Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 94 of 290
Found at i:31607776 original size:55 final size:54
Alignment explanation
Indices: 31607715--31607922 Score: 244
Period size: 55 Copynumber: 3.9 Consensus size: 54
31607705 ATTAGGATTT
* *
31607715 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAA-GTTCATAAGGC
* * * *
31607770 AAGGATATCATGTAAGACCATGTCAAGACAT-GACATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAG-TTC-ATAAGGC
* * * *
31607825 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGG-CATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTCATAAGGC
* *
31607878 AAGGATACCATGTAAGACCATGTCGAGACATGGAAA-TGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTT
31607923 TCAAAAGGAT
Statistics
Matches: 129, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
52 4 0.03
53 40 0.31
54 16 0.12
55 64 0.50
56 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTCATAAGGC
Found at i:31607921 original size:108 final size:110
Alignment explanation
Indices: 31607722--31607924 Score: 313
Period size: 108 Copynumber: 1.9 Consensus size: 110
31607712 TTTAAGGATA
* *
31607722 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGGATACCATGTAAGA
*
31607787 CCATGTCAAGACATGACATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTTCTATAAGGCAAAGGTC
* *
31607832 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-GTTCATAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGGATACCATGTAAGA
* *
31607895 CCATGTCGAGACATGGA-AATGGTAAGTTTC
66 CCATGTCAAGACAT-GACAATGATAAGTTTC
31607925 AAAAGGATAC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
108 50 0.59
109 9 0.11
110 26 0.31
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:31608182 original size:16 final size:16
Alignment explanation
Indices: 31608161--31608191 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31608151 ATAAATTTGA
31608161 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
31608177 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
31608192 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:31614837 original size:19 final size:19
Alignment explanation
Indices: 31614813--31614849 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
31614803 AGGCCTCTCT
31614813 GGATTT-TATTTTAATTTGG
1 GGATTTATATTTT-ATTTGG
31614832 GGATTTATATTTTATTTG
1 GGATTTATATTTTATTTG
31614850 CTTTAATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (19 bp):
GGATTTATATTTTATTTGG
Found at i:31623128 original size:12 final size:12
Alignment explanation
Indices: 31623111--31623145 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
31623101 TCTTTTCTTA
31623111 TATATATATATG
1 TATATATATATG
31623123 TATATATATATG
1 TATATATATATG
*
31623135 TTTATAT-TATG
1 TATATATATATG
31623146 GTTGGTTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (12 bp):
TATATATATATG
Found at i:31629990 original size:17 final size:17
Alignment explanation
Indices: 31629968--31630001 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31629958 CGCTAACATG
* *
31629968 AAAATGTAATGACAATA
1 AAAATGCAATCACAATA
31629985 AAAATGCAATCACAATA
1 AAAATGCAATCACAATA
31630002 TATATTTATC
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:0.59, C:0.12, G:0.09, T:0.21
Consensus pattern (17 bp):
AAAATGCAATCACAATA
Found at i:31633697 original size:40 final size:40
Alignment explanation
Indices: 31633637--31633820 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
31633627 TATTCGAATG
*
31633637 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
31633677 ATATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * ** *
31633717 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAACGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
31633757 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
31633797 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
31633821 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 118 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:31633770 original size:80 final size:80
Alignment explanation
Indices: 31633637--31633820 Score: 246
Period size: 80 Copynumber: 2.3 Consensus size: 80
31633627 TATTCGAATG
* * **
31633637 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAACGACTATATCCGGACTAAG-TCCCGAAGGC
* *
31633701 ATTTGTGCAAGTTG-CT
65 ATTTATGCAAG-TGACC
* * *
31633717 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAACGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAACGACTATATCCGGACTAAGTCCCGAAGGCA
*
31633782 TTTATGCTAGTGACC
66 TTTATGCAAGTGACC
31633797 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
31633821 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 3 0.03
80 89 0.97
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAACGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCAAGTGACC
Found at i:31642740 original size:25 final size:25
Alignment explanation
Indices: 31642706--31642755 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
31642696 GTGTCTAAGC
* *
31642706 TCTGGGATTGTATCAAAGGTAGTAA
1 TCTGGGATTGTATAAAAGGGAGTAA
31642731 TCTGGGATTGTATAAAAGGGAGTAA
1 TCTGGGATTGTATAAAAGGGAGTAA
31642756 AATTTTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.30
Consensus pattern (25 bp):
TCTGGGATTGTATAAAAGGGAGTAA
Found at i:31642866 original size:21 final size:19
Alignment explanation
Indices: 31642840--31642903 Score: 51
Period size: 21 Copynumber: 3.3 Consensus size: 19
31642830 ATTAATTTAA
31642840 ATTTAAATTTATTTTAAAT
1 ATTTAAATTTATTTTAAAT
* *
31642859 ACTATT-AATTACATATTAAAT
1 A-T-TTAAATT-TATTTTAAAT
* *
31642880 ATTTAAAATTATTTTGAA-
1 ATTTAAATTTATTTTAAAT
31642898 ATTTAA
1 ATTTAA
31642904 TCATATAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
18 6 0.17
19 9 0.26
20 9 0.26
21 11 0.31
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTTAAATTTATTTTAAAT
Found at i:31643158 original size:18 final size:18
Alignment explanation
Indices: 31643135--31643170 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
31643125 TTATTAACAT
31643135 ATTACTAACAAAATACTC
1 ATTACTAACAAAATACTC
*
31643153 ATTACTAACAAAGTACTC
1 ATTACTAACAAAATACTC
31643171 GATGTAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (18 bp):
ATTACTAACAAAATACTC
Found at i:31653756 original size:15 final size:14
Alignment explanation
Indices: 31653747--31653777 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
31653737 AATGTGTATG
31653747 AAATGTATGTTTAT
1 AAATGTATGTTTAT
*
31653761 TAATGTATGTTTAT
1 AAATGTATGTTTAT
31653775 AAA
1 AAA
31653778 ATGTGGAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
AAATGTATGTTTAT
Found at i:31653767 original size:14 final size:14
Alignment explanation
Indices: 31653748--31653774 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31653738 ATGTGTATGA
31653748 AATGTATGTTTATT
1 AATGTATGTTTATT
31653762 AATGTATGTTTAT
1 AATGTATGTTTAT
31653775 AAAATGTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (14 bp):
AATGTATGTTTATT
Found at i:31658655 original size:20 final size:20
Alignment explanation
Indices: 31658630--31658670 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
31658620 AAATACAAAA
31658630 TTATAAATAATCAAAAATCG
1 TTATAAATAATCAAAAATCG
31658650 TTATAAATAATCAAAAATCG
1 TTATAAATAATCAAAAATCG
31658670 T
1 T
31658671 ATTTACATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (20 bp):
TTATAAATAATCAAAAATCG
Found at i:31659526 original size:216 final size:216
Alignment explanation
Indices: 31659149--31659565 Score: 513
Period size: 216 Copynumber: 1.9 Consensus size: 216
31659139 ATACACGTAT
* *
31659149 ATATTAGAACCTGATATTTTATATATTTGTGCTGTATTCATATATTTTATGTTATTACCGTATTT
1 ATATTAGAACCTGATAATTTATATATTTGTGCTGTATTCATATATTTTATGTTATTACCATATTT
* * * * * ** *
31659214 AGGATATTTTAAATTCATTTAAAACTTTATTTGTAATTCTTCTGTATGTACATATGTATGTATGA
66 AAGATATTTTAAATTCATATAAAACCTTATATGCAATTCTTCTGTATGTACATATGTATAAAAGA
* * *
31659279 AAGAAAAATAGGAGAAAATCGGGTGCTAGAGAAGAAGGCCATGATGGTAGTGAGTCGGTGATAGT
131 AAGAAAAATAGGAGAAAACCGGGTGCTAGAGAAGAACGCCAAGATGGTAGTGAGTCGGTGATAGT
31659344 AGAAAATATATACATACTTAC
196 AGAAAATATATACATACTTAC
* * *
31659365 ATATTAGAA-CTCGATAATTTGTATATTTGTGTTAGTATTCATATACTTTTTATGTTATTATCAT
1 ATATTAGAACCT-GATAATTTATATATTTGTGCT-GTATTCATATA--TTTTATGTTATTACCAT
* * **
31659429 GTTTAAGATATTTTAAATTCATATAAAACCTTATATGCAATTGTTCTGTATGTATGTATG-A-AA
62 ATTTAAGATATTTTAAATTCATATAAAACCTTATATGCAATTCTTCTGTATGTACATATGTATAA
* * * * *
31659492 AAGAAA-AAAACAGT-GGAG-AAACCGGGTGCTAGAGATGAACTCCAAGGTGGTGGTGAGTTGGT
127 AAGAAAGAAAA-A-TAGGAGAAAACCGGGTGCTAGAGAAGAACGCCAAGATGGTAGTGAGTCGGT
31659554 GATAGTAGAAAA
190 GATAGTAGAAAA
31659566 ATAACAAGTA
Statistics
Matches: 170, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
215 2 0.01
216 79 0.46
217 21 0.12
218 2 0.01
219 66 0.39
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (216 bp):
ATATTAGAACCTGATAATTTATATATTTGTGCTGTATTCATATATTTTATGTTATTACCATATTT
AAGATATTTTAAATTCATATAAAACCTTATATGCAATTCTTCTGTATGTACATATGTATAAAAGA
AAGAAAAATAGGAGAAAACCGGGTGCTAGAGAAGAACGCCAAGATGGTAGTGAGTCGGTGATAGT
AGAAAATATATACATACTTAC
Found at i:31660555 original size:59 final size:56
Alignment explanation
Indices: 31660437--31660582 Score: 163
Period size: 59 Copynumber: 2.5 Consensus size: 56
31660427 ACTGAATTTA
* * *
31660437 ACATTTTTTTTAATTTGGTACTTAAATTTTTTTTGCCCAATTTAGTATCTAAACTTG
1 ACATTTTTCTTAATTTGGTACCTAAATTTTTTTGGCCCAATTTAGTATCTAAAC-TG
31660494 ACAATTTTTCTTAATTTGGTACCTAAATTTTTTTGGGCCCAATTT-G-ATACTTGAGAA-TG
1 AC-ATTTTTCTTAATTTGGTACCTAAATTTTTTT-GGCCCAATTTAGTAT-C-T-A-AACTG
*
31660553 ACATGTTTTCCTAATTTGGTACCTAAATTT
1 ACAT-TTTTCTTAATTTGGTACCTAAATTT
31660583 ATTAAATACT
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
57 4 0.05
58 33 0.42
59 38 0.49
60 1 0.01
61 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.48
Consensus pattern (56 bp):
ACATTTTTCTTAATTTGGTACCTAAATTTTTTTGGCCCAATTTAGTATCTAAACTG
Found at i:31661395 original size:26 final size:26
Alignment explanation
Indices: 31661360--31661428 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
31661350 ATAACACTTT
*
31661360 AAAATCAAAATATTTTCTTGTATAAA
1 AAAATAAAAATATTTTCTTGTATAAA
31661386 AAAATAAAAATATTTTCTTGTATAAA
1 AAAATAAAAATATTTTCTTGTATAAA
31661412 AAAATAAAAATATTTTC
1 AAAATAAAAATATTTTC
31661429 CAAAATGGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (26 bp):
AAAATAAAAATATTTTCTTGTATAAA
Found at i:31662531 original size:28 final size:28
Alignment explanation
Indices: 31662500--31662570 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
31662490 GATCTGCCAT
*
31662500 AAAGGCT-TTCCTTTTTACAATTCACCAC
1 AAAGGCTATT-CTTTTTACGATTCACCAC
31662528 AAAGGCTATTCTTTTTACGATTCACCAC
1 AAAGGCTATTCTTTTTACGATTCACCAC
31662556 AAAGGCTATTCTTTT
1 AAAGGCTATTCTTTT
31662571 CTATCGTGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 39 0.95
29 2 0.05
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (28 bp):
AAAGGCTATTCTTTTTACGATTCACCAC
Found at i:31665360 original size:44 final size:44
Alignment explanation
Indices: 31665308--31665394 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
31665298 TCTGGGGTGG
* *
31665308 TACAAATTTTCCAAAACTCATTTTTGTGAGGTTTGCCCATCATT
1 TACAAATTTGCCAAAACTCATTTATGTGAGGTTTGCCCATCATT
*
31665352 TACAAATTTGCCAAAACTCATTTATGTGAGGTTTGCCTATCAT
1 TACAAATTTGCCAAAACTCATTTATGTGAGGTTTGCCCATCAT
31665395 CACATGGGAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (44 bp):
TACAAATTTGCCAAAACTCATTTATGTGAGGTTTGCCCATCATT
Found at i:31673243 original size:18 final size:18
Alignment explanation
Indices: 31673201--31673243 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
31673191 TTTTTTGTTC
31673201 ATTTGTATAATATTTCAT
1 ATTTGTATAATATTTCAT
* * * *
31673219 CTGTGTATATTGTTTCAT
1 ATTTGTATAATATTTCAT
31673237 ATTTGTA
1 ATTTGTA
31673244 ACCTTGATTT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.56
Consensus pattern (18 bp):
ATTTGTATAATATTTCAT
Found at i:31675101 original size:19 final size:19
Alignment explanation
Indices: 31675077--31675122 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
31675067 CTTTCTTTCT
31675077 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
**
31675096 TTTGCATTGCATTGTATCA
1 TTTGCATTGCATTCCATCA
31675115 TTTGCATT
1 TTTGCATT
31675123 AGATTTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:31682189 original size:30 final size:30
Alignment explanation
Indices: 31682131--31682189 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
31682121 TTAAAAAAAT
* *
31682131 AAAAAAAACAAAAAGGAAAAAATCAATCAC
1 AAAAAAAACAAAAAAGAAAAAAACAATCAC
* * *
31682161 AAAAAAAATAAAAAATAAAAAAAGAATCA
1 AAAAAAAACAAAAAAGAAAAAAACAATCA
31682190 ATCAAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.78, C:0.08, G:0.05, T:0.08
Consensus pattern (30 bp):
AAAAAAAACAAAAAAGAAAAAAACAATCAC
Found at i:31683349 original size:64 final size:64
Alignment explanation
Indices: 31683266--31683393 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
31683256 TCCTTCATAA
*
31683266 CACATCTAGTTATGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* *
31683330 CACATCTAGTTAGGTGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
31683394 AGATACATGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:31683905 original size:177 final size:177
Alignment explanation
Indices: 31683722--31684406 Score: 873
Period size: 177 Copynumber: 3.9 Consensus size: 177
31683712 GAGCAAACTC
* *
31683722 AAGATGGTGAATCTTATC-T-CCATGTATCAGCAATAGAGTAGATTTAAGCCACCAACCTTATCT
1 AAGATGGCGAATCTTATCTTCCCATG-AT-AGCAATGGAGTAGATTTAAGCCACCAACCTTATCT
* * * * *
31683785 CTCTAAGGTAGCAAAAGAACAGGTTGGCAATTGTAGTCTTATCTTCCTGAGGCAGCAAGGAAGTA
64 CTCTGAGGTAGCAAAAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCA
* * *
31683850 GACTGAAGATTAAAGATCTTATCTCTCTAAGCAGTAGTGGAGTAGATCG
129 GACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGTAGATCG
* * *
31683899 AAGATGGCGAATCTTATCTT--TATGTATCGGCAATGGAGTAGATTTAAGCCACCAGCCTTATCT
1 AAGATGGCGAATCTTATCTTCCCATG-AT-AGCAATGGAGTAGATTTAAGCCACCAACCTTATCT
*
31683962 CTCTGAGGTA-CAAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCCAGGAAGC
64 CTCTGAGGTAGCAAA-AGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* * *
31684026 AGATTGAAGATTCAAGATCTTATCTCCCTAAGCAGTTGCGGAGTAGATCG
128 AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGTAGATCG
* * * * ** * * *
31684076 AAGATGGCGAGTCTTATCTTCCCAAGGTAGTAGGGGAGCATATTTTAGCCACCAACCTTATCTCT
1 AAGATGGCGAATCTTATCTTCCCATGATAGCAATGGAGTAGATTTAAGCCACCAACCTTATCTCT
* * *
31684141 -T-AGGTAGCAAGAGAGCAGGTTGTCGATTGTAGTCTTATCTTCCTCAGGTAGCAAGGAAGCAGA
66 CTGAGGTAGCAAAAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* * *
31684204 CTAAAGATTGAAGATCTTATTTCCCTAAGCAGTTGTGGAGCAGATCG
131 CTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGTAGATCG
* * * * * *
31684251 AAGATGGCGAGTCTTATCTTCCCGA-GGTAGCAGTGGAGTAGATTTTAGCCACCAGCCTTATTTC
1 AAGATGGCGAATCTTATCTTCCC-ATGATAGCAATGGAGTAGATTTAAGCCACCAACCTTATCTC
* * *
31684315 TTTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCTG
65 TCTGAGGTAGCAAAAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAG
* *
31684380 ACTGAAGATTGTAGATCTTGTCTCCCT
130 ACTGAAGATTGAAGATCTTATCTCCCT
31684407 GATGTGGTTG
Statistics
Matches: 449, Mismatches: 51, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
175 152 0.34
176 10 0.02
177 283 0.63
178 2 0.00
179 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (177 bp):
AAGATGGCGAATCTTATCTTCCCATGATAGCAATGGAGTAGATTTAAGCCACCAACCTTATCTCT
CTGAGGTAGCAAAAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
CTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGTAGATCG
Found at i:31684090 original size:89 final size:89
Alignment explanation
Indices: 31683996--31684282 Score: 237
Period size: 89 Copynumber: 3.3 Consensus size: 89
31683986 TGGCGATTGT
* * *
31683996 AGTCTTATCTTCCTGAGGTAGCCAGGAAGCAGATTGAAGATTCAAGATCTTATCTCCCTAAGCAG
1 AGTCTTATCTTCCCGAGGTAGCAAGGAAGCAGATTAAAGATTCAAGATCTTATCTCCCTAAGCAG
*
31684061 TTGCGGAGTAGATCGAAGATGGCG
66 TTGCGGAGCAGATCGAAGATGGCG
* * * * * ** *** * * *
31684085 AGTCTTATCTTCCCAAGGTAGTAGGGGAGCATATTTTAGCCACCA-ACCTTATCT--CTTAG--G
1 AGTCTTATCTTCCCGAGGTAGCAAGGAAGCAGATTAAAGATTCAAGATCTTATCTCCCTAAGCAG
* * * ** * *
31684145 TAGCAAGAGAGCAGGTTGTCGATTG-T
66 TTGC--G-GAGCAGATCGAAGATGGCG
* * *
31684171 AGTCTTATCTTCCTC-AGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATTTCCCTAAGCA
1 AGTCTTATCTTCC-CGAGGTAGCAAGGAAGCAGATTAAAGATTCAAGATCTTATCTCCCTAAGCA
*
31684235 GTTGTGGAGCAGATCGAAGATGGCG
65 GTTGCGGAGCAGATCGAAGATGGCG
31684260 AGTCTTATCTTCCCGAGGTAGCA
1 AGTCTTATCTTCCCGAGGTAGCA
31684283 GTGGAGTAGA
Statistics
Matches: 141, Mismatches: 46, Indels: 22
0.67 0.22 0.11
Matches are distributed among these distances:
84 4 0.03
86 36 0.26
87 19 0.13
88 21 0.15
89 58 0.41
91 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (89 bp):
AGTCTTATCTTCCCGAGGTAGCAAGGAAGCAGATTAAAGATTCAAGATCTTATCTCCCTAAGCAG
TTGCGGAGCAGATCGAAGATGGCG
Found at i:31684196 original size:352 final size:352
Alignment explanation
Indices: 31683763--31684406 Score: 963
Period size: 352 Copynumber: 1.8 Consensus size: 352
31683753 AATAGAGTAG
31683763 ATTTAAGCCACCAACCTTATCTCTCTAAGGTAGCAAAAGAACAGGTTGGCAATTGTAGTCTTATC
1 ATTTAAGCCACCAACCTTATCTCTCTAAGGTAGCAAAAGAACAGGTTGGCAATTGTAGTCTTATC
* * * * *
31683828 TTCCTGAGGCAGCAAGGAAGTAGACTGAAGATTAAAGATCTTATCTCTCTAAGCAGTAGTGGAGT
66 TTCCTCAGGCAGCAAGGAAGCAGACTAAAGATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGC
* *
31683893 AGATCGAAGATGGCGAATCTTATCTT-TATGTATCGGCAATGGAGTAGATTTAAGCCACCAGCCT
131 AGATCGAAGATGGCGAATCTTATCTTCGAGGTA---GCAATGGAGTAGATTTAAGCCACCAGCCT
*
31683957 TATCTCTCTGAGGTA-CAAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCCAG
193 TATCTCTCTGAGGTAGC-AAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAG
*
31684021 GAAGCAGATTGAAGATTCAAGATCTTATCTCCCTAAGCAGTTGCGGAGTAGATCGAAGATGGCGA
257 GAAGCAGACTGAAGATTCAAGATCTTATCTCCCTAAGCAGTTGCGGAGTAGATCGAAGATGGCGA
31684086 GTCTTATCTTCCCAAGGTAGTAGGGGAGCAT
322 GTCTTATCTTCCCAAGGTAGTAGGGGAGCAT
* * * * *
31684117 ATTTTAGCCACCAACCTTATCTCT-T-AGGTAGCAAGAGAGCAGGTTGTCGATTGTAGTCTTATC
1 ATTTAAGCCACCAACCTTATCTCTCTAAGGTAGCAAAAGAACAGGTTGGCAATTGTAGTCTTATC
* * * *
31684180 TTCCTCAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATTTCCCTAAGCAGTTGTGGAGC
66 TTCCTCAGGCAGCAAGGAAGCAGACTAAAGATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGC
* * *
31684245 AGATCGAAGATGGCGAGTCTTATCTTCCCGAGGTAGCAGTGGAGTAGATTTTAGCCACCAGCCTT
131 AGATCGAAGATGGCGAATCTTATCTT--CGAGGTAGCAATGGAGTAGATTTAAGCCACCAGCCTT
* *
31684310 ATTTCTTTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGA
194 ATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGA
* ** *
31684375 AGCTGACTGAAGATTGTAGATCTTGTCTCCCT
259 AGCAGACTGAAGATTCAAGATCTTATCTCCCT
31684407 GATGTGGTTG
Statistics
Matches: 259, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
352 230 0.89
353 2 0.01
354 23 0.09
355 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (352 bp):
ATTTAAGCCACCAACCTTATCTCTCTAAGGTAGCAAAAGAACAGGTTGGCAATTGTAGTCTTATC
TTCCTCAGGCAGCAAGGAAGCAGACTAAAGATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGC
AGATCGAAGATGGCGAATCTTATCTTCGAGGTAGCAATGGAGTAGATTTAAGCCACCAGCCTTAT
CTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAG
CAGACTGAAGATTCAAGATCTTATCTCCCTAAGCAGTTGCGGAGTAGATCGAAGATGGCGAGTCT
TATCTTCCCAAGGTAGTAGGGGAGCAT
Found at i:31687804 original size:20 final size:21
Alignment explanation
Indices: 31687761--31687806 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
31687751 ACTGTTTTGT
31687761 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
31687781 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
31687800 TATGGGC
1 TATGGGC
31687807 AATGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:31689735 original size:39 final size:40
Alignment explanation
Indices: 31689531--31689753 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
31689521 TTGAATGCTG
* * * * * *
31689531 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
31689571 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
31689611 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
31689651 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
31689691 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
31689730 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
31689754 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:31689773 original size:79 final size:80
Alignment explanation
Indices: 31689606--31689788 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
31689596 GTGCGAGATA
* * *
31689606 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
31689671 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
31689686 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
31689750 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
31689765 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
31689789 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:31690548 original size:142 final size:143
Alignment explanation
Indices: 31690367--31690651 Score: 518
Period size: 142 Copynumber: 2.0 Consensus size: 143
31690357 TAAATGGTTT
31690367 CATGATGTAACTATAGTTGGAATGGAAGTGTTGAGCAAATGACCAGCCACTAGAATGGCTAAGTA
1 CATGATGTAACTATAGTTGGAATGGAAGTGTTGAGCAAATGACCAGCCACTAGAATGGCTAAGTA
* *
31690432 TGATCATATGTGGGCTTATGTATGACAAGGCCCTAGTTGGTCCATGAAACCCC-AAATTAGGTAA
66 TGATCATATGTGGGCATATGTATGACAAGGCCCTAGTTGGTCCATGAAACCCCGAAAATAGGTAA
31690496 GGTTTACTTTGAA
131 GGTTTACTTTGAA
* * *
31690509 CATGATGTAACTATAGTTGGAATGGAAGTGTTGAGCAAATGATCAGCCATTGGAATGGCTAAGTA
1 CATGATGTAACTATAGTTGGAATGGAAGTGTTGAGCAAATGACCAGCCACTAGAATGGCTAAGTA
31690574 TGATCATATGTGGGCATATGTATGACAAGGCCCTAGTTGGTCCATGAAACCCCGAAAATAGGTAA
66 TGATCATATGTGGGCATATGTATGACAAGGCCCTAGTTGGTCCATGAAACCCCGAAAATAGGTAA
31690639 GGTTTACTTTGAA
131 GGTTTACTTTGAA
31690652 AACAGAGGCT
Statistics
Matches: 137, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
142 114 0.83
143 23 0.17
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (143 bp):
CATGATGTAACTATAGTTGGAATGGAAGTGTTGAGCAAATGACCAGCCACTAGAATGGCTAAGTA
TGATCATATGTGGGCATATGTATGACAAGGCCCTAGTTGGTCCATGAAACCCCGAAAATAGGTAA
GGTTTACTTTGAA
Found at i:31699085 original size:39 final size:40
Alignment explanation
Indices: 31698993--31699212 Score: 270
Period size: 40 Copynumber: 5.6 Consensus size: 40
31698983 AACCCAAGTA
* *
31698993 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * * *
31699032 TCTTCGGGTCTTAGCCCGGATATAGTCACTAGCAGAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
31699072 CCTTCGGGA-TTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
31699111 CCTTCAGGACTTAGCCCGGATATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
31699151 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
31699190 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
31699213 CATCCGAATA
Statistics
Matches: 156, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 68 0.44
40 85 0.54
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:31699124 original size:79 final size:80
Alignment explanation
Indices: 31698993--31699212 Score: 295
Period size: 79 Copynumber: 2.8 Consensus size: 80
31698983 AACCCAAGTA
* * *
31698993 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGTCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
31699057 TCACTAGCAGAAAAG
66 TCAATAGCACAAAAG
* *
31699072 CCTTCGGGA-TTAGCCCGGATATAGCAACTCGCACAAACGCCTTCAGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
31699136 TCAATAGCACAACTG
66 TCAATAGCACAAAAG
* * *
31699151 CCTTCAGGACTTAGCCCGGATATAGTC-ACTAGCAC-CATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
31699213 CATCCGAATA
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
78 4 0.03
79 98 0.78
80 22 0.18
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:31703227 original size:66 final size:66
Alignment explanation
Indices: 31703141--31703272 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
31703131 ATTCAATTTG
* * *
31703141 GTCCGCTTTTAAACGTTGTGTTTTGGGAGCTAGAATATTTCCAGTTTTGATCTCTGAGCATTCGC
1 GTCCGCGTTTAAACGCTGTGTTTTGGGAGCTAGAATATTTCCAGTTTTGATCCCTGAGCATTCGC
31703206 A
66 A
31703207 GTCCGCGTTTAAACGCTGTGTTTTGGGAGCTAGAATATTTCCAGTTTTGATCCCTGAGCATTCGC
1 GTCCGCGTTTAAACGCTGTGTTTTGGGAGCTAGAATATTTCCAGTTTTGATCCCTGAGCATTCGC
31703272 A
66 A
31703273 CGCATTGCGC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (66 bp):
GTCCGCGTTTAAACGCTGTGTTTTGGGAGCTAGAATATTTCCAGTTTTGATCCCTGAGCATTCGC
A
Found at i:31703595 original size:75 final size:75
Alignment explanation
Indices: 31703515--31703665 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
31703505 TCGTTTTAAA
31703515 TTTTTTGTATAATCATTAGTTTAAATTATCCTTATATTAAGATATATATATTCTATGTAAAAGTT
1 TTTTTTGTATAATCATTAGTTTAAATTATCCTTATATTAAGATATATATATTCTATGTAAAAGTT
31703580 AGTTGTATCC
66 AGTTGTATCC
31703590 TTTTTTGTATAATCATTAGTTTAAATTATCCTTATATTAAGATATATATATTCTATGTAAAAGTT
1 TTTTTTGTATAATCATTAGTTTAAATTATCCTTATATTAAGATATATATATTCTATGTAAAAGTT
31703655 AGTTGTATCC
66 AGTTGTATCC
31703665 T
1 T
31703666 ATGAATATTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.50
Consensus pattern (75 bp):
TTTTTTGTATAATCATTAGTTTAAATTATCCTTATATTAAGATATATATATTCTATGTAAAAGTT
AGTTGTATCC
Found at i:31704281 original size:18 final size:18
Alignment explanation
Indices: 31704239--31704281 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
31704229 TTTTTTGTTC
31704239 ATTTGTATAATATTTCAT
1 ATTTGTATAATATTTCAT
* * * *
31704257 CTATGTATATTGTTTCAT
1 ATTTGTATAATATTTCAT
31704275 ATTTGTA
1 ATTTGTA
31704282 ACCTTGATTT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (18 bp):
ATTTGTATAATATTTCAT
Found at i:31730798 original size:23 final size:23
Alignment explanation
Indices: 31730772--31730815 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
31730762 TTATGAAACA
* *
31730772 TATGTTTTGGTATGACTTTGGCT
1 TATGATTTGGCATGACTTTGGCT
*
31730795 TATGATTTGGCATGATTTTGG
1 TATGATTTGGCATGACTTTGG
31730816 TATGGATATA
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:0.16, C:0.07, G:0.27, T:0.50
Consensus pattern (23 bp):
TATGATTTGGCATGACTTTGGCT
Found at i:31737219 original size:18 final size:18
Alignment explanation
Indices: 31737196--31737231 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
31737186 ATTTGAATGA
31737196 ATGTGAGATTGAATAAGT
1 ATGTGAGATTGAATAAGT
31737214 ATGTGAGATTGAATAAGT
1 ATGTGAGATTGAATAAGT
31737232 CAAATTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (18 bp):
ATGTGAGATTGAATAAGT
Found at i:31737694 original size:43 final size:43
Alignment explanation
Indices: 31737523--31737695 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 43
31737513 CATAGGATTT
* * * *
31737523 TCGATATGTGATTTCGTGTAAGACCACATCTGGGACATTGACA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
* * * **
31737566 TCGAT-TTGAGATTTACGTATAAGACCATGTCTGCGG-CATCAGCA
1 TCGATATT-TGA-TTACGTGTAAGACCACGTCTG-GGACATTGGCA
* * *
31737610 TCG-TATTTGATTTCGTGTAAGACC-CTATCTGGGACAATGGCA
1 TCGATATTTGATTACGTGTAAGACCAC-GTCTGGGACATTGGCA
* *
31737652 TCGATATTTGATTACATGTAAGACCACGTTTGGGACATTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
31737695 T
1 T
31737696 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
41 2 0.02
42 25 0.25
43 43 0.43
44 28 0.28
45 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:31740044 original size:23 final size:23
Alignment explanation
Indices: 31740012--31740059 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
31740002 GGCGTTATAC
*
31740012 AAAATGAATCAAAATGCTAAAAT
1 AAAATAAATCAAAATGCTAAAAT
31740035 AAAATAAATCAAAATGCTAAAAT
1 AAAATAAATCAAAATGCTAAAAT
31740058 AA
1 AA
31740060 GCCAACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.21
Consensus pattern (23 bp):
AAAATAAATCAAAATGCTAAAAT
Found at i:31740775 original size:46 final size:45
Alignment explanation
Indices: 31740677--31740887 Score: 162
Period size: 46 Copynumber: 4.6 Consensus size: 45
31740667 GTACCAATTC
* **
31740677 CATGTCCCAGACATGGTCTTACAGTCA-C--ACATCTCATACCGATG
1 CATGTCCCAGACAT-GTCTTACACT-AGCTTACATCTCAGGCCGATG
31740721 CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTACATCTC-AGGCCGATG
* *** * * *
31740767 CATGTCCCAAACATGTCTTACACTAGCTTTTGTCTCAATGTCGTTG
1 CATGTCCCAGACATGTCTTACACTAGCTTACATCTC-AGGCCGATG
* * * * *
31740813 CCATGTCCCAGACATGGTTTTACACTGGCTCT-CATAAT-ATGGTCAATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTCA-GGCCGATG
*
31740861 CATGACCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
31740888 GCACAAATGA
Statistics
Matches: 135, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.01
43 10 0.07
44 14 0.10
45 7 0.05
46 56 0.41
47 27 0.20
48 18 0.13
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACATCTCAGGCCGATG
Found at i:31741302 original size:23 final size:23
Alignment explanation
Indices: 31741270--31741317 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
31741260 GGCGTTATAC
*
31741270 AAAATGAATCAAAATGCTAAAAT
1 AAAATAAATCAAAATGCTAAAAT
31741293 AAAATAAATCAAAATGCTAAAAT
1 AAAATAAATCAAAATGCTAAAAT
31741316 AA
1 AA
31741318 GCCAACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.21
Consensus pattern (23 bp):
AAAATAAATCAAAATGCTAAAAT
Found at i:31742033 original size:46 final size:45
Alignment explanation
Indices: 31741935--31742145 Score: 162
Period size: 46 Copynumber: 4.6 Consensus size: 45
31741925 GTACCAATTC
* **
31741935 CATGTCCCAGACATGGTCTTACAGTCA-C--ACATCTCATACCGATG
1 CATGTCCCAGACAT-GTCTTACACT-AGCTTACATCTCAGGCCGATG
31741979 CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTACATCTC-AGGCCGATG
* *** * * *
31742025 CATGTCCCAAACATGTCTTACACTAGCTTTTGTCTCAATGTCGTTG
1 CATGTCCCAGACATGTCTTACACTAGCTTACATCTC-AGGCCGATG
* * * * *
31742071 CCATGTCCCAGACATGGTTTTACACTGGCTCT-CATAAT-ATGGTCAATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTCA-GGCCGATG
*
31742119 CATGACCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
31742146 GCACAAATGA
Statistics
Matches: 135, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.01
43 10 0.07
44 14 0.10
45 7 0.05
46 56 0.41
47 27 0.20
48 18 0.13
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACATCTCAGGCCGATG
Found at i:31758523 original size:24 final size:24
Alignment explanation
Indices: 31758496--31758552 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
31758486 TCACATGAGC
31758496 TGTGAATATAATGCTCACACAAGT
1 TGTGAATATAATGCTCACACAAGT
* * *
31758520 TGTGAATATAATGCTCGCACGATT
1 TGTGAATATAATGCTCACACAAGT
31758544 TGTGAATAT
1 TGTGAATAT
31758553 GGGTCTACTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (24 bp):
TGTGAATATAATGCTCACACAAGT
Found at i:31761524 original size:46 final size:46
Alignment explanation
Indices: 31761457--31761547 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
31761447 TAAATTAAGT
*
31761457 TAACCTCTTCGCCCAATGGCAAGAGCATTATGTTGTAGGCATGAGA
1 TAACCTCTTCGCCCAATGGCAAGAGCATTATGTTATAGGCATGAGA
*
31761503 TAACCTCTTCGCCCAATGGCAAGAGCATTATGTTATATGCATGAG
1 TAACCTCTTCGCCCAATGGCAAGAGCATTATGTTATAGGCATGAG
31761548 GGCCTAGGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (46 bp):
TAACCTCTTCGCCCAATGGCAAGAGCATTATGTTATAGGCATGAGA
Found at i:31766080 original size:2 final size:2
Alignment explanation
Indices: 31766073--31766097 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31766063 ATGATGATTA
31766073 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
31766098 AATAAAGNTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:31766905 original size:3 final size:3
Alignment explanation
Indices: 31766897--31766935 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
31766887 TTAATCTCTA
31766897 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
31766936 TTGTGAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:31768361 original size:23 final size:23
Alignment explanation
Indices: 31768333--31768386 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
31768323 ATGAGAATAT
*
31768333 ATTTTTATATAATAAATCAAT-AAA
1 ATTTTGATA-AATAAAT-AATGAAA
*
31768357 ATTTTGATAAATAGATAATGAAA
1 ATTTTGATAAATAAATAATGAAA
31768380 ATTTTGA
1 ATTTTGA
31768387 ATTTATACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 3 0.11
23 16 0.59
24 8 0.30
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (23 bp):
ATTTTGATAAATAAATAATGAAA
Found at i:31774995 original size:29 final size:29
Alignment explanation
Indices: 31774961--31775019 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
31774951 GTCACAAGGT
* * *
31774961 CGTGTGTTGCATACGGCCTACCACACGAC
1 CGTGTGTCGCACACGACCTACCACACGAC
*
31774990 CGTGTGTCGCACACGACCTACCACATGAC
1 CGTGTGTCGCACACGACCTACCACACGAC
31775019 C
1 C
31775020 AGGCACACGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.37, G:0.22, T:0.19
Consensus pattern (29 bp):
CGTGTGTCGCACACGACCTACCACACGAC
Found at i:31775603 original size:15 final size:15
Alignment explanation
Indices: 31775583--31775614 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
31775573 GAATTTTAGG
31775583 AAAAAAATT-AAATT
1 AAAAAAATTAAAATT
31775597 AAAAAAATTAAAATT
1 AAAAAAATTAAAATT
31775612 AAA
1 AAA
31775615 TCAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAAAAATTAAAATT
Found at i:31777505 original size:37 final size:37
Alignment explanation
Indices: 31777426--31777511 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
31777416 TTATTACGAA
* * *
31777426 GTCTTACCCGGACATAATCTCCACACGAAGTTATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
* * * *
31777463 ATCTTACTCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
31777500 GTCTTACCCGGA
1 GTCTTACCCGGA
31777512 ATATATTTCC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:31777708 original size:46 final size:46
Alignment explanation
Indices: 31777655--31777929 Score: 487
Period size: 46 Copynumber: 6.0 Consensus size: 46
31777645 TATATATACA
* * * * *
31777655 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
31777701 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
31777747 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
31777793 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
31777839 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
31777885 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATAT
31777930 ATGCATGTTC
Statistics
Matches: 221, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 221 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
Found at i:31777972 original size:22 final size:22
Alignment explanation
Indices: 31777946--31778017 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
31777936 GTTCACATTC
31777946 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
31777968 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
31777992 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
31778015 ATC
1 ATC
31778018 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:31777974 original size:47 final size:47
Alignment explanation
Indices: 31777903--31778046 Score: 225
Period size: 47 Copynumber: 3.1 Consensus size: 47
31777893 ACACATTTCG
* * *
31777903 CATTAGCCATTCGGCTTTACCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
31777950 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * **
31777997 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
31778044 CAT
1 CAT
31778047 AAAATCCTAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:31789982 original size:13 final size:13
Alignment explanation
Indices: 31789964--31789988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31789954 TTACTTGCTA
31789964 TGATCATAGTGGC
1 TGATCATAGTGGC
31789977 TGATCATAGTGG
1 TGATCATAGTGG
31789989 TGAGAGAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (13 bp):
TGATCATAGTGGC
Found at i:31802547 original size:26 final size:26
Alignment explanation
Indices: 31802518--31802581 Score: 101
Period size: 26 Copynumber: 2.4 Consensus size: 26
31802508 CAATTGTAAG
31802518 TTCATTTTTTCTCGTTTTTTAATGAT
1 TTCATTTTTTCTCGTTTTTTAATGAT
*
31802544 TTCATTTTTGCTCGTTTTTTAATGAT
1 TTCATTTTTTCTCGTTTTTTAATGAT
31802570 TTCTATGTTTTT
1 TTC-AT-TTTTT
31802582 GAGATCGTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 28 0.82
27 2 0.06
28 4 0.12
ACGTcount: A:0.14, C:0.11, G:0.09, T:0.66
Consensus pattern (26 bp):
TTCATTTTTTCTCGTTTTTTAATGAT
Found at i:31805298 original size:23 final size:22
Alignment explanation
Indices: 31805272--31805317 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
31805262 CCACAGCTTG
* *
31805272 TATGAACTTACCATTTCAGCTCT
1 TATGAACATACC-GTTCAGCTCT
*
31805295 TATGAGCATACCGTTCAGCTCT
1 TATGAACATACCGTTCAGCTCT
31805317 T
1 T
31805318 CGGAGCTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (22 bp):
TATGAACATACCGTTCAGCTCT
Found at i:31805371 original size:23 final size:23
Alignment explanation
Indices: 31805278--31805378 Score: 109
Period size: 23 Copynumber: 4.4 Consensus size: 23
31805268 CTTGTATGAA
* *
31805278 CTTACCATTTCAGCTCTTATGAG
1 CTTACCGTTTCAGCTCTTAGGAG
* *
31805301 CATACCG-TTCAGCTCTTCGGAG
1 CTTACCGTTTCAGCTCTTAGGAG
* *
31805323 CTTACTGTTTCAG-TCCTTAGGGG
1 CTTACCGTTTCAGCT-CTTAGGAG
31805346 CTTACCGTTTCAGCTC-TACGGAG
1 CTTACCGTTTCAGCTCTTA-GGAG
31805369 CTTACCGTTT
1 CTTACCGTTT
31805379 ATTGGCTCAG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
22 21 0.33
23 42 0.66
24 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.36
Consensus pattern (23 bp):
CTTACCGTTTCAGCTCTTAGGAG
Found at i:31808899 original size:45 final size:43
Alignment explanation
Indices: 31808827--31808916 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 43
31808817 GGCTATTGCC
*
31808827 TAAAATGAGTAAAACCTAGTTGAAAGATGTTATGACATCATGA
1 TAAAATGAGTAAAACCTAGCTGAAAGATGTTATGACATCATGA
* *
31808870 TAAAGATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCATGA
1 TAAA-ATGAGTAAAACC-TAGCTGAAAGATGTTATGACATCATGA
31808915 TA
1 TA
31808917 GAAACAGGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
43 4 0.10
44 11 0.26
45 27 0.64
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (43 bp):
TAAAATGAGTAAAACCTAGCTGAAAGATGTTATGACATCATGA
Found at i:31811345 original size:48 final size:48
Alignment explanation
Indices: 31811283--31811405 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 48
31811273 TGACATTAGG
*
31811283 GTTATGTACGATCCCATGTAAGACCATGTCTAGGACATGACTTTGGCATC
1 GTTATG-A-GATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATC
*** *
31811333 GTTATGAGATCCCCCATAAGACCATGTCTAGGACATGGCATTGGCATC
1 GTTATGAGATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATC
** *
31811381 GACATGTGATCCCATGTAAGACCAT
1 GTTATGAGATCCCATGTAAGACCAT
31811406 ATTTGGGATG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
48 55 0.89
49 1 0.02
50 6 0.10
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (48 bp):
GTTATGAGATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATC
Found at i:31813980 original size:27 final size:27
Alignment explanation
Indices: 31813908--31813991 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
31813898 GCATCATAGT
* *
31813908 TAGTCCAATAGGACATTAAACACGGGA
1 TAGTCCAATGGGACATTAAACACAGGA
* *
31813935 TAGTCCAATGAGACATTAAACTCAGGA
1 TAGTCCAATGGGACATTAAACACAGGA
** *
31813962 TAGTCCAATGGGATGTTAAACA-AGGG
1 TAGTCCAATGGGACATTAAACACAGGA
31813988 TAGT
1 TAGT
31813992 TCGCTGGGAC
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (27 bp):
TAGTCCAATGGGACATTAAACACAGGA
Found at i:31824631 original size:43 final size:43
Alignment explanation
Indices: 31824536--31824657 Score: 124
Period size: 43 Copynumber: 2.8 Consensus size: 43
31824526 GGACGTTGGT
* *
31824536 ATCGAT-TTATGATTTACGTGTAAGATCATGTCAGGGACATCGAT
1 ATCGATATT-TGATTT-CGTGTAAGACCATGTCAGGGACATCGAC
* * *
31824580 ATCG-TATTTGATTTCGTGTAAGACCTTGTCTGGGACAGT-GGC
1 ATCGATATTTGATTTCGTGTAAGACCATGTCAGGGACA-TCGAC
* * *
31824622 ATCGATATTTGATTACATGTAAGACCATGTCCGGGA
1 ATCGATATTTGATTTCGTGTAAGACCATGTCAGGGA
31824658 TGTTGGCAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 25 0.38
43 35 0.53
44 6 0.09
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
ATCGATATTTGATTTCGTGTAAGACCATGTCAGGGACATCGAC
Found at i:31828002 original size:28 final size:28
Alignment explanation
Indices: 31827962--31828020 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
31827952 TAACAGAAAA
*
31827962 GAAAGTAGAATCAGTGCCTGCTGTCTGT
1 GAAAGTAGAATCAGTGCCTGCTATCTGT
*
31827990 GAAAGTTGAATCAGTGCCTGCTATCTGT
1 GAAAGTAGAATCAGTGCCTGCTATCTGT
31828018 GAA
1 GAA
31828021 TTCTTTGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (28 bp):
GAAAGTAGAATCAGTGCCTGCTATCTGT
Found at i:31832056 original size:27 final size:27
Alignment explanation
Indices: 31832023--31832084 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
31832013 CAAGACAATC
*
31832023 ATTTTACCCTACAAGGGTATTTCGATA
1 ATTTTACCCTACAAAGGTATTTCGATA
** * * *
31832050 ATTTTACATTATAAAGGTATTTTGGTA
1 ATTTTACCCTACAAAGGTATTTCGATA
31832077 ATTTTACC
1 ATTTTACC
31832085 AACCGGGGGT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTACAAAGGTATTTCGATA
Found at i:31832095 original size:27 final size:27
Alignment explanation
Indices: 31832065--31832254 Score: 175
Period size: 27 Copynumber: 7.0 Consensus size: 27
31832055 ACATTATAAA
* * *
31832065 GGTATTTTGGTAATTTTACCAACCGGG
1 GGTATTTCGGTAATTTTACAAATCGGG
*** * *
31832092 GGTATTTTAATAATTTTACAAATAGGA
1 GGTATTTCGGTAATTTTACAAATCGGG
** *
31832119 GGTATTTAAGTAATTTTAC-AATCTAGG
1 GGTATTTCGGTAATTTTACAAATC-GGG
* **
31832146 GGTATTTCGATAATTTTACAAATCGAT
1 GGTATTTCGGTAATTTTACAAATCGGG
** ***
31832173 GGTATTTCAATAATTTTACAAATTATG
1 GGTATTTCGGTAATTTTACAAATCGGG
*
31832200 GGTATTTCGGTAATTTTATAAATCGGG
1 GGTATTTCGGTAATTTTACAAATCGGG
*
31832227 AGTATTTCGGTAATTTTACAAATCGGG
1 GGTATTTCGGTAATTTTACAAATCGGG
31832254 G
1 G
31832255 TCTTAACGAC
Statistics
Matches: 130, Mismatches: 31, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
26 3 0.02
27 123 0.95
28 4 0.03
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGGG
Found at i:31832223 original size:54 final size:54
Alignment explanation
Indices: 31832037--31832250 Score: 193
Period size: 54 Copynumber: 3.9 Consensus size: 54
31832027 TACCCTACAA
* ** *** * **
31832037 GGGTATTTCGATAATTTTACATTATAAAGGTATTTTGGTAATTTTACCAA-CCGG
1 GGGTATTTCGATAATTTTACA-AATCGAGGTATTTCAATAATTTTACAAATCTAG
** *
31832091 GGGTATTTTAATAATTTTACAAATAGGAGGTATTT-AAGTAATTTTAC-AATCTAG
1 GGGTATTTCGATAATTTTACAAAT-CGAGGTATTTCAA-TAATTTTACAAATCTAG
*
31832145 GGGTATTTCGATAATTTTACAAATCGATGGTATTTCAATAATTTTACAAAT-TAT
1 GGGTATTTCGATAATTTTACAAATCGA-GGTATTTCAATAATTTTACAAATCTAG
* * * **
31832199 GGGTATTTCGGTAATTTTATAAATCGGGAGTATTTCGGTAATTTTACAAATC
1 GGGTATTTCGATAATTTTACAAATCGAG-GTATTTCAATAATTTTACAAATC
31832251 GGGGTCTTAA
Statistics
Matches: 134, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
53 7 0.05
54 122 0.91
55 5 0.04
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACAAATCGAGGTATTTCAATAATTTTACAAATCTAG
Found at i:31832249 original size:81 final size:80
Alignment explanation
Indices: 31832065--31832255 Score: 226
Period size: 81 Copynumber: 2.4 Consensus size: 80
31832055 ACATTATAAA
* * * * *
31832065 GGTATTTTGGTAATTTTACCAACCGGGGGTATTTTAATAATTTTACAAATAGGAGGTATTTAAGT
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATAGGAGGTATTTAAGT
*
31832130 AATTTTACAATCTAGG
66 AATTTTAAAATC-AGG
* * * **
31832146 GGTATTTCGATAATTTTACAAATCGATGGTATTTCAATAATTTTACAAATTATG-GGTATTTCGG
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAA-TAGGAGGTATTTAAG
31832210 TAATTTTATAAATC-GG
65 TAATTTTA-AAATCAGG
31832226 GAGTATTTCGGTAATTTTACAAATCG-GGGT
1 G-GTATTTCGGTAATTTTACAAATCGAGGGT
31832256 CTTAACGACC
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
80 6 0.06
81 81 0.86
82 7 0.07
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (80 bp):
GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATAGGAGGTATTTAAGT
AATTTTAAAATCAGG
Found at i:31835700 original size:43 final size:43
Alignment explanation
Indices: 31835564--31835716 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 43
31835554 ACATAGGATC
* * * *
31835564 CGATATGTGTTTTCGTGTAGGATCAC-GTTTGGGAC-GTTGGCAT
1 CGATATTTGATTTCGTGTAAGA-CCCTGTTTGGGACAG-TGGCAT
* * * * *
31835607 CGAT-TTATGATTTATGTGTAAGACCATGTCTAGGACA-TCGACAT
1 CGATATT-TGATTT-CGTGTAAGACCCTGTTTGGGACAGT-GGCAT
31835651 CG-TATTTGATTTCGTGTAAGACCCTGTTTGGGACAGTGGCAT
1 CGATATTTGATTTCGTGTAAGACCCTGTTTGGGACAGTGGCAT
* *
31835693 CGATATTTGATTACATGTAAGACC
1 CGATATTTGATTTCGTGTAAGACC
31835717 ACGTCTAGAC
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
42 26 0.30
43 38 0.44
44 22 0.26
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCCTGTTTGGGACAGTGGCAT
Found at i:31838731 original size:16 final size:16
Alignment explanation
Indices: 31838710--31838752 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
31838700 AGAGTTTTGG
31838710 GTTTTCTTTATGTTTT
1 GTTTTCTTTATGTTTT
31838726 GTTTTCTTTATGTTTT
1 GTTTTCTTTATGTTTT
*
31838742 GTATTCTTTAT
1 GTTTTCTTTAT
31838753 TCTTCTGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.09, C:0.07, G:0.12, T:0.72
Consensus pattern (16 bp):
GTTTTCTTTATGTTTT
Found at i:31847971 original size:24 final size:25
Alignment explanation
Indices: 31847944--31847996 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
31847934 GTACATGTAT
*
31847944 GCTCATACAAGCTGTA-AACAGTAA
1 GCTCATACAAGCTGAATAACAGTAA
* * *
31847968 GCTCCTCCGAGCTGAATAACAGTAA
1 GCTCATACAAGCTGAATAACAGTAA
31847993 GCTC
1 GCTC
31847997 CTATGAGCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (25 bp):
GCTCATACAAGCTGAATAACAGTAA
Found at i:31847993 original size:25 final size:25
Alignment explanation
Indices: 31847960--31848055 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 25
31847950 ACAAGCTGTA
* *
31847960 AACAGTAAGCTCCTCCGAGCTGAAT
1 AACAGTAAGCTCCTACGAGCTAAAT
*
31847985 AACAGTAAGCTCCTATGAGCTAAAT
1 AACAGTAAGCTCCTACGAGCTAAAT
*** **
31848010 ATTGGTAAGCTCCTTTGAGCTAAAT
1 AACAGTAAGCTCCTACGAGCTAAAT
* * *
31848035 AACGGTAAGCTCATGCGAGCT
1 AACAGTAAGCTCCTACGAGCT
31848056 GGTTATTGGC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (25 bp):
AACAGTAAGCTCCTACGAGCTAAAT
Found at i:31860164 original size:14 final size:15
Alignment explanation
Indices: 31860145--31860173 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31860135 TCACGAAAAT
31860145 TTCACACAT-ATAAA
1 TTCACACATAATAAA
31860159 TTCACACATAATAAA
1 TTCACACATAATAAA
31860174 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:31865315 original size:44 final size:43
Alignment explanation
Indices: 31865231--31865399 Score: 141
Period size: 42 Copynumber: 4.0 Consensus size: 43
31865221 CTATTCTACA
* * * *
31865231 TGTAAGACCACATCTGAGACATTGACATCG-ATTTCTATTTTGCG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTT-GATTTT-CG
*
31865275 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTT-G
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTTCG
* * * * * *
31865317 TGTAAGAACC-TGTCTAGGACAGTGGCATCGAATTTGA-TTACA
1 TGTAAG-ACCACGTCTGGGACATTGGCATCGTATTTGATTTTCG
* * * *
31865359 TGTAAGACCGCGTCTGGGACGTTGGCATTGTATATG-TTTTC
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTTC
31865400 TGATATATCC
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 5 0.05
42 59 0.58
43 3 0.03
44 31 0.30
45 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTTCG
Found at i:31883299 original size:58 final size:58
Alignment explanation
Indices: 31883231--31883343 Score: 172
Period size: 58 Copynumber: 1.9 Consensus size: 58
31883221 AGTGAGGGGC
** * * *
31883231 CTTAGCCCCTTTTTCGGTAACAGTAGTAATTTGGGCCTGAGCCCATTTCAGTAACTGT
1 CTTAGCCCCTTTTTAAGTAACAATAGCAATCTGGGCCTGAGCCCATTTCAGTAACTGT
*
31883289 CTTAGCCCCTTTTTAAGTAACAATAGCAGTCTGGGCCTGAGCCCATTTCAGTAAC
1 CTTAGCCCCTTTTTAAGTAACAATAGCAATCTGGGCCTGAGCCCATTTCAGTAAC
31883344 AGTGGCAGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (58 bp):
CTTAGCCCCTTTTTAAGTAACAATAGCAATCTGGGCCTGAGCCCATTTCAGTAACTGT
Found at i:31883342 original size:34 final size:34
Alignment explanation
Indices: 31883304--31883375 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
31883294 CCCCTTTTTA
* *
31883304 AGTAACAATAGCAGTCTGGGCCTGAGCCCATTTC
1 AGTAACAATAGCAGTCTGGGACTGAGCCCATATC
* * *
31883338 AGTAACAGTGGCAGTCTGGGACTTAGCCCATATC
1 AGTAACAATAGCAGTCTGGGACTGAGCCCATATC
31883372 AGTA
1 AGTA
31883376 CAGTATGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (34 bp):
AGTAACAATAGCAGTCTGGGACTGAGCCCATATC
Found at i:31886717 original size:45 final size:45
Alignment explanation
Indices: 31886648--31886738 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
31886638 CCTCACAAAG
31886648 ATCTCTGTACATCTTATTTCCACCTAGGTGTATAGCATAGGGGCT
1 ATCTCTGTACATCTTATTTCCACCTAGGTGTATAGCATAGGGGCT
* *
31886693 ATCTCTGTACATCTTATTTTCACCTGGGTGTATAGCATAGGGGCT
1 ATCTCTGTACATCTTATTTCCACCTAGGTGTATAGCATAGGGGCT
31886738 A
1 A
31886739 CTATGCGCCC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (45 bp):
ATCTCTGTACATCTTATTTCCACCTAGGTGTATAGCATAGGGGCT
Found at i:31888420 original size:34 final size:34
Alignment explanation
Indices: 31888382--31888457 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 34
31888372 AGCTAGATGG
31888382 TTTCAATACTACCTAAGTAGTATCA-ATAAGAACA
1 TTTCAATACTACCTAAGTAGTATCAGA-AAGAACA
* *
31888416 TTTC-A-A-TACCTAAGTAGTCTCAGAAATAACA
1 TTTCAATACTACCTAAGTAGTATCAGAAAGAACA
*
31888447 TATCAATACTA
1 TTTCAATACTA
31888458 TTATTTCAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
31 24 0.69
32 3 0.09
33 2 0.06
34 6 0.17
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (34 bp):
TTTCAATACTACCTAAGTAGTATCAGAAAGAACA
Found at i:31892176 original size:47 final size:47
Alignment explanation
Indices: 31892125--31892318 Score: 316
Period size: 47 Copynumber: 4.1 Consensus size: 47
31892115 CACTTCCACG
** *
31892125 TTCATCACATTGGCCATTCTACCTTCTCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
31892172 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
31892219 TTCATCACATTGGCCACTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
31892266 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
31892313 TTCATC
1 TTCATC
31892319 TCATAGAATC
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 138 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.36
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:31892202 original size:22 final size:22
Alignment explanation
Indices: 31892175--31892296 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
31892165 GTTCACATTC
31892175 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
31892197 ATCACATATTTG-CATGTTC-ACATT
1 ATCAC--ATTGGCCA--TTCGGCCTT
*
31892221 CATCACATTGGCCACTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
31892244 ATCACATATTTG-CATGTTC-ACATT
1 ATCAC--ATTGGCCA--TTCGGCCTT
31892268 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
31892291 ATCACA
1 ATCACA
31892297 CATATGCATG
Statistics
Matches: 72, Mismatches: 14, Indels: 28
0.63 0.12 0.25
Matches are distributed among these distances:
22 21 0.29
23 18 0.25
24 18 0.25
25 15 0.21
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:31900696 original size:47 final size:47
Alignment explanation
Indices: 31900578--31901406 Score: 1442
Period size: 47 Copynumber: 17.7 Consensus size: 47
31900568 GGATGGTTGA
* * * *
31900578 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAG
31900626 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31900671 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31900718 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31900765 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31900812 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31900859 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31900906 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31900953 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31901000 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31901047 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31901094 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31901141 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31901188 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
*
31901235 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAA-TTG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
31901281 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AT
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAG
*
31901330 G--TCCGAACTCGATGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31901375 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
31901407 ATTTATGGAT
Statistics
Matches: 753, Mismatches: 16, Indels: 25
0.95 0.02 0.03
Matches are distributed among these distances:
43 12 0.02
45 8 0.01
46 59 0.08
47 664 0.88
48 4 0.01
50 6 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31901719 original size:19 final size:20
Alignment explanation
Indices: 31901682--31901719 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31901672 ATAAGGTGGT
31901682 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
31901702 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
31901720 TGGTGGTACC
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:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:31903990 original size:69 final size:69
Alignment explanation
Indices: 31903879--31904011 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 69
31903869 TTCTGCGGCT
31903879 AGTGTGGGAAATACGAGATTTGGTAAACCCAAGTGCCAGCGGTGTGGTAGAAATCATTTTGGTCC
1 AGTGTGGGAAATACGAGATTTGGTAAACCCAAGTGCCAGCGGTGTGGTAGAAATCATTTTGGTCC
31903944 GTGC
66 GTGC
* * *
31903948 AGTGTAGGGAACT-CGAGATTTGTTAAACCCGAGTGCCAGCGGTGTGGTAGAAATCATTTTGGTC
1 AGTGT-GGGAAATACGAGATTTGGTAAACCCAAGTGCCAGCGGTGTGGTAGAAATCATTTTGGTC
31904012 AAATGAATGT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
69 54 0.90
70 6 0.10
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.27
Consensus pattern (69 bp):
AGTGTGGGAAATACGAGATTTGGTAAACCCAAGTGCCAGCGGTGTGGTAGAAATCATTTTGGTCC
GTGC
Found at i:31907890 original size:75 final size:75
Alignment explanation
Indices: 31907796--31907945 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
31907786 CCTAAAGTGC
*
31907796 TTAAATTGAAAGTAGGGACTAAATCGAATAAGTTTAGGGGCAAAAGTGTAATTTTTTTAAAGTTC
1 TTAAATTGAAAGTAGGGACTAAATCGAATAAGTTTAGGGGCAAAAGTGTAATTTTCTTAAAGTTC
31907861 GTATTAAATG
66 GTATTAAATG
31907871 TTAAATTGAAAGTAGGGACTAAATCGAATAAGTTTAGGGGCAAAAGTGTAATTTTCTTAAAGTTC
1 TTAAATTGAAAGTAGGGACTAAATCGAATAAGTTTAGGGGCAAAAGTGTAATTTTCTTAAAGTTC
31907936 GTATTAAATG
66 GTATTAAATG
31907946 CTGTTTTGAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (75 bp):
TTAAATTGAAAGTAGGGACTAAATCGAATAAGTTTAGGGGCAAAAGTGTAATTTTCTTAAAGTTC
GTATTAAATG
Found at i:31908423 original size:47 final size:47
Alignment explanation
Indices: 31908354--31908595 Score: 484
Period size: 47 Copynumber: 5.1 Consensus size: 47
31908344 GGATGGTTGA
31908354 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31908401 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31908448 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31908495 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31908542 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
31908589 GCATCCG
1 GCATCCG
31908596 GGGCGGGTTA
Statistics
Matches: 195, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 195 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31908856 original size:19 final size:20
Alignment explanation
Indices: 31908819--31908856 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31908809 ATAAGGTGGT
31908819 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
31908839 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
31908857 TGGTGGTACC
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:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:31912856 original size:5 final size:5
Alignment explanation
Indices: 31912846--31912924 Score: 63
Period size: 6 Copynumber: 14.8 Consensus size: 5
31912836 TATGTCTTTC
* *
31912846 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAGG AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
31912894 AAAAAT AAAAAT AAAAT AAAAT AAAAT AAAA
1 -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
31912925 ATAAGAGTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
3 3 0.05
5 27 0.44
6 32 0.52
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:31912875 original size:6 final size:6
Alignment explanation
Indices: 31912866--31912944 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
31912856 AATAAAATTG
* * **
31912866 AAATGA AAATAA AAATCA AAAGGA AAATAA AAATAA AAAT-A AAAT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* *
31912912 AAAT-A AAATAA AAATAA GAGTAA ATAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA A-AATAA AAA
31912945 AATAGGAGGA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
5 15 0.25
6 41 0.67
7 5 0.08
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:31912881 original size:12 final size:11
Alignment explanation
Indices: 31912846--31912943 Score: 81
Period size: 12 Copynumber: 8.4 Consensus size: 11
31912836 TATGTCTTTC
31912846 AAAATAAAATAAT
1 AAAAT-AAA-AAT
**
31912859 AAAATTGAAAT
1 AAAATAAAAAT
31912870 GAAAATAAAAAT
1 -AAAATAAAAAT
**
31912882 CAAAAGGAAAAT
1 -AAAATAAAAAT
31912894 AAAAATAAAAAT
1 -AAAATAAAAAT
31912906 AAAAT-AAAAT
1 AAAATAAAAAT
31912916 AAAATAAAAAT
1 AAAATAAAAAT
*
31912927 AAGAGTAAATAAT
1 AA-AATAAA-AAT
31912940 AAAA
1 AAAA
31912944 AAATAGGAGG
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
10 10 0.14
11 15 0.22
12 34 0.49
13 10 0.14
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:31912891 original size:18 final size:17
Alignment explanation
Indices: 31912856--31912928 Score: 69
Period size: 17 Copynumber: 4.3 Consensus size: 17
31912846 AAAATAAAAT
* * *
31912856 AATAAAATTGAAATGAA
1 AATAAAAATAAAAAGAA
*
31912873 AATAAAAATCAAAAGGAA
1 AATAAAAAT-AAAAAGAA
*
31912891 AATAAAAATAAAAATAA
1 AATAAAAATAAAAAGAA
31912908 AAT-AAAATAAAATA-AA
1 AATAAAAATAAAA-AGAA
31912924 AATAA
1 AATAA
31912929 GAGTAAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
16 14 0.29
17 19 0.40
18 15 0.31
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.18
Consensus pattern (17 bp):
AATAAAAATAAAAAGAA
Found at i:31912935 original size:27 final size:27
Alignment explanation
Indices: 31912889--31912948 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
31912879 AATCAAAAGG
*
31912889 AAAATAAAAATAAAAATAAAATAA-AAT
1 AAAATAAAAATAAAAAT-AAATAATAAA
* *
31912916 AAAATAAAAATAAGAGTAAATAATAAA
1 AAAATAAAAATAAAAATAAATAATAAA
31912943 AAAATA
1 AAAATA
31912949 GGAGGATTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (27 bp):
AAAATAAAAATAAAAATAAATAATAAA
Found at i:31923720 original size:55 final size:55
Alignment explanation
Indices: 31923660--31923770 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
31923650 TTAATGCCAT
*
31923660 TGCATGCTAAATATGAAGCTTGTTAATGATGCATGTGATGGTGGATTAATGATTC
1 TGCATGCTAAATATGAAGCTTCTTAATGATGCATGTGATGGTGGATTAATGATTC
*
31923715 TGCATGCTAAATATGAAGCTTCTTAATGATGCATGTGATGGTGGATTGATGATTC
1 TGCATGCTAAATATGAAGCTTCTTAATGATGCATGTGATGGTGGATTAATGATTC
31923770 T
1 T
31923771 TGAATCTCCT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (55 bp):
TGCATGCTAAATATGAAGCTTCTTAATGATGCATGTGATGGTGGATTAATGATTC
Found at i:31924815 original size:40 final size:40
Alignment explanation
Indices: 31924577--31924801 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
31924567 TTGAATGATG
* * * *
31924577 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
31924617 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
31924657 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31924696 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31924736 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31924777 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31924802 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31924823 original size:119 final size:119
Alignment explanation
Indices: 31924577--31924834 Score: 285
Period size: 119 Copynumber: 2.2 Consensus size: 119
31924567 TTGAATGATG
* *
31924577 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
31924642 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
31924696 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
31924759 TTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
31924816 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
31924835 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
118 4 0.03
119 82 0.69
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:31928729 original size:14 final size:14
Alignment explanation
Indices: 31928710--31928738 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31928700 GAAGATTAAG
31928710 ACACTCATCTACAA
1 ACACTCATCTACAA
31928724 ACACTCATCTACAA
1 ACACTCATCTACAA
31928738 A
1 A
31928739 TTATGTTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (14 bp):
ACACTCATCTACAA
Found at i:31931418 original size:42 final size:43
Alignment explanation
Indices: 31931338--31931428 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 43
31931328 CAGACAACAT
* *
31931338 CTTACATGTAACCAAACATCGATGCCACTGTCCTAGACAGGGA
1 CTTACATGAAACCAAACATCGATGCCACTGTCCCAGACAGGGA
* * * *
31931381 CTTACATGAAATCAAATA-CGATGCCGA-TGTCCCAGACATGGT
1 CTTACATGAAACCAAACATCGATGCC-ACTGTCCCAGACAGGGA
31931423 CTTACA
1 CTTACA
31931429 CGTAAAACAG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 25 0.61
43 16 0.39
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
CTTACATGAAACCAAACATCGATGCCACTGTCCCAGACAGGGA
Found at i:31931896 original size:8 final size:8
Alignment explanation
Indices: 31931883--31931924 Score: 66
Period size: 8 Copynumber: 5.1 Consensus size: 8
31931873 AGTCCCTAAT
31931883 TCACAAAA
1 TCACAAAA
31931891 TCACAAAA
1 TCACAAAA
31931899 TCACAAAA
1 TCACAAAA
*
31931907 TCGCAAAA
1 TCACAAAA
31931915 TACACAAAA
1 T-CACAAAA
31931924 T
1 T
31931925 TTGCTTGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 24 0.77
9 7 0.23
ACGTcount: A:0.60, C:0.24, G:0.02, T:0.14
Consensus pattern (8 bp):
TCACAAAA
Found at i:31934973 original size:50 final size:49
Alignment explanation
Indices: 31934894--31935171 Score: 285
Period size: 50 Copynumber: 5.7 Consensus size: 49
31934884 AAAGGGTAAA
* * * * *
31934894 ATGCCGATGCCATGTCTCAGACATTGTCTTACACTAGCTCTCATACATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATA-CG
* * * *
31934944 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATAAAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATACG
* * * * *
31934992 ATGGCGATGCTATGTTCCAAACATGGTCTTACACTGGCTCGCATATACTG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATAC-G
* * *
31935042 GTGCCGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCACATA-ACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATACG
* * * * *
31935090 ATGCCGATGCCATGTTCCA-AAATAGTCTTACACTGGATCGCATATACTG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATAC-G
*
31935139 ATGCCGATGCCATGTCCCAGACATAGTCTTACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACA
31935172 TTGACACATA
Statistics
Matches: 187, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
47 20 0.11
48 54 0.29
49 27 0.14
50 86 0.46
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (49 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATACG
Found at i:31935017 original size:48 final size:48
Alignment explanation
Indices: 31934893--31935221 Score: 198
Period size: 50 Copynumber: 6.6 Consensus size: 48
31934883 AAAAGGGTAA
* * * * * * *
31934893 AATGCCGATGCCATGTCTCAGACATTGTCTTACACTAGCTCTCATACATC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATAAAAC
** *
31934943 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATAAAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACATAAAAC
* * * * * *
31934991 AATGGCGATGCTATGTTCCAAACATGGTCTTACACTGGCTCGCAT-ATAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATAAAAC
** * * * * * *
31935040 TGGTGCCGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCACATAAC
1 -AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACATAAAAC
* * * *
31935089 AATGCCGATGCCATGTTCCAAA-ATAGTCTTACACTGGATCGCAT-ATAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACT-GA-CACATAAAAC
* * * *
31935137 TGATGCCGATGCCATGTCCCAGACATAGTCTTACATTGACACATATCGGCATAAC
1 -AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACATA-----A-AAC
*
31935192 AATGCCGATGCCATG-CTCCAAACACGGTCT
1 AATGCCGATGCCATGTC-CCAAACATGGTCT
31935222 CTTCCATTAA
Statistics
Matches: 213, Mismatches: 50, Indels: 28
0.73 0.17 0.10
Matches are distributed among these distances:
47 11 0.05
48 65 0.31
49 32 0.15
50 77 0.36
53 1 0.00
54 25 0.12
55 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACATAAAAC
Found at i:31935067 original size:98 final size:98
Alignment explanation
Indices: 31934893--31935215 Score: 391
Period size: 98 Copynumber: 3.2 Consensus size: 98
31934883 AAAAGGGTAA
* * * * *
31934893 AATGCCGATGCCATG-TCTCAGACATTGTCTTACACTAGCTCTCATACA-TCGGTGCCGATGCCA
1 AATGCCGATGCCATGTTC-CAAACATAGTCTTACACTGGCTCGCATATACT-GGTGCCGATGCCA
31934956 TGTCCCAGACATGGTCTTACACTGACACATAAAAC
64 TGTCCCAGACATGGTCTTACACTGACACATAAAAC
* * *
31934991 AATGGCGATGCTATGTTCCAAACATGGTCTTACACTGGCTCGCATATACTGGTGCCGATGCCATG
1 AATGCCGATGCCATGTTCCAAACATAGTCTTACACTGGCTCGCATATACTGGTGCCGATGCCATG
* * * * *
31935056 TCCCAGACATGGTCTTAAACTGGCTCACATAAC
66 TCCCAGACATGGTCTTACACTGACACATAAAAC
* *
31935089 AATGCCGATGCCATGTTCCAAA-ATAGTCTTACACTGGATCGCATATACTGATGCCGATGCCATG
1 AATGCCGATGCCATGTTCCAAACATAGTCTTACACTGGCTCGCATATACTGGTGCCGATGCCATG
* *
31935153 TCCCAGACATAGTCTTACATTGACACATATCGGCATAAC
66 TCCCAGACATGGTCTTACACTGACACATA-----A-AAC
*
31935192 AATGCCGATGCCATGCTCCAAACA
1 AATGCCGATGCCATGTTCCAAACA
31935216 CGGTCTCTTC
Statistics
Matches: 191, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
97 62 0.32
98 101 0.53
99 3 0.02
103 24 0.13
104 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (98 bp):
AATGCCGATGCCATGTTCCAAACATAGTCTTACACTGGCTCGCATATACTGGTGCCGATGCCATG
TCCCAGACATGGTCTTACACTGACACATAAAAC
Found at i:31935197 original size:97 final size:95
Alignment explanation
Indices: 31934945--31935181 Score: 296
Period size: 97 Copynumber: 2.4 Consensus size: 95
31934935 CATACATCGG
* * * *
31934945 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATAAAACAATGGCGATGCTATGTTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGACACAT---ACCATGACGATGCCATGTTCC
* * *
31935010 AAACATGGTCTTACACTGGCTCGCATATACTGG
63 AAACATAGTCTTACACTGGATCGCATATACTGA
* * * * *
31935043 TGCCGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCACATAACAATGCCGATGCCATGTTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACA-TTG-ACACAT-ACCATGACGATGCCATGTTCC
31935108 AAA-ATAGTCTTACACTGGATCGCATATACTGA
63 AAACATAGTCTTACACTGGATCGCATATACTGA
*
31935140 TGCCGATGCCATGTCCCAGACATAGTCTTACATTGACACATA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGACACATA
31935182 TCGGCATAAC
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
94 1 0.01
95 5 0.04
96 2 0.02
97 56 0.45
98 54 0.44
99 1 0.01
100 5 0.04
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (95 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACATTGACACATACCATGACGATGCCATGTTCCAAA
CATAGTCTTACACTGGATCGCATATACTGA
Found at i:31943456 original size:47 final size:45
Alignment explanation
Indices: 31943344--31943564 Score: 155
Period size: 48 Copynumber: 4.8 Consensus size: 45
31943334 TGATATGTGT
* *
31943344 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATT-ATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGG---CATTGAAGAGA
* *
31943390 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAAGAGA
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCATCGGCATT--GAAGAGA
* * * * * *
31943438 GCTAGTGTAAGACCTGTCTAGGACATGGCGTCAGC-TTGATGTGT
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATTGAAGAGA
* * * *
31943482 G-TCAGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAAATGAGA
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGGCA---TTGAA-GAGA
* **
31943531 GCCAGTGTAAGACCTGTC-GGGACACAGCATCGGC
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGC
31943565 CTCGATATAT
Statistics
Matches: 138, Mismatches: 25, Indels: 22
0.75 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 34 0.25
45 4 0.03
46 13 0.09
47 30 0.22
48 38 0.28
49 18 0.13
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATTGAAGAGA
Found at i:31943586 original size:48 final size:49
Alignment explanation
Indices: 31943484--31943588 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 49
31943474 TGATGTGTGT
** *
31943484 CAGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAAATGAGAGC
1 CAGTGTAAGACCTGTCTAGGACACAGCATCGACACCGATAAATGAAAGC
* * * *
31943533 CAGTGTAAGACCTGTC-GGGACACAGCATCGGC-CTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTAGGACACAGCATCGACAC-CGATAAATGAAAGC
*
31943581 TAGTGTAA
1 CAGTGTAA
31943589 TACGTATTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
47 1 0.02
48 30 0.64
49 16 0.34
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTAGGACACAGCATCGACACCGATAAATGAAAGC
Found at i:31943603 original size:141 final size:139
Alignment explanation
Indices: 31943338--31943655 Score: 315
Period size: 141 Copynumber: 2.2 Consensus size: 139
31943328 TTTGGGTGAT
* * * *
31943338 ATGTGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCCAATGTAAGA
1 ATGTGTGC-AGTGTAAGACCTGTCTAGGACATGGCATCGACCACATAATGAGAGCCAATGTAAGA
** * * *
31943402 CCATGTCTGGGACATGGCATCGGCATTGAGAAGAGAGCTAGTGTAAGACCTGTCTAGGACATGGC
65 CCATGTCTGGGACACAGCATCGGCATCGAGAAGAAAGCTAGTGTAAGACCTATCTAGGACATGGC
*
31943467 GTC-AGC-TTG
130 ATCGA-CTTTG
*
31943476 ATGTGTGTCAGTGTAAGACCTGTCTAGGACATGGCATCGA-CACCGATAAATGAGAGCCAGTGTA
1 ATGTGTG-CAGTGTAAGACCTGTCTAGGACATGGCATCGACCA-C-AT-AATGAGAGCCAATGTA
* * * * * * *
31943540 AGACC-TGTC-GGGACACAGCATCGGCCTCGATATATGAAAGTTAGTGTAATACGTATTTGGGAC
62 AGACCATGTCTGGGACACAGCATCGGCATCGAGA-A-GAAAGCTAGTGTAAGACCTATCTAGGAC
31943603 ATGGCATCGACTTTG
125 ATGGCATCGACTTTG
*
31943618 ATGTGCTAGCCAGTTTAAGACCATGTCTAGGACATGGC
1 ATGTG-T-G-CAGTGTAAGACC-TGTCTAGGACATGGC
31943656 CTCGGCATCT
Statistics
Matches: 148, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
138 30 0.20
139 26 0.18
140 7 0.05
141 48 0.32
142 9 0.06
143 1 0.01
144 12 0.08
145 15 0.10
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (139 bp):
ATGTGTGCAGTGTAAGACCTGTCTAGGACATGGCATCGACCACATAATGAGAGCCAATGTAAGAC
CATGTCTGGGACACAGCATCGGCATCGAGAAGAAAGCTAGTGTAAGACCTATCTAGGACATGGCA
TCGACTTTG
Found at i:31944675 original size:18 final size:18
Alignment explanation
Indices: 31944652--31944686 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31944642 TAGAATTACA
31944652 TTGAGATCATGTTGTAAT
1 TTGAGATCATGTTGTAAT
*
31944670 TTGAGATCCTGTTGTAA
1 TTGAGATCATGTTGTAA
31944687 GAATTGGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.43
Consensus pattern (18 bp):
TTGAGATCATGTTGTAAT
Found at i:31946439 original size:29 final size:29
Alignment explanation
Indices: 31946407--31946473 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
31946397 AAGTTCACAG
*
31946407 ACATGTATACGGCCCA-CTAGGCCCAAATC
1 ACATTTATACGGCCCATC-AGGCCCAAATC
* *
31946436 ACATTTATATGGCCCATCAGGCCCAATTC
1 ACATTTATACGGCCCATCAGGCCCAAATC
31946465 ACATTTATA
1 ACATTTATA
31946474 GTCATTCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 33 0.97
30 1 0.03
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.25
Consensus pattern (29 bp):
ACATTTATACGGCCCATCAGGCCCAAATC
Found at i:31950387 original size:29 final size:28
Alignment explanation
Indices: 31950320--31950388 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
31950310 CACATACCTC
*
31950320 TATATGGCCCATTAGGCCCAATTACATT
1 TATATGGCCCATTAGGCCCAATCACATT
* * * *
31950348 TATACGACCCATTATGCCCGAATCATATT
1 TATATGGCCCATTAGGCCC-AATCACATT
31950377 TATATGGCCCAT
1 TATATGGCCCAT
31950389 CACATCCAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 16 0.48
29 17 0.52
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (28 bp):
TATATGGCCCATTAGGCCCAATCACATT
Found at i:31950647 original size:16 final size:16
Alignment explanation
Indices: 31950628--31950664 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
31950618 AAACTTTTAG
31950628 CTTTTCAACATTTCGA
1 CTTTTCAACATTTCGA
31950644 CTTTTCAACATTTCGA
1 CTTTTCAACATTTCGA
31950660 CTTTT
1 CTTTT
31950665 GCCGATCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.05, T:0.49
Consensus pattern (16 bp):
CTTTTCAACATTTCGA
Found at i:31964213 original size:27 final size:26
Alignment explanation
Indices: 31964165--31964224 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
31964155 GCGAGGCTGC
* *
31964165 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTATGACAAAGCCACCAGA-A
* *
31964192 CAGATATTATGGCAAGGCCACCAGAA
1 CAGATATTATGACAAAGCCACCAGAA
31964218 CAGATAT
1 CAGATAT
31964225 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
CAGATATTATGACAAAGCCACCAGAA
Found at i:31965057 original size:54 final size:54
Alignment explanation
Indices: 31964969--31965165 Score: 227
Period size: 54 Copynumber: 3.7 Consensus size: 54
31964959 GGCAAAATGG
* * * *
31964969 TAATTTTACCCCACAAGGGTATCT-AGGTAATTCTACCTTATAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCA-ATAATTCTACCTTATAGGGGTATTTCGA
* * * * * * *
31965023 TATTTCTACCCTACAAGGGCATTTCTATAATTCTATCTTACA-TGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAATAATTCTACCTTATAGGGGTATTTCGA
* *
31965076 TAATTCTACCCTAAAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCAATAATTCTACCTTATAGGGGTATTTCGA
* * *
31965130 TAATTCTACCTTACAGGGGTATTTCGATAATTCTAC
1 TAATTCTACCCTACAAGGGTATTTCAATAATTCTAC
31965166 AACTTATCCA
Statistics
Matches: 117, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
53 44 0.38
54 73 0.62
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCAATAATTCTACCTTATAGGGGTATTTCGA
Found at i:31965079 original size:26 final size:27
Alignment explanation
Indices: 31964996--31965165 Score: 198
Period size: 27 Copynumber: 6.3 Consensus size: 27
31964986 GGTATCTAGG
*
31964996 TAATTCTACCTTATAGGGGTATTTCGA
1 TAATTCTACCTTACAGGGGTATTTCGA
* * * * *
31965023 TATTTCTACCCTACAAGGGCATTTCTA
1 TAATTCTACCTTACAGGGGTATTTCGA
* * *
31965050 TAATTCTATCTTACA-TGGTATTTCGG
1 TAATTCTACCTTACAGGGGTATTTCGA
* * * *
31965076 TAATTCTACCCTAAAAGGGTATTTCAA
1 TAATTCTACCTTACAGGGGTATTTCGA
* *
31965103 TAATTCTACCCTATAGGGGTATTTCGA
1 TAATTCTACCTTACAGGGGTATTTCGA
31965130 TAATTCTACCTTACAGGGGTATTTCGA
1 TAATTCTACCTTACAGGGGTATTTCGA
31965157 TAATTCTAC
1 TAATTCTAC
31965166 AACTTATCCA
Statistics
Matches: 118, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 19 0.16
27 99 0.84
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (27 bp):
TAATTCTACCTTACAGGGGTATTTCGA
Found at i:31965127 original size:80 final size:81
Alignment explanation
Indices: 31964985--31965165 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 81
31964975 TACCCCACAA
* * * * * * * *
31964985 GGGTATCTAGGTAATTCTACCTTATAGGGGTATTTCGATATTTCTACCCTACAAGGGCATTTCTA
1 GGGTATTTCGGTAATTCTACCCTAAAAGGGTATTTCAATAATTCTACCCTACAAGGGCATTTCGA
*
31965050 TAATTCTATCTTACA-
66 TAATTCTACCTTACAG
* * * *
31965065 TGGTATTTCGGTAATTCTACCCTAAAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTCGA
1 GGGTATTTCGGTAATTCTACCCTAAAAGGGTATTTCAATAATTCTACCCTACAAGGGCATTTCGA
31965130 TAATTCTACCTTACAG
66 TAATTCTACCTTACAG
*
31965146 GGGTATTTCGATAATTCTAC
1 GGGTATTTCGGTAATTCTAC
31965166 AACTTATCCA
Statistics
Matches: 85, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 67 0.79
81 18 0.21
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTAAAAGGGTATTTCAATAATTCTACCCTACAAGGGCATTTCGA
TAATTCTACCTTACAG
Found at i:31967621 original size:28 final size:29
Alignment explanation
Indices: 31967590--31967654 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
31967580 AAAGTGATTT
* *
31967590 TTGATAAAAATGTCAATTG-G-GGATTAAA
1 TTGAGAAAAATGTAAATTGAGAGG-TTAAA
*
31967618 TTGAGAAAAGTGTAAATTGAGAGGTTAAA
1 TTGAGAAAAATGTAAATTGAGAGGTTAAA
*
31967647 TTGTGAAA
1 TTGAGAAA
31967655 TAAATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 16 0.52
29 13 0.42
30 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.31
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGAGGTTAAA
Found at i:31969195 original size:15 final size:15
Alignment explanation
Indices: 31969175--31969210 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
31969165 AGAGACATGG
* *
31969175 GTGTGTGTCTCAGCC
1 GTGTGTGACACAGCC
31969190 GTGTGTGACACAGCC
1 GTGTGTGACACAGCC
31969205 GTGTGT
1 GTGTGT
31969211 CCCCTGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.36, T:0.31
Consensus pattern (15 bp):
GTGTGTGACACAGCC
Found at i:31974848 original size:27 final size:27
Alignment explanation
Indices: 31974818--31974995 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
31974808 ATATTGAGTC
* * * *
31974818 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31974845 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
31974872 CACACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31974900 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31974927 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31974954 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31974981 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31974996 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31974960 original size:82 final size:81
Alignment explanation
Indices: 31974839--31974994 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
31974829 TGCTATATAA
* *
31974839 TCAACTCGCACACTTAGTGCTACGTAATCAAATCACACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAA-TCGCA
31974904 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
31974921 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCA
31974985 CACTTAGTGC
65 CACTTAGTGC
31974995 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31978021 original size:27 final size:27
Alignment explanation
Indices: 31977975--31978140 Score: 185
Period size: 27 Copynumber: 6.1 Consensus size: 27
31977965 ATTACTAAAA
**
31977975 TACCCTCGACTTGTA-A-AATTACCAAAT
1 TACCCTCGA-TT-TACAGAATTACCATTT
* *
31978002 TACTCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
31978029 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
** * *
31978056 TACCCTCGATTTTTAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
31978083 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
**
31978110 TACCCTC-AGTTTACAGAATTACTGTTT
1 TACCCTCGA-TTTACAGAATTACCATTT
31978137 TACC
1 TACC
31978141 NNNNNNNNNN
Statistics
Matches: 120, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
25 2 0.02
26 4 0.03
27 114 0.95
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:31978092 original size:81 final size:81
Alignment explanation
Indices: 31977975--31978140 Score: 244
Period size: 81 Copynumber: 2.0 Consensus size: 81
31977965 ATTACTAAAA
* *
31977975 TACCCTCGACTTGTAAAATTACCAAATTACTCTCGATTTACAGAATTACCGTTTTACCCTC-GAT
1 TACCCTCGACTTGTAAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCAG-T
31978039 TTACAGAATTACCGTTT
65 TTACAGAATTACCGTTT
* * * **
31978056 TACCCTCGATTTTTAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTT
1 TACCCTCGACTTGTAAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTT
*
31978121 TACAGAATTACTGTTT
66 TACAGAATTACCGTTT
31978137 TACC
1 TACC
31978141 NNNNNNNNNN
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
81 75 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGACTTGTAAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTT
TACAGAATTACCGTTT
Found at i:31991658 original size:19 final size:19
Alignment explanation
Indices: 31991636--31991684 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
31991626 CCTGATACTT
31991636 ATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGTCACCTA
* *
31991655 ATTCTGATTTTGTCACCTG
1 ATTCTGATTCTGTCACCTA
31991674 ATTCTGATTCT
1 ATTCTGATTCT
31991685 AATTCTCATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.12, T:0.47
Consensus pattern (19 bp):
ATTCTGATTCTGTCACCTA
Found at i:31995457 original size:11 final size:11
Alignment explanation
Indices: 31995443--31995473 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
31995433 AGTCAAAAGG
31995443 AGCCAAAAACA
1 AGCCAAAAACA
31995454 AGCCAAAAACA
1 AGCCAAAAACA
31995465 AGCCAAAAA
1 AGCCAAAAA
31995474 GGGACAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.26, G:0.10, T:0.00
Consensus pattern (11 bp):
AGCCAAAAACA
Found at i:31995994 original size:16 final size:16
Alignment explanation
Indices: 31995975--31996010 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
31995965 TACCTAAGGG
31995975 GAATGAAACGTAAGAT
1 GAATGAAACGTAAGAT
*
31995991 GAATGAAACTTAAGAT
1 GAATGAAACGTAAGAT
31996007 GAAT
1 GAAT
31996011 TTTGTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
GAATGAAACGTAAGAT
Found at i:32002640 original size:76 final size:78
Alignment explanation
Indices: 32002504--32002687 Score: 210
Period size: 76 Copynumber: 2.4 Consensus size: 78
32002494 GAATCTAGTC
** * *
32002504 ACCAGCACAAAACCTGCGGGACTTTAAGCTTAGATATAATACCAGCACTAGGCCTACGGGATTTA
1 ACCAGCACAAAACCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTACGGGATTTA
*
32002569 ACCCAGATATAAT
66 ACCAAGATATAAT
* * * * *
32002582 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTA
1 ACCAGCACAAAACCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTACGGGATTTA
32002645 ACCAAGATATAAT
66 ACCAAGATATAAT
* * * * * *
32002658 AACAACATATAGCCTGCGGGTCTTTAAGCC
1 ACCAGCACAAAACCTGCGGGACTTTAAGCC
32002688 TGGATACACA
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
76 57 0.65
77 10 0.11
78 21 0.24
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (78 bp):
ACCAGCACAAAACCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTACGGGATTTA
ACCAAGATATAAT
Done.