Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 134 of 320
Found at i:43827685 original size:3 final size:3
Alignment explanation
Indices: 43827677--43827704 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
43827667 TTTGGACCTT
43827677 CTA CTA CTA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA C
43827705 CATTTATAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CTA
Found at i:43829106 original size:33 final size:33
Alignment explanation
Indices: 43829077--43829182 Score: 115
Period size: 33 Copynumber: 3.2 Consensus size: 33
43829067 CATTTTCTAG
* *
43829077 TTGTACACTCGAGGTGCACATTCCCTTTTCAAA
1 TTGTACACTCGAAGTGCACATACCCTTTTCAAA
* * * *
43829110 TGGTACACACGAAGTGTACATACCCTTTTCAAT
1 TTGTACACTCGAAGTGCACATACCCTTTTCAAA
* * *
43829143 TTGTACACTCAAAGTGCACATAACATTTTC-AA
1 TTGTACACTCGAAGTGCACATACCCTTTTCAAA
*
43829175 GTGTACAC
1 TTGTACAC
43829183 ATATAGTGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
32 8 0.14
33 51 0.86
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (33 bp):
TTGTACACTCGAAGTGCACATACCCTTTTCAAA
Found at i:43829269 original size:32 final size:32
Alignment explanation
Indices: 43829100--43829273 Score: 159
Period size: 33 Copynumber: 5.3 Consensus size: 32
43829090 GTGCACATTC
* * *
43829100 CCTTTTCAAATGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGT-GTACACACAAAGTGTACATAA
* * *
43829133 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAA-GTGTACACACAAAGTGTACATAA
* * * * **
43829166 CATTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
* * * **
43829198 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGT-GTACACACAAAGTGTACATAA
43829231 CCTTTTCAAGTGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
*
43829263 CGTTTTCAAGT
1 CCTTTTCAAGT
43829274 TGTTCCATTT
Statistics
Matches: 114, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
32 51 0.45
33 62 0.54
34 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.34
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAA
Found at i:43829269 original size:65 final size:65
Alignment explanation
Indices: 43829100--43829273 Score: 168
Period size: 65 Copynumber: 2.7 Consensus size: 65
43829090 GTGCACATTC
* * * * * * *
43829100 CCTTTTCAAATGGTACACACGAAGTGTACATACCCTTTTCAATTTGTACACTCAAAGTGCACATA
1 CCTTTTCAAGT-GTACACACAAAGTGTACATAACCTTTTCAAGTGGTACACACAAAGTACACATA
43829165 A
65 A
* * * * ** * * * **
43829166 CATTTTCAAGTGTACACATATAGTGTACCTTTCCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTGGTACACACAAAGTACACATAA
*
43829231 CCTTTTCAAGTGTACACACAAAGTGTACATAACGTTTTCAAGT
1 CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGT
43829274 TGTTCCATTT
Statistics
Matches: 84, Mismatches: 24, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
65 75 0.89
66 9 0.11
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.34
Consensus pattern (65 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTGGTACACACAAAGTACACATAA
Found at i:43830000 original size:21 final size:22
Alignment explanation
Indices: 43829959--43830000 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
43829949 TGTAAAAGTG
* *
43829959 ATTTATCTATCAATAATCTTTT
1 ATTTATCTATCAAAAAACTTTT
43829981 ATTT-TCTATCAAAAAACTTT
1 ATTTATCTATCAAAAAACTTT
43830001 CAATTTACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTATCTATCAAAAAACTTTT
Found at i:43836359 original size:46 final size:46
Alignment explanation
Indices: 43836292--43836439 Score: 215
Period size: 46 Copynumber: 3.2 Consensus size: 46
43836282 CAAATCAATT
** *
43836292 GATTGAAGAAGCCACAAATCCTGTACCCTTGAGTTGCAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCTTGAGTTGCAGTGGGATG
*
43836338 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCTTGAGTTGCAGTGGGATG
* * * *
43836384 GATTGGAGATGATACAAATCCTATACCTTTGAGTTGCAGTAGGATG
1 GATTGAAGAAGATACAAATCCTATACCCTTGAGTTGCAGTGGGATG
*
43836430 GATAGAAGAA
1 GATTGAAGAA
43836440 ACCAAATTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 90 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCCTATACCCTTGAGTTGCAGTGGGATG
Found at i:43836943 original size:89 final size:89
Alignment explanation
Indices: 43836838--43837122 Score: 295
Period size: 89 Copynumber: 3.2 Consensus size: 89
43836828 AGTTGAAGAT
* * *
43836838 CTTATCTCCTTAAAGTTGTAGTGGAGTAGATCAAATACGGCGAATCTTATCTTCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAATACGGCGAATCTTATCTTCCTGAAGTTGCA
43836903 GCGAAGCAGATTGAAGCTACCAGC
66 GCGAAGCAGATTGAAGCTACCAGC
* * * * * * * *
43836927 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGACAGCAAATCTCATCTCCCTGAAGTAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATC-AAATACGGCGAATCTTATCTTCCTGAAGTTGC
* * * * * *
43836991 AGTGGAGCAAATTGAAGTTA-AAGAT
65 AGCGAAGCAGATTGAAGCTACCAG-C
*** * * * *
43837016 CTTATCTTATTGAAATTGCAGTGGAGTAGATCAAATAAGGTGAATCTTATCTTCCTGACGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAATACGGCGAATCTTATCTTCCTGAAGTTGCA
*
43837081 GCGAAGCAGATTGAAGCCACCAGC
66 GCGAAGCAGATTGAAGCTACCAGC
* *
43837105 TTTATCTACCTGAAGTTG
1 CTTATCTCCCTGAAGTTG
43837123 TAGCGGAGCA
Statistics
Matches: 148, Mismatches: 44, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
88 3 0.02
89 142 0.96
90 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAATACGGCGAATCTTATCTTCCTGAAGTTGCA
GCGAAGCAGATTGAAGCTACCAGC
Found at i:43837088 original size:178 final size:178
Alignment explanation
Indices: 43836789--43837190 Score: 608
Period size: 178 Copynumber: 2.3 Consensus size: 178
43836779 GGTGAATCCA
* * * *
43836789 CAAATCTCATCTCCCTAAAGCAGTAGTGGAGCAGATTGAAGTTGAAGATCTTATCTCCTTAAAGT
1 CAAATCTCATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGTTAAAGATCTTATCTCATTAAAGT
* *
43836854 TGTAGTGGAGTAGATCAAATACGGCGAATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTGAAG
66 TGCAGTGGAGTAGATCAAATAAGGCGAATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTGAAG
* * * *
43836919 CTACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAG
131 CCACCAGCCTTATCTACCTGAAGTTGCAGCGGAGCAAACTGAAGACAG
* * *
43836967 CAAATCTCATCTCCCTGAAGTAGCAGTGGAGCAAATTGAAGTTAAAGATCTTATCTTATTGAAA-
1 CAAATCTCATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGTTAAAGATCTTATCTCATT-AAAG
* *
43837031 TTGCAGTGGAGTAGATCAAATAAGGTGAATCTTATCTTCCTGACGTTGCAGCGAAGCAGATTGAA
65 TTGCAGTGGAGTAGATCAAATAAGGCGAATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTGAA
* *
43837096 GCCACCAGCTTTATCTACCTGAAGTTGTAGCGGAGCAAACTGAAGACAG
130 GCCACCAGCCTTATCTACCTGAAGTTGCAGCGGAGCAAACTGAAGACAG
* * *
43837145 TAAATTTCATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGCTAAA
1 CAAATCTCATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGTTAAA
43837191 AGTTGCAAGT
Statistics
Matches: 201, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
178 198 0.99
179 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (178 bp):
CAAATCTCATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGTTAAAGATCTTATCTCATTAAAGT
TGCAGTGGAGTAGATCAAATAAGGCGAATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTGAAG
CCACCAGCCTTATCTACCTGAAGTTGCAGCGGAGCAAACTGAAGACAG
Found at i:43837228 original size:96 final size:96
Alignment explanation
Indices: 43837106--43837312 Score: 245
Period size: 96 Copynumber: 2.2 Consensus size: 96
43837096 GCCACCAGCT
* * * * * *
43837106 TTATCTACCTGAAGTTGTAGCGGAGCAAACTGAAGACAGTAAATTTCATCTCCCTGAAGTAGTAG
1 TTATCTCCCTAAAGTTGTAGCAGAGCAAACTGAAGACAGCAAATCTCATCTCCCTGAAGTAGCAG
*
43837171 TGGAGCAGATTGAAGCTAAAAGTTGCA-AGTC
66 TGGAGCAGATTGAAGCTAAAAGTTACAGA-TC
* * * * * * * *
43837202 TTATCTCCCTAAAGTTGTAGCAGAGCAGACTGAAGATAGCAGATCTCATTTTCTTGAATTTGCAG
1 TTATCTCCCTAAAGTTGTAGCAGAGCAAACTGAAGACAGCAAATCTCATCTCCCTGAAGTAGCAG
*
43837267 TGGAGCAGATTGAAGCTACAAGTTACAGATC
66 TGGAGCAGATTGAAGCTAAAAGTTACAGATC
*
43837298 TTATCTCTCTAAAGT
1 TTATCTCCCTAAAGT
43837313 AGAGTAGGTC
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
96 92 0.99
97 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (96 bp):
TTATCTCCCTAAAGTTGTAGCAGAGCAAACTGAAGACAGCAAATCTCATCTCCCTGAAGTAGCAG
TGGAGCAGATTGAAGCTAAAAGTTACAGATC
Found at i:43838960 original size:4 final size:4
Alignment explanation
Indices: 43838951--43838977 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
43838941 TGTTTCATGT
43838951 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
43838978 TGTTTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:43839095 original size:10 final size:10
Alignment explanation
Indices: 43839082--43839107 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
43839072 TTACATACAT
43839082 TTTTATATTG
1 TTTTATATTG
43839092 TTTTATATTG
1 TTTTATATTG
43839102 TTTTAT
1 TTTTAT
43839108 CTTTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (10 bp):
TTTTATATTG
Found at i:43839237 original size:28 final size:28
Alignment explanation
Indices: 43839181--43839238 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
43839171 AGTATTATTA
* * *
43839181 TTATTATTATTTATTTATATATATCTAT
1 TTATTATCATTTATATATATATATATAT
* *
43839209 TTATTATCCTTTATATATATATGTATAT
1 TTATTATCATTTATATATATATATATAT
43839237 TT
1 TT
43839239 TAAAAATTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTATTATCATTTATATATATATATATAT
Found at i:43840850 original size:3 final size:3
Alignment explanation
Indices: 43840842--43840874 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
43840832 CTATTTTCAC
43840842 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
43840875 TTAGAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:43842129 original size:14 final size:14
Alignment explanation
Indices: 43842108--43842148 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
43842098 CTGCAACTTG
43842108 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
43842122 TGCAACTTGCAAAT
1 CACAACTTGCACAT
43842136 CACAACTTGCACA
1 CACAACTTGCACA
43842149 ATTAGGTAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:43849059 original size:12 final size:12
Alignment explanation
Indices: 43849042--43849067 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43849032 TACATACTTA
43849042 TTGAAAGTTTTG
1 TTGAAAGTTTTG
43849054 TTGAAAGTTTTG
1 TTGAAAGTTTTG
43849066 TT
1 TT
43849068 CTTGTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (12 bp):
TTGAAAGTTTTG
Found at i:43852947 original size:42 final size:43
Alignment explanation
Indices: 43852880--43853033 Score: 206
Period size: 42 Copynumber: 3.6 Consensus size: 43
43852870 TTCATGTAAA
*
43852880 AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTACAAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTACCAC
** *
43852923 AAACGTTGCTA-AGAACAT-AGCCTTTAGCGGCGCTTTTGCCAC
1 AAACGCCGCTATAGAACATGA-CCTTTAGCGGCGCTTTTACCAC
* * *
43852965 TAATGCCGCTATAGAACA-GACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTACCAC
*
43853007 AAACGCCGCTAAAGAACATGACCTTTA
1 AAACGCCGCTATAGAACATGACCTTTA
43853034 AAAAATATTT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 70 0.74
43 24 0.25
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTACCAC
Found at i:43860066 original size:40 final size:40
Alignment explanation
Indices: 43860029--43860160 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 40
43860019 GCTACTCGTT
*
43860029 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
43860069 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
43860109 CCAATGCCTTAGAG-CTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
43860148 CAAATGCCTTCGG
1 CAAATGCCTTCGG
43860161 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 32 0.40
40 46 0.57
41 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:43860154 original size:39 final size:40
Alignment explanation
Indices: 43860057--43860157 Score: 141
Period size: 39 Copynumber: 2.5 Consensus size: 40
43860047 AGCCCGGTTA
* * * *
43860057 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTAGAGACTTAACCCAGAAT
* *
43860097 TAGTAACTCGCACCAATGCCTTAGAG-CTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTTAGAGACTTAACCCAGAAT
43860136 TAGTAACTCGCACAAATGCCTT
1 TAGTAACTCGCACAAATGCCTT
43860158 CGGATCTTAG
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 31 0.57
40 23 0.43
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTAGAGACTTAACCCAGAAT
Found at i:43862342 original size:37 final size:37
Alignment explanation
Indices: 43862292--43862370 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43862282 TTATTACGAA
* * *
43862292 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
43862329 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
43862366 GTCTT
1 GTCTT
43862371 TAGAACTCGG
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:43862567 original size:47 final size:47
Alignment explanation
Indices: 43862489--43863295 Score: 1195
Period size: 47 Copynumber: 17.2 Consensus size: 47
43862479 CCCTTCGGGA
* * * * * *
43862489 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43862536 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** * *
43862583 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCGTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43862630 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43862679 CTTATCACACATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43862726 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCGTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43862771 CTTATCACATATATACACACTTTCACATTCATCACATC-GCCAATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCC-ATTAGGC
* *
43862820 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCGTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43862865 CTTATCACTTATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43862914 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43862961 CTTATCAC--ATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43863006 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43863051 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCGTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43863096 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
43863145 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43863192 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43863240 CTTATCACATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43863287 CTTATCACA
1 CTTATCACA
43863296 ATTTAGAATT
Statistics
Matches: 701, Mismatches: 42, Indels: 34
0.90 0.05 0.04
Matches are distributed among these distances:
45 208 0.30
46 3 0.00
47 276 0.39
48 49 0.07
49 165 0.24
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43863105 original size:22 final size:22
Alignment explanation
Indices: 43863032--43863105 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
43863022 TTTCACATTC
*
43863032 ATCACATCGGCCGTTAGGCCTT
1 ATCACATCGGCCGTTAAGCCTT
*** * * *
43863054 ATCACATATACACTTTCA-CATT
1 ATCACATCGGC-CGTTAAGCCTT
43863076 CATCACATCGGCCGTTAAGCCTT
1 -ATCACATCGGCCGTTAAGCCTT
43863099 ATCACAT
1 ATCACAT
43863106 ATATACACAC
Statistics
Matches: 36, Mismatches: 13, Indels: 6
0.65 0.24 0.11
Matches are distributed among these distances:
22 22 0.61
23 14 0.39
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCGTTAAGCCTT
Found at i:43866667 original size:40 final size:40
Alignment explanation
Indices: 43866623--43866738 Score: 124
Period size: 40 Copynumber: 2.9 Consensus size: 40
43866613 GAATACATGT
* * *
43866623 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* * ***
43866663 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* * **
43866703 CACTAGCACGAATGCTCTTCGAAATTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGAT
43866739 TTAGTAACTC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
Found at i:43866771 original size:80 final size:80
Alignment explanation
Indices: 43866649--43866900 Score: 223
Period size: 80 Copynumber: 3.1 Consensus size: 80
43866639 CTTCGGGACC
* * ** * *
43866649 TAGCCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCTC-ACTAGCA
1 TAGCCCGGATATATCAACTC-GCACAAATGC-CTTCGGGTCTTAGCCCGGATACATCAACTAGCA
43866711 CGAA-TGCTCTTCGAAAT-T
64 C-AATTGC-CTTCG-AATCT
* * * *
43866729 TAGCCCGGATTTAGT-AACTCGCACCAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC
1 TAGCCCGGATATA-TCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATACATCAACTAGCAC
**
43866793 AATTGCCTTCGGGTCT
65 AATTGCCTTCGAATCT
* * * *
43866809 TAGGCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCTC
1 TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA-CATCAACTAGCAC
*
43866873 AATTGCCTTCGGGA-CT
65 AATTGCCTTC-GAATCT
43866889 TAGCCCGGATAT
1 TAGCCCGGATAT
43866901 CATTCAAATG
Statistics
Matches: 143, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
79 2 0.01
80 114 0.80
81 26 0.18
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (80 bp):
TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATACATCAACTAGCACA
ATTGCCTTCGAATCT
Found at i:43866772 original size:40 final size:41
Alignment explanation
Indices: 43866728--43866900 Score: 214
Period size: 40 Copynumber: 4.3 Consensus size: 41
43866718 TCTTCGAAAT
*
43866728 TTAGCCCGGATTTAGT-AACTCGCACCAA-TGCCTTCGGGTC
1 TTAGCCCGGATATA-TCAACTCGCACCAATTGCCTTCGGGTC
*
43866768 TTAGCCCGGATATATCAACTTGCA-CAATTGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACCAATTGCCTTCGGGTC
* * *
43866808 TTAGGCCGGATATATCAATTCGCA-CAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACCAATTGCCTTCGGGTC
* * *
43866848 TTAGCCCGGATATAATC-ACTAGC-TCAATTGCCTTCGGGAC
1 TTAGCCCGGATAT-ATCAACTCGCACCAATTGCCTTCGGGTC
43866888 TTAGCCCGGATAT
1 TTAGCCCGGATAT
43866901 CATTCAAATG
Statistics
Matches: 118, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
39 4 0.03
40 111 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (41 bp):
TTAGCCCGGATATATCAACTCGCACCAATTGCCTTCGGGTC
Found at i:43867228 original size:29 final size:29
Alignment explanation
Indices: 43867194--43867267 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
43867184 TAATCAACAA
* *
43867194 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACC
*
43867223 CGCACACTTAGTGCCATGCATTTCAAGCC
1 CGCACACTTAGTGCCATGCATTTCAAACC
43867252 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
43867268 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACC
Found at i:43867310 original size:43 final size:43
Alignment explanation
Indices: 43867249--43867394 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
43867239 TGCATTTCAA
*
43867249 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAATACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
43867292 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
43867335 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
43867378 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
43867395 TGAAAACCAA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:43869308 original size:37 final size:37
Alignment explanation
Indices: 43869258--43869336 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43869248 TTATTACGAA
* * *
43869258 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
43869295 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
43869332 GTCTT
1 GTCTT
43869337 TAGAACTCGG
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:43869533 original size:47 final size:47
Alignment explanation
Indices: 43869455--43870126 Score: 956
Period size: 47 Copynumber: 14.2 Consensus size: 47
43869445 CCCTTCGGGA
* * * * * *
43869455 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43869502 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** * *
43869549 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCGTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43869596 CTTATCACATATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43869645 CTTATCACACATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43869692 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCGTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43869737 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43869786 CTTATCAC--ATATACACTTTCAGATTCATCACATCGGCCGTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43869831 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43869880 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43869927 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCTTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43869976 CTTATCACATATATACACTATCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43870023 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43870071 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43870118 CTTATCACA
1 CTTATCACA
43870127 ATTTAGAATT
Statistics
Matches: 560, Mismatches: 52, Indels: 26
0.88 0.08 0.04
Matches are distributed among these distances:
45 80 0.14
47 272 0.49
48 44 0.08
49 164 0.29
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43869650 original size:96 final size:94
Alignment explanation
Indices: 43869455--43870126 Score: 965
Period size: 96 Copynumber: 7.1 Consensus size: 94
43869445 CCCTTCGGGA
* * * * * * * *
43869455 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
43869520 TTTCACATTCATCACATCGGCCATTAAGC
66 TTTCACATTCATCACATCGGCCATTAAGC
** * *
43869549 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCGTTAAGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * *
43869614 ACTTTCACATTCATCACATTGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAAGC
* *
43869645 CTTATCACACATATACACTTTCACATTCATCACATCGGTCATTAGGCCTTATCAC--ATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
43869708 TTTCACATTCATCACATCGGCCGTTAAGC
66 TTTCACATTCATCACATCGGCCATTAAGC
43869737 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
43869800 ACTTTCAGATTCATCACATCGGCCGTTAAGC
64 ACTTTCACATTCATCACATCGGCCATTAAGC
* * *
43869831 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCACATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
43869896 ACTTTCACATTCATCACATCGGCCATTAAGC
64 ACTTTCACATTCATCACATCGGCCATTAAGC
*
43869927 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCTTTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
43869992 ACTATCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAAGC
* *
43870023 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACA
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* *
43870088 CTTTCACATTCATCACATCGGCTATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAAGC
43870118 CTTATCACA
1 CTTATCACA
43870127 ATTTAGAATT
Statistics
Matches: 527, Mismatches: 42, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
92 46 0.09
94 171 0.32
95 85 0.16
96 221 0.42
97 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGC
Found at i:43872944 original size:14 final size:13
Alignment explanation
Indices: 43872927--43872972 Score: 53
Period size: 11 Copynumber: 3.7 Consensus size: 13
43872917 ATTTTTTTTT
43872927 CTTTTCTTTTCATC
1 CTTTTCTTTTC-TC
43872941 CTTTTC-TTTCT-
1 CTTTTCTTTTCTC
43872952 CTTTT-TTTTCTC
1 CTTTTCTTTTCTC
*
43872964 CATTTCTTT
1 CTTTTCTTT
43872973 ATTACTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 10 0.36
12 5 0.18
13 7 0.25
14 6 0.21
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (13 bp):
CTTTTCTTTTCTC
Found at i:43872950 original size:23 final size:23
Alignment explanation
Indices: 43872919--43872972 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
43872909 ATGGGCACAT
*
43872919 TTTTTTTTCT-TTTCTTTTCATCC
1 TTTTCTTTCTCTTTCTTTTC-TCC
*
43872942 TTTTCTTTCTCTTTTTTTTCTCC
1 TTTTCTTTCTCTTTCTTTTCTCC
*
43872965 ATTTCTTT
1 TTTTCTTT
43872973 ATTACTAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTCTTTCTCTTTCTTTTCTCC
Found at i:43879637 original size:79 final size:81
Alignment explanation
Indices: 43879524--43879706 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
43879514 TACTCGTTCA
* *
43879524 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
43879587 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
43879604 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
43879667 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
43879683 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
43879707 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:43879706 original size:40 final size:40
Alignment explanation
Indices: 43879503--43879706 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
43879493 CGGAATTTAA
** *
43879503 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
43879543 CCGGTTATAGTAACTCGCACAAATGCCTTCAGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43879583 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43879622 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
43879662 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43879702 CCGGA
1 CCGGA
43879707 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43887660 original size:34 final size:37
Alignment explanation
Indices: 43887577--43887669 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 37
43887567 TGAGCAAATA
* *
43887577 CAGTTTGGGCCTAAGCCCATTACAGTAATGGTTCAGTCT
1 CAGTTTGGGCCTAAGCCCATTACA--AATGATTCAGTAT
* *
43887616 CAGTTAGGGCCTTAGCCCATTAC-AAT-ATT-AGTAT
1 CAGTTTGGGCCTAAGCCCATTACAAATGATTCAGTAT
*
43887650 CAGTTTGGGCCTGAGCCCAT
1 CAGTTTGGGCCTAAGCCCAT
43887670 CTCAGTGACA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
34 22 0.46
35 2 0.04
36 3 0.06
39 21 0.44
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (37 bp):
CAGTTTGGGCCTAAGCCCATTACAAATGATTCAGTAT
Found at i:43891589 original size:19 final size:20
Alignment explanation
Indices: 43891565--43891602 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43891555 GGTACCACCA
43891565 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
43891584 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
43891603 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:43897575 original size:19 final size:20
Alignment explanation
Indices: 43897551--43897588 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43897541 GGTACCACCA
43897551 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
43897570 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
43897589 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:43897976 original size:93 final size:93
Alignment explanation
Indices: 43897817--43897988 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
43897807 CGCCCCTAAG
* * * *
43897817 TGAACTCGGACTTAACTCAATGAGCTCAGGCGTTCGCATCCATAAATGAACTCGGACTCAATTCA
1 TGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCA
43897882 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * * *
43897910 TGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGTATCCATAAGTGTACTCGGACTCAACTC
1 TGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTC
43897974 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
43897989 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43902145 original size:37 final size:37
Alignment explanation
Indices: 43902095--43902173 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43902085 TTATTATGAA
* *
43902095 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
43902132 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
43902169 GTCTT
1 GTCTT
43902174 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:43902370 original size:47 final size:47
Alignment explanation
Indices: 43902292--43903350 Score: 1785
Period size: 47 Copynumber: 22.4 Consensus size: 47
43902282 CTCTTCGGGA
* * * * * * * *
43902292 CTTATCACATTTATGCACTTTCACGTCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43902339 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902386 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43902433 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTATGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43902480 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43902527 CTTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43902574 CTTGTCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43902621 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902670 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902719 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902766 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43902813 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902860 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902907 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43902954 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTATGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43903001 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43903048 CTTGTCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43903095 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43903144 CTTATCACATATATACACTTTAACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43903191 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43903238 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43903285 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43903332 CTTATCACATATATACACT
1 CTTATCACATATATACACT
43903351 GTCTTGGCTG
Statistics
Matches: 963, Mismatches: 45, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
47 825 0.86
49 138 0.14
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43908889 original size:39 final size:39
Alignment explanation
Indices: 43908674--43908882 Score: 307
Period size: 39 Copynumber: 5.3 Consensus size: 39
43908664 GCTCCTCGTT
* *
43908674 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
43908714 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
*
43908754 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCTCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
43908793 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
43908832 CAAATGCCTTCGGGCTTAGCCC-GAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
43908870 CAAATGCCTTCGG
1 CAAATGCCTTCGG
43908883 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
38 29 0.18
39 82 0.52
40 46 0.29
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:43908918 original size:77 final size:78
Alignment explanation
Indices: 43908674--43908932 Score: 291
Period size: 78 Copynumber: 3.3 Consensus size: 78
43908664 GCTCCTCGTT
* ** *
43908674 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGACTTAGCCCG
43908738 GAT-TTAGTAAC-TCGCA
62 GATATTAGT-ACTTCGCA
* *
43908754 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCTCACAAATGCCTTCGGGCTTAGCCCGGA-
1 CAAATGCCTTCGGGCTTAGCCC-GAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGAT
43908818 ATTAGTA-TCTCGCA
65 ATTAGTACT-TCGCA
*
43908832 CAAATGCCTTCGGGCTTAGCCCGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 CAAATGCCTTCGGGCTTAGCCCGAATTAGTATCTCGCACAAATGCCTTCGGA-CTTAGCCCGGAT
*
43908897 ATT-GTCACTTAGCA
65 ATTAGT-ACTTCGCA
*
43908911 C-AA-GCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCG
43908933 GACATCATTC
Statistics
Matches: 158, Mismatches: 11, Indels: 22
0.83 0.06 0.12
Matches are distributed among these distances:
77 38 0.24
78 68 0.43
79 35 0.22
80 17 0.11
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGATA
TTAGTACTTCGCA
Found at i:43921124 original size:31 final size:30
Alignment explanation
Indices: 43921055--43921125 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
43921045 TTGTTAGTTG
*
43921055 TTTTTATTTTATTTTTGTTAAGACTTATAT
1 TTTTTATTTTATTTTTATTAAGACTTATAT
* **
43921085 GTTTTATTTTATTTTTATTCTGAACTT-TATT
1 TTTTTATTTTATTTTTATTAAG-ACTTATA-T
43921116 TTTTTATTTT
1 TTTTTATTTT
43921126 TTCAATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 20 0.59
31 14 0.41
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (30 bp):
TTTTTATTTTATTTTTATTAAGACTTATAT
Found at i:43921581 original size:15 final size:15
Alignment explanation
Indices: 43921561--43921590 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43921551 CAAGTATGAT
*
43921561 AAATTATTTTTTTAG
1 AAATTATTATTTTAG
43921576 AAATTATTATTTTAG
1 AAATTATTATTTTAG
43921591 GTTGTCTCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
AAATTATTATTTTAG
Found at i:43928120 original size:10 final size:11
Alignment explanation
Indices: 43928095--43928126 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
43928085 ATTTAATTAA
43928095 TTTTTAAACAG
1 TTTTTAAACAG
43928106 TTTTTAAACAG
1 TTTTTAAACAG
*
43928117 TTTTTGAACA
1 TTTTTAAACA
43928127 CCTTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (11 bp):
TTTTTAAACAG
Found at i:43929243 original size:48 final size:48
Alignment explanation
Indices: 43929161--43929495 Score: 321
Period size: 48 Copynumber: 6.9 Consensus size: 48
43929151 ATACTAGGGT
*
43929161 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAA
* * * * * * **
43929209 TATGTGAGCTAGAGTAAGACCATGTTTGGAACATGACATCGACATTGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAA
* **
43929257 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAA
* * *
43929305 TATGACAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGGCCTCAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAA
* * * * * ***
43929353 TATGTGAGCCAGTGTAAGACCATGTTTGGAATATGGCATCGGCATTGT
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAA
* * * * * *
43929401 TATGTGAGCCAGTGTAAGAACATGTCTGGGGCATGGCATTC-GCACCGATG
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCA-TCGGCATC-A-A
* * * * **
43929451 TATAAGAACCAGTTTAAGACCATGTCCAGGACATGGCATCGGCAT
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
43929496 TTGACCCTTT
Statistics
Matches: 234, Mismatches: 49, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
48 197 0.84
49 4 0.02
50 33 0.14
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAA
Found at i:43929425 original size:144 final size:144
Alignment explanation
Indices: 43929161--43929439 Score: 450
Period size: 144 Copynumber: 1.9 Consensus size: 144
43929151 ATACTAGGGT
* * *
43929161 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCTAGAGTAA
1 TATGACAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGAGTAA
* *
43929226 GACCATGTTTGGAACATGACATCGACATTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACAT
66 GACCATGTTTGGAACATGACATCGACATTGATATGAGAGCCAGTGTAAGAACATGTCTGGGACAT
43929291 GGCATCGACATTGA
131 GGCATCGACATTGA
*
43929305 TATGACAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAA
1 TATGACAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGAGTAA
* * * * * *
43929370 GACCATGTTTGGAATATGGCATCGGCATTGTTATGTGAGCCAGTGTAAGAACATGTCTGGGGCAT
66 GACCATGTTTGGAACATGACATCGACATTGATATGAGAGCCAGTGTAAGAACATGTCTGGGACAT
43929435 GGCAT
131 GGCAT
43929440 TCGCACCGAT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
144 123 1.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (144 bp):
TATGACAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGAGTAA
GACCATGTTTGGAACATGACATCGACATTGATATGAGAGCCAGTGTAAGAACATGTCTGGGACAT
GGCATCGACATTGA
Found at i:43938798 original size:46 final size:46
Alignment explanation
Indices: 43938748--43938873 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
43938738 TGGTTGAGCA
*
43938748 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *
43938794 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
43938840 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43938874 GGGGCAGGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
Found at i:43945876 original size:46 final size:46
Alignment explanation
Indices: 43945826--43945995 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
43945816 TTGAGCATCT
*
43945826 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGTCC
* * *
43945872 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG--TCC
* * *
43945919 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAGGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGTCC
* *
43945965 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43945996 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 56 0.53
47 29 0.28
48 5 0.05
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGTCC
Found at i:43945979 original size:93 final size:93
Alignment explanation
Indices: 43945820--43945990 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
43945810 GGATGGTTGA
* * *
43945820 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGCCCGAACTCGTTGAGT
43945885 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
43945913 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAGGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGCCCGAACTCGTTGAGT
*
43945978 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
43945991 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43951162 original size:11 final size:11
Alignment explanation
Indices: 43951148--43951177 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
43951138 AATATAAAGT
43951148 TAATGATACAA
1 TAATGATACAA
*
43951159 TAATAATACAA
1 TAATGATACAA
43951170 TAATGATA
1 TAATGATA
43951178 AACATAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
TAATGATACAA
Found at i:43953058 original size:179 final size:177
Alignment explanation
Indices: 43952631--43953105 Score: 689
Period size: 177 Copynumber: 2.7 Consensus size: 177
43952621 TTCGGTCCGC
* * * * * * * *
43952631 TCCAATATAATTTCAAGGAAAAGGGATTTGTAGTTTTGATCTACTCCACTGAATCTTCAAGGAGA
1 TCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGG
* * *
43952696 TAAGAATTGGTAATTTCAACCTGCTCCACTGTAACTTTAGGGAGATAAGGTTTGTCTATTTTTAT
66 TAAGAATTGATAATTTCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTCTATTTTTAT
* *
43952761 CCTGCTCTACTACAACTTCAGAGAGAAGGATTGTGGCTTCGATCTGC
131 CCTGCTCAACTACAACTTCAGAGAGAAGGATTGTGGCTTCGATCTGA
* * * * * ** *
43952808 TCTAATGTAATTTCAGGGAGAAAAGATTTGTAGCTTCTATCTACTCCGCTGGAACTTCAAAAAAG
1 TCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGG
*
43952873 TAAGAATTGATAATTTCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTGTATTTTTAT
66 TAAGAATTGATAATTTCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTCTATTTTTAT
* *
43952938 CTTGCTCAACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGA
131 CCTGCTCAACTACAACTTCAGAGAG--AAGGATTGTGGCTTCGATCTGA
*
43952987 TCCAATGTAATTTCAAAGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGG
1 TCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGG
* *
43953052 TAAGAATTGATAATTTCAACCTACTCCACTGCAACTTCAGGGAGATACGGTTTG
66 TAAGAATTGATAATTTCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTG
43953106 CGACTTGTAG
Statistics
Matches: 261, Mismatches: 35, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
177 132 0.51
179 129 0.49
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (177 bp):
TCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGG
TAAGAATTGATAATTTCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTCTATTTTTAT
CCTGCTCAACTACAACTTCAGAGAGAAGGATTGTGGCTTCGATCTGA
Found at i:43953839 original size:46 final size:46
Alignment explanation
Indices: 43953782--43954021 Score: 225
Period size: 46 Copynumber: 5.2 Consensus size: 46
43953772 AATTTTTAGT
* * * *
43953782 TTCTTCCATCCATCCCACAGTAACTC-AGGGCTATAGGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGG-TACAGGATTTGTATC
* * * * * *
43953828 ATCTTCAATCCATCTCACTACAGCTC-TGGTGTATAGGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGG-GTACAGGATTTGTATC
* * *
43953874 TTCTTCAATCCATCCCACTGCAGCTCAAAGGTACAGGATTTGTATT
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTACAGGATTTGTATC
* *
43953920 TTCTTCAATCCA-CCTAACTGCAGCTCAAGGGTACAGGATTTGTATC
1 TTCTTCAATCCATCC-CACTGCAACTCAAGGGTACAGGATTTGTATC
* * * * * * **
43953966 TTCTTCAATCCATCCCATTACAGCTCAGGGGTATAGGACTTGTGGC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTACAGGATTTGTATC
43954012 TTCTTCAATC
1 TTCTTCAATC
43954022 AATTGGTTTG
Statistics
Matches: 164, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
45 2 0.01
46 158 0.96
47 4 0.02
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.33
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTGCAACTCAAGGGTACAGGATTTGTATC
Found at i:43954016 original size:92 final size:92
Alignment explanation
Indices: 43953782--43954021 Score: 279
Period size: 92 Copynumber: 2.6 Consensus size: 92
43953772 AATTTTTAGT
* * * * *
43953782 TTCTTCCATCCATCCCACAGTA-A-CTCAGGGCTATAGGATTTGTATCATCTTCAATCCATCTCA
1 TTCTTCAATCCATCCCAC--TACAGCTCAGGGGTATAGGATTTGTATCTTCTTCAATCCACCTAA
* *
43953845 CTACAGCTCTGGTGTATAGGATTTGTATC
64 CTACAGCTCAGGTGTACAGGATTTGTATC
* ** * *
43953874 TTCTTCAATCCATCCCACTGCAGCTCAAAGGTACAGGATTTGTATTTTCTTCAATCCACCTAACT
1 TTCTTCAATCCATCCCACTACAGCTCAGGGGTATAGGATTTGTATCTTCTTCAATCCACCTAACT
*
43953939 GCAGCTCAAGG-GTACAGGATTTGTATC
66 ACAGCTC-AGGTGTACAGGATTTGTATC
* * **
43953966 TTCTTCAATCCATCCCATTACAGCTCAGGGGTATAGGACTTGTGGCTTCTTCAATC
1 TTCTTCAATCCATCCCACTACAGCTCAGGGGTATAGGATTTGTATCTTCTTCAATC
43954022 AATTGGTTTG
Statistics
Matches: 123, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
90 1 0.01
91 1 0.01
92 119 0.97
93 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.33
Consensus pattern (92 bp):
TTCTTCAATCCATCCCACTACAGCTCAGGGGTATAGGATTTGTATCTTCTTCAATCCACCTAACT
ACAGCTCAGGTGTACAGGATTTGTATC
Found at i:43957210 original size:80 final size:79
Alignment explanation
Indices: 43957066--43957290 Score: 254
Period size: 80 Copynumber: 2.8 Consensus size: 79
43957056 GCTCCTCGTT
* * * * *
43957066 CAAATGCCTTCGGGACATAGTCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGTCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
43957131 TTTAACAACTCGCA
66 TTTAACAACTCGCA
* **
43957145 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGTCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
43957210 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
* * * * * * *
43957225 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGTCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
43957289 GA
64 GA
43957291 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 37 0.30
80 80 0.66
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGTCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:43957250 original size:40 final size:40
Alignment explanation
Indices: 43957068--43957290 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
43957058 TCCTCGTTCA
* ** * * *
43957068 AATGCCTTCGGGACATAGTCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
43957107 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43957147 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
43957187 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
43957227 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
43957267 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43957291 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43957299 original size:41 final size:41
Alignment explanation
Indices: 43957222--43957299 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
43957212 TTAGTATCTC
* * *
43957222 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
43957263 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
43957300 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:43963929 original size:11 final size:11
Alignment explanation
Indices: 43963915--43963944 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
43963905 AATATAAAGT
43963915 TAATGATACAA
1 TAATGATACAA
*
43963926 TAATAATACAA
1 TAATGATACAA
43963937 TAATGATA
1 TAATGATA
43963945 AACATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
TAATGATACAA
Found at i:43968019 original size:40 final size:40
Alignment explanation
Indices: 43967973--43968159 Score: 268
Period size: 40 Copynumber: 4.7 Consensus size: 40
43967963 CCAACCCAAT
* * * ** *
43967973 TGCCTTCAGGATTTAGCCCGGATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
43968013 TACCTTCGGGACTTAACCCAGAAATAGA-AACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATA-ACAACCAGCACGAA
43968053 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
43968093 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
43968133 TGCCTTCGGGACTTAACCTGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
43968160 TCCTCAATTG
Statistics
Matches: 133, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 131 0.98
41 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Found at i:43974463 original size:108 final size:108
Alignment explanation
Indices: 43974307--43974606 Score: 307
Period size: 108 Copynumber: 2.8 Consensus size: 108
43974297 ACCGACGATG
* * ** * * * *
43974307 AAAATGC-AGTTCGGAATGAGAAAAACACTTTCCAGAACTTGAACAACAATAACAATGAGAATGC
1 AAAATGCAAG-TCAGAATGAGAATAATGCTTCCCAGAAATTAAAGAACAATAACAATGAGAATGC
* **
43974371 AGGCCAAAATGAGAACGATGCTGCTCAGAGCATTAGTGACAACA
65 AGGCCAAAATGAGAACAATGCTGCTCAGAGCATTACCGACAACA
* * * *
43974415 AAAATGCAAGTCAGAATGAGAATGATGCTTCTCAGAAATTAAAGAACAACAACAATGAGAGTGCA
1 AAAATGCAAGTCAGAATGAGAATAATGCTTCCCAGAAATTAAAGAACAATAACAATGAGAATGCA
* * * * *
43974480 GACCGAAATGAGAAAAATGCTGCTGAGAGCATTACCGACAACG
66 GGCCAAAATGAGAACAATGCTGCTCAGAGCATTACCGACAACA
* * * * * *
43974523 AGAATGCAGGTCAGAATGAGAATAATGCTTCCCAGAACTTAAATAACGATGGA-AATGAGAATGC
1 AAAATGCAAGTCAGAATGAGAATAATGCTTCCCAGAAATTAAAGAACAAT-AACAATGAGAATGC
* * *
43974587 AAGACAGAATGAGAACAATG
65 AGGCCAAAATGAGAACAATG
43974607 ATCCTGTTCG
Statistics
Matches: 154, Mismatches: 36, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
108 151 0.98
109 3 0.02
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (108 bp):
AAAATGCAAGTCAGAATGAGAATAATGCTTCCCAGAAATTAAAGAACAATAACAATGAGAATGCA
GGCCAAAATGAGAACAATGCTGCTCAGAGCATTACCGACAACA
Found at i:43977623 original size:29 final size:29
Alignment explanation
Indices: 43977581--43977645 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
43977571 CTTAACAAAA
* * *
43977581 TAAAAATGCTTAATACACTAAATATTA-AT
1 TAAAAATACTTAATACAC-AAACACTATAT
* *
43977610 TAAAAATATTTAATGCACAAACACTATAT
1 TAAAAATACTTAATACACAAACACTATAT
43977639 TAAAAAT
1 TAAAAAT
43977646 GTTCAATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (29 bp):
TAAAAATACTTAATACACAAACACTATAT
Found at i:43986446 original size:40 final size:40
Alignment explanation
Indices: 43986393--43986577 Score: 302
Period size: 40 Copynumber: 4.6 Consensus size: 40
43986383 ACTACTTGCT
*
43986393 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
43986433 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
43986473 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
43986513 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAG-ACACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA-ACTCGCA
* *
43986553 CAAATGCCTTCAGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
43986578 TTATCATCCG
Statistics
Matches: 139, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:43991512 original size:53 final size:53
Alignment explanation
Indices: 43991330--43991536 Score: 193
Period size: 53 Copynumber: 3.8 Consensus size: 53
43991320 ATTAGGGTTT
* * * *
43991330 AAGGATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGCTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAAG-TTCATAAGGC
* * * * * * * *
43991384 AAGGAAATCATGTAAGACCA-CCTCAAGACATGGCATTGATAAACTACGATAAGGT
1 AAGGATACCATGTAAGACCATGC-CAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
43991439 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
43991492 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
43991537 TAAAAAGAAA
Statistics
Matches: 118, Mismatches: 30, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
53 46 0.39
54 33 0.28
55 38 0.32
56 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:43999625 original size:39 final size:39
Alignment explanation
Indices: 43999596--43999817 Score: 238
Period size: 39 Copynumber: 5.6 Consensus size: 39
43999586 GCTCCTCGTT
* *
43999596 CAAATGCCTTCGGGACATAGCCCGG-TATAGTAATTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCA
* *
43999635 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCA
*
43999675 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCA
* *
43999714 CAAATGCCTTCGGGCTTAGCCCGGA-ATTATTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
43999753 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCA
43999794 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
43999818 CATCATTCAA
Statistics
Matches: 160, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 113 0.71
40 41 0.26
41 6 0.04
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCA
Found at i:43999706 original size:79 final size:79
Alignment explanation
Indices: 43999596--43999817 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 79
43999586 GCTCCTCGTT
* * *
43999596 CAAATGCCTTCGGGACATAGCCCGGTA-TAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
43999660 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
43999675 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
43999738 AATTATTATCTCGCA
65 AATTAGTAACTCGCA
* * * *
43999753 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
43999815 GGA
63 GGA
43999818 CATCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
78 55 0.44
79 62 0.49
80 8 0.06
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:43999778 original size:118 final size:118
Alignment explanation
Indices: 43999596--43999817 Score: 285
Period size: 118 Copynumber: 1.9 Consensus size: 118
43999586 GCTCCTCGTT
*
43999596 CAAATGCCTTCGGGACATAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGAATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGA
*
43999661 T-TTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 TATT-GTAACTTAGCAC-AA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
43999714 CAAATGCCTTCGGG-CTTAGCCCGGAATTA-TTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGAA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCC
*
43999776 GGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCGGA
63 GGATATTGTAACTTAGCACAAGCCTTCGGGACTTAGCCCGGA
43999818 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
117 25 0.27
118 59 0.65
119 7 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (118 bp):
CAAATGCCTTCGGGACATAGCCCGGAATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATTGTAACTTAGCACAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:44004087 original size:40 final size:40
Alignment explanation
Indices: 44004043--44004306 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
44004033 GTTCCTCGTT
* *
44004043 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
44004083 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
44004123 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
44004163 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTGGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
44004203 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
44004242 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
44004283 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44004307 CAGCATTCAA
Statistics
Matches: 202, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 48 0.24
40 143 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44006214 original size:20 final size:22
Alignment explanation
Indices: 44006179--44006218 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
44006169 AATAATTATC
44006179 ATTTCTATGTATTTCAAGTTTT
1 ATTTCTATGTATTTCAAGTTTT
44006201 ATTTCT-TG-ATTTCAAGTT
1 ATTTCTATGTATTTCAAGTT
44006219 CTTACCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (22 bp):
ATTTCTATGTATTTCAAGTTTT
Found at i:44006450 original size:67 final size:67
Alignment explanation
Indices: 44006341--44006473 Score: 203
Period size: 67 Copynumber: 2.0 Consensus size: 67
44006331 TTTCCATTTC
**
44006341 AGAGAGCACACTCCCACGAACCTCAATTCTTACAGTAAGATTACCAGTCCAAGCTAAATCCCCTG
1 AGAGAGCACACTCCCACGAACCTCAATTCTTACAACAAGATTACCAGTCCAAGCTAAATCCCCTG
44006406 TG
66 TG
* * * * *
44006408 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACAGGATTACCAGTCCAGGCTAAATGCCCTG
1 AGAGAGCACACTCCCACGAACCTCAATTCTTACAACAAGATTACCAGTCCAAGCTAAATCCCCTG
44006473 T
66 T
44006474 AACATATGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCCACGAACCTCAATTCTTACAACAAGATTACCAGTCCAAGCTAAATCCCCTG
TG
Found at i:44006571 original size:58 final size:54
Alignment explanation
Indices: 44006445--44006580 Score: 157
Period size: 58 Copynumber: 2.4 Consensus size: 54
44006435 TCTTACAACA
* * *
44006445 GGATTACCAGTCCAGGCTAAATGCCCTGTAACATATGCTCAAAAAGTATTGTCG
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAACAAATACTCAAAAAGTATTGTCG
* * * *
44006499 GGATTACCAATCCAGGCTAAATCCCCTGCAATGACAAATACTCTATAAAGCT-TTGTCT
1 GGATTACCAGTCCAGGCTAAATCCCCTG---TAACAAATACTC-AAAAAG-TATTGTCG
44006557 GGATTACCAGTCCAGGCTAAATCC
1 GGATTACCAGTCCAGGCTAAATCC
44006581 AAACTCACAC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
54 26 0.38
57 9 0.13
58 33 0.48
59 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCTGTAACAAATACTCAAAAAGTATTGTCG
Found at i:44010137 original size:53 final size:53
Alignment explanation
Indices: 44010057--44010161 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
44010047 ATAAACTACG
* * * *
44010057 ATAAGGCAAATATCCCATGTAAGACCATGCCAAGGCATGGCAATAGTGAGTTC
1 ATAAGGCAAATATACCACGTAAGACCATGCCAAGACATGGCAATAGTAAGTTC
* *
44010110 ATAAGGCAAGTATACCACGTAAGACCATGTCAAGACATGGCAATAGTAAGTT
1 ATAAGGCAAATATACCACGTAAGACCATGCCAAGACATGGCAATAGTAAGTT
44010162 TAAAAAGGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (53 bp):
ATAAGGCAAATATACCACGTAAGACCATGCCAAGACATGGCAATAGTAAGTTC
Found at i:44011994 original size:46 final size:48
Alignment explanation
Indices: 44011906--44012029 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 48
44011896 GGGTAAGGCA
***
44011906 CCGATGCCATGTCCCAAACATAGTCTTACACTGGTTTATGTCTCGAGG
1 CCGATGCCATGTCCCAAACATAGTCTTACACTGCACTATGTCTCGAGG
* *
44011954 CCGATG-CATGTCCTAAACAT-GTCTTACACTAGCACT-TGTCTCGATG
1 CCGATGCCATGTCCCAAACATAGTCTTACACT-GCACTATGTCTCGAGG
* * *
44012000 CCGATGCCATGTCCCATATATGGTCTTACA
1 CCGATGCCATGTCCCAAACATAGTCTTACA
44012030 TTGGCTCTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 25 0.38
47 26 0.40
48 14 0.22
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATAGTCTTACACTGCACTATGTCTCGAGG
Found at i:44019776 original size:40 final size:40
Alignment explanation
Indices: 44019729--44019932 Score: 295
Period size: 40 Copynumber: 5.1 Consensus size: 40
44019719 CGGGCTTTAA
** *
44019729 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
44019769 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGAATTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
44019809 CCGGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
44019849 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44019889 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
44019929 CCGG
1 CCGG
44019933 TTATCATCCG
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:44027846 original size:40 final size:40
Alignment explanation
Indices: 44027802--44027953 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
44027792 GGATATAGCC
* *
44027802 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-GTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
44027842 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
44027882 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
44027922 ACTAGCACAAATACCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
44027954 TTATCATCCG
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 103 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:44030044 original size:12 final size:12
Alignment explanation
Indices: 44030027--44030053 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44030017 ATGGAAATAT
44030027 GCTTCAGAGTTG
1 GCTTCAGAGTTG
44030039 GCTTCAGAGTTG
1 GCTTCAGAGTTG
44030051 GCT
1 GCT
44030054 CCAATAGTGT
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:0.15, C:0.19, G:0.33, T:0.33
Consensus pattern (12 bp):
GCTTCAGAGTTG
Found at i:44044404 original size:25 final size:26
Alignment explanation
Indices: 44044357--44044405 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
44044347 TAGTATCTTA
*
44044357 TTTTTTTTATTTTATGTTGTTTAAAG
1 TTTTTTTTAATTTATGTTGTTTAAAG
44044383 TTTTTTTTAATTTATGTT-TTTAA
1 TTTTTTTTAATTTATGTTGTTTAA
44044406 TTAATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.71
Consensus pattern (26 bp):
TTTTTTTTAATTTATGTTGTTTAAAG
Found at i:44051158 original size:24 final size:25
Alignment explanation
Indices: 44051100--44051159 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
44051090 ATAGTTAAGC
*
44051100 ATTATGAATGTTTCATAAATTATAT
1 ATTATGAATGTTTCATAAATTACAT
*
44051125 TTTATGAATGTTTCATAAA-TACAT
1 ATTATGAATGTTTCATAAATTACAT
44051149 ATTATGAATGT
1 ATTATGAATGT
44051160 GATTTCCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (25 bp):
ATTATGAATGTTTCATAAATTACAT
Found at i:44051446 original size:23 final size:23
Alignment explanation
Indices: 44051403--44051446 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
44051393 ATAAAGTAGA
**
44051403 AGACATATTCAAACTTGAAAGCT
1 AGACATATTCAAACTCAAAAGCT
*
44051426 AGACTTATTCAAACTCAAAAG
1 AGACATATTCAAACTCAAAAG
44051447 TTTATTTTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.25
Consensus pattern (23 bp):
AGACATATTCAAACTCAAAAGCT
Found at i:44052096 original size:3 final size:3
Alignment explanation
Indices: 44052088--44052117 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
44052078 CTTTTAATCC
*
44052088 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44052118 AAAAGCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:44054108 original size:30 final size:31
Alignment explanation
Indices: 44054048--44054120 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
44054038 CTAAGTTTCA
*
44054048 AAATTTCGGTGGTAAAAATAAAAAATTAACC
1 AAATTTTGGTGGTAAAAATAAAAAATTAACC
44054079 AAATTTTGGTGGTAAAAATAAAAAA-TAACC
1 AAATTTTGGTGGTAAAAATAAAAAATTAACC
**
44054109 AAGGTTTGGTGG
1 AAATTTTGGTGG
44054121 CATCGATTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 15 0.38
31 24 0.62
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (31 bp):
AAATTTTGGTGGTAAAAATAAAAAATTAACC
Found at i:44056570 original size:23 final size:23
Alignment explanation
Indices: 44056537--44056585 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
44056527 CTTGATGAGA
*
44056537 TGATATACCTCATCCTGACGTGG
1 TGATATACCTCATCCTGACATGG
* *
44056560 TGATATGCCTCGTCCTGACATGG
1 TGATATACCTCATCCTGACATGG
44056583 TGA
1 TGA
44056586 CATGTATTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (23 bp):
TGATATACCTCATCCTGACATGG
Found at i:44060273 original size:48 final size:48
Alignment explanation
Indices: 44060209--44060475 Score: 252
Period size: 48 Copynumber: 5.6 Consensus size: 48
44060199 AAATTTGGGT
* * *
44060209 GATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * **
44060257 GATATGAGAGCTAGTGTAGGACCATGTTTGGAACATGGCATCGGTGA-
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * **
44060304 TATTGTGAGAGCCAGTGTAAGACCATGTCTAGGACATGACATCGATCAC
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
*
44060353 -ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATT
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C
* * * * * * *
44060401 GAGATGAGAGCTAGTCTGAGACCATGTTTGGGACATGGCATTGGCCTC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * *
44060449 GACATGTGGGCCAGTGTAAGACCATGT
1 GATATGAGAGCCAGTGTAAGACCATGT
44060476 TTAGTATTCC
Statistics
Matches: 176, Mismatches: 38, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
47 3 0.02
48 171 0.97
49 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
Found at i:44064170 original size:19 final size:19
Alignment explanation
Indices: 44064146--44064191 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
44064136 ATTTAGTACG
44064146 AGCTTACTAAGCTTATGAA
1 AGCTTACTAAGCTTATGAA
44064165 AGCTTACTAAGCTTATGAA
1 AGCTTACTAAGCTTATGAA
44064184 AGCTTACT
1 AGCTTACT
44064192 TTGTGTCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (19 bp):
AGCTTACTAAGCTTATGAA
Found at i:44067012 original size:120 final size:120
Alignment explanation
Indices: 44066798--44067014 Score: 303
Period size: 120 Copynumber: 1.8 Consensus size: 120
44066788 GGGGTTAAGT
* * *
44066798 CCCGAAGACATTTGTGCTAGTGATTAATTCCGGGTTAAGTCCCGAAGGCATTTGTCCGAGTTACT
1 CCCGAAGACATTTGTGCAAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTCCAAGTTACT
** *
44066863 AATTCCGGGCTAAGTTTCGAAGGCTTTTGTGCGAGTTACAAATTCCGGGCTAGGC
66 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGCTAGGC
* * * *
44066918 CCCGAAGGCATTTGTGCAAGTTATT-ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTA-
1 CCCGAAGACATTTGTGCAAGTGATTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTCCAAGTTAC
*
44066981 TTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
65 TAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGC
44067015 TAGTGACCAT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
119 5 0.06
120 79 0.94
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (120 bp):
CCCGAAGACATTTGTGCAAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTCCAAGTTACT
AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGCTAGGC
Found at i:44067013 original size:80 final size:81
Alignment explanation
Indices: 44066793--44067082 Score: 288
Period size: 80 Copynumber: 3.7 Consensus size: 81
44066783 CTAACGGGGT
* * * * *
44066793 TAAGTCCCGAAGACATTTGTGCTAGTGATTA-ATTCCGGGTTAAGTCCCGAAGGCATTTGTCCGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTGATTATATTCCGGGCTAAGTCCCGAAGGCATTTGTGCAA
44066857 GTTACTA-ATTCCGGGC
66 GTTACTATA-TCCGGGC
** * * * * * *
44066873 TAAGTTTCGAAGGCTTTTGTGCGAGTTA-CAAATTCCGGGCTAGGCCCCGAAGGCATTTGTGCAA
1 TAAGTCCCGAAGGCATTTGTGCGAGTGATTATATTCCGGGCTAAGTCCCGAAGGCATTTGTGCAA
*
44066937 GTTATTATATCCGGGC
66 GTTACTATATCCGGGC
* * * *
44066953 TAAGTCCTGAAGGCATTTGTGCAAGTTATTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCTA
1 TAAGTCCCGAAGGCATTTGTGCGAGTGATTATATTCCGGGCTAAGTCCCGAAGGCATTTGTGCAA
* * *
44067017 GTGACCATATCCGGAC
66 GTTACTATATCCGGGC
* * * * *
44067033 TAAGACCCGAAGGC-CTTGTGCGAGTGGTTATA-T-CAGGCTAAATCCCGAAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTGATTATATTCCGGGCTAAGTCCCGAAG
44067083 ATACTTGGGT
Statistics
Matches: 172, Mismatches: 35, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.09
79 16 0.09
80 138 0.80
81 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (81 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGATTATATTCCGGGCTAAGTCCCGAAGGCATTTGTGCAA
GTTACTATATCCGGGC
Found at i:44067027 original size:40 final size:41
Alignment explanation
Indices: 44066793--44067046 Score: 268
Period size: 40 Copynumber: 6.3 Consensus size: 41
44066783 CTAACGGGGT
* * * *
44066793 TAAGTCCCGAAGACATTTGTGCTAGTGATTA-ATTCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCAAGTTATTATATTCCGGGC
* * *
44066833 TAAGTCCCGAAGGCATTTGTCCGAGTTACTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCAAGTTATTATATTCCGGGC
** * * * *
44066873 TAAGTTTCGAAGGCTTTTGTGCGAGTTA-CAAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCAAGTTATTATATTCCGGGC
* *
44066913 TAGGCCCCGAAGGCATTTGTGCAAGTTATTATA-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCAAGTTATTATATTCCGGGC
*
44066953 TAAGTCCTGAAGGCATTTGTGCAAGTTATTATA-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCAAGTTATTATATTCCGGGC
* * ** *
44066993 TAAGTCCCGAAGGCATTTGTGCTAGTGACCATA-TCCGGAC
1 TAAGTCCCGAAGGCATTTGTGCAAGTTATTATATTCCGGGC
*
44067033 TAAGACCCGAAGGC
1 TAAGTCCCGAAGGC
44067047 CTTGTGCGAG
Statistics
Matches: 183, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 180 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (41 bp):
TAAGTCCCGAAGGCATTTGTGCAAGTTATTATATTCCGGGC
Found at i:44067030 original size:120 final size:120
Alignment explanation
Indices: 44066793--44067046 Score: 298
Period size: 120 Copynumber: 2.1 Consensus size: 120
44066783 CTAACGGGGT
* * * * *
44066793 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGTTAAGTCCCGAAGGCATTTGTCCGAG
1 TAAGACCCGAAGGCATTTGTGCAAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTCCAAG
** * * *
44066858 TTACTAATTCCGGGCTAAGTTTCGAAGGCTTTTGTGCGAGTTACAAATTCCGGGC
66 TTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACAAATTCCGGAC
* * * * *
44066913 TAGGCCCCGAAGGCATTTGTGCAAGTTATT-ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCAA
1 TAAGACCCGAAGGCATTTGTGCAAGTGATTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTCCAA
* * *
44066977 GTTA-TTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGAC
65 GTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACAAAT-TCCGGAC
44067033 TAAGACCCGAAGGC
1 TAAGACCCGAAGGC
44067047 CTTGTGCGAG
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
119 7 0.06
120 105 0.94
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (120 bp):
TAAGACCCGAAGGCATTTGTGCAAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTCCAAG
TTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACAAATTCCGGAC
Found at i:44074254 original size:37 final size:37
Alignment explanation
Indices: 44074212--44074288 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
44074202 GTGTTTTAAG
44074212 TGATAGAATTGAGTGAATGCTTGGAATGTGATATGTA
1 TGATAGAATTGAGTGAATGCTTGGAATGTGATATGTA
44074249 TGATAGAATTGAGTGAATGCTTGGAATGTGATATGTA
1 TGATAGAATTGAGTGAATGCTTGGAATGTGATATGTA
44074286 TGA
1 TGA
44074289 ATTATGTGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (37 bp):
TGATAGAATTGAGTGAATGCTTGGAATGTGATATGTA
Found at i:44075191 original size:40 final size:41
Alignment explanation
Indices: 44075134--44075387 Score: 277
Period size: 40 Copynumber: 6.3 Consensus size: 41
44075124 CTAACGGGGT
* * * *
44075134 TAAGTCTCGAAGACATTTGTGCTAGTGATTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCAAGTTATTAATATCCGGGC
* * *
44075174 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCAAGTTATTAATATCCGGGC
* * **
44075214 TAAGTCCCGAAGGCTTTTGTGCGAGTTACAAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCAAGTTATTAATATCCGGGC
* * *
44075254 TAAGCCCCAAAGGTATTTGTGCAAGTTATT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCAAGTTATTAATATCCGGGC
*
44075294 TAAGTCCTGAAGGCATTTGTGCAAGTTATT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCAAGTTATTAATATCCGGGC
* * ** *
44075334 TAAGTCCCGAAGGCATTTGTGCTAGTGA-CCATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGCAAGTTATTAATATCCGGGC
*
44075374 TAAGACCCGAAGGC
1 TAAGTCCCGAAGGC
44075388 CTTGTGTGAG
Statistics
Matches: 186, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
39 2 0.01
40 184 0.99
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (41 bp):
TAAGTCCCGAAGGCATTTGTGCAAGTTATTAATATCCGGGC
Found at i:44075371 original size:120 final size:120
Alignment explanation
Indices: 44075148--44075386 Score: 313
Period size: 120 Copynumber: 2.0 Consensus size: 120
44075138 TCTCGAAGAC
* * *
44075148 ATTTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCTGGG
1 ATTTGTGCAAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGG
* * * *
44075213 CTAAGTCCCGAAGGCTTTTGTGCGAGTTACAAATTCCGGGCTAAGCCCCAAAGGT
66 CTAAGTCCCGAAGGCATTTGTGCGAGTGACAAATTCCGGACTAAGACCCAAAGGT
* * *
44075268 ATTTGTGCAAGTTATT-ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTA-TTATATCCG
1 ATTTGTGCAAGTGATTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAT-TCCG
* * *
44075331 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGACTAAGACCCGAAGG
64 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACAAAT-TCCGGACTAAGACCCAAAGG
44075387 CCTTGTGTGA
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
119 7 0.07
120 96 0.93
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (120 bp):
ATTTGTGCAAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGG
CTAAGTCCCGAAGGCATTTGTGCGAGTGACAAATTCCGGACTAAGACCCAAAGGT
Found at i:44098686 original size:48 final size:48
Alignment explanation
Indices: 44098624--44098813 Score: 220
Period size: 48 Copynumber: 4.0 Consensus size: 48
44098614 GACATTTGGG
* * *
44098624 TGATATGTGTGCCAGTGTAAGACCACGTCTGGGACATGGCATCGGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * *
44098672 TCATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCGA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * *
44098720 TGTTGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * *
44098767 TTGATATGTGCGCTACTGTAAGACCATGTCTGAGACATGGCATCGGC
1 -TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
44098814 GTAGACGTTA
Statistics
Matches: 118, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 117 0.99
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
Found at i:44098805 original size:96 final size:96
Alignment explanation
Indices: 44098637--44098814 Score: 252
Period size: 96 Copynumber: 1.9 Consensus size: 96
44098627 TATGTGTGCC
* *
44098637 AGTGTAAGACCACGTCTGGGACATGGCATCGGCCATCATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCACGTCTGGGACATGGCATCGGCCATCATATGAGAGCCACTGTAAGACCATGTCT
*
44098702 GGAACATGGCATTGGCGATGTTGTGAGAGCT
66 GGAACATGGCATCGGCGATGTTGTGAGAGCT
* * * * *
44098733 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATATGTGCGCTACTGTAAGACCATGTC
1 AGTGTAAGACCACGTCTGGGACATGGCATCGGCCA-TCATATGAGAGCCACTGTAAGACCATGTC
44098797 T-GAGACATGGCATCGGCG
65 TGGA-ACATGGCATCGGCG
44098815 TAGACGTTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
95 4 0.06
96 68 0.94
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCACGTCTGGGACATGGCATCGGCCATCATATGAGAGCCACTGTAAGACCATGTCT
GGAACATGGCATCGGCGATGTTGTGAGAGCT
Found at i:44104719 original size:12 final size:13
Alignment explanation
Indices: 44104702--44104731 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
44104692 CAGGTATTTG
44104702 CAAAAAAA-AAAA
1 CAAAAAAACAAAA
44104714 CAAAAAAACAAAA
1 CAAAAAAACAAAA
44104727 CAAAA
1 CAAAA
44104732 GAGTCAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAAAACAAAA
Found at i:44107087 original size:25 final size:24
Alignment explanation
Indices: 44107053--44107127 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 24
44107043 TTAAGGTTGC
44107053 CAATTTATAGCTCGTGAGAGCATA
1 CAATTTATAGCTCGTGAGAGCATA
*
44107077 TCAATTTATAGCTCATGAGAGCATA
1 -CAATTTATAGCTCGTGAGAGCATA
* *
44107102 CTGATTTATAGCTTGTGAGAGCATA
1 C-AATTTATAGCTCGTGAGAGCATA
44107127 C
1 C
44107128 CAATCTTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 1 0.02
25 44 0.98
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (24 bp):
CAATTTATAGCTCGTGAGAGCATA
Found at i:44107443 original size:17 final size:17
Alignment explanation
Indices: 44107421--44107454 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44107411 CTCATCCATG
*
44107421 ATTATTGGTTTATATAT
1 ATTATTGGTTCATATAT
*
44107438 ATTATTTGTTCATATAT
1 ATTATTGGTTCATATAT
44107455 GTATTTACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (17 bp):
ATTATTGGTTCATATAT
Found at i:44110215 original size:90 final size:90
Alignment explanation
Indices: 44110044--44110218 Score: 215
Period size: 90 Copynumber: 1.9 Consensus size: 90
44110034 TTTTTACAAA
* *
44110044 ACTTAAAATTTTTTTGCTATAAACAAGGGCCACACACCCAGGACATACACCCATGCCTGAGGCCG
1 ACTTAAAATTTTTTTGCTATAAACAAGGGCAACACACCCAGGACACACACCCATGCCTGAGGCCG
* ** *
44110109 TGTCCCTTGCATGGCTGAGAATAGG
66 TGCCCCTCACACGGCTGAGAATAGG
* * * * ** ** *
44110134 ACTTAAAATTTTTTTGCTATAAATAGGGGTAACACGCCTGGGACACATGCCCGTGCCTGAGGCCG
1 ACTTAAAATTTTTTTGCTATAAACAAGGGCAACACACCCAGGACACACACCCATGCCTGAGGCCG
44110199 TGCCCCTCACACGGCTGAGA
66 TGCCCCTCACACGGCTGAGA
44110219 CACATGCCCA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (90 bp):
ACTTAAAATTTTTTTGCTATAAACAAGGGCAACACACCCAGGACACACACCCATGCCTGAGGCCG
TGCCCCTCACACGGCTGAGAATAGG
Found at i:44114427 original size:25 final size:26
Alignment explanation
Indices: 44114394--44114443 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
44114384 AATTCATTCA
*
44114394 TAAATTAAAGC-ATTTAAAATACATT
1 TAAAGTAAAGCTATTTAAAATACATT
*
44114419 TAAAGTAAAGCTTATTTAACATACA
1 TAAAGTAAAGC-TATTTAAAATACA
44114444 AAGTTACCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
27 11 0.52
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (26 bp):
TAAAGTAAAGCTATTTAAAATACATT
Found at i:44132655 original size:27 final size:25
Alignment explanation
Indices: 44132625--44132683 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
44132615 AGGGCACGTA
**
44132625 ATCAGGAAGCACACTCTCGAGCCATAT
1 ATCAGGAAGCACA-AAT-GAGCCATAT
* *
44132652 ATCAGGATGCTCAAATGAGCCATAT
1 ATCAGGAAGCACAAATGAGCCATAT
44132677 ATCAGGA
1 ATCAGGA
44132684 TGCTTATCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 16 0.57
26 1 0.04
27 11 0.39
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (25 bp):
ATCAGGAAGCACAAATGAGCCATAT
Found at i:44138480 original size:40 final size:40
Alignment explanation
Indices: 44138382--44138684 Score: 344
Period size: 40 Copynumber: 7.6 Consensus size: 40
44138372 TCCTCGTTCA
* * * * *
44138382 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
44138421 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
44138461 AATGCCTTCGGGACTTAACCTGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
44138501 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
44138541 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
44138581 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
44138621 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTGGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
44138661 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44138685 CAGCATTCAA
Statistics
Matches: 235, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
39 40 0.17
40 183 0.78
41 12 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:44138693 original size:41 final size:41
Alignment explanation
Indices: 44138616--44138693 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44138606 TTTGTATCTC
* * *
44138616 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTG
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTG
44138657 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44138694 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTG
Found at i:44153710 original size:39 final size:39
Alignment explanation
Indices: 44153656--44153760 Score: 140
Period size: 39 Copynumber: 2.7 Consensus size: 39
44153646 TTCAGTGATG
* *
44153656 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
*
44153695 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
* * *
44153734 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAGGT-CCGCAGGCT
44153761 TCTAACTGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 5 0.09
39 53 0.91
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
Found at i:44168690 original size:28 final size:28
Alignment explanation
Indices: 44168658--44168744 Score: 122
Period size: 28 Copynumber: 3.1 Consensus size: 28
44168648 CCAATACCTG
* *
44168658 TATATGGCCCACTAGGCCCAATCTC-TT
1 TATATGGCCCATTAGGCCCAATCACATT
44168685 TCATATGGCCCATTAGGCCCAATCACATT
1 T-ATATGGCCCATTAGGCCCAATCACATT
*
44168714 TATGTGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCC-AATCACATT
44168743 TA
1 TA
44168745 CAGTCATGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
27 1 0.02
28 39 0.72
29 14 0.26
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (28 bp):
TATATGGCCCATTAGGCCCAATCACATT
Found at i:44168984 original size:16 final size:16
Alignment explanation
Indices: 44168963--44168998 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
44168953 CAAACTTTCA
*
44168963 CTTTTTGACATTTTGG
1 CTTTTTGACATTTCGG
*
44168979 CTTTTTGGCATTTCGG
1 CTTTTTGACATTTCGG
44168995 CTTT
1 CTTT
44168999 CCGGCATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.08, C:0.17, G:0.19, T:0.56
Consensus pattern (16 bp):
CTTTTTGACATTTCGG
Found at i:44169004 original size:16 final size:16
Alignment explanation
Indices: 44168971--44169014 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
44168961 CACTTTTTGA
* **
44168971 CATTTTGGCTTTTTGG
1 CATTTCGGCTTTCCGG
44168987 CATTTCGGCTTTCCGG
1 CATTTCGGCTTTCCGG
*
44169003 CATTTCAGCTTT
1 CATTTCGGCTTT
44169015 TAGCGATCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.09, C:0.23, G:0.20, T:0.48
Consensus pattern (16 bp):
CATTTCGGCTTTCCGG
Found at i:44170192 original size:15 final size:15
Alignment explanation
Indices: 44170172--44170201 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44170162 AAAATTGAGA
44170172 TTTCAGGATTTTTGG
1 TTTCAGGATTTTTGG
44170187 TTTCAGGATTTTTGG
1 TTTCAGGATTTTTGG
44170202 GGCGTTACAC
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:0.13, C:0.07, G:0.27, T:0.53
Consensus pattern (15 bp):
TTTCAGGATTTTTGG
Found at i:44170619 original size:21 final size:22
Alignment explanation
Indices: 44170580--44170621 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
44170570 GATGTGTAGG
*
44170580 ATGTTTTAAATAAATATGCATAA
1 ATGTTTT-AATAAAAATGCATAA
44170603 ATGTTTT-ATAAAAATGCAT
1 ATGTTTTAATAAAAATGCAT
44170622 TTCCATGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
23 7 0.39
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (22 bp):
ATGTTTTAATAAAAATGCATAA
Found at i:44173699 original size:39 final size:39
Alignment explanation
Indices: 44173656--44173776 Score: 127
Period size: 39 Copynumber: 3.1 Consensus size: 39
44173646 TCTAACCATC
* *
44173656 TAACATACAAGCATATATCACAGTACTCAAATAATCACA
1 TAACATTCAAGCATATATCACAATACTCAAATAATCACA
* * * **
44173695 TAACATTTAAGCATAAATCTCAATACTCGTATAATCACA
1 TAACATTCAAGCATATATCACAATACTCAAATAATCACA
* * **
44173734 TAGCATTCAAACATATATCACAATAC-CAGTTTAATCACA
1 TAACATTCAAGCATATATCACAATACTCA-AATAATCACA
44173773 TAAC
1 TAAC
44173777 TTAAGATAAT
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
38 1 0.02
39 65 0.98
ACGTcount: A:0.45, C:0.22, G:0.05, T:0.27
Consensus pattern (39 bp):
TAACATTCAAGCATATATCACAATACTCAAATAATCACA
Found at i:44175574 original size:46 final size:46
Alignment explanation
Indices: 44175507--44175682 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
44175497 TGTAACCCGC
*
44175507 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCTCAT
* * *
44175553 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATG-CCT-AGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCTCA--T
* *** * * *
44175599 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCCCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCTCAT
*
44175646 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
44175683 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 70 0.65
47 32 0.30
48 1 0.01
49 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCTCAT
Found at i:44175622 original size:93 final size:93
Alignment explanation
Indices: 44175515--44175686 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
44175505 GCCCATAAGT
* * *
44175515 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCTCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCAA
44175580 CAAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
*
44175608 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCAA
* *
44175673 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
44175687 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:44178116 original size:30 final size:30
Alignment explanation
Indices: 44178072--44178160 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
44178062 CAAAGATAAT
44178072 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
44178101 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
44178131 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
44178161 CGATATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:44178120 original size:15 final size:15
Alignment explanation
Indices: 44178072--44178151 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
44178062 CAAAGATAAT
*
44178072 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
44178086 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
44178101 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
44178116 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
44178131 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
44178146 AAGAAA
1 AAGAAA
44178152 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:44178160 original size:15 final size:15
Alignment explanation
Indices: 44178083--44178160 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
44178073 AGAAAACCGA
44178083 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
44178098 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
44178112 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
44178127 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
44178143 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
44178158 ATA
1 ATA
44178161 CGATATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:44184132 original size:326 final size:326
Alignment explanation
Indices: 44183539--44184187 Score: 1156
Period size: 326 Copynumber: 2.0 Consensus size: 326
44183529 AAGCTACTAG
*
44183539 TATATATGCAGCTCTAAGCCTTCAGTAGCGGTATTATAATTGACACAAAGCCATCAGTAACTATA
1 TATATATGCAGCTCTAAGACTTCAGTAGCGGTATTATAATTGACACAAAGCCATCAGTAACTATA
*
44183604 TTATGTTTGGCACATAACCATCAGCGACGGTAATTTAATCGAAAACAGCCTTGGGTAAATATGAT
66 TTATGTTTGGCACATAACCATCAGCGACGGTAATATAATCGAAAACAGCCTTGGGTAAATATGAT
* *
44183669 CAACATAGAGTCATCAATAAGTATGTTGGGCACATAGCCACAGGTAAATACGTTTGGCACAAGGC
131 CAACATAGAGTCATCAATAAGTATGTTAGACACATAGCCACAGGTAAATACGTTTGGCACAAGGC
*
44183734 CATAGTCAAGATGGCATAGAGCCATTTTTAGGTTGGCACAGAGCCATAATCAGATTAAGCGGCAC
196 CATAGTCAAGATGGCACAGAGCCATTTTTAGGTTGGCACAGAGCCATAATCAGATTAAGCGGCAC
* *
44183799 TAAGCCGTCCATCAGTCCACAGTTGTCTCGTGCGACCCGTGCGACCTTAACAGACTAATACTGTT
261 TAAGCCGTCCATCAGTCCACAGTTGTCTCATGCGACCCGTGCGACCTTAACAGACCAATACTGTT
44183864 T
326 T
44183865 TATATATGCAGCTCTAAGACTTCAGTAGCGGTATTATAATTGACACAAAGCCATCAGTAACTATA
1 TATATATGCAGCTCTAAGACTTCAGTAGCGGTATTATAATTGACACAAAGCCATCAGTAACTATA
* * *
44183930 TTATGTTTGGCACATAACTATCCA-CGACGGTAATATAATCGAAAGCGGCCTTGGGTAAATATGA
66 TTATGTTTGGCACATAACCAT-CAGCGACGGTAATATAATCGAAAACAGCCTTGGGTAAATATGA
* *
44183994 TCAACGTAGAGTCATCAATAAGTATGTTAGACACATAGCCACGGGTAAATACGTTTGGCACAAGG
130 TCAACATAGAGTCATCAATAAGTATGTTAGACACATAGCCACAGGTAAATACGTTTGGCACAAGG
*
44184059 CCGTAGTCAAGATGGCACAGAGCCATTTTTAGGTTGGCACAGAGCCATAATCAGATTAAGCGGCA
195 CCATAGTCAAGATGGCACAGAGCCATTTTTAGGTTGGCACAGAGCCATAATCAGATTAAGCGGCA
*
44184124 CTAAGCCGTCCATCGGTCCACAGTTGTCTCATGCGACCCGTGCGACCTTAACAGACCAATACTG
260 CTAAGCCGTCCATCAGTCCACAGTTGTCTCATGCGACCCGTGCGACCTTAACAGACCAATACTG
44184188 GATCCACAAT
Statistics
Matches: 308, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
326 306 0.99
327 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (326 bp):
TATATATGCAGCTCTAAGACTTCAGTAGCGGTATTATAATTGACACAAAGCCATCAGTAACTATA
TTATGTTTGGCACATAACCATCAGCGACGGTAATATAATCGAAAACAGCCTTGGGTAAATATGAT
CAACATAGAGTCATCAATAAGTATGTTAGACACATAGCCACAGGTAAATACGTTTGGCACAAGGC
CATAGTCAAGATGGCACAGAGCCATTTTTAGGTTGGCACAGAGCCATAATCAGATTAAGCGGCAC
TAAGCCGTCCATCAGTCCACAGTTGTCTCATGCGACCCGTGCGACCTTAACAGACCAATACTGTT
T
Found at i:44185186 original size:27 final size:27
Alignment explanation
Indices: 44185153--44185351 Score: 245
Period size: 27 Copynumber: 7.4 Consensus size: 27
44185143 TGGATAAGTT
* *
44185153 TAGAATTACCGAAATACCCTTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
44185180 TAGAATTACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
**
44185207 TAGAATTATTGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
44185234 TAGAATTACCGAAATACCCCTGTATGA
1 TAGAATTACCGAAATACCCCTGTAGGG
* * *
44185261 TAAAATTATCGAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* **
44185288 TAGAAATAATGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * * *
44185315 TAAAATTACCGAGATACCCTTGTGGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
44185342 TAAAATTACC
1 TAGAATTACC
44185352 ATTTTGCCCC
Statistics
Matches: 147, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGG
Found at i:44185288 original size:81 final size:81
Alignment explanation
Indices: 44185153--44185351 Score: 272
Period size: 81 Copynumber: 2.5 Consensus size: 81
44185143 TGGATAAGTT
* * * * *
44185153 TAGAATTACCGAAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
1 TAGAATTACCGAAATACCCCTGTAAGATAAAATTACCGAAATACCCCTGTAGGGTAGAAATAATG
44185218 AAATACCCCTGTAGGG
66 AAATACCCCTGTAGGG
* * *
44185234 TAGAATTACCGAAATACCCCTGTATGATAAAATTATCGAAATACCCTTGTAGGGTAGAAATAATG
1 TAGAATTACCGAAATACCCCTGTAAGATAAAATTACCGAAATACCCCTGTAGGGTAGAAATAATG
44185299 AAATACCCCTGTAGGG
66 AAATACCCCTGTAGGG
* * * ** *
44185315 TAAAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 TAGAATTACCGAAATACCCCTGTAAGATAAAATTACC
44185352 ATTTTGCCCC
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 103 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (81 bp):
TAGAATTACCGAAATACCCCTGTAAGATAAAATTACCGAAATACCCCTGTAGGGTAGAAATAATG
AAATACCCCTGTAGGG
Found at i:44187038 original size:27 final size:27
Alignment explanation
Indices: 44186999--44187110 Score: 93
Period size: 27 Copynumber: 4.1 Consensus size: 27
44186989 CAAAATAGTC
* *
44186999 ATTTTACCCTACAGGGGTATTTCAATA
1 ATTTTACACTACAAGGGTATTTCAATA
* * *
44187026 CTTTTACACTACAAGGTTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCAATA
* * * *
44187053 ATTTTACA-AACTGAGGGTATTTTAGTA
1 ATTTTACACTAC-AAGGGTATTTCAATA
* *
44187080 ATTTTACAAGT-CAAGGGTATTTCAGTA
1 ATTTTAC-ACTACAAGGGTATTTCAATA
44187107 ATTT
1 ATTT
44187111 CACAAATCGA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.03
27 65 0.94
28 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAATA
Found at i:44187071 original size:54 final size:54
Alignment explanation
Indices: 44187013--44187204 Score: 149
Period size: 54 Copynumber: 3.6 Consensus size: 54
44187003 TACCCTACAG
* * *
44187013 GGGTATTTCAATACTTTTAC-ACTACAAGGTTATTTCAGTAATTTTACAAA-CTGA
1 GGGTATTTCAATAATTTTACAACT-CAAGGGTATTTCAGTAATTTCACAAATC-GA
* * *
44187067 GGGTATTTTAGTAATTTTACAAGTCAAGGGTATTTCAGTAATTTCACAAATCGA
1 GGGTATTTCAATAATTTTACAACTCAAGGGTATTTCAGTAATTTCACAAATCGA
** * * * * * * **
44187121 GGGTATTTCGGTAATTTCA-AATTTAGGGGTATTT-TGATAATTTTACAACCCGA
1 GGGTATTTCAATAATTTTACAACTCAAGGGTATTTCAG-TAATTTCACAAATCGA
* * * *
44187174 GGGTATTTGAGTAATTTTACAAATCGAGGGT
1 GGGTATTTCAATAATTTTACAACTCAAGGGT
44187205 CTCAACGATC
Statistics
Matches: 111, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
52 1 0.01
53 41 0.37
54 66 0.59
55 3 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (54 bp):
GGGTATTTCAATAATTTTACAACTCAAGGGTATTTCAGTAATTTCACAAATCGA
Found at i:44187115 original size:27 final size:26
Alignment explanation
Indices: 44187013--44187139 Score: 110
Period size: 27 Copynumber: 4.7 Consensus size: 26
44187003 TACCCTACAG
* * * *
44187013 GGGTATTTCAATACTTTTACACTACAA
1 GGGTATTTCAGTAATTTCACAAT-CAA
* * * *
44187040 GGTTATTTCAGTAATTTTACAAACTGA
1 GGGTATTTCAGTAATTTCACAATC-AA
* *
44187067 GGGTATTTTAGTAATTTTACAAGTCAA
1 GGGTATTTCAGTAATTTCACAA-TCAA
*
44187094 GGGTATTTCAGTAATTTCACAAATCGA
1 GGGTATTTCAGTAATTTCAC-AATCAA
*
44187121 GGGTATTTCGGTAATTTCA
1 GGGTATTTCAGTAATTTCA
44187140 AATTTAGGGG
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 79 0.95
28 3 0.04
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTCACAATCAA
Found at i:44187180 original size:27 final size:28
Alignment explanation
Indices: 44187049--44187204 Score: 157
Period size: 27 Copynumber: 5.8 Consensus size: 28
44187039 AGGTTATTTC
44187049 AGTAATTTTACAAA-CTGAGGGTATTTT-
1 AGTAATTTTACAAATC-GAGGGTATTTTG
* * *
44187076 AGTAATTTTACAAGTCAAGGGTA-TTTC
1 AGTAATTTTACAAATCGAGGGTATTTTG
* *
44187103 AGTAATTTCACAAATCGAGGGTATTTCG
1 AGTAATTTTACAAATCGAGGGTATTTTG
**
44187131 -GTAA-TTT-CAAATTTAGGGGTATTTTG
1 AGTAATTTTACAAATCGA-GGGTATTTTG
**
44187157 A-TAATTTTACAACCCGAGGGTA-TTTG
1 AGTAATTTTACAAATCGAGGGTATTTTG
44187183 AGTAATTTTACAAATCGAGGGT
1 AGTAATTTTACAAATCGAGGGT
44187205 CTCAACGATC
Statistics
Matches: 104, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
25 6 0.06
26 22 0.21
27 69 0.66
28 7 0.07
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (28 bp):
AGTAATTTTACAAATCGAGGGTATTTTG
Found at i:44193308 original size:31 final size:31
Alignment explanation
Indices: 44193273--44193334 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
44193263 TGAATATGAG
44193273 AATGTTGTACTTGAAAAATGTAGGTGAACAT
1 AATGTTGTACTTGAAAAATGTAGGTGAACAT
44193304 AATGTTGTACTTGAAAAATGTAGGTGAACAT
1 AATGTTGTACTTGAAAAATGTAGGTGAACAT
44193335 GACAAGTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (31 bp):
AATGTTGTACTTGAAAAATGTAGGTGAACAT
Found at i:44194521 original size:48 final size:48
Alignment explanation
Indices: 44194461--44194630 Score: 277
Period size: 48 Copynumber: 3.5 Consensus size: 48
44194451 AATATATATG
* * *
44194461 TATGCGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
* *
44194509 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATGTGTATGAGACATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
*
44194557 TATGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
*
44194605 TACGTGGTAAAGCCGAATGGCTAGTG
1 TATGTGGTAAAGCCGAATGGCTAGTG
44194631 ATTCGGCTAG
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 113 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
Done.