAA
** * *
42044254 GGGTATTTTGGTAATTATACCCTATAG
1 GGGTATTTCAGTAATTTTACCCTACAG
* * *
42044281 GGGCATTTCAGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTTTACCCTACAG
*
42044308 GGGTATTTTAGTAATTTTACCCTACAG
1 GGGTATTTCAGTAATTTTACCCTACAG
* *
42044335 GGGTATTTCGGTAATTTTACCTTACA-
1 GGGTATTTCAGTAATTTTACCCTACAG
* * *
42044361 AGGTAATTTCAATAATTCTACCCTACAG
1 GGGT-ATTTCAGTAATTTTACCCTACAG
* *
42044389 GGGTATTTCAGTAATTCTACCTTACA-
1 GGGTATTTCAGTAATTTTACCCTACAG
* * * *
42044415 GGGTATTTCAATCATTCTACCCTATAG
1 GGGTATTTCAGTAATTTTACCCTACAG
42044442 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
42044459 GGTAAAATAA
Statistics
Matches: 147, Mismatches: 28, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
26 25 0.17
27 119 0.81
28 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACCCTACAG
Found at i:42044295 original size:54 final size:54
Alignment explanation
Indices: 42044265--42044458 Score: 257
Period size: 54 Copynumber: 3.6 Consensus size: 54
42044255 GGTATTTTGG
* * * * * * *
42044265 TAATTATACCCTATAGGGGCATTTCAGTAATTCTACCTTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCTTACAAGGGTATTTCAA
* *
42044319 TAATTTTACCCTACAGGGGTATTTCGGTAATTTTACCTTACAA-GGTAATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCTTACAAGGGT-ATTTCAA
*
42044373 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTAC-AGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCTTACAAGGGTATTTCAA
* *
42044426 TCATTCTACCCTATAGGGGTATTTCAGTAATTT
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTT
42044459 GGTAAAATAA
Statistics
Matches: 124, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
53 41 0.33
54 83 0.67
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCTTACAAGGGTATTTCAA
Found at i:42044322 original size:81 final size:79
Alignment explanation
Indices: 42044227--42044457 Score: 248
Period size: 81 Copynumber: 2.9 Consensus size: 79
42044217 TATAAGTCGA
* * *
42044227 GGGTATTTTGGTAATTTTACAAACTA-AGGGTATTTTGGTAATTATACCCTATAGGGGCATTTCA
1 GGGTATTTTAGTAATTTTAC---CTACAGGGTATTTCGGTAATTATACCCTATAGGGGAATTTCA
*
42044291 GTAATTCTACCTTACAG
63 GTAATTCTACCCTACAG
* * * * * *
42044308 GGGTATTTTAGTAATTTTACCCTACAGGGGTATTTCGGTAATTTTACCTTACAAGGTAATTTCAA
1 GGGTATTTTAGTAATTTTA-CCTACA-GGGTATTTCGGTAATTATACCCTATAGGGGAATTTCAG
42044373 TAATTCTACCCTACAG
64 TAATTCTACCCTACAG
* * ** * * *
42044389 GGGTATTTCAGTAATTCTACCTTACAGGGTATTTCAATCATTCTACCCTATAGGGGTATTTCAGT
1 GGGTATTTTAGTAATTTTACC-TACAGGGTATTTCGGTAATTATACCCTATAGGGGAATTTCAGT
42044454 AATT
65 AATT
42044458 TGGTAAAATA
Statistics
Matches: 124, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
79 3 0.02
80 36 0.29
81 84 0.68
82 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (79 bp):
GGGTATTTTAGTAATTTTACCTACAGGGTATTTCGGTAATTATACCCTATAGGGGAATTTCAGTA
ATTCTACCCTACAG
Found at i:42046492 original size:19 final size:19
Alignment explanation
Indices: 42046466--42046514 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
42046456 TTTTATTGTA
42046466 ACAAATAATAAAATATCTC
1 ACAAATAATAAAATATCTC
42046485 -CTAAATAATAAAATATCTC
1 AC-AAATAATAAAATATCTC
42046504 ACAAATAATAA
1 ACAAATAATAA
42046515 TTAACAAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.04
19 26 0.93
20 1 0.04
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (19 bp):
ACAAATAATAAAATATCTC
Found at i:42046886 original size:19 final size:19
Alignment explanation
Indices: 42046851--42046895 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
42046841 TTAGAGAATA
*
42046851 TTGTTATTTGTGAGATAGT
1 TTGTTATTTGAGAGATAGT
*
42046870 TTGTTATTT-AGAGGATATT
1 TTGTTATTTGAGA-GATAGT
42046889 TTGTTAT
1 TTGTTAT
42046896 GTGTCATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (19 bp):
TTGTTATTTGAGAGATAGT
Found at i:42051638 original size:39 final size:40
Alignment explanation
Indices: 42051593--42051760 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
42051583 CGGGGTTTAG
* * *
42051593 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
42051632 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
42051672 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
42051712 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
42051753 CCGGATAT
1 CCGGATAT
42051761 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:42051743 original size:41 final size:40
Alignment explanation
Indices: 42051616--42051760 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
42051606 CTCGCACAAG
* * * * *
42051616 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
42051656 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
42051696 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
42051737 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
42051761 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:42061428 original size:20 final size:20
Alignment explanation
Indices: 42061405--42061446 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
42061395 CACACACCCA
42061405 TGTGACTTAGGACACGCCCG
1 TGTGACTTAGGACACGCCCG
* *
42061425 TGTGACTTGGGACATGCCCG
1 TGTGACTTAGGACACGCCCG
42061445 TG
1 TG
42061447 CAATCACCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.26, G:0.33, T:0.24
Consensus pattern (20 bp):
TGTGACTTAGGACACGCCCG
Found at i:42076952 original size:138 final size:137
Alignment explanation
Indices: 42076727--42076990 Score: 386
Period size: 138 Copynumber: 1.9 Consensus size: 137
42076717 TTATCTTTAA
* * * *
42076727 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCAGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTAC-CATTTTCAATCAGGTTGCCATGGTATCTT
** *
42076792 TCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTA
65 TCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTA
42076857 TTTCCCGT
130 TTTCCCGT
* *
42076865 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-CATGTTTCATATCAGGTTGCCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACCAT-TTTCA-ATCAGGTTGCCATGGTATCT
* * *
42076929 TTCAACCATGGTGTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
64 TTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTA
42076991 CACATTTCAT
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
136 3 0.03
137 5 0.04
138 104 0.93
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (137 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACCATTTTCAATCAGGTTGCCATGGTATCTTT
CAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTAT
TTCCCGT
Found at i:42076998 original size:46 final size:46
Alignment explanation
Indices: 42076732--42077005 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
42076722 TTTAACATGA
* * * * * *
42076732 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCA-GTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
42076778 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *** *
42076824 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
42076870 TGCCATGGTATCTTTCAACCATGGTCTTACATGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
42076916 TGCCATGGTATCTTTCAACCATGGTGTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
42076962 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
42077006 AGAGTACACT
Statistics
Matches: 205, Mismatches: 22, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
45 5 0.02
46 200 0.98
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:42079985 original size:30 final size:31
Alignment explanation
Indices: 42079931--42080016 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 31
42079921 TCAAATATGA
* * *
42079931 TAGAGAAAAACCATAGA-GTCTTCCACTTA-T
1 TAGAGAATAACCATAAAGGT-TTCCACGTACT
*
42079961 TAGAGAATAACCATAAAGGTTTCCAAGTACT
1 TAGAGAATAACCATAAAGGTTTCCACGTACT
* * *
42079992 TA-AGAATAGCCACAAAGGCTTCCAC
1 TAGAGAATAACCATAAAGGTTTCCAC
42080017 ATTTCGATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 41 0.89
31 5 0.11
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (31 bp):
TAGAGAATAACCATAAAGGTTTCCACGTACT
Found at i:42082367 original size:30 final size:31
Alignment explanation
Indices: 42082320--42082389 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
42082310 CAATTAAGGG
*
42082320 TCACAC-ACCTGTATGAACAG-GCCGTGTTCC
1 TCACACGACCTGTATGAAC-GTGCCGTGTGCC
*
42082350 TCACACGACC-GTGTGAACGTGCCGTGTGCC
1 TCACACGACCTGTATGAACGTGCCGTGTGCC
*
42082380 TTACACGACC
1 TCACACGACC
42082390 ACTAGACTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.03
30 31 0.89
31 3 0.09
ACGTcount: A:0.21, C:0.34, G:0.23, T:0.21
Consensus pattern (31 bp):
TCACACGACCTGTATGAACGTGCCGTGTGCC
Found at i:42084893 original size:25 final size:25
Alignment explanation
Indices: 42084857--42084929 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
42084847 AAATCTTATG
*
42084857 AGCTTACTGATTTTTAGCTCGTATA
1 AGCTTACTGATTCTTAGCTCGTATA
* * *
42084882 AGCTTA-TCGATTCTCAGATCGTATG
1 AGCTTACT-GATTCTTAGCTCGTATA
*
42084907 AGCTTACTGATTCATAGCTCGTA
1 AGCTTACTGATTCTTAGCTCGTA
42084930 AGATCATACC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.03
25 37 0.95
26 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (25 bp):
AGCTTACTGATTCTTAGCTCGTATA
Found at i:42092900 original size:51 final size:51
Alignment explanation
Indices: 42092819--42092921 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
42092809 CTTTCAGGAA
*
42092819 TCATCACACTATCACAGTTTATATATATGGCATGTATAGCTAGACTCTTAC
1 TCATCACACTATCACAGTTTATATACATGGCATGTATAGCTAGACTCTTAC
42092870 TCATCACACTATCACAGTTTATATACATGGCATGTATAGCTAGACTCTTAC
1 TCATCACACTATCACAGTTTATATACATGGCATGTATAGCTAGACTCTTAC
42092921 T
1 T
42092922 TGCTACGTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (51 bp):
TCATCACACTATCACAGTTTATATACATGGCATGTATAGCTAGACTCTTAC
Found at i:42096238 original size:43 final size:43
Alignment explanation
Indices: 42096190--42096357 Score: 273
Period size: 43 Copynumber: 3.9 Consensus size: 43
42096180 GCTAGTATTA
42096190 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
42096233 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
42096276 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
42096319 TATTCGAGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
42096358 AATGATATGT
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 116 1.00
ACGTcount: A:0.12, C:0.26, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:42099699 original size:25 final size:25
Alignment explanation
Indices: 42099663--42099725 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 25
42099653 AACTCTTATG
*
42099663 AGCTTA-CTGATTTTTAGCTCGTATA
1 AGCTTATC-GATTCTTAGCTCGTATA
*
42099688 AGCTTATCGATTCTTAGCTCGTATG
1 AGCTTATCGATTCTTAGCTCGTATA
42099713 AGCTTATCGATTC
1 AGCTTATCGATTC
42099726 ATGGCTCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (25 bp):
AGCTTATCGATTCTTAGCTCGTATA
Found at i:42099732 original size:25 final size:25
Alignment explanation
Indices: 42099677--42099732 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
42099667 TACTGATTTT
*
42099677 TAGCTCGTATAAGCTTATCGATTCT
1 TAGCTCGTATAAGCTTATCGATTCA
*
42099702 TAGCTCGTATGAGCTTATCGATTCA
1 TAGCTCGTATAAGCTTATCGATTCA
*
42099727 TGGCTC
1 TAGCTC
42099733 ATAGGATCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (25 bp):
TAGCTCGTATAAGCTTATCGATTCA
Found at i:42120912 original size:44 final size:44
Alignment explanation
Indices: 42120841--42120925 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
42120831 CAATCGTATT
* * *
42120841 TGGCACTAAGTGTGCGATACCGATTTAGCTTCGGTTAATTGAGA
1 TGGCACTAAGTGGGCGAGACCGATTTAGCTTCGGCTAATTGAGA
* * * *
42120885 TGGCACTAAGTGGGCGGGATCGTTTTAGCTTCTGCTAATTG
1 TGGCACTAAGTGGGCGAGACCGATTTAGCTTCGGCTAATTG
42120926 TTACAGCACT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.33
Consensus pattern (44 bp):
TGGCACTAAGTGGGCGAGACCGATTTAGCTTCGGCTAATTGAGA
Found at i:42128602 original size:46 final size:46
Alignment explanation
Indices: 42128534--42128627 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
42128524 AAAGTGTTAG
*
42128534 TTTAGAGACTCACCTGTTAGCCTCAAAAGTAACTTAAAATTCAAAT
1 TTTAGAGACTCACCTGTCAGCCTCAAAAGTAACTTAAAATTCAAAT
* *
42128580 TTTAGAGACTCACCTGTCAGCCTCAAAGGTAACTTAAACTTCAAAT
1 TTTAGAGACTCACCTGTCAGCCTCAAAAGTAACTTAAAATTCAAAT
42128626 TT
1 TT
42128628 AGCCTTTCCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (46 bp):
TTTAGAGACTCACCTGTCAGCCTCAAAAGTAACTTAAAATTCAAAT
Found at i:42130612 original size:59 final size:58
Alignment explanation
Indices: 42130547--42130719 Score: 291
Period size: 59 Copynumber: 3.0 Consensus size: 58
42130537 ATACCTAAGC
42130547 TTGATATGTGACCGAATATACATGGTCTCATATGTGCACATACTTAGACATCATTTCAA
1 TTGATATGTGACCGAATATACATGGTCTCATATG-GCACATACTTAGACATCATTTCAA
42130606 TTGATATGTGACCGAATATACATGGTCTC--A--GCACATACTTAGACATCATTTCAA
1 TTGATATGTGACCGAATATACATGGTCTCATATGGCACATACTTAGACATCATTTCAA
*
42130660 TTGATATGTGACTGAATATACATGGTCTCATATGAGCACATACTTAGACATCATTTCAA
1 TTGATATGTGACCGAATATACATGGTCTCATATG-GCACATACTTAGACATCATTTCAA
42130719 T
1 T
42130720 AATATTCAAT
Statistics
Matches: 108, Mismatches: 1, Indels: 10
0.91 0.01 0.08
Matches are distributed among these distances:
54 52 0.48
56 1 0.01
57 1 0.01
59 54 0.50
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (58 bp):
TTGATATGTGACCGAATATACATGGTCTCATATGGCACATACTTAGACATCATTTCAA
Found at i:42132441 original size:40 final size:40
Alignment explanation
Indices: 42132379--42132596 Score: 296
Period size: 40 Copynumber: 5.5 Consensus size: 40
42132369 AAGCCAAGTA
* * * * *
42132379 CCTTCGGGATTTA-ACCGGATATAGCAACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
42132418 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42132458 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42132498 CCTTCGGGACTTAGCCCGTATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
42132538 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
42132578 CCTTCGGGATTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42132597 TTATCATCCA
Statistics
Matches: 163, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 151 0.93
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42140503 original size:40 final size:40
Alignment explanation
Indices: 42140450--42140610 Score: 227
Period size: 40 Copynumber: 4.0 Consensus size: 40
42140440 TATAGCACCA
* * *
42140450 GATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCCG
1 GATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
42140490 GATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
42140530 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * *
42140570 GA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCG
1 GATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
42140610 G
1 G
42140611 TTATCATCCA
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.02
40 110 0.98
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
Found at i:42154660 original size:40 final size:40
Alignment explanation
Indices: 42154422--42154646 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
42154412 TCGAATGATG
* * * * * *
42154422 TCCGGGCTAAGTCCAGAAGGC-CTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
42154462 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42154502 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42154541 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42154581 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42154622 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42154647 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42156781 original size:15 final size:16
Alignment explanation
Indices: 42156761--42156793 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42156751 ATGGACTTCC
42156761 TTATTA-AATTTTAAA
1 TTATTAGAATTTTAAA
*
42156776 TTATTAGTATTTTAAA
1 TTATTAGAATTTTAAA
42156792 TT
1 TT
42156794 GGGTATCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTATTAGAATTTTAAA
Found at i:42169132 original size:53 final size:54
Alignment explanation
Indices: 42169018--42169137 Score: 156
Period size: 53 Copynumber: 2.3 Consensus size: 54
42169008 TGACGAAAAA
* *
42169018 TATGTGATAA-GTG-CGCCCGTTTAAGACCATAGCTAGGCTATGGCATCGGTCC
1 TATGTGATAATGTGACGCCCGTGTAAGACCATAGCTAGGCTATGGCATCGGTAC
* * * * *
42169070 AATGCGATAATGTGAC-TCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 TATGTGATAATGTGACGCCCGTGTAAGACCATAGCTAGGCTATGGCATCGGTAC
42169123 TATGTGATAATGTGA
1 TATGTGATAATGTGA
42169138 TTTCATATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 8 0.14
53 48 0.84
54 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (54 bp):
TATGTGATAATGTGACGCCCGTGTAAGACCATAGCTAGGCTATGGCATCGGTAC
Found at i:42169149 original size:53 final size:53
Alignment explanation
Indices: 42169039--42169167 Score: 152
Period size: 53 Copynumber: 2.4 Consensus size: 53
42169029 TGCGCCCGTT
* * * *
42169039 TAAGACCATAGCTAGGCTATGGCATCGGTCCAATGCGATAATGTGACTCCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGGTACAATGCGATAATGTGACTCCATA
** * * *
42169092 TAAGACCATAGCTGGGCTATGGCATCGGTATTATGTGATAATGTGATTTCATA
1 TAAGACCATAGCTGGGCTATGGCATCGGTACAATGCGATAATGTGACTCCATA
*
42169145 TAAGACCAT-GTCTGGGATATGGC
1 TAAGACCATAG-CTGGGCTATGGC
42169168 TTCTGTATGA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 1 0.02
53 64 0.98
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTACAATGCGATAATGTGACTCCATA
Found at i:42172639 original size:13 final size:13
Alignment explanation
Indices: 42172617--42172649 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
42172607 CAGGGTTTGT
42172617 TTAT-TAAACTAA
1 TTATCTAAACTAA
42172629 TTATCTAAACTAA
1 TTATCTAAACTAA
*
42172642 TTAACTAA
1 TTATCTAA
42172650 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:42176998 original size:6 final size:6
Alignment explanation
Indices: 42176989--42177028 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
42176979 ATTGAAATAA
* *
42176989 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAT AAAAAT AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
42177029 TAAAATAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:42180746 original size:263 final size:263
Alignment explanation
Indices: 42180272--42180800 Score: 977
Period size: 263 Copynumber: 2.0 Consensus size: 263
42180262 CATCTGCGAC
42180272 AGGACTTCAATAAAGGGTAAGTTAATATGTAATTTCTTTAAGAGTTTGACAAACTTACCGAATTG
1 AGGACTTCAATAAAGGGTAAGTTAATATGTAATTTCTTTAAGAGTTTGACAAACTTACCGAATTG
* * *
42180337 CTCTTCTGTTCTATCTTTCTTCATCGCTTTAGGATATGGCACATGAGGTTCATAATACGTACTTA
66 CTATTCTATTCTATCTTTCTTCATCGCTTTAGGATATGGCACACGAGGTTCATAATACGTACTTA
*
42180402 CCTGATTAGGATCATCGTCATTTACCTCTTCTCGACCTTTGTTCATCGCGTTGTCTTGCTATAAT
131 CCTGATTAGGATCACCGTCATTTACCTCTTCTCGACCTTTGTTCATCGCGTTGTCTTGCTATAAT
42180467 TCTGGCTCCAGTGCAATGAATCCTTCCTTATTTTGAGTACTAATTGCATTGAGGTGTTCCCTTTG
196 TCTGGCTCCAGTGCAATGAATCCTTCCTTATTTTGAGTACTAATTGCATTGAGGTGTTCCCTTTG
42180532 ATT
261 ATT
42180535 AGGACTTCAATAAAGGGTAAGTTAATATGTAATTTCTTTAAGAGTTTGACAAACTTACCGAATTG
1 AGGACTTCAATAAAGGGTAAGTTAATATGTAATTTCTTTAAGAGTTTGACAAACTTACCGAATTG
42180600 CTATTCTATTCTATCTTTCTTCATCGCTTTAGGATATGGCACACGAGGTTCATAATACGTACTTA
66 CTATTCTATTCTATCTTTCTTCATCGCTTTAGGATATGGCACACGAGGTTCATAATACGTACTTA
*
42180665 CCTTATTAGGATCACCGTCATTTACCTCTTCTCGACCTTTGTTCATCGCGTTGTCTTGCTATAAT
131 CCTGATTAGGATCACCGTCATTTACCTCTTCTCGACCTTTGTTCATCGCGTTGTCTTGCTATAAT
* * * *
42180730 TTTGGCTTCGGTGCAATGAATCCTTTCTTATTTTGAGTACTAATTGCATTGAGGTGTTCCCTTTG
196 TCTGGCTCCAGTGCAATGAATCCTTCCTTATTTTGAGTACTAATTGCATTGAGGTGTTCCCTTTG
42180795 ATT
261 ATT
42180798 AGG
1 AGG
42180801 TTCAGTATTA
Statistics
Matches: 257, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
263 257 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (263 bp):
AGGACTTCAATAAAGGGTAAGTTAATATGTAATTTCTTTAAGAGTTTGACAAACTTACCGAATTG
CTATTCTATTCTATCTTTCTTCATCGCTTTAGGATATGGCACACGAGGTTCATAATACGTACTTA
CCTGATTAGGATCACCGTCATTTACCTCTTCTCGACCTTTGTTCATCGCGTTGTCTTGCTATAAT
TCTGGCTCCAGTGCAATGAATCCTTCCTTATTTTGAGTACTAATTGCATTGAGGTGTTCCCTTTG
ATT
Found at i:42182235 original size:5 final size:5
Alignment explanation
Indices: 42182225--42182249 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
42182215 AAATTAATAA
42182225 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
42182250 TGCAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:42187104 original size:31 final size:31
Alignment explanation
Indices: 42187023--42187106 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
42187013 TTAGTCTTGA
* *
42187023 CATAT-ACTGGGGCGAAGCCATTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
42187053 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
42187084 CATATCATTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
42187107 ACTGTAAACG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:42187179 original size:42 final size:42
Alignment explanation
Indices: 42187132--42187221 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
42187122 GCCCTTAGGC
* * ** *
42187132 CCATTTTAATATCACATGTAATGTCAATGGATGTATGCAAGA
1 CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGA
*
42187174 CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGC
1 CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGA
42187216 CCATTT
1 CCATTT
42187222 GGGGAGACTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (42 bp):
CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGA
Found at i:42187443 original size:26 final size:26
Alignment explanation
Indices: 42187366--42187513 Score: 185
Period size: 26 Copynumber: 5.8 Consensus size: 26
42187356 CCTCTTTAAT
**
42187366 AACTAGGGCA-AAGCCCTTTTTGGTA
1 AACTAGGGCATAAGCCCTTTTCAGTA
* *
42187391 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCAGTA
* *
42187416 AACTGGGGCATAACCCCTTTTCAGTA
1 AACTAGGGCATAAGCCCTTTTCAGTA
* *
42187442 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCAGTA
* *
42187468 AACTAGGACATAAGCCC-TTTCGGTA
1 AACTAGGGCATAAGCCCTTTTCAGTA
42187493 AACTAGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
42187514 GCACGTCCTC
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
25 53 0.49
26 55 0.51
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (26 bp):
AACTAGGGCATAAGCCCTTTTCAGTA
Found at i:42187443 original size:51 final size:52
Alignment explanation
Indices: 42187366--42187513 Score: 221
Period size: 51 Copynumber: 2.9 Consensus size: 52
42187356 CCTCTTTAAT
*
42187366 AACTAGGGCA-AAGCCCTTTTTGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
* * *
42187416 AACTGGGGCATAACCCCTTTTCAGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
* *
42187468 AACTAGGACATAAGCCC-TTTCGGTAAACTAGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
42187514 GCACGTCCTC
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
50 9 0.10
51 49 0.56
52 29 0.33
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (52 bp):
AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:42188405 original size:27 final size:27
Alignment explanation
Indices: 42188314--42188397 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
42188304 GGGCATATTC
* * *
42188314 GTCATTTTACCATAC-AGGGGTATTACG
1 GTCACTTTACCCTACAAGGGCT-TTACG
*
42188341 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAAGGGCTTTACG
42188368 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAAGGGCTTTACG
42188395 GTC
1 GTC
42188398 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 47 0.92
28 4 0.08
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAAGGGCTTTACG
Found at i:42188489 original size:27 final size:27
Alignment explanation
Indices: 42188436--42188795 Score: 165
Period size: 27 Copynumber: 13.3 Consensus size: 27
42188426 TTTCATCCTA
* * * * *
42188436 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* *
42188463 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* ** * *
42188490 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-C
* * *
42188519 CAAGGGTATTTCTGTAACTTTGTAAA-
1 CAAGGGTATTTCGGTAATTTTATAAAC
** * *
42188545 TTAGGAGTATTTTGGTAATTTTACAAA-
1 CAAGG-GTATTTCGGTAATTTTATAAAC
*** * * *
42188572 TTGGAGGTATTTCGATAATTTCACAAAC
1 CAAG-GGTATTTCGGTAATTTTATAAAC
* *
42188600 C-AGTGGCATTTCGGTAATTTTACAAAC
1 CAAG-GGTATTTCGGTAATTTTATAAAC
* * * * *
42188627 TAGGGGTATTTTGGTAATTTTACAAATT
1 CAAGGGTATTTCGGTAATTTTATAAA-C
* *
42188655 GAA-GGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* ** * *
42188681 CAGGGGTATTTTAGTAATTTTACAGA-
1 CAAGGGTATTTCGGTAATTTTATAAAC
* * * *
42188707 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTCGGTAATTTTA-TAAAC
* *
42188734 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
** * *
42188761 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
*
42188788 CGAGGGTA
1 CAAGGGTA
42188796 AAACAGTAAT
Statistics
Matches: 261, Mismatches: 61, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
26 26 0.10
27 205 0.79
28 16 0.06
29 14 0.05
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAC
Found at i:42188649 original size:81 final size:81
Alignment explanation
Indices: 42188546--42188729 Score: 280
Period size: 81 Copynumber: 2.3 Consensus size: 81
42188536 CTTTGTAAAT
* * *
42188546 TAGGAGTATTTTGGTAATTTTACAAATTGGAGGTATTTCGATAATTTCACAAACCAGTGGCATTT
1 TAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGATAATTTCACAAACCAGGGGCATTT
*
42188611 CGGTAATTTTACAAAC
66 CAGTAATTTTACAAAC
* * *
42188627 TAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTTACAAACCAGGGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGATAATTTCACAAACCAGGGGCATTT
* *
42188692 TAGTAATTTTACAGAC
66 CAGTAATTTTACAAAC
42188708 TA-GGGTATTTTGGTAATTTTAC
1 TAGGGGTATTTTGGTAATTTTAC
42188730 TGATCAAGGG
Statistics
Matches: 94, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 20 0.21
81 74 0.79
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGATAATTTCACAAACCAGGGGCATTT
CAGTAATTTTACAAAC
Found at i:42188692 original size:54 final size:53
Alignment explanation
Indices: 42188551--42188781 Score: 203
Period size: 54 Copynumber: 4.3 Consensus size: 53
42188541 TAAATTAGGA
* ** * * * * *
42188551 GTATTTTGGTAATTTTACAAA-TTGGAGGTATTTCGATAATTTCACAAACCAGTG
1 GTATTTCGGTAATTTTACAAACCAGG-GGTATTTTGGTAATTTTACAAACTA-AG
* * *
42188605 GCATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAAG
1 GTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACT-AAG
* * *
42188659 GTATTTCGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAGACTAGG
1 GTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAG
* ** * * ** *
42188712 GTATTTTGGTAATTTTACTGATCAAGGGTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAA-G
**
42188766 GTATTTTAGTAATTTT
1 GTATTTCGGTAATTTT
42188782 GTAAATCGAG
Statistics
Matches: 147, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
53 43 0.29
54 100 0.68
55 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (53 bp):
GTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAG
Found at i:42188803 original size:27 final size:27
Alignment explanation
Indices: 42188773--42188900 Score: 168
Period size: 27 Copynumber: 4.7 Consensus size: 27
42188763 AGGGTATTTT
* *
42188773 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
42188800 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
42188827 GGTAATTCTATAAATTGATGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
42188854 -GATAATTCTATAAATTGAGGGTAAAAC
1 AG-TAATTCTATAAATCGAGGGTAAAAC
42188881 AGTAATTCTATAAATCGAGG
1 AGTAATTCTATAAATCGAGG
42188901 ATACTTTGGT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 88 0.98
28 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.30
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:42189169 original size:19 final size:19
Alignment explanation
Indices: 42189121--42189169 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
42189111 CCAATTGGGC
42189121 TCGTAGGCCCATTGGGCCCA
1 TCGT-GGCCCATTGGGCCCA
* *
42189141 -CATGGCCCCATTTGGCCCA
1 TCGTGG-CCCATTGGGCCCA
42189160 TCGTGGCCCA
1 TCGTGGCCCA
42189170 AAGTAGCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 2 0.08
19 18 0.75
20 4 0.17
ACGTcount: A:0.14, C:0.39, G:0.27, T:0.20
Consensus pattern (19 bp):
TCGTGGCCCATTGGGCCCA
Found at i:42190749 original size:28 final size:28
Alignment explanation
Indices: 42190692--42190759 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
42190682 TATCGATTTT
***
42190692 GCACACTTAGTGCTCAATATTTAAACTC
1 GCACACTTAGTGCTCAATAACCAAACTC
* *
42190720 GCACACTTAGTGCTCAATAACCACATTC
1 GCACACTTAGTGCTCAATAACCAAACTC
42190748 GCACACTTAGTG
1 GCACACTTAGTG
42190760 TAAGATTCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
GCACACTTAGTGCTCAATAACCAAACTC
Found at i:42199882 original size:16 final size:16
Alignment explanation
Indices: 42199861--42199891 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42199851 ATGACCTTAA
*
42199861 TAAACCTCATTTCATG
1 TAAACCTCATCTCATG
42199877 TAAACCTCATCTCAT
1 TAAACCTCATCTCAT
42199892 CTGTTTTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.35
Consensus pattern (16 bp):
TAAACCTCATCTCATG
Found at i:42207011 original size:19 final size:17
Alignment explanation
Indices: 42206964--42206997 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
42206954 TAAATCCTTT
42206964 CTTCAACACATGCAAGA
1 CTTCAACACATGCAAGA
42206981 CTTCAACACATGCAAGA
1 CTTCAACACATGCAAGA
42206998 TCTCAAGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (17 bp):
CTTCAACACATGCAAGA
Found at i:42220112 original size:84 final size:86
Alignment explanation
Indices: 42219967--42220125 Score: 191
Period size: 84 Copynumber: 1.9 Consensus size: 86
42219957 TTGACATATG
* * ** *
42219967 TCTGATATATCGTGCAAGACCGTGTCTAGGACACAGGCCTCGATTGAGATTTACGTATAAGACCA
1 TCTGATATATCGTGCAAGACCATATCTAGGACACAGGAATCGATTGAGATTTACATATAAGACCA
* *
42220032 TGTCTGGGACATCGCATCGTA
66 CGTCCGGGACATCGCATCGTA
* *
42220053 TCTGAT-T-TCGTGCAAGACCATATCTAGGACAGAGGAATCGATATTGA-A-TTACATGTAAGAC
1 TCTGATATATCGTGCAAGACCATATCTAGGACACAGGAATCG--ATTGAGATTTACATATAAGAC
42220114 CACGTCCGGGAC
64 CACGTCCGGGAC
42220126 GTCGGCATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
84 49 0.79
85 2 0.03
86 11 0.18
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (86 bp):
TCTGATATATCGTGCAAGACCATATCTAGGACACAGGAATCGATTGAGATTTACATATAAGACCA
CGTCCGGGACATCGCATCGTA
Found at i:42220239 original size:14 final size:14
Alignment explanation
Indices: 42220220--42220248 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42220210 ATGGCCTATG
42220220 TAGGTACGTTTGTA
1 TAGGTACGTTTGTA
42220234 TAGGTACGTTTGTA
1 TAGGTACGTTTGTA
42220248 T
1 T
42220249 TGTACTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.28, T:0.45
Consensus pattern (14 bp):
TAGGTACGTTTGTA
Found at i:42221947 original size:15 final size:15
Alignment explanation
Indices: 42221927--42221979 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
42221917 TCAGTCGTGT
42221927 GTGACACACGGTTAG
1 GTGACACACGGTTAG
*
42221942 GTGACACAGCCG-T-G
1 GTGACACA-CGGTTAG
42221956 TGTGACACACGGTTAG
1 -GTGACACACGGTTAG
42221972 GTGACACA
1 GTGACACA
42221980 GCCGTGTGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 3 0.09
15 26 0.81
16 3 0.09
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (15 bp):
GTGACACACGGTTAG
Found at i:42221956 original size:30 final size:30
Alignment explanation
Indices: 42221922--42221988 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
42221912 ATGTCTCAGT
42221922 CGTGTGTGACACACGGTTAGGTGACACAGC
1 CGTGTGTGACACACGGTTAGGTGACACAGC
42221952 CGTGTGTGACACACGGTTAGGTGACACAGC
1 CGTGTGTGACACACGGTTAGGTGACACAGC
42221982 CGTGTGT
1 CGTGTGT
42221989 CCCTTGGCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.22
Consensus pattern (30 bp):
CGTGTGTGACACACGGTTAGGTGACACAGC
Found at i:42223646 original size:79 final size:80
Alignment explanation
Indices: 42223529--42223677 Score: 264
Period size: 79 Copynumber: 1.9 Consensus size: 80
42223519 TAAAATAATG
* *
42223529 TATTTTACGCAATTTAGTTATCTTTTGATATTTTTACAAAATTACTCCTAAAATTTTACTTTTCT
1 TATTTTACGCAATTTAGTCATCTTTTGATATTTTTACAAAATTACCCCTAAAATTTTACTTTTCT
42223594 TCAATTTAGTCCATA
66 TCAATTTAGTCCATA
*
42223609 TATTTTATGCAATTTAGTCAT-TTTTGATATTTTTACAAAATTACCCCTAAAATTTTACTTTTCT
1 TATTTTACGCAATTTAGTCATCTTTTGATATTTTTACAAAATTACCCCTAAAATTTTACTTTTCT
42223673 TCAAT
66 TCAAT
42223678 GTACTCCCTA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
79 47 0.71
80 19 0.29
ACGTcount: A:0.30, C:0.15, G:0.05, T:0.50
Consensus pattern (80 bp):
TATTTTACGCAATTTAGTCATCTTTTGATATTTTTACAAAATTACCCCTAAAATTTTACTTTTCT
TCAATTTAGTCCATA
Found at i:42225579 original size:16 final size:16
Alignment explanation
Indices: 42225558--42225634 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 16
42225548 AATGATGTTA
42225558 AATTATATTTAATAAT
1 AATTATATTTAATAAT
42225574 AATTATA-TTAA-AAT
1 AATTATATTTAATAAT
42225588 -A-TA-A-TTAA-AAT
1 AATTATATTTAATAAT
* *
42225599 ATTTATTATTT-TTAAT
1 AATTA-TATTTAATAAT
*
42225615 AAATTACATTTAATAAT
1 -AATTATATTTAATAAT
42225632 AAT
1 AAT
42225635 CCTGTTTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
11 8 0.17
12 2 0.04
13 3 0.06
14 3 0.06
15 5 0.10
16 19 0.40
17 8 0.17
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTATATTTAATAAT
Found at i:42225601 original size:35 final size:37
Alignment explanation
Indices: 42225532--42225603 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
42225522 ATTCATATAT
*
42225532 TAATAATTATATTAAGAATGATGTTAAATTATATTTAA
1 TAATAATTATATTAAGAATGATATTAAA-TATATTTAA
42225570 TAATAATTATATTAA-AAT-ATAATTAAA-ATATTTA
1 TAATAATTATATTAAGAATGAT-ATTAAATATATTTA
42225604 TTATTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
35 7 0.22
36 2 0.06
37 8 0.25
38 15 0.47
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (37 bp):
TAATAATTATATTAAGAATGATATTAAATATATTTAA
Found at i:42225608 original size:26 final size:26
Alignment explanation
Indices: 42225555--42225604 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
42225545 AAGAATGATG
* *
42225555 TTAAATTATATTTAATAATAATTATA
1 TTAAAATATAATTAATAATAATTATA
*
42225581 TTAAAATATAATTAA-AATATTTAT
1 TTAAAATATAATTAATAATAATTAT
42225605 TATTTTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TTAAAATATAATTAATAATAATTATA
Found at i:42227945 original size:39 final size:39
Alignment explanation
Indices: 42227900--42228017 Score: 209
Period size: 39 Copynumber: 3.0 Consensus size: 39
42227890 AAGCAAGACA
*
42227900 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
42227939 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
42227978 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
42228017 C
1 C
42228018 CGGTAACATA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:42232236 original size:47 final size:47
Alignment explanation
Indices: 42232185--42232503 Score: 505
Period size: 47 Copynumber: 6.7 Consensus size: 47
42232175 TTAGGATTCT
* * *
42232185 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
42232232 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
42232281 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42232328 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42232375 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
42232422 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
42232469 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
42232504 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 210 0.82
49 45 0.18
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:42232678 original size:37 final size:37
Alignment explanation
Indices: 42232622--42232700 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
42232612 CCGAGCTCTA
* * *
42232622 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
42232659 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
42232696 AAGAC
1 AAGAC
42232701 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:42234267 original size:40 final size:40
Alignment explanation
Indices: 42233866--42234253 Score: 611
Period size: 40 Copynumber: 9.8 Consensus size: 40
42233856 GAGAATTGAG
* *
42233866 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
42233906 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
42233946 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
42233986 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
42234026 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
42234066 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
42234106 AGTGATGTATCCGGGCTAAGTCTC-AAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
42234145 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
42234185 AGT-ATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * * *
42234224 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAG
42234254 TAATCATGCT
Statistics
Matches: 328, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
38 1 0.00
39 69 0.21
40 256 0.78
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:42237895 original size:25 final size:25
Alignment explanation
Indices: 42237867--42237945 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
42237857 CTAATGGCCG
42237867 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
42237892 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
42237914 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
42237939 ATGTGAT
1 ATGTGAT
42237946 AAGGCCTAAT
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:42237913 original size:47 final size:47
Alignment explanation
Indices: 42237822--42238373 Score: 964
Period size: 47 Copynumber: 11.7 Consensus size: 47
42237812 TTAGGATTCT
* * *
42237822 ATGTGATGGATGTGAAA-TGCATATATGAG-TAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42237867 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42237914 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42237961 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
42238010 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42238057 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42238104 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42238151 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
42238198 ATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42238245 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
42238292 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
42238339 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
42238374 TCCCGAAGGG
Statistics
Matches: 488, Mismatches: 15, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
45 16 0.03
46 10 0.02
47 415 0.85
49 47 0.10
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:42238548 original size:37 final size:37
Alignment explanation
Indices: 42238492--42238570 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
42238482 CCGAGCTCTA
* * *
42238492 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
42238529 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
42238566 AAGAC
1 AAGAC
42238571 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:42243918 original size:39 final size:39
Alignment explanation
Indices: 42243873--42243990 Score: 209
Period size: 39 Copynumber: 3.0 Consensus size: 39
42243863 AAGCAAGACA
*
42243873 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
42243912 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
42243951 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
42243990 C
1 C
42243991 CGGTAACATA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:42274529 original size:39 final size:40
Alignment explanation
Indices: 42274354--42274531 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
42274344 GATATAGCTC
* * * *
42274354 CTCGTTCAAATTCCTTCGGGACATAGCCCGG-TTATAGTAA
1 CTCGTACAAATGCCTTCGGGACTTAACCCGGATT-TAGTAA
42274394 CTC-TCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAA
1 CTCGT-ACAAATGCCTTCGGGACTTAACCCGGATTTAGTAA
42274434 CTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTAA
1 CTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTAA
* * * * * * *
42274474 CTCGCACCAATACCTTCGGG-CTTAGCCGGGAATTAGTAT
1 CTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTAA
42274513 CTCGTACAAATGCCTTCGG
1 CTCGTACAAATGCCTTCGG
42274532 ATCTTAGTCT
Statistics
Matches: 121, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.26
40 86 0.71
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (40 bp):
CTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTAA
Found at i:42274569 original size:79 final size:79
Alignment explanation
Indices: 42274354--42274584 Score: 234
Period size: 80 Copynumber: 2.9 Consensus size: 79
42274344 GATATAGCTC
* * * * * **
42274354 CTCGTTCAAATTCCTTCGGGACATAGCCCGGTTATAGTAACTCTCACAAATGCCTTCGGGACTTA
1 CTCGTACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAA-GCCTTCGGGACTTA
* *
42274419 ACCCGGATTTAGTAA
65 GCCCGGAATTAGTAA
* *
42274434 CTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATA-CCTTCGGG-CTT
1 CTCGTACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA-CAA-AGCCTTCGGGACTT
* *
42274497 AGCCGGGAATTAGTAT
64 AGCCCGGAATTAGTAA
** * * *
42274513 CTCGTACAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCACAAAGCCTTCGGGACTT
1 CTCGTACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACAAAGCCTTCGGGACTT
42274577 AGCCCGGA
64 AGCCCGGA
42274585 CACCATTCAA
Statistics
Matches: 126, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
78 4 0.03
79 57 0.45
80 61 0.48
81 3 0.02
82 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (79 bp):
CTCGTACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAAGCCTTCGGGACTTAG
CCCGGAATTAGTAA
Found at i:42280551 original size:28 final size:26
Alignment explanation
Indices: 42280496--42280608 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
42280486 AGCATGGCTG
* *
42280496 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
42280522 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
42280550 CCAGAACAGATATATATGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
42280577 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
42280605 CCAG
1 CCAG
42280609 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.08
27 37 0.50
28 31 0.42
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:42282905 original size:40 final size:40
Alignment explanation
Indices: 42282843--42283058 Score: 296
Period size: 40 Copynumber: 5.4 Consensus size: 40
42282833 AAACCAAGTA
* * * *
42282843 CCTTCGGGATTTA-ACCGGATATAGCT-ACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
42282882 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42282922 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42282962 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
42283002 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
42283042 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
42283059 CGTTATCATC
Statistics
Matches: 162, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 148 0.91
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42292047 original size:7 final size:7
Alignment explanation
Indices: 42292035--42292060 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
42292025 TTTTATGAAA
42292035 CCCAAAG
1 CCCAAAG
42292042 CCCAAAG
1 CCCAAAG
42292049 CCCAAAG
1 CCCAAAG
42292056 CCCAA
1 CCCAA
42292061 TTCATCTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.46, G:0.12, T:0.00
Consensus pattern (7 bp):
CCCAAAG
Found at i:42296375 original size:18 final size:19
Alignment explanation
Indices: 42296334--42296373 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
42296324 TATTTTAAGC
*
42296334 TTTAATTGGTAAGTGATTT
1 TTTAATTGGTAAGTCATTT
42296353 TTTAATTGGTAAGTCATTT
1 TTTAATTGGTAAGTCATTT
42296372 TT
1 TT
42296374 AACTCATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.55
Consensus pattern (19 bp):
TTTAATTGGTAAGTCATTT
Found at i:42301863 original size:29 final size:29
Alignment explanation
Indices: 42301821--42301877 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
42301811 AAGCCAAAAG
42301821 AATGTCAAGCGATAGGGACAAAATGGTAT
1 AATGTCAAGCGATAGGGACAAAATGGTAT
* *
42301850 AATGTCAAGTGATAGGGACAAAGTGGTA
1 AATGTCAAGCGATAGGGACAAAATGGTA
42301878 CGATCGAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.21
Consensus pattern (29 bp):
AATGTCAAGCGATAGGGACAAAATGGTAT
Found at i:42303702 original size:24 final size:24
Alignment explanation
Indices: 42303658--42303703 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
42303648 ATTTTTGCTG
*
42303658 CACATGGCCTGGCACATGGGCTAT
1 CACATGGCCTGGCACACGGGCTAT
42303682 CACATGGCCTAGG-ACACGGGCT
1 CACATGGCCT-GGCACACGGGCT
42303704 GTAACAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.22, C:0.30, G:0.30, T:0.17
Consensus pattern (24 bp):
CACATGGCCTGGCACACGGGCTAT
Found at i:42323916 original size:47 final size:47
Alignment explanation
Indices: 42323804--42324072 Score: 207
Period size: 47 Copynumber: 5.7 Consensus size: 47
42323794 GGGTTATTGT
* * *
42323804 GAGCTAGTGTAAGA-CATGTCTAGGACATGCATCGGCCA-C-ATTATGA
1 GAGCTAGTGTAAGACCATGTCTAGGACATGCATC-GACATCGA-GACGA
* * *
42323850 GAACCAGTGTAAGACCATGTCTAGGACATGGCATCGACATCAAGACGA
1 GAGCTAGTGTAAGACCATGTCTAGGACAT-GCATCGACATCGAGACGA
* * * * *
42323898 GTGCTAGTGTAAGA-CATGTCTGGGACATACATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACCATGTCTAGGACATGCATCGACATCGAGACG-A
* * * * *
42323945 -AGCCAGTGTAAGA-CATGTCTGGGATATGCATTGAC-TACGAGATGA
1 GAGCTAGTGTAAGACCATGTCTAGGACATGCATCGACAT-CGAGACGA
* * * *
42323990 TAG-TCAGTGTAAGACCATATCTAGGACATGGCATCGA-ATTGAGA-TA
1 GAGCT-AGTGTAAGACCATGTCTAGGACAT-GCATCGACATCGAGACGA
42324036 TGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCG
1 -GAGCTAGTGTAAGACCATGTCTAGGACAT-GCATCG
42324073 GCACCTTACC
Statistics
Matches: 181, Mismatches: 29, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.01
46 72 0.40
47 78 0.43
48 28 0.15
49 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTAGGACATGCATCGACATCGAGACGA
Found at i:42324462 original size:13 final size:13
Alignment explanation
Indices: 42324444--42324470 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42324434 CAATCGAAGC
42324444 TTTCGGTATAGTT
1 TTTCGGTATAGTT
42324457 TTTCGGTATAGTT
1 TTTCGGTATAGTT
42324470 T
1 T
42324471 GATTCATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (13 bp):
TTTCGGTATAGTT
Found at i:42328649 original size:27 final size:27
Alignment explanation
Indices: 42328619--42328938 Score: 259
Period size: 27 Copynumber: 11.9 Consensus size: 27
42328609 TACTGAAATG
** **
42328619 CCCTCAATTTGCAAAATTACCAAAGTA
1 CCCTCAATTTATAAAATTACCAATTTA
* * *
42328646 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCAATTTATAAAATTACCAATTTA
* * *
42328673 CCCTCAATTTACAGAATTACCATTTTA
1 CCCTCAATTTATAAAATTACCAATTTA
* *
42328700 CCCTCGATTTATAGAATTACCAATTTA
1 CCCTCAATTTATAAAATTACCAATTTA
* *
42328727 CCCTCGATTTATAGAATTACC-ATTTCA
1 CCCTCAATTTATAAAATTACCAATTT-A
* *
42328754 CCCTCGATTTACT-AAATTACCATTTTA
1 CCCTCAATTTA-TAAAATTACCAATTTA
* *
42328781 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCAATTTATAAAATTACCAATTTA
* * *
42328808 CCCTCAATTTATAGAATTATCATTTTA
1 CCCTCAATTTATAAAATTACCAATTTA
* * * **
42328835 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCAATTTATAAAATTACCAATTTA
* * * **
42328862 CCCTCGATTTACAAAATTACTAAAATA
1 CCCTCAATTTATAAAATTACCAATTTA
* * **
42328889 CCCTTAATTTAAAAAATTACCAAAATA
1 CCCTCAATTTATAAAATTACCAATTTA
* *
42328916 CCCTCGA-TCAGTAAAATTACCAA
1 CCCTCAATTTA-TAAAATTACCAA
42328939 AATACCCCTA
Statistics
Matches: 255, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
26 7 0.03
27 244 0.96
28 4 0.02
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (27 bp):
CCCTCAATTTATAAAATTACCAATTTA
Found at i:42328681 original size:54 final size:54
Alignment explanation
Indices: 42328619--42328923 Score: 333
Period size: 54 Copynumber: 5.6 Consensus size: 54
42328609 TACTGAAATG
* * **
42328619 CCCTCAATTTGCAAAATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTA
1 CCCTCAATTTACAGAATTACCAATTTACCCTCGATTTACAAAATTACCATTTTA
* * * *
42328673 CCCTCAATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCAATTTA
1 CCCTCAATTTACAGAATTACCAATTTACCCTCGATTTACAAAATTACCATTTTA
* * *
42328727 CCCTCGATTTATAGAATTACC-ATTTCACCCTCGATTTACTAAATTACCATTTTA
1 CCCTCAATTTACAGAATTACCAATTT-ACCCTCGATTTACAAAATTACCATTTTA
* * * * * *
42328781 CCCTCAATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTATCATTTTA
1 CCCTCAATTTACAGAATTACCAATTTACCCTCGATTTACAAAATTACCATTTTA
* ** * ***
42328835 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATA
1 CCCTCAATTTACAGAATTACCAATTTACCCTCGATTTACAAAATTACCATTTTA
* * * **
42328889 CCCTTAATTTAAAAAATTACCAAAATACCCTCGAT
1 CCCTCAATTTACAGAATTACCAATTTACCCTCGAT
42328924 CAGTAAAATT
Statistics
Matches: 208, Mismatches: 41, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
53 3 0.01
54 202 0.97
55 3 0.01
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (54 bp):
CCCTCAATTTACAGAATTACCAATTTACCCTCGATTTACAAAATTACCATTTTA
Found at i:42328734 original size:81 final size:81
Alignment explanation
Indices: 42328633--42328910 Score: 360
Period size: 81 Copynumber: 3.4 Consensus size: 81
42328623 CAATTTGCAA
* * * *
42328633 AATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACCATTT
1 AATTACCAAATTACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
42328698 TACCCTCGATTTATAG
66 TACCCTCGATTTATAG
* * * *
42328714 AATTACCAATTTACCCTCGATTTATAGAATTACCATTTCACCCTCGATTTACTA-AATTACCATT
1 AATTACCAAATTACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTAC-AGAATTACCATT
*
42328778 TTACCCTCAATTTATAG
65 TTACCCTCGATTTATAG
** * * *
42328795 AATTACCATTTTACCCTCAATTTATAGAATTATCATTTTACCCTCGATTTACAGAATTACCGTTT
1 AATTACCAAATTACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* *
42328860 TACCCTCGATTTACAA
66 TACCCTCGATTTATAG
* * * *
42328876 AATTACTAAAATACCCTTAATTTAAAAAATTACCA
1 AATTACCAAATTACCCTCAATTTATAAAATTACCA
42328911 AAATACCCTC
Statistics
Matches: 172, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 170 0.99
82 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (81 bp):
AATTACCAAATTACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
TACCCTCGATTTATAG
Found at i:42328939 original size:27 final size:27
Alignment explanation
Indices: 42328874--42329051 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
42328864 CTCGATTTAC
* ** * **
42328874 AAAATTACTAAAATACCCTTAATTTAA
1 AAAATTACCAAAATACCCCGAGTTTGT
**
42328901 AAAATTACCAAAATACCCTCGA-TCAGT
1 AAAATTACCAAAATACCC-CGAGTTTGT
*
42328928 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCGAGTTTGT
* *
42328955 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCGAGTTTGT
*
42328982 AAAATTACCAAAATACCCCTG-GCTTGT
1 AAAATTACCAAAATACCCC-GAGTTTGT
*
42329009 AAAACTACCAAAATACCCCTGA-TTTGT
1 AAAATTACCAAAATACCCC-GAGTTTGT
* * *
42329036 GAAATTATCGAAATAC
1 AAAATTACCAAAATAC
42329052 TCTTGATTTG
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.02
27 124 0.98
28 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCGAGTTTGT
Found at i:42329050 original size:81 final size:82
Alignment explanation
Indices: 42328874--42329082 Score: 225
Period size: 81 Copynumber: 2.6 Consensus size: 82
42328864 CTCGATTTAC
** * *
42328874 AAAATTACTAAAATACCCTTA-ATTTAAAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACC
1 AAAATTACTAAAATACCC-TAGATTTGTAAAATTACCAAAATACCCCTGGATCAGTAAAACTACC
42328937 AAAATACCCCTAGTTTGT
65 AAAATACCCCTAGTTTGT
* *
42328955 AAAATTACTAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTGGCT-TGTAAAACTACC
1 AAAATTACTAAAATA-CCCTAGATTTGTAAAATTACCAAAATACCCCTGGATCAGTAAAACTACC
42329018 AAAATACCCCT-GATTTGT
65 AAAATACCCCTAG-TTTGT
* * * * * *
42329036 GAAATTA-TCGAAATACTCTTGATTTGTAAAA-TATCGAAATACCCCTG
1 AAAATTACT-AAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTG
42329083 TAGGGTAGAA
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
80 20 0.18
81 81 0.74
82 9 0.08
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (82 bp):
AAAATTACTAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTGGATCAGTAAAACTACCA
AAATACCCCTAGTTTGT
Found at i:42329063 original size:54 final size:54
Alignment explanation
Indices: 42328874--42329109 Score: 189
Period size: 54 Copynumber: 4.4 Consensus size: 54
42328864 CTCGATTTAC
* * * ** **
42328874 AAAATTACTAAAATACCCTTAATTTAAAAAATTACCAAAATA-CCCTCGA-TCAGT
1 AAAATTACCAAAATACCCCTGATTTGTAAAA-TACCAAAATACCCCT-GAGTTTGT
*
42328928 AAAATTACCAAAATACCCCT-AGTTTGTAAAATTACTAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGTAAAA-TACCAAAATACCCCTGAGTTTGT
**
42328982 AAAATTACCAAAATACCCCTGGCTTGTAAAACTACCAAAATACCCCTGA-TTTGT
1 AAAATTACCAAAATACCCCTGATTTGTAAAA-TACCAAAATACCCCTGAGTTTGT
* * * * * * * *
42329036 GAAATTATCGAAATACTCTTGATTTGTAAAATATCGAAATACCCCTGTAG--GGT
1 AAAATTACCAAAATACCCCTGATTTGTAAAATACCAAAATACCCCTG-AGTTTGT
* *
42329089 AGAATTACCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
42329110 TAAGGAAGAA
Statistics
Matches: 149, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
53 34 0.23
54 110 0.74
55 5 0.03
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGATTTGTAAAATACCAAAATACCCCTGAGTTTGT
Found at i:42329077 original size:26 final size:26
Alignment explanation
Indices: 42328938--42329082 Score: 116
Period size: 27 Copynumber: 5.4 Consensus size: 26
42328928 AAAATTACCA
*
42328938 AAATACCCCT-AGTTTGTAAAAT-TACTA
1 AAATACCCCTGA-TTTGTAAAATAT-C-G
* *
42328965 AAATACCCCT-AGTTTGTAAAATTACCA
1 AAATACCCCTGA-TTTGTAAAA-TATCG
** * *
42328992 AAATACCCCTGGCTTGTAAAACTACCA
1 AAATACCCCTGATTTGTAAAA-TATCG
*
42329019 AAATACCCCTGATTTGTGAAATTATCG
1 AAATACCCCTGATTTGT-AAAATATCG
* *
42329046 AAATACTCTTGATTTGTAAAATATCG
1 AAATACCCCTGATTTGTAAAATATCG
42329072 AAATACCCCTG
1 AAATACCCCTG
42329083 TAGGGTAGAA
Statistics
Matches: 100, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
26 17 0.17
27 78 0.78
28 5 0.05
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.30
Consensus pattern (26 bp):
AAATACCCCTGATTTGTAAAATATCG
Found at i:42329108 original size:27 final size:27
Alignment explanation
Indices: 42329070--42329310 Score: 299
Period size: 27 Copynumber: 9.0 Consensus size: 27
42329060 TGTAAAATAT
42329070 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
42329097 CGAAATACCCCTGTAAGGAAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
42329124 TGAAATAACCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
42329151 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
42329178 TGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
42329205 TGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
42329232 TGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * **
42329259 CAAAATACCCCTATAGCATAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
42329286 TGAGATA-CCCT-T-GGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
42329310 C
1 C
42329311 ATTTTGCCCC
Statistics
Matches: 189, Mismatches: 25, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
24 9 0.05
25 1 0.01
26 4 0.02
27 175 0.93
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:42329550 original size:25 final size:25
Alignment explanation
Indices: 42329516--42329585 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
42329506 AGGAAGTGCT
* *
42329516 AAAAGGGCTTTGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
42329541 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
42329566 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
42329586 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:42329598 original size:24 final size:24
Alignment explanation
Indices: 42329516--42329612 Score: 67
Period size: 25 Copynumber: 4.0 Consensus size: 24
42329506 AGGAAGTGCT
*
42329516 AAAAG-GGCTTTG-CCTCAGTTTACC
1 AAAAGAGGCTTTGCCCT-AG-TTATC
*
42329540 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCTAG-TTATC
*
42329565 AAAA-AGGGCTTTGCCCTAGTTATT
1 AAAAGA-GGCTTTGCCCTAGTTATC
**
42329589 AAAAGAGGCTAGGCCTCTAGTTAT
1 AAAAGAGGCTTTGCC-CTAGTTAT
42329613 ATGATAAAGC
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
24 19 0.31
25 40 0.66
26 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCTAGTTATC
Found at i:42330903 original size:7 final size:7
Alignment explanation
Indices: 42330891--42330919 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
42330881 TGCAAACTAA
42330891 ATCTCAT
1 ATCTCAT
42330898 ATCTCAT
1 ATCTCAT
42330905 ATCTCAT
1 ATCTCAT
42330912 ATCTCAT
1 ATCTCAT
42330919 A
1 A
42330920 ATTGCTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (7 bp):
ATCTCAT
Found at i:42334010 original size:12 final size:11
Alignment explanation
Indices: 42333991--42334021 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
42333981 TGTATAAAAC
42333991 TTATTTTATTA
1 TTATTTTATTA
42334002 TTAATTTTATTA
1 TT-ATTTTATTA
42334014 TTATTTTA
1 TTATTTTA
42334022 AAGGCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Done.