Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008213.1 Hibiscus syriacus cultivar Beakdansim tig00110839_pilon, whole genome shotgun sequence
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: 2348840
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:777200 original size:214 final size:214
Alignment explanation
Indices: 776831--777258 Score: 831
Period size: 214 Copynumber: 2.0 Consensus size: 214
776821 TTTCCTGACA
776831 ATCAAGGACACCTAGACTATAATAGGTTCTTCTCGATGAGCTTAAGAAATTTTAAATCTGAATGC
1 ATCAAGGACACCTAGACTATAATAGGTTCTTCTCGATGAGCTTAAGAAATTTTAAATCTGAATGC
776896 TAAAAAAAGCTAATAAATTATTACTATAGATTATACAATGAAGATGAGATATTCCACTAAAGCAA
66 TAAAAAAAGCTAATAAATTATTACTATAGATTATACAATGAAGATGAGATATTCCACTAAAGCAA
776961 TTGGTTATAGAGGTAACTCAAAAGCCCGGGCTTTATGAATAGATTGCATTCGAA-CATGACATTA
131 TTGGTTATAGAGGTAACTCAAAAGCCCGGGCTTTATGAATAGATTGCATTCGAACCATGACATTA
777025 TTCGGGATACTCGACAGTTC
196 TTC-GGATACTCGACAGTTC
777045 ATCAAGGACACCTAGACTATAATAGGTTCTTCTCGATGAGCTTAAGAAATTTTAAATCTGAATGC
1 ATCAAGGACACCTAGACTATAATAGGTTCTTCTCGATGAGCTTAAGAAATTTTAAATCTGAATGC
777110 TAAAAAAAGCTAATAAATTATTACTATAGATTATACAATGAAGATGAGATATTCCACTAAAGCAA
66 TAAAAAAAGCTAATAAATTATTACTATAGATTATACAATGAAGATGAGATATTCCACTAAAGCAA
*
777175 TTGGTTATAGAGGTAACTCAAAAGCCCTGGCTTTATGAATAGATTGCATTCGAACCATGACATTA
131 TTGGTTATAGAGGTAACTCAAAAGCCCGGGCTTTATGAATAGATTGCATTCGAACCATGACATTA
777240 TTCGGATACTCGACAGTTC
196 TTCGGATACTCGACAGTTC
777259 GGTGTTTACT
Statistics
Matches: 212, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
214 199 0.94
215 13 0.06
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (214 bp):
ATCAAGGACACCTAGACTATAATAGGTTCTTCTCGATGAGCTTAAGAAATTTTAAATCTGAATGC
TAAAAAAAGCTAATAAATTATTACTATAGATTATACAATGAAGATGAGATATTCCACTAAAGCAA
TTGGTTATAGAGGTAACTCAAAAGCCCGGGCTTTATGAATAGATTGCATTCGAACCATGACATTA
TTCGGATACTCGACAGTTC
Found at i:778376 original size:39 final size:39
Alignment explanation
Indices: 778333--779314 Score: 1265
Period size: 39 Copynumber: 25.1 Consensus size: 39
778323 TTCCAAACAA
* * * * *
778333 ATTTTGTCTCGCTTGAGACAGTCT-CATTTAATACAGAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAA-ACAAAAG
* * * *
778372 ATTTTATCTCACTTGAGATGGTTTCCCTTGAAACAGAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
* *
778411 ATTTTGCCTCGATTGAGATAGTTTCCCTTGAAACAAAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
* *
778450 ATTTTGTCTCGCTTGATATAGTTTTCCCTTGAAACAGAAG
1 ATTTTGTCTCGCTTGAGATAG-TTTCCCTTGAAACAAAAG
* *
778490 ATTTTGTCTTGCTTGAGATAGTTTCCCTTAAAACAAAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
778529 ATTTTGTCTCGCTTGAGATAGTTT-CCTTGAAACAAAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
*
778567 ATTTTGTTTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
* * *
778606 ATTTTGTCTCGCTTGAGATAGTTTCCTTTGAAACATAAT
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
*
778645 ATTTTGTCTCAG-TTGAGATAGTTT-CCTTGAAACAGAAG
1 ATTTTGTCTC-GCTTGAGATAGTTTCCCTTGAAACAAAAG
** *
778683 ATTTTGTCTTACTTGAGATAGTTTCCCTTTGAAACAGAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCC-TTGAAACAAAAG
* * * *
778723 ATTTTCTCTCGCTTGAGATATTTTCCTTTGAAACATAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
*
778762 ATTTTGTCTCACTTGAGATAGTTTCCCTTGAAACAAAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
*
778801 ATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAAAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
* * *
778840 ATTTTATCTCTCTTGAGATAGTTTCCCTCGAAACAAAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
* * *
778879 ATTTTATCTCACTTGAGATAGTTTCCCTCGAAACAAAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
*
778918 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACATAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
** *
778957 ATTTTGTCTCGCTTGAGATAGTTTCCCACGAAACAGAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
* * *
778996 ATTTTATCTCGCTTGAGATGGTTTCCCTTGAAACCAAATG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAA-CAAAAG
* * *
779036 -TTTTGTCTCACTTGAGATAGTTTCCCATGAAACAGAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
* * * * * *
779074 ATTTTATGTCACTTGAGATGGTTTACCTTGAAATAAAATG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAA-G
*
779114 -TTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACATAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
* * * *
779152 ATTTTGACTTGCTTGAGATAGTTTCCCTTGAAATAGAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
* *
779191 ATTTTGTCTCGCTTGAGATAATTTTCCCTCGAAACAAAAG
1 ATTTTGTCTCGCTTGAGAT-AGTTTCCCTTGAAACAAAAG
* ** *
779231 ATTTTATCTCGCTTGAGATAGTTTCCCTCAAAACAGAAG
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
* * *
779270 ATTTTATCTCGCTTGAGATAGTTTTCTCTCGAAACAAAAG
1 ATTTTGTCTCGCTTGAGATAG-TTTCCCTTGAAACAAAAG
779310 ATTTT
1 ATTTT
779315 ATAAGAAACT
Statistics
Matches: 831, Mismatches: 99, Indels: 25
0.87 0.10 0.03
Matches are distributed among these distances:
38 73 0.09
39 623 0.75
40 135 0.16
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (39 bp):
ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
Found at i:788722 original size:26 final size:26
Alignment explanation
Indices: 788665--788715 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
788655 AACATCGAAT
* *
788665 GCATTTTATGCATCGATGCACTTAGA
1 GCATTTGATGCATCGATGCACTCAGA
788691 GCATTTGATGCATCGATGCACTCAG
1 GCATTTGATGCATCGATGCACTCAG
788716 GCTATTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (26 bp):
GCATTTGATGCATCGATGCACTCAGA
Found at i:790145 original size:145 final size:146
Alignment explanation
Indices: 789804--790164 Score: 447
Period size: 146 Copynumber: 2.5 Consensus size: 146
789794 GTAAGGCCAG
* * * * * *
789804 CACGAACAACATATTAAAAAATTAGGATGATCGGACAGTGGACGGTGGCGGATCGGAGAAAACAA
1 CACGAACAACATATTGAAAAATTAGGACGATCGGACGGTGGACGGTGACAGATCAGAGAAAACAA
* * * * * *
789869 ATCCGGATGGTTTTTGGAATCTTGCCGGATATTGGGATCTTCAATCAACATTTCGAACGGTGAAA
66 ATCTGGATGATTTTTGGAATCTTGCCAGAGATGGGGATCTTCAATCAACATTCCGAACGGTGAAA
* *
789934 CGTTGCGCGACATCAA
131 AGTTGCACGACATCAA
* * *
789950 TACGAACAACATATTGAAAAATCAGGACAATCGGACGGTGGACGGTGACAGATCAGAGAAAACAA
1 CACGAACAACATATTGAAAAATTAGGACGATCGGACGGTGGACGGTGACAGATCAGAGAAAACAA
** * * * *
790015 ATCTGGATGATTTTTGGCCTCTTGTCAGCGATGGGGGTC-TCTGATCAACATTCCGAA-GGTGAA
66 ATCTGGATGATTTTTGGAATCTTGCCAGAGATGGGGATCTTC-AATCAACATTCCGAACGGTGAA
*
790078 AAGTTGCACGACGTCAA
130 AAGTTGCACGACATCAA
* ** *
790095 CACGAACAACATATTGAAAAATTAGGACGATCGAACGGTGGACGACGACAGATCAGAGAAAATAA
1 CACGAACAACATATTGAAAAATTAGGACGATCGGACGGTGGACGGTGACAGATCAGAGAAAACAA
790160 ATCTG
66 ATCTG
790165 AACTGTTATC
Statistics
Matches: 183, Mismatches: 31, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
145 85 0.46
146 98 0.54
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (146 bp):
CACGAACAACATATTGAAAAATTAGGACGATCGGACGGTGGACGGTGACAGATCAGAGAAAACAA
ATCTGGATGATTTTTGGAATCTTGCCAGAGATGGGGATCTTCAATCAACATTCCGAACGGTGAAA
AGTTGCACGACATCAA
Found at i:791276 original size:3 final size:3
Alignment explanation
Indices: 791270--791333 Score: 119
Period size: 3 Copynumber: 21.0 Consensus size: 3
791260 ATTCTGATTC
791270 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
791316 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
791334 CACAAAAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:792256 original size:152 final size:152
Alignment explanation
Indices: 791980--792280 Score: 602
Period size: 152 Copynumber: 2.0 Consensus size: 152
791970 AAGCCTCTCT
791980 TCTTGTATTAATACGCGCCTGCGGGCGAGCGGCACACCTAGGTAAGACTTTAAATTACCCAACCA
1 TCTTGTATTAATACGCGCCTGCGGGCGAGCGGCACACCTAGGTAAGACTTTAAATTACCCAACCA
792045 TACTAACTAATAGGTATTACTGCTTTGAGAAGGATAAAAGTAACCTACATATCTGATTTATCTGT
66 TACTAACTAATAGGTATTACTGCTTTGAGAAGGATAAAAGTAACCTACATATCTGATTTATCTGT
792110 CATCCTTATCACAAATGGACTC
131 CATCCTTATCACAAATGGACTC
792132 TCTTGTATTAATACGCGCCTGCGGGCGAGCGGCACACCTAGGTAAGACTTTAAATTACCCAACCA
1 TCTTGTATTAATACGCGCCTGCGGGCGAGCGGCACACCTAGGTAAGACTTTAAATTACCCAACCA
792197 TACTAACTAATAGGTATTACTGCTTTGAGAAGGATAAAAGTAACCTACATATCTGATTTATCTGT
66 TACTAACTAATAGGTATTACTGCTTTGAGAAGGATAAAAGTAACCTACATATCTGATTTATCTGT
792262 CATCCTTATCACAAATGGA
131 CATCCTTATCACAAATGGA
792281 ATATCCTGTT
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 149 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (152 bp):
TCTTGTATTAATACGCGCCTGCGGGCGAGCGGCACACCTAGGTAAGACTTTAAATTACCCAACCA
TACTAACTAATAGGTATTACTGCTTTGAGAAGGATAAAAGTAACCTACATATCTGATTTATCTGT
CATCCTTATCACAAATGGACTC
Found at i:793657 original size:18 final size:18
Alignment explanation
Indices: 793636--793692 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
793626 AATAAATATT
793636 AAATAAATCAAAGGGAAA
1 AAATAAATCAAAGGGAAA
*
793654 AAATAAA--AAA--TAAA
1 AAATAAATCAAAGGGAAA
793668 AAATAAATCAAAGGGAAA
1 AAATAAATCAAAGGGAAA
793686 AAATAAA
1 AAATAAA
793693 ATAAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 10 0.30
16 6 0.18
18 17 0.52
ACGTcount: A:0.74, C:0.04, G:0.11, T:0.12
Consensus pattern (18 bp):
AAATAAATCAAAGGGAAA
Found at i:793672 original size:32 final size:32
Alignment explanation
Indices: 793622--793702 Score: 119
Period size: 32 Copynumber: 2.5 Consensus size: 32
793612 GATAATAAAT
**
793622 AATAAATAAATATTAAATAAATCAAAGGGAAAA
1 AATAAA-AAATAAAAAATAAATCAAAGGGAAAA
793655 AATAAAAAATAAAAAATAAATCAAAGGGAAAA
1 AATAAAAAATAAAAAATAAATCAAAGGGAAAA
*
793687 AATAAAATA-AAAAAAT
1 AATAAAAAATAAAAAAT
793703 GTTAAATGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 7 0.16
32 32 0.71
33 6 0.13
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (32 bp):
AATAAAAAATAAAAAATAAATCAAAGGGAAAA
Found at i:793735 original size:14 final size:14
Alignment explanation
Indices: 793712--793773 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
793702 TGTTAAATGT
*
793712 TAAAAGTAATAAAA
1 TAAAAATAATAAAA
793726 TAAAAATAATAAGAGA
1 TAAAAATAATAA-A-A
*
793742 AAAAATATAATAAAA
1 TAAAA-ATAATAAAA
* *
793757 CAAATAATAAAAAAA
1 TAAA-AATAATAAAA
793772 TA
1 TA
793774 CTAAAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 11 0.28
15 14 0.36
16 7 0.18
17 7 0.18
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (14 bp):
TAAAAATAATAAAA
Found at i:793748 original size:26 final size:25
Alignment explanation
Indices: 793719--793773 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
793709 TGTTAAAAGT
793719 AATAAAATAAAA-ATAATAAGAGAAAA
1 AATAAAATAAAACA-AATAAGA-AAAA
* *
793745 AATATAATAAAACAAATAATAAAAA
1 AATAAAATAAAACAAATAAGAAAAA
793770 AATA
1 AATA
793774 CTAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.31
26 17 0.65
27 1 0.04
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (25 bp):
AATAAAATAAAACAAATAAGAAAAA
Found at i:793772 original size:11 final size:11
Alignment explanation
Indices: 793741--793779 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
793731 ATAATAAGAG
793741 AAAAAATATAAT
1 AAAAAA-ATAAT
793753 AAAACAAATAAT
1 AAAA-AAATAAT
*
793765 AAAAAAATACT
1 AAAAAAATAAT
793776 AAAA
1 AAAA
793780 TTAAATGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 10 0.40
12 13 0.52
13 2 0.08
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAAAATAAT
Found at i:793826 original size:43 final size:44
Alignment explanation
Indices: 793766--793851 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
793756 ACAAATAATA
* **
793766 AAAAAATACTAAAATT-AAATGGGAAAAAATGAATAACCAAAAT
1 AAAAAATACTAAAATTAAAAAGAAAAAAAATGAATAACCAAAAT
** *
793809 AAAAAATGTTAAAATTAAAAAGAAAAAAAATGAATAACTAAAA
1 AAAAAATACTAAAATTAAAAAGAAAAAAAATGAATAACCAAAA
793852 ATTTAAAGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 14 0.39
44 22 0.61
ACGTcount: A:0.69, C:0.05, G:0.08, T:0.19
Consensus pattern (44 bp):
AAAAAATACTAAAATTAAAAAGAAAAAAAATGAATAACCAAAAT
Found at i:795147 original size:2 final size:2
Alignment explanation
Indices: 795135--795176 Score: 54
Period size: 2 Copynumber: 22.0 Consensus size: 2
795125 TTTTCAAAAC
795135 TA TA T- TA TA TA TA TA TA T- TCA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
795175 TA
1 TA
795177 ATGTTTTTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:795156 original size:25 final size:25
Alignment explanation
Indices: 795122--795176 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
795112 TTTTTTTAAA
*
795122 ATATTTTCAAAACTATAT-TATATAT
1 ATATATTCAAAA-TATATATATATAT
*
795147 ATATATTCAATATATATATATATAT
1 ATATATTCAAAATATATATATATAT
795172 ATATA
1 ATATA
795177 ATGTTTTTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATATTCAAAATATATATATATAT
Found at i:795195 original size:27 final size:27
Alignment explanation
Indices: 795163--795217 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
795153 TCAATATATA
*
795163 TATATATATATATAATGTTTTTCGAAAAC
1 TATATAT-TATAT-ATGTTTTTCAAAAAC
795192 TATATATTATATATGTTTTTCAAAAA
1 TATATATTATATATGTTTTTCAAAAA
795218 TATTTTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 13 0.52
28 5 0.20
29 7 0.28
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (27 bp):
TATATATTATATATGTTTTTCAAAAAC
Found at i:795235 original size:73 final size:73
Alignment explanation
Indices: 795157--795457 Score: 364
Period size: 75 Copynumber: 4.2 Consensus size: 73
795147 ATATATTCAA
* *
795157 TATATATATATATATAT-ATAATGTTTTTCGAAAACTATATATTATATATGTTTTTCAAAAAT-A
1 TATATATATATATATTTCAAAATG-TTTTC-AAAACTATATATTATATATGTTTTTCAAAAATCA
795220 TTTTCAAAAC
64 TTTTCAAAAC
* *
795230 CATATAATATATATATTTTCAAAAATGTTTTCAAAACTATATATTATATA-GATTTTC-AAAA-C
1 TATAT-ATATATATA-TTTC-AAAATGTTTTCAAAACTATATATTATATATGTTTTTCAAAAATC
795292 ----T----A-
63 ATTTTCAAAAC
*
795294 TATAT-TATATATATTTCAACATGTTTTCAAAACTATATATTATATAT-TTTTTCAAAAATCATT
1 TATATATATATATATTTCAAAATGTTTTCAAAACTATATATTATATATGTTTTTCAAAAATCATT
795357 TTCAAAAC
66 TTCAAAAC
*
795365 TATATAATATATATATTTCAAAATGTTTTCAAAACTATATATTATATATATTTTTTCAAAAATCA
1 TATAT-ATATATATATTTCAAAATGTTTTCAAAACTATATATTATATAT-GTTTTTCAAAAATCA
795430 TTTTCAAAAC
64 TTTTCAAAAC
795440 TATATAATATATATATTT
1 TATAT-ATATATATATTT
795458 TTAAAAACTG
Statistics
Matches: 199, Mismatches: 8, Indels: 40
0.81 0.03 0.16
Matches are distributed among these distances:
60 33 0.17
61 8 0.04
62 9 0.05
64 4 0.02
65 1 0.01
66 1 0.01
69 1 0.01
70 1 0.01
71 5 0.03
73 49 0.25
74 15 0.08
75 62 0.31
76 5 0.03
77 5 0.03
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (73 bp):
TATATATATATATATTTCAAAATGTTTTCAAAACTATATATTATATATGTTTTTCAAAAATCATT
TTCAAAAC
Found at i:795271 original size:75 final size:75
Alignment explanation
Indices: 795176--795500 Score: 253
Period size: 75 Copynumber: 4.5 Consensus size: 75
795166 ATATATATAT
*
795176 AATGTTTTTCGAAAACTATATATTATATATGTTTTTCAAAAATATTTTCAAAACCATATAATATA
1 AATG-TTTTC-AAAACTATATATTATATATGTTTTTCAAAAATATTTTCAAAACTATATAATATA
795241 TATATTTTCAAA
64 TATATTTTCAAA
* *
795253 AATGTTTTCAAAACTATATATTATATA-GATTTTC------A-----AAA-CTATATATTATATA
1 AATGTTTTCAAAACTATATATTATATATGTTTTTCAAAAATATTTTCAAAACTATATAATATATA
** *
795305 TATTTCAACA
66 TATTTTCAAA
** * *** * ** **
795315 TGTTTTCAAA--ACTATATATTATATATTTTTTCAAAAATCATTTTCAAAACTATATAATATATA
1 AATGTTTTCAAAACTATATATTATATATGTTTTTCAAAAATATTTTCAAAACTATATAATATATA
795378 TA-TTTC-AA
66 TATTTTCAAA
*
795386 AATGTTTTCAAAACTATATATTATATATATTTTTTCAAAAATCATTTTCAAAACTATATAATATA
1 AATGTTTTCAAAACTATATATTATATAT-GTTTTTCAAAAAT-ATTTTCAAAACTATATAATATA
*
795451 TATATTTTTAAA
64 TATATTTTCAAA
*
795463 AACTGATTTT-TAAAC-AGTATA-T-TATATG-TTTTCAAAAA
1 AA-TG-TTTTCAAAACTA-TATATTATATATGTTTTTCAAAAA
795501 AACCGTTTTT
Statistics
Matches: 193, Mismatches: 33, Indels: 47
0.71 0.12 0.17
Matches are distributed among these distances:
60 15 0.08
61 3 0.02
62 23 0.12
63 3 0.02
67 1 0.01
68 1 0.01
71 5 0.03
72 5 0.03
73 31 0.16
74 25 0.13
75 44 0.23
76 13 0.07
77 10 0.05
78 10 0.05
79 4 0.02
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (75 bp):
AATGTTTTCAAAACTATATATTATATATGTTTTTCAAAAATATTTTCAAAACTATATAATATATA
TATTTTCAAA
Found at i:795305 original size:27 final size:25
Alignment explanation
Indices: 795257--795309 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
795247 TTCAAAAATG
795257 TTTTCAAAACTATATATTATATAGA
1 TTTTCAAAACTATATATTATATAGA
*
795282 TTTTCAAAACTATATATTATATATA
1 TTTTCAAAACTATATATTATATAGA
795307 TTT
1 TTT
795310 CAACATGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTTCAAAACTATATATTATATAGA
Found at i:795332 original size:60 final size:62
Alignment explanation
Indices: 795219--795418 Score: 208
Period size: 73 Copynumber: 3.1 Consensus size: 62
795209 TTTCAAAAAT
795219 ATTTTCAAAACCATATAATATATATATTTTCAAAAATGTTTTCAAAACTATATATTATATAG
1 ATTTTCAAAACCATATAATATATATATTTTCAAAAATGTTTTCAAAACTATATATTATATAG
* * * *
795281 ATTTTCAAAACTATATATTATATATA-TTTC-AACATGTTTTCAAAACTATATATTATATAT
1 ATTTTCAAAACCATATAATATATATATTTTCAAAAATGTTTTCAAAACTATATATTATATAG
* *
795341 TTTTTCAAAAATCATTTTCAAAACTATATAATATATATATTTC-AAAATGTTTTCAAAACTATAT
1 ATTTTC-AAAA-C-----C-ATA-TA-AT-ATATATAT-TTTCAAAAATGTTTTCAAAACTATAT
*
795405 ATTATATAT
54 ATTATATAG
795414 ATTTT
1 ATTTT
795419 TTCAAAAATC
Statistics
Matches: 115, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
60 33 0.29
61 8 0.07
62 25 0.22
68 2 0.02
69 2 0.02
70 1 0.01
71 7 0.06
73 37 0.32
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.46
Consensus pattern (62 bp):
ATTTTCAAAACCATATAATATATATATTTTCAAAAATGTTTTCAAAACTATATATTATATAG
Found at i:795421 original size:135 final size:131
Alignment explanation
Indices: 795100--795425 Score: 430
Period size: 135 Copynumber: 2.4 Consensus size: 131
795090 AAATTGTTTT
* * * * *
795100 TATAATATATATTTTTTTTAAAATATTTTCAAAAC--TATATTATATATATATATTCAATATATA
1 TATAATATATA--TATTTCAAAATGTTTTCAAAACTATATATTATATATAT-TTTTCAAAATATA
795163 TATATATATATATAATGTTTTTCGAAAACTATATATTATATATGTTTTTCAAAAATATTTTCAAA
63 TATATATATATATAATGTTTTTCGAAAACTATATATTATATATGTTTTTCAAAAATATTTTCAAA
795228 ACCA
128 ACCA
*
795232 TATAATATATATATTTTCAAAAATGTTTTCAAAACTATATATTATATAGA-TTTTCAAAACTATA
1 TATAATATATATA-TTTC-AAAATGTTTTCAAAACTATATATTATATATATTTTTCAAAA-TATA
*
795296 TATTATATATATTTCAACATG-TTTTC-AAAACTATATATTATATAT-TTTTTCAAAAATCATTT
63 TA-TATATATATAT--A-ATGTTTTTCGAAAACTATATATTATATATGTTTTTCAAAAAT-ATTT
*
795358 TCAAAACTA
123 TCAAAACCA
795367 TATAATATATATATTTCAAAATGTTTTCAAAACTATATATTATATATATTTTTTCAAAA
1 TATAATATATATATTTCAAAATGTTTTCAAAACTATATATTATATATA-TTTTTCAAAA
795426 ATCATTTTCA
Statistics
Matches: 173, Mismatches: 9, Indels: 21
0.85 0.04 0.10
Matches are distributed among these distances:
130 1 0.01
131 3 0.02
132 33 0.19
133 36 0.21
134 38 0.22
135 53 0.31
136 6 0.03
137 3 0.02
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (131 bp):
TATAATATATATATTTCAAAATGTTTTCAAAACTATATATTATATATATTTTTCAAAATATATAT
ATATATATATAATGTTTTTCGAAAACTATATATTATATATGTTTTTCAAAAATATTTTCAAAACC
A
Found at i:795484 original size:40 final size:39
Alignment explanation
Indices: 795281--795464 Score: 235
Period size: 35 Copynumber: 4.9 Consensus size: 39
795271 TATTATATAG
* *
795281 ATTTTCAAAACTATAT-AT-TATATATATTTC-AACAT-
1 ATTTTCAAAACTATATAATATATATATTTTTCAAAAATC
* *
795316 GTTTTCAAAACTATATATTATATAT-TTTTTCAAAAATC
1 ATTTTCAAAACTATATAATATATATATTTTTCAAAAATC
795354 ATTTTCAAAACTATATAATATATATA--TTTC-AAAAT-
1 ATTTTCAAAACTATATAATATATATATTTTTCAAAAATC
* *
795389 GTTTTCAAAACTATATATTATATATATTTTTTCAAAAATC
1 ATTTTCAAAACTATATAATATATATA-TTTTTCAAAAATC
795429 ATTTTCAAAACTATATAATATATATATTTTT-AAAAA
1 ATTTTCAAAACTATATAATATATATATTTTTCAAAAA
795465 CTGATTTTTA
Statistics
Matches: 129, Mismatches: 10, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
35 39 0.30
36 11 0.09
37 13 0.10
38 32 0.25
39 10 0.08
40 24 0.19
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (39 bp):
ATTTTCAAAACTATATAATATATATATTTTTCAAAAATC
Found at i:795544 original size:21 final size:23
Alignment explanation
Indices: 795506--795551 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
795496 AAAAAAACCG
*
795506 TTTTTTAAAAATTATATATTATA
1 TTTTTTAAAAATTATATACTATA
*
795529 TTTTTTTAAAA-T-TATACTATA
1 TTTTTTAAAAATTATATACTATA
795550 TT
1 TT
795552 AATATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 1 0.05
23 10 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTTAAAAATTATATACTATA
Found at i:795860 original size:18 final size:19
Alignment explanation
Indices: 795836--795933 Score: 64
Period size: 18 Copynumber: 5.2 Consensus size: 19
795826 TATATTTAAA
* *
795836 ATATAAATTATAAAAAATT
1 ATATAAAATATAAAAAATC
795855 AT-TAAAATATTCAAAAAA-C
1 ATATAAAATA-T-AAAAAATC
795874 ATATAAAATATAAAAAAT-
1 ATATAAAATATAAAAAATC
* *
795892 ATAATATAA-CT-AAAAAT-
1 AT-ATAAAATATAAAAAATC
*
795909 ACTATTAAAATATAAAATATC
1 A-TA-TAAAATATAAAAAATC
795930 ATAT
1 ATAT
795934 GCATTTATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
17 8 0.13
18 20 0.32
19 13 0.21
20 20 0.32
21 1 0.02
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
ATATAAAATATAAAAAATC
Found at i:795890 original size:20 final size:19
Alignment explanation
Indices: 795836--795890 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
795826 TATATTTAAA
* **
795836 ATATAAATTATAAAAAATT
1 ATATAAAATATAAAAAAAC
*
795855 AT-TAAAATATTCAAAAAAC
1 ATATAAAATA-TAAAAAAAC
795874 ATATAAAATATAAAAAA
1 ATATAAAATATAAAAAA
795891 TATAATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.21
19 16 0.55
20 7 0.24
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
ATATAAAATATAAAAAAAC
Found at i:802490 original size:14 final size:15
Alignment explanation
Indices: 802466--802504 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
802456 TAAGAATTTG
802466 ATTTTTT-TTTTA-T
1 ATTTTTTATTTTAGT
*
802479 TTTTTTTATTTTAGT
1 ATTTTTTATTTTAGT
802494 ATTTTTTATTT
1 ATTTTTTATTT
802505 GAAATTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 6 0.27
14 5 0.23
15 11 0.50
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (15 bp):
ATTTTTTATTTTAGT
Found at i:803055 original size:43 final size:42
Alignment explanation
Indices: 803007--803089 Score: 139
Period size: 43 Copynumber: 2.0 Consensus size: 42
802997 CTTACATCAG
803007 ACAAATTAATATAGCCTTCTGATCAATGAAAAATAACGTTATA
1 ACAAATTAATATAGCCTTCTGATCAAT-AAAAATAACGTTATA
* *
803050 ACAAATTAATATAGCCTTTTGATCAATAAAAATAATGTTA
1 ACAAATTAATATAGCCTTCTGATCAATAAAAATAACGTTA
803090 ATTGTTATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 12 0.32
43 26 0.68
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (42 bp):
ACAAATTAATATAGCCTTCTGATCAATAAAAATAACGTTATA
Found at i:803251 original size:25 final size:25
Alignment explanation
Indices: 803196--803285 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
803186 AATAAAAATT
*
803196 TATTGAAAAAATAATAAACT-TTCAAA
1 TATTAAAAAAATAA-AAA-TATTCAAA
803222 T-TTAAAAAAATAAAAATATTCAAA
1 TATTAAAAAAATAAAAATATTCAAA
*
803246 TATTAAAAAAATATAACAATACT-AAA
1 TATTAAAAAAATA-AA-AATATTCAAA
* *
803272 AATTAAAAGAATAA
1 TATTAAAAAAATAA
803286 TAAAAAAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
23 1 0.02
24 10 0.18
25 23 0.41
26 17 0.30
27 5 0.09
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (25 bp):
TATTAAAAAAATAAAAATATTCAAA
Found at i:812539 original size:22 final size:22
Alignment explanation
Indices: 812514--812560 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
812504 TAAATTATTT
*
812514 AAATTATTTACGTTTATGTGTA
1 AAATTATTTACATTTATGTGTA
812536 AAATTATTTACATTTATGTGTA
1 AAATTATTTACATTTATGTGTA
812558 AAA
1 AAA
812561 ATTTTATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (22 bp):
AAATTATTTACATTTATGTGTA
Found at i:813870 original size:20 final size:21
Alignment explanation
Indices: 813829--813870 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
813819 CCGTATATTT
813829 AATTTCAATTAATTAAATATA
1 AATTTCAATTAATTAAATATA
813850 AATTT-AATTAATTTAAA-ATA
1 AATTTCAATTAA-TTAAATATA
813870 A
1 A
813871 TAAAATCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTTCAATTAATTAAATATA
Found at i:813945 original size:90 final size:89
Alignment explanation
Indices: 813824--813998 Score: 287
Period size: 90 Copynumber: 2.0 Consensus size: 89
813814 TAATCCCGTA
* * *
813824 TATTTAATTTCAATTAATTAAATATAAATTTAATTAATTTAAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAAATAATTAAATATAAATTTAATTAATTTAAAATAATAAAA-CCCTAATATGAT
813889 TAGGGTAACTTGGATATAAAAGGAT
65 TAGGGTAACTTGGATATAAAAGGAT
* *
813914 TATTAAATTCCAAATAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAAATAATTAAATATAAATTTAATTAATTTAAAATAATAAAACCCTAATATGATT
*
813979 AGGGTAACTTGGCTATAAAA
66 AGGGTAACTTGGATATAAAA
813999 TGATGTGTTA
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 32 0.41
90 47 0.59
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (89 bp):
TATTAAATTCCAAATAATTAAATATAAATTTAATTAATTTAAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAAAGGAT
Found at i:834949 original size:14 final size:14
Alignment explanation
Indices: 834930--834965 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
834920 CAGTTAGTTT
834930 GATTCGGTTGGAAC
1 GATTCGGTTGGAAC
834944 GATTCGGTTGGAAC
1 GATTCGGTTGGAAC
834958 GATTCGGT
1 GATTCGGT
834966 CCGTTTCGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.36, T:0.31
Consensus pattern (14 bp):
GATTCGGTTGGAAC
Found at i:836260 original size:9 final size:9
Alignment explanation
Indices: 836248--836331 Score: 50
Period size: 8 Copynumber: 9.0 Consensus size: 9
836238 AAATGTATTT
836248 AAAATTATAA
1 AAAATTAT-A
836258 AAAGATT-TA
1 AAA-ATTATA
* *
836267 AATATCAT-
1 AAAATTATA
836275 AAAATT-TA
1 AAAATTATA
*
836283 AAAAATATA
1 AAAATTATA
836292 AAAA-TATA
1 AAAATTATA
836300 AAAATTAGTTTA
1 AAAATTA---TA
836312 AAAATTATTA
1 AAAATTA-TA
836322 AAATATTATA
1 AAA-ATTATA
836332 TAATTTTTCT
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
7 1 0.02
8 19 0.32
9 12 0.20
10 12 0.20
11 7 0.12
12 9 0.15
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:836260 original size:20 final size:18
Alignment explanation
Indices: 836225--836278 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
836215 AAATATATTT
* *
836225 TTTAAAATTCTGAAAATGTA
1 TTTAAAATTAT-AAAAAG-A
836245 TTTAAAATTATAAAAAGA
1 TTTAAAATTATAAAAAGA
*
836263 TTTAAATATCATAAAA
1 TTTAAA-ATTATAAAA
836279 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.23
19 13 0.43
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.37
Consensus pattern (18 bp):
TTTAAAATTATAAAAAGA
Found at i:836389 original size:20 final size:20
Alignment explanation
Indices: 836354--836391 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
836344 GTTATTATAG
**
836354 AATTATTTTAGGAATTATTT
1 AATTATTTTAAAAATTATTT
836374 AATTATTTTAAAAATTAT
1 AATTATTTTAAAAATTAT
836392 AAAATTTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
AATTATTTTAAAAATTATTT
Found at i:836397 original size:20 final size:20
Alignment explanation
Indices: 836347--836397 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
836337 TTTCTATGTT
* **
836347 ATTATAGAATTATTTTAGGA
1 ATTATAAAATTATTTTAAAA
**
836367 ATTATTTAATTATTTTAAAA
1 ATTATAAAATTATTTTAAAA
836387 ATTATAAAATT
1 ATTATAAAATT
836398 TAACTAACTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (20 bp):
ATTATAAAATTATTTTAAAA
Found at i:836449 original size:35 final size:35
Alignment explanation
Indices: 836383--836449 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
836373 TAATTATTTT
** * *
836383 AAAAATTATAAAATTTAACTAACTTATTAAAATTG
1 AAAAATTATAAAATACAACAAAATTATTAAAATTG
836418 AAAAATTATAAAATACAA-AAAATTATATAAAA
1 AAAAATTATAAAATACAACAAAATTAT-TAAAA
836450 AATTAAACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 6 0.22
35 21 0.78
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (35 bp):
AAAAATTATAAAATACAACAAAATTATTAAAATTG
Found at i:838441 original size:28 final size:28
Alignment explanation
Indices: 838408--838461 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
838398 TCACTGTTGC
*
838408 TTTCAAACATTGGCTCAACAACATAACG
1 TTTCAAACATTAGCTCAACAACATAACG
*
838436 TTTCAAACATTAGCTCAACGACATAA
1 TTTCAAACATTAGCTCAACAACATAA
838462 TATAAATAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (28 bp):
TTTCAAACATTAGCTCAACAACATAACG
Found at i:841427 original size:20 final size:20
Alignment explanation
Indices: 841402--841440 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
841392 CCCTGAAAAA
841402 AAACAA-AATAATTAAATAAG
1 AAACAATAATAA-TAAATAAG
841422 AAACAATAATAATAAATAA
1 AAACAATAATAATAAATAA
841441 AATAATTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (20 bp):
AAACAATAATAATAAATAAG
Found at i:841434 original size:3 final size:3
Alignment explanation
Indices: 841426--841488 Score: 65
Period size: 3 Copynumber: 20.3 Consensus size: 3
841416 AATAAGAAAC
* * *
841426 AAT AAT AAT AAAT AA- AAT AAT TAC AAT AAT AAT AAAT GAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
841472 AAAT AAT AAT AAT AAT A
1 -AAT AAT AAT AAT AAT A
841489 GTATAATATA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 2 0.04
3 39 0.78
4 9 0.18
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:841469 original size:13 final size:13
Alignment explanation
Indices: 841416--841486 Score: 83
Period size: 13 Copynumber: 5.6 Consensus size: 13
841406 AAAATAATTA
* *
841416 AATAAGAAACAAT
1 AATAATAAATAAT
841429 AATAATAAATAA-
1 AATAATAAATAAT
* *
841441 AATAAT-TACAAT
1 AATAATAAATAAT
*
841453 AATAATAAATGAT
1 AATAATAAATAAT
841466 AATAATAAATAAT
1 AATAATAAATAAT
841479 AATAATAA
1 AATAATAA
841487 TAGTATAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 3 0.06
12 12 0.25
13 33 0.69
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:841471 original size:16 final size:16
Alignment explanation
Indices: 841407--841488 Score: 69
Period size: 16 Copynumber: 5.1 Consensus size: 16
841397 AAAAAAAACA
* *
841407 AAATAATTA-AATAAG
1 AAATAATAATAATAAT
*
841422 AAACAATAATAATAAAT
1 AAATAATAATAAT-AAT
* *
841439 AAAATAATTACAATAAT
1 -AAATAATAATAATAAT
*
841456 -AATAAATGATAATAAT
1 AAAT-AATAATAATAAT
841472 AAATAATAATAATAAT
1 AAATAATAATAATAAT
841488 A
1 A
841489 GTATAATATA
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
15 10 0.19
16 25 0.47
17 8 0.15
18 10 0.19
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:841582 original size:38 final size:35
Alignment explanation
Indices: 841519--841682 Score: 168
Period size: 36 Copynumber: 4.5 Consensus size: 35
841509 TTAAAAATAA
* * *
841519 TATATAATTTCCAAAATGCTTTAAAAAAATTATATAT
1 TATATAATTTTCAAAACG-TTT-TAAAAATTATATAT
*
841556 TATAT-ATTTTCAAAATGGTTTTTAAAAATTATATAT
1 TATATAATTTTCAAAA-CG-TTTTAAAAATTATATAT
* * *
841592 TATATAAATGTTTTCATAACGTTTTCAAAAGTATATAT
1 TATAT-AA--TTTTCAAAACGTTTTAAAAATTATATAT
*
841630 TATATATATTTTAAAAACGTTTTCAAAAATTATATAT
1 TATATA-ATTTTCAAAACGTTTT-AAAAATTATATAT
841667 TATATAATTTTCAAAA
1 TATATAATTTTCAAAA
841683 AATATATTTT
Statistics
Matches: 107, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
36 49 0.46
37 27 0.25
38 22 0.21
39 1 0.01
40 8 0.07
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (35 bp):
TATATAATTTTCAAAACGTTTTAAAAATTATATAT
Found at i:841691 original size:15 final size:16
Alignment explanation
Indices: 841668--841697 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
841658 ATTATATATT
841668 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
841684 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
841698 TGGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:841710 original size:52 final size:53
Alignment explanation
Indices: 841633--841744 Score: 156
Period size: 52 Copynumber: 2.1 Consensus size: 53
841623 TATATATTAT
841633 ATATATTTTAAAAACGTTTTCAAAAATTATATATTATAT-AA-TTTTCAAAAA
1 ATATATTTTAAAAACGTTTTCAAAAATTATATATTATATAAACTTTTCAAAAA
** *
841684 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAACGTTTTCAAAAA
1 ATATATTTT-AAAAACGTTTTCAAAAATTATATATTATATAAAC-TTTTCAAAAA
*
841739 CTATAT
1 ATATAT
841745 ATTATATAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
51 9 0.17
52 27 0.51
53 2 0.04
55 15 0.28
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (53 bp):
ATATATTTTAAAAACGTTTTCAAAAATTATATATTATATAAACTTTTCAAAAA
Found at i:841731 original size:28 final size:28
Alignment explanation
Indices: 841632--841764 Score: 131
Period size: 28 Copynumber: 5.0 Consensus size: 28
841622 GTATATATTA
* *
841632 TATATATTTTAAAAACGTTTTCAAAAAT
1 TATATATTATATAAACGTTTTCAAAAAT
841660 TATATATTATAT-AA--TTTTCAAAAA-
1 TATATATTATATAAACGTTTTCAAAAAT
* * *
841684 -ATATATTTTCA-AAATGGTTTTTAAAAAT
1 TATATATTAT-ATAAA-CGTTTTCAAAAAT
*
841712 TATATATTATATAAACGTTTTCAAAAAC
1 TATATATTATATAAACGTTTTCAAAAAT
841740 TATATATTATAT-AA--TTTTCAAAAAT
1 TATATATTATATAAACGTTTTCAAAAAT
841765 ATTTTAAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
23 8 0.09
24 3 0.03
25 20 0.23
27 13 0.15
28 33 0.38
29 11 0.12
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (28 bp):
TATATATTATATAAACGTTTTCAAAAAT
Found at i:841777 original size:36 final size:36
Alignment explanation
Indices: 841543--841864 Score: 138
Period size: 36 Copynumber: 8.6 Consensus size: 36
841533 AATGCTTTAA
* **
841543 AAAAATTATATA-T-TATATATTTTCAAAATGGTTTTT
1 AAAAACTATATATTATATATATTTTCAAAA--AATTTT
* * * **
841579 AAAAATTATATATTATATAAATGTTTTCATAACGTTTT
1 AAAAACTATATATTATAT--ATATTTTCAAAAAATTTT
* * *
841617 CAAAAGTATATATTATATATATTTT-AAAAACGTTTT
1 AAAAACTATATATTATATATATTTTCAAAAA-ATTTT
*
841653 CAAAAATTATATATTATATA-ATTTTCAAAAAATATATTTT
1 -AAAAACTATATATTATATATATTTTC--AAAA-A-ATTTT
** * * ** * **
841693 CAAAATGGTTTTTAAAAATTATATATTAT-ATAAACGTTTT
1 -AAAA-ACTATAT-ATTA-TATATATTTTCA-AAAAATTTT
841733 CAAAAACTATATATTATATA-ATTTTCAAAAATATTTT
1 -AAAAACTATATATTATATATATTTTCAAAAA-ATTTT
* *
841770 AAAAACTATATAATATACATATTTTCAAAAAATGTTT
1 AAAAACTATATATTATATATATTTTCAAAAAAT-TTT
* * *
841807 -TAAACGATATATTATATATGTATTTTCAAAAACAATTT
1 AAAAACTATATATTATATA--TATTTTCAAAAA-ATTTT
**
841845 GCAAACTATATGA-TATATAT
1 AAAAACTATAT-ATTATATAT
841865 GTGTATATAT
Statistics
Matches: 222, Mismatches: 40, Indels: 47
0.72 0.13 0.15
Matches are distributed among these distances:
35 3 0.01
36 68 0.31
37 42 0.19
38 40 0.18
39 22 0.10
40 30 0.14
41 4 0.02
42 5 0.02
43 4 0.02
44 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (36 bp):
AAAAACTATATATTATATATATTTTCAAAAAATTTT
Found at i:841809 original size:38 final size:38
Alignment explanation
Indices: 841543--841838 Score: 134
Period size: 38 Copynumber: 7.8 Consensus size: 38
841533 AATGCTTTAA
*
841543 AAAAATTATAT-AT-TATATATTTTC--AAAATGGTTTTT
1 AAAAACTATATAATATATATATTTTCAAAAAAT-G-TTTT
* * * * *
841579 AAAAATTATATATTATATAAATGTTTTC--ATAACGTTTT
1 AAAAACTATATA--ATATATATATTTTCAAAAAATGTTTT
* * * *
841617 CAAAAGTATATATTATATATATTTT--AAAAACGTTTT
1 AAAAACTATATAATATATATATTTTCAAAAAATGTTTT
* * *
841653 CAAAAATTATATATTATATA-ATTTTCAAAAAATATATTTT
1 -AAAAACTATATAATATATATATTTTC-AAAAA-ATGTTTT
** * * * * * *
841693 CAAAATGGTTTTTAA-AAATTATATATT-ATATAAACGTTTT
1 -AAAA-ACTATATAATATA-TATATTTTCA-AAAAATGTTTT
* *
841733 CAAAAACTATATATTATATA-ATTTTC-AAAAATATTTT
1 -AAAAACTATATAATATATATATTTTCAAAAAATGTTTT
*
841770 AAAAACTATATAATATACATATTTTCAAAAAATGTTTT
1 AAAAACTATATAATATATATATTTTCAAAAAATGTTTT
* * *
841808 AAACGA-TATATTATATATGTATTTTCAAAAA
1 AAA-AACTATATAATATATATATTTTCAAAAA
841839 CAATTTGCAA
Statistics
Matches: 200, Mismatches: 41, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
36 52 0.26
37 31 0.16
38 53 0.26
39 14 0.07
40 37 0.19
41 9 0.05
42 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (38 bp):
AAAAACTATATAATATATATATTTTCAAAAAATGTTTT
Found at i:842647 original size:84 final size:82
Alignment explanation
Indices: 842508--843621 Score: 943
Period size: 84 Copynumber: 13.5 Consensus size: 82
842498 AGGTCTTTAG
* * * * *
842508 CAGATAACCCTTCTTGACTTAAGCTATGTTGCAAATGATGTGCCTTGGAGTTGAGCGGAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAA
842573 CTCGAAAGTCTTTTGGTCA
65 CTCGAAAGTC-TTTGGTCA
* * * * * *
842592 CCGATAACCTTTCTAGCCTTGAGTTATGCTGTAAACGATGTGCCGTTGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGAA
* **
842657 CTC-AAAGGTCTTTTGTTGG
65 CTCGAAA-GTC-TTTGGTCA
* * * *
842676 CAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAA
* **
842741 CTCGAAGGTCTTTGGTTGG
65 CTCGAAAGTCTTTGG-TCA
* * * * *
842760 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTCAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTAGTCGA
***
842825 ACTCGGGGGTCTTTGG---
64 ACTCGAAAGTCTTTGGTCA
* * * *
842841 CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAA
842906 CTCGAAAGTCTTTTGGTCA
65 CTCGAAAGTC-TTTGGTCA
* * * * *
842925 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAACGATGTGCCGTTGAACTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGAA
* **
842990 CTC-AAAGGTCTTTTGTTGG
65 CTCGAAA-GTC-TTTGGTCA
* * * *
843009 CAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAA
* **
843074 CTCGAAGGTCTTTGGTTGG
65 CTCGAAAGTCTTTGG-TCA
* * * * *
843093 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTTCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATG-TGCCTTG-AGCTGAGCGTAGTCGA
***
843158 ACTCGGGGGTCTTTGG---
64 ACTCGAAAGTCTTTGGTCA
* * * *
843174 CAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAA
* *
843239 CTC-AAAGGTCTTTGCTAA
65 CTCGAAA-GTCTTTGGTCA
* * * * * * * *
843257 CAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTAGTCGA
* *
843322 ACT-TAAGGGTCTTTGG---
64 ACTCGAA-AGTCTTTGGTCA
* * * * *
843338 CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCT-TGAGCTGAGCGTAGTCGAA
* *
843403 CTC-AAAGGTCTTTGCTAA
65 CTCGAAA-GTCTTTGGTCA
* * * * * * *
843421 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTAGTCGA
* *
843486 ACT-TAAGGGTCTTTGG---
64 ACTCGAA-AGTCTTTGGTCA
* * * * *
843502 CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCT-TGAGCTGAGCGTAGTCGAA
* *
843567 CTC-AAAGGTCTTTGCTAA
65 CTCGAAA-GTCTTTGGTCA
* * *
843585 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATG
843622 TTTGTTTAAA
Statistics
Matches: 829, Mismatches: 157, Indels: 89
0.77 0.15 0.08
Matches are distributed among these distances:
80 111 0.13
81 149 0.18
83 115 0.14
84 384 0.46
85 70 0.08
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (82 bp):
CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGAGCTGAGCGTAGTCGAAC
TCGAAAGTCTTTGGTCA
Found at i:843091 original size:333 final size:332
Alignment explanation
Indices: 842485--843619 Score: 1701
Period size: 333 Copynumber: 3.4 Consensus size: 332
842475 AAGTTGAATA
* * * *
842485 TAATCGAACTCAAAGGTCTTTAGCAGATAACCCTTCTTGACTTAAGCTATGT-TGCAAATGATGT
1 TAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT-TCTGCAAATGATGT
* * * * * *
842549 GCCTTGGAGTTGAGCGGAGTCGAACTCGAAA-GTCTTTTGGTCACCGATAACCTTTCTAGCCTTG
65 GCCTTGGAGCTGAGCGTAGTCGAACTC-AAAGGTC-TTTGCTAACAGATAACCCTTCTAGCCTTG
*
842613 AGTTATGCTGTAAACGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCA
128 AGTTATGCTGTAAACGATGTGCCGTTGAACTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCA
842678 GACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACT
193 GACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACT
842743 CGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCG
258 CGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCG
*
842808 AAGCTCAGTG
323 AAGCTGAGTG
**
842818 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
1 TAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
* *
842883 CCTTGGAGCTGAGCGTAGTCGAACTCGAAA-GTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
66 CCTTGGAGCTGAGCGTAGTCGAACTC-AAAGGTC-TTTGCTAACAGATAACCCTTCTAGCCTTGA
842947 GTTATGCTGTAAACGATGTGCCGTTGAACTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
129 GTTATGCTGTAAACGATGTGCCGTTGAACTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
843012 ACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
194 ACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
*
843077 GAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTTCCCTCGA
259 GAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGA
843142 AGCTGAGTG
324 AGCTGAGTG
** *
843151 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTG
1 TAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
843216 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGT
66 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGT
* * * * * * * * *
843281 TATGTTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTC---T-TTGGCAGA
131 TATGCTGTAAACGATGTGCCGTTGAA-CTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGA
* * * * * * * * * *
843342 TAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGCGTAGTCGAACTCA
195 CAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCG
* ** * * * * * * *
843407 AAGGTCTTT-GCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAA
260 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAA
843471 GCTGAGTG
325 GCTGAGTG
*
843479 TAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
1 TAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
*
843544 CCTAGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGT
66 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGT
843609 TATGCTGTAAA
131 TATGCTGTAAA
843620 TGTTTGTTTA
Statistics
Matches: 747, Mismatches: 52, Indels: 11
0.92 0.06 0.01
Matches are distributed among these distances:
328 187 0.25
329 72 0.10
330 1 0.00
332 55 0.07
333 432 0.58
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (332 bp):
TAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGT
TATGCTGTAAACGATGTGCCGTTGAACTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGAC
AACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGA
AGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAG
CTGAGTG
Found at i:843623 original size:164 final size:164
Alignment explanation
Indices: 842485--843621 Score: 1456
Period size: 164 Copynumber: 6.9 Consensus size: 164
842475 AAGTTGAATA
* * * *
842485 TAATCGAACTCAAAGGTCTTTAGCAGATAACCCTTCTTGACTTAAGCTATGT-TGCAAATGATGT
1 TAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT-TCTGCAAATGATGT
* * * * * *
842549 GCCTTGGAGTTGAGCGGAGTCGAACTCGAAA-GTCTTTTGGTCACCGATAACCTTTCTAGCCTTG
65 GCCTTGGAGCTGAGCGTAGTCGAACTC-AAAGGTC-TTTGCTAACAGATAACCCTTCTAGCCTTG
* * *
842613 AGTTATGCTGTAAACGATGTGCCGTTG-AGCTGAGCG
128 AGTTATGCTGTAAATGATGTGCCCTTGAAGCTGAGTG
* * * * * * * * *
842649 TAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGA
1 TAATCGAACTCAAGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGA
* * * ** * *
842714 TATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACT
62 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT-GCTAACAGATAACCCTTCTAGCCT
* * * *
842779 TAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTCAGTG
126 TGAGTTATGCTGTAAATGATGTGCCCTTGAAGCTGAGTG
**
842818 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
1 TAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
* *
842883 CCTTGGAGCTGAGCGTAGTCGAACTCGAAA-GTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
66 CCTTGGAGCTGAGCGTAGTCGAACTC-AAAGGTC-TTTGCTAACAGATAACCCTTCTAGCCTTGA
* * *
842947 GTTATGCTGTAAACGATGTGCCGTTGAA-CTGAGCG
129 GTTATGCTGTAAATGATGTGCCCTTGAAGCTGAGTG
* * * * * * * * *
842982 TAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGA
1 TAATCGAACTCAAGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGA
* * * ** * *
843047 TATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACT
62 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT-GCTAACAGATAACCCTTCTAGCCT
* * * *
843112 TAAGTTATGCTGCAAATGATGTTCCCTCGAAGCTGAGTG
126 TGAGTTATGCTGTAAATGATGTGCCCTTGAAGCTGAGTG
** *
843151 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTG
1 TAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
843216 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGT
66 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGT
* * *
843281 TATGTTGTAAATGTTATGCCCTTGAAGCTGAGTG
131 TATGCTGTAAATGATGTGCCCTTGAAGCTGAGTG
*
843315 TAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
1 TAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
*
843380 CCTAGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGT
66 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGT
* *
843445 TATGCTGTAAATGTTATGCCCTTGAAGCTGAGTG
131 TATGCTGTAAATGATGTGCCCTTGAAGCTGAGTG
*
843479 TAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
1 TAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
*
843544 CCTAGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGT
66 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGT
843609 TATGCTGTAAATG
131 TATGCTGTAAATG
843622 TTTGTTTAAA
Statistics
Matches: 849, Mismatches: 107, Indels: 34
0.86 0.11 0.03
Matches are distributed among these distances:
164 388 0.46
165 185 0.22
166 7 0.01
167 12 0.01
168 216 0.25
169 41 0.05
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (164 bp):
TAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGT
TATGCTGTAAATGATGTGCCCTTGAAGCTGAGTG
Found at i:846691 original size:18 final size:19
Alignment explanation
Indices: 846650--846694 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
846640 AGTTAATGTG
846650 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
846669 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
846687 AATGCAAA
1 AATGCAAA
846695 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:847341 original size:17 final size:17
Alignment explanation
Indices: 847315--847347 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
847305 TGCAAACGAT
*
847315 GAACACAAAATAAAAGA
1 GAACAAAAAATAAAAGA
847332 GAACAAAAAATAAAAG
1 GAACAAAAAATAAAAG
847348 GGTTAGTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
GAACAAAAAATAAAAGA
Found at i:848397 original size:4 final size:4
Alignment explanation
Indices: 848390--848480 Score: 53
Period size: 4 Copynumber: 22.8 Consensus size: 4
848380 TTAGTAAAAA
* * * *
848390 AAAT AAAT AAAT AAAA ACAAT -AAT -AAT AAAT AAAT ATAT ATAT ATAT
1 AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * *
848437 ATAT ATAT AAAT AAA- AAGT CAAAG AAAG AGAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT A-AAT AAAT AAAT AAA
848481 GATTAAAGAG
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
3 8 0.11
4 59 0.80
5 7 0.09
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:849978 original size:15 final size:16
Alignment explanation
Indices: 849960--850019 Score: 63
Period size: 15 Copynumber: 3.8 Consensus size: 16
849950 AAAATATTAC
849960 AATATAATA-AATGAT
1 AATATAATATAATGAT
*
849975 AATATAA-ATAATAAT
1 AATATAATATAATGAT
849990 AATAATAATATAATAGTAT
1 AAT-ATAATATAAT-G-AT
850009 AATAT-ATATAA
1 AATATAATATAA
850020 ATATTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 1 0.03
15 15 0.39
16 4 0.11
17 11 0.29
18 2 0.05
19 5 0.13
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AATATAATATAATGAT
Found at i:849982 original size:38 final size:35
Alignment explanation
Indices: 849940--850022 Score: 89
Period size: 34 Copynumber: 2.3 Consensus size: 35
849930 ATAAGAAACA
849940 ATAAATAAATAA-AATATTACAATATAATAAATGATAAT
1 ATAAATAAATAATAATA--ACAATATAAT-AAT-ATAAT
* *
849978 ATAAAT-AATAATAATAATAATATAATAGTATAAT
1 ATAAATAAATAATAATAACAATATAATAATATAAT
*
850012 ATATATAAATA
1 ATAAATAAATA
850023 TTTTAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
34 10 0.25
35 6 0.15
36 9 0.22
37 5 0.12
38 10 0.25
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (35 bp):
ATAAATAAATAATAATAACAATATAATAATATAAT
Found at i:849987 original size:9 final size:9
Alignment explanation
Indices: 849973--850040 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
849963 ATAATAAATG
849973 ATAATATAA
1 ATAATATAA
849982 ATAATA-ATA
1 ATAATATA-A
*
849991 ATAATA-AT
1 ATAATATAA
849999 ATAATAGTATA
1 ATAATA-TA-A
850010 ATATATATAA
1 ATA-ATATAA
* *
850020 ATATTTTAA
1 ATAATATAA
*
850029 AAAATATAA
1 ATAATATAA
850038 ATA
1 ATA
850041 TAATTTCCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
8 7 0.15
9 26 0.57
10 5 0.11
11 5 0.11
12 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (9 bp):
ATAATATAA
Found at i:850186 original size:37 final size:38
Alignment explanation
Indices: 850064--850358 Score: 186
Period size: 37 Copynumber: 7.8 Consensus size: 38
850054 TGCTTTAAAA
** *
850064 AAAAATTATATATTATATATATTTTCAAAATGGTTTTT
1 AAAAATTATATATTATATATATTTTCAAAAACGTTTTC
* *
850102 AAAAATTATATATTATATAAATGTTTTC-ATAACG-TTTC
1 AAAAATTATATATTATAT--ATATTTTCAAAAACGTTTTC
*
850140 -AAAAGTATATATTATATATATTTT-AAAAACGTTTTC
1 AAAAATTATATATTATATATATTTTCAAAAACGTTTTC
**
850176 AAAAATTATATATTATATA-ATTTTCAAAAAATATATTTTC
1 AAAAATTATATATTATATATATTTTC--AAAA-ACGTTTTC
* * * * *
850216 AAAATGGTTTTAAAATTA-AT-TA-TAT-ATAAACGTTTTC
1 AAAA--ATTAT-ATATTATATATATTTTCAAAAACGTTTTC
* **
850253 AAAAACTATATATTATATA-ATTTTCAAAAATATTTT-
1 AAAAATTATATATTATATATATTTTCAAAAACGTTTTC
* * * * *
850289 AAAAACTATATAATACACATATTTTCAAAAAATGTTTT-
1 AAAAATTATATATTATATATATTTTC-AAAAACGTTTTC
* *
850327 AAACGA-TATAT-TATATATGTATTTTCAAAAAC
1 AAA-AATTATATAT-TATATATATTTTCAAAAAC
850359 AATTTGCAAA
Statistics
Matches: 200, Mismatches: 36, Indels: 43
0.72 0.13 0.15
Matches are distributed among these distances:
34 5 0.03
35 16 0.08
36 27 0.14
37 62 0.31
38 52 0.26
39 8 0.04
40 17 0.09
41 2 0.01
42 6 0.03
43 5 0.03
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (38 bp):
AAAAATTATATATTATATATATTTTCAAAAACGTTTTC
Found at i:850203 original size:25 final size:25
Alignment explanation
Indices: 850171--850283 Score: 92
Period size: 25 Copynumber: 4.4 Consensus size: 25
850161 TTTAAAAACG
850171 TTTTCAAAAATTATATATTATATAA
1 TTTTCAAAAATTATATATTATATAA
* *
850196 TTTTCAAAAA--ATATATTTTCAAAA
1 TTTTCAAAAATTATATATTAT-ATAA
*
850220 TGGTTT-TAAAATTA-AT-TATATATAAA
1 T--TTTCAAAAATTATATAT-TATAT-AA
*
850246 CGTTTTCAAAAACTATATATTATATAA
1 --TTTTCAAAAATTATATATTATATAA
850273 TTTTCAAAAAT
1 TTTTCAAAAAT
850284 ATTTTAAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
23 8 0.12
24 4 0.06
25 26 0.38
26 12 0.18
27 9 0.13
28 8 0.12
29 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (25 bp):
TTTTCAAAAATTATATATTATATAA
Found at i:850213 original size:15 final size:16
Alignment explanation
Indices: 850190--850219 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
850180 ATTATATATT
850190 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
850206 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
850220 TGGTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:850240 original size:52 final size:49
Alignment explanation
Indices: 850155--850263 Score: 114
Period size: 52 Copynumber: 2.1 Consensus size: 49
850145 TATATATTAT
850155 ATATATTTTAAAAACGTTTTCAAAAATTATATATTATATAA-TTTTCAAAAA
1 ATATATTTTAAAAACGTTTT-AAAAATTATATA-TATA-AACTTTTCAAAAA
**
850206 ATATATTTTCAAAATGGTTTT-AAAATTAATTATATATAAACGTTTTCAAAAA
1 ATATATTTT-AAAAACGTTTTAAAAATT-A-TATATATAAAC-TTTTCAAAAA
*
850258 CTATAT
1 ATATAT
850264 ATTATATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
50 8 0.16
51 14 0.28
52 28 0.56
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (49 bp):
ATATATTTTAAAAACGTTTTAAAAATTATATATATAAACTTTTCAAAAA
Found at i:850337 original size:38 final size:38
Alignment explanation
Indices: 850248--850329 Score: 105
Period size: 36 Copynumber: 2.2 Consensus size: 38
850238 TATATAAACG
* * *
850248 TTTTCAAAAACTATATATTATATA-ATTTTC-AAAAATA
1 TTTT-AAAAACTATATAATACACATATTTTCAAAAAATA
*
850285 TTTTAAAAACTATATAATACACATATTTTCAAAAAATG
1 TTTTAAAAACTATATAATACACATATTTTCAAAAAATA
850323 TTTTAAA
1 TTTTAAA
850330 CGATATATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
36 16 0.41
37 10 0.26
38 13 0.33
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.41
Consensus pattern (38 bp):
TTTTAAAAACTATATAATACACATATTTTCAAAAAATA
Found at i:850991 original size:3 final size:3
Alignment explanation
Indices: 850985--851050 Score: 123
Period size: 3 Copynumber: 21.7 Consensus size: 3
850975 AAAGATTTAC
850985 ATT ATT ATT 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 ATT ATT ATT
851033 ATTT ATT ATT ATT ATT AT
1 A-TT ATT ATT ATT ATT AT
851051 ATCCCAGGTA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 59 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:851328 original size:15 final size:15
Alignment explanation
Indices: 851308--851342 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
851298 ACAAAATATT
851308 AAGATTAAGACAATA
1 AAGATTAAGACAATA
* *
851323 AAGATTAAGATAATG
1 AAGATTAAGACAATA
851338 AAGAT
1 AAGAT
851343 AAACGAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.03, G:0.17, T:0.23
Consensus pattern (15 bp):
AAGATTAAGACAATA
Found at i:851863 original size:51 final size:52
Alignment explanation
Indices: 851765--851863 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 52
851755 ACTACTGAAT
* * *
851765 AAAATAATAATAATAAACTAAATATAATATTTTGATTATATCCTAATTTTTG
1 AAAATAATAATAATAAACTAAAGATAATATTTTAACTATATCCTAATTTTTG
* * *
851817 AAAA-AATAATAATAAACTAAAGATAATGTTTTAACTCTATCTTAATT
1 AAAATAATAATAATAAACTAAAGATAATATTTTAACTATATCCTAATT
851864 CCTAATAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
51 37 0.90
52 4 0.10
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.39
Consensus pattern (52 bp):
AAAATAATAATAATAAACTAAAGATAATATTTTAACTATATCCTAATTTTTG
Found at i:851874 original size:51 final size:51
Alignment explanation
Indices: 851765--851879 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 51
851755 ACTACTGAAT
* * * **
851765 AAAATAATAATAATAAACTAAATATAATATTTTGATTATATCCTAATTTTTG
1 AAAA-AATAATAATAAACTAAAGATAATATTTTAACTATATCCTAATTCCTG
* * *
851817 AAAAAATAATAATAAACTAAAGATAATGTTTTAACTCTATCTTAATTCCT-
1 AAAAAATAATAATAAACTAAAGATAATATTTTAACTATATCCTAATTCCTG
851867 AATAAAATAATAA
1 AA-AAAATAATAA
851880 ATATAATCCT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
50 2 0.04
51 48 0.89
52 4 0.07
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.37
Consensus pattern (51 bp):
AAAAAATAATAATAAACTAAAGATAATATTTTAACTATATCCTAATTCCTG
Found at i:853858 original size:15 final size:15
Alignment explanation
Indices: 853840--853904 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
853830 TTTATTAGTT
853840 TGTGAAAATGTTCTA
1 TGTGAAAATGTTCTA
* *
853855 TGTGAATATG-TGTA
1 TGTGAAAATGTTCTA
* *
853869 CGTGAAAATGTTTTA
1 TGTGAAAATGTTCTA
*
853884 TGT-AAATGTGTTCTA
1 TGTGAAA-ATGTTCTA
853899 TGTGAA
1 TGTGAA
853905 TAAATGATAC
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
14 14 0.36
15 23 0.59
16 2 0.05
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.42
Consensus pattern (15 bp):
TGTGAAAATGTTCTA
Found at i:853873 original size:29 final size:27
Alignment explanation
Indices: 853841--853894 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
853831 TTATTAGTTT
853841 GTGAAAATGTTCTATGTGAATATGTGTAC
1 GTGAAAATGTTCTATGT-AA-ATGTGTAC
*
853870 GTGAAAATGTTTTATGTAAATGTGT
1 GTGAAAATGTTCTATGTAAATGTGT
853895 TCTATGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 6 0.25
28 2 0.08
29 16 0.67
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.41
Consensus pattern (27 bp):
GTGAAAATGTTCTATGTAAATGTGTAC
Found at i:854065 original size:23 final size:23
Alignment explanation
Indices: 854008--854081 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
853998 GAGTCGAGGG
* * *
854008 TTCTACGCGGTCCTTTGGGAGAA
1 TTCTAAGCGGTCCTTCGGGACAA
* *
854031 TTCTATGTGGTCCTTCGGGACAA
1 TTCTAAGCGGTCCTTCGGGACAA
* *
854054 TTCTAAGCGGTCATTCAGGACAA
1 TTCTAAGCGGTCCTTCGGGACAA
*
854077 ATCTA
1 TTCTA
854082 CGTGGCACTT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (23 bp):
TTCTAAGCGGTCCTTCGGGACAA
Found at i:854110 original size:24 final size:24
Alignment explanation
Indices: 854074--854129 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
854064 TCATTCAGGA
854074 CAAA-TCTACGTGGCACTTCGATG
1 CAAATTCTACGTGGCACTTCGATG
* *
854097 CATATTCTACGTGGCACTTCGGTG
1 CAAATTCTACGTGGCACTTCGATG
854121 CAAATTCTA
1 CAAATTCTA
854130 TGCGGCAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (24 bp):
CAAATTCTACGTGGCACTTCGATG
Found at i:854136 original size:24 final size:24
Alignment explanation
Indices: 854074--854136 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
854064 TCATTCAGGA
*
854074 CAAA-TCTACGTGGCACTTCGATG
1 CAAATTCTACGCGGCACTTCGATG
* * *
854097 CATATTCTACGTGGCACTTCGGTG
1 CAAATTCTACGCGGCACTTCGATG
*
854121 CAAATTCTATGCGGCA
1 CAAATTCTACGCGGCA
854137 GTTTCGACTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 3 0.09
24 31 0.91
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (24 bp):
CAAATTCTACGCGGCACTTCGATG
Found at i:856489 original size:2 final size:2
Alignment explanation
Indices: 856482--856524 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
856472 CTTTTTAAAA
856482 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
856524 A
1 A
856525 CACCCTCATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:859095 original size:32 final size:32
Alignment explanation
Indices: 859057--859130 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 32
859047 CCCGGTCAAA
* * *
859057 GTCAAAGGTC-GTTCAACACTCGGTCAATGCCG
1 GTCAAAGGTCTGGTCAACAAT-GGTCAACGCCG
* *
859089 GTCAAAGTTCTGGTCAACAATGGTCAACGTCG
1 GTCAAAGGTCTGGTCAACAATGGTCAACGCCG
*
859121 GTCAACGGTC
1 GTCAAAGGTC
859131 AACAGTCGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
32 26 0.76
33 8 0.24
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (32 bp):
GTCAAAGGTCTGGTCAACAATGGTCAACGCCG
Found at i:859229 original size:22 final size:23
Alignment explanation
Indices: 859197--859242 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
859187 CCACCTTCTA
*
859197 CAAATATTTACAAAACTAACACC
1 CAAATATTTACAAAAATAACACC
*
859220 CAAAT-TTTACAAAAATATCACC
1 CAAATATTTACAAAAATAACACC
859242 C
1 C
859243 TAACATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (23 bp):
CAAATATTTACAAAAATAACACC
Found at i:860494 original size:18 final size:18
Alignment explanation
Indices: 860448--860511 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
860438 TTTTATTTCA
*
860448 ATTTTATATTATATTAATTT
1 ATTTT-TATTAT-TTATTTT
**
860468 ATTACTATTATTTATTTT
1 ATTTTTATTATTTATTTT
* *
860486 ATTTTTATTATTAATTATA
1 ATTTTTATTATTTATT-TT
860505 ATTTTTA
1 ATTTTTA
860512 AAATATATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 19 0.53
19 14 0.39
20 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTTATTATTTATTTT
Found at i:860497 original size:21 final size:21
Alignment explanation
Indices: 860437--860503 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
860427 CTTATCTCAA
**
860437 ATTTTATTTCAATT-TTATATT
1 ATTTTATTTTTATTATTAT-TT
* *
860458 ATATTAATTTATTACTATTATTT
1 AT-TTTATTT-TTATTATTATTT
*
860481 ATTTTATTTTTATTATTAATT
1 ATTTTATTTTTATTATTATTT
860502 AT
1 AT
860504 AATTTTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
21 14 0.39
22 12 0.33
23 6 0.17
24 4 0.11
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTTATTTTTATTATTATTT
Found at i:860778 original size:179 final size:179
Alignment explanation
Indices: 860478--860836 Score: 673
Period size: 179 Copynumber: 2.0 Consensus size: 179
860468 ATTACTATTA
*
860478 TTTATTTTATTTTTATTATTAATTATAATTTTTAAAATATATTTATTTCTTAGATTCTAGGTTCA
1 TTTATTTTATTTTTATTATTAATTATAATTTTTAAAATATATTTATTACTTAGATTCTAGGTTCA
860543 TTATTATTTACATTGTAATTAAATATGTGTATATATGTTTAAAGGGTTAGTTTTTAATTATTATT
66 TTATTATTTACATTGTAATTAAATATGTGTATATATGTTTAAAGGGTTAGTTTTTAATTATTATT
**
860608 TAATACATTTGTTTTTGGTTATTAATTGTAATTAAATTATATTAAAGTG
131 TAATACATTTGTTTTAAGTTATTAATTGTAATTAAATTATATTAAAGTG
*
860657 TTTATTTTGTTTTTATTATTAATTATAATTTTTAAAATATATTTATTACTTAGATTCTAGGTTCA
1 TTTATTTTATTTTTATTATTAATTATAATTTTTAAAATATATTTATTACTTAGATTCTAGGTTCA
860722 TTATTATTTACATTGTAATTAAATATGTGTATATATGTTTAAAGGGTTAGTTTTTAATTATTATT
66 TTATTATTTACATTGTAATTAAATATGTGTATATATGTTTAAAGGGTTAGTTTTTAATTATTATT
*
860787 TAGTACATTTGTTTTAAGTTATTAATTGTAATTAAATTATATTAAAGTG
131 TAATACATTTGTTTTAAGTTATTAATTGTAATTAAATTATATTAAAGTG
860836 T
1 T
860837 AAAGTATATG
Statistics
Matches: 175, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
179 175 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (179 bp):
TTTATTTTATTTTTATTATTAATTATAATTTTTAAAATATATTTATTACTTAGATTCTAGGTTCA
TTATTATTTACATTGTAATTAAATATGTGTATATATGTTTAAAGGGTTAGTTTTTAATTATTATT
TAATACATTTGTTTTAAGTTATTAATTGTAATTAAATTATATTAAAGTG
Found at i:867774 original size:15 final size:15
Alignment explanation
Indices: 867740--867772 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
867730 TTTAATGTTG
867740 ATTTAGTCCTTCTTT
1 ATTTAGTCCTTCTTT
*
867755 ATTTA-TCCTTTTTT
1 ATTTAGTCCTTCTTT
867769 ATTT
1 ATTT
867773 TAATTATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.15, C:0.15, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTAGTCCTTCTTT
Found at i:867916 original size:28 final size:29
Alignment explanation
Indices: 867876--867930 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
867866 AGACTTTAAT
* *
867876 TTTCCATTGTTTT-TTTTTTACTTTCTCC
1 TTTCCATTCTTTTAATTTTTACTTTCTCC
* *
867904 TTTCCTTTCTTTTAATTTTTATTTTCT
1 TTTCCATTCTTTTAATTTTTACTTTCT
867931 TTACTCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.50
29 11 0.50
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (29 bp):
TTTCCATTCTTTTAATTTTTACTTTCTCC
Found at i:868051 original size:19 final size:19
Alignment explanation
Indices: 868027--868065 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
868017 CAATTTTGTT
868027 TTATTCATTTACTTATTTA
1 TTATTCATTTACTTATTTA
868046 TTATTCATTTACTTATTTA
1 TTATTCATTTACTTATTTA
868065 T
1 T
868066 GTTTCTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTCATTTACTTATTTA
Found at i:871651 original size:17 final size:18
Alignment explanation
Indices: 871629--871669 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
871619 TCTCTGACAT
*
871629 TATTTTTC-AACAAAAGA
1 TATTTTTCAAACAAAACA
*
871646 TATTTTTCAAACAAGACA
1 TATTTTTCAAACAAAACA
871664 TATTTT
1 TATTTT
871670 CTCACGAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (18 bp):
TATTTTTCAAACAAAACA
Found at i:873530 original size:59 final size:58
Alignment explanation
Indices: 873426--873573 Score: 217
Period size: 59 Copynumber: 2.5 Consensus size: 58
873416 TTATTTTATT
* **
873426 ATTATTTTATTTA-AGAATTAGTTATTTTATTACAACTCTTATTAGGGGTTTTATTTTG
1 ATTATTTTATTTAGA-AATTAGTTATTTTATTACAACTCTTATTAGGAGTTTTAGCTTG
*
873484 ATTATTTTATTTAGAAATTAGTTAATTTTATTATAACTCTTATTAGGAGTTTTAGCTTG
1 ATTATTTTATTTAGAAATTAGTT-ATTTTATTACAACTCTTATTAGGAGTTTTAGCTTG
* *
873543 ATTATTTTATTTAGGAATTAATTATTTTATT
1 ATTATTTTATTTAGAAATTAGTTATTTTATT
873574 TGCTTAAAAC
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
58 29 0.35
59 53 0.65
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (58 bp):
ATTATTTTATTTAGAAATTAGTTATTTTATTACAACTCTTATTAGGAGTTTTAGCTTG
Found at i:875409 original size:13 final size:13
Alignment explanation
Indices: 875391--875415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
875381 TACATACACA
875391 ATATGAAGACTGC
1 ATATGAAGACTGC
875404 ATATGAAGACTG
1 ATATGAAGACTG
875416 TTCAACTATG
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:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATATGAAGACTGC
Found at i:876218 original size:20 final size:19
Alignment explanation
Indices: 876195--876245 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
876185 GGCCCTTAAA
876195 TATCGATACCAATCCTTGA-G
1 TATCGATACCAA-CC-TGAGG
*
876215 TATCGATACTAACCTGAGG
1 TATCGATACCAACCTGAGG
*
876234 TACCGATACCAA
1 TATCGATACCAA
876246 AATAGGCTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 3 0.11
19 13 0.48
20 11 0.41
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (19 bp):
TATCGATACCAACCTGAGG
Found at i:881477 original size:17 final size:18
Alignment explanation
Indices: 881455--881495 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
881445 TCTCTGACAT
*
881455 TATTTTTC-AACAAAAGA
1 TATTTTTCAAACAAAACA
*
881472 TATTTTTCAAACAAGACA
1 TATTTTTCAAACAAAACA
881490 TATTTT
1 TATTTT
881496 CTCACGAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (18 bp):
TATTTTTCAAACAAAACA
Found at i:883356 original size:59 final size:58
Alignment explanation
Indices: 883246--883390 Score: 193
Period size: 59 Copynumber: 2.5 Consensus size: 58
883236 TTATTTTATT
* *
883246 ATTATTTTATTTA-AGAATTAGTTATTTTATTACAACTATTATTAGGGGTTTTAGTTTG
1 ATTATTTTATTTAGA-AATTAGTTATTTTATTACAACTATTATTAGGAGTTTTAGCTTG
* * * *
883304 ATTATTTTAATTAGAAATTAGTTAATTTTATTATAATTCTTATTAGGAGTTTTAGCTTG
1 ATTATTTTATTTAGAAATTAGTT-ATTTTATTACAACTATTATTAGGAGTTTTAGCTTG
* *
883363 ATTATTTTATTTAGGAATTAATTATTTT
1 ATTATTTTATTTAGAAATTAGTTATTTT
883391 GTTTGCTTAA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
58 25 0.33
59 51 0.67
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.54
Consensus pattern (58 bp):
ATTATTTTATTTAGAAATTAGTTATTTTATTACAACTATTATTAGGAGTTTTAGCTTG
Found at i:884978 original size:24 final size:24
Alignment explanation
Indices: 884948--885019 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
884938 GTAAACAGAG
*
884948 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* *
884972 ATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATTC
* *
884996 AGATCAG-AATTAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
885019 A
1 A
885020 GGTAACGTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 14 0.34
24 27 0.66
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATTC
Found at i:884979 original size:12 final size:12
Alignment explanation
Indices: 884952--885020 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
884942 ACAGAGATAT
* *
884952 CAGAAATCAAAA
1 CAGAATTCAGAA
* *
884964 CAGAATTCATAT
1 CAGAATTCAGAA
884976 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
884988 CAGAATCCAGAT
1 CAGAATTCAGAA
885000 CAGAATT-AGAA
1 CAGAATTCAGAA
885011 CAGAATTCAG
1 CAGAATTCAG
885021 GTAACGTATC
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
11 12 0.27
12 31 0.69
13 2 0.04
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.19
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:887229 original size:7 final size:7
Alignment explanation
Indices: 887217--887256 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
887207 TGGTCAACGC
887217 CGGTCAA
1 CGGTCAA
887224 CGGTCAA
1 CGGTCAA
887231 CGGGTCAA
1 C-GGTCAA
887239 CGGTCAA
1 CGGTCAA
*
887246 TGGGTCAA
1 -CGGTCAA
887254 CGG
1 CGG
887257 GTCGAGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 16 0.55
8 13 0.45
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (7 bp):
CGGTCAA
Found at i:887238 original size:8 final size:8
Alignment explanation
Indices: 887208--887259 Score: 63
Period size: 8 Copynumber: 6.5 Consensus size: 8
887198 GGTCAAAAGT
887208 GGTCAACG
1 GGTCAACG
887216 CCGGTCAAC-
1 --GGTCAACG
887225 GGTCAACG
1 GGTCAACG
887233 GGTCAAC-
1 GGTCAACG
*
887240 GGTCAATG
1 GGTCAACG
887248 GGTCAACG
1 GGTCAACG
887256 GGTC
1 GGTC
887260 GAGTAAACGG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
7 13 0.34
8 18 0.47
10 7 0.18
ACGTcount: A:0.23, C:0.27, G:0.35, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:887238 original size:15 final size:15
Alignment explanation
Indices: 887208--887256 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
887198 GGTCAAAAGT
887208 GGTCAACGCCGGTCAAC
1 GGTCAACG--GGTCAAC
887225 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
*
887240 GGTCAATGGGTCAAC
1 GGTCAACGGGTCAAC
887255 GG
1 GG
887257 GTCGAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 23 0.74
17 8 0.26
ACGTcount: A:0.24, C:0.27, G:0.35, T:0.14
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:889386 original size:24 final size:23
Alignment explanation
Indices: 889358--889445 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 23
889348 AGATATCATA
*
889358 AATCAAAACAGAATTCATATCAG
1 AATCAGAACAGAATTCATATCAG
* *
889381 ATATCAGAACAGAATCCAGATCAG
1 A-ATCAGAACAGAATTCATATCAG
*
889405 AATCAGAACAGAATTCAGGTAAC-G
1 AATCAGAACAGAATTCA--TATCAG
*
889429 TATCAGAACAGAATTCA
1 AATCAGAACAGAATTCA
889446 ATTCGGAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
23 16 0.29
24 37 0.67
25 2 0.04
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.19
Consensus pattern (23 bp):
AATCAGAACAGAATTCATATCAG
Found at i:889393 original size:12 final size:11
Alignment explanation
Indices: 889358--889442 Score: 64
Period size: 12 Copynumber: 7.3 Consensus size: 11
889348 AGATATCATA
*
889358 AATCAAAACAG
1 AATCAGAACAG
* *
889369 AATTCATATCAG
1 AA-TCAGAACAG
889381 ATATCAGAACAG
1 A-ATCAGAACAG
*
889393 AATCCAGATCAG
1 AAT-CAGAACAG
889405 AATCAGAACAG
1 AATCAGAACAG
889416 AATTCAGGTAAC-G
1 AA-TCA-G-AACAG
*
889429 TATCAGAACAG
1 AATCAGAACAG
889440 AAT
1 AAT
889443 TCAATTCGGA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
10 3 0.05
11 17 0.29
12 32 0.54
13 4 0.07
14 3 0.05
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.19
Consensus pattern (11 bp):
AATCAGAACAG
Found at i:891592 original size:13 final size:13
Alignment explanation
Indices: 891574--891615 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
891564 ACGGTCAATA
891574 GTCAACGGGTCGG
1 GTCAACGGGTCGG
891587 GTCAACGGGTCGG
1 GTCAACGGGTCGG
*
891600 GTTAACGGGTCGG
1 GTCAACGGGTCGG
891613 GTC
1 GTC
891616 GGGTCGGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.14, C:0.21, G:0.45, T:0.19
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:891611 original size:26 final size:23
Alignment explanation
Indices: 891577--891626 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 23
891567 GTCAATAGTC
891577 AACGGGTCGGGTCAACGGGTCGGGTT
1 AACGGGTCGGGT---CGGGTCGGGTT
891603 AACGGGTCGGGTCGGGTCGGGTT
1 AACGGGTCGGGTCGGGTCGGGTT
891626 A
1 A
891627 TGACCGGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 12 0.50
26 12 0.50
ACGTcount: A:0.14, C:0.18, G:0.48, T:0.20
Consensus pattern (23 bp):
AACGGGTCGGGTCGGGTCGGGTT
Found at i:893417 original size:13 final size:13
Alignment explanation
Indices: 893399--893423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
893389 TACATGCACA
893399 ATATGAAGACTGC
1 ATATGAAGACTGC
893412 ATATGAAGACTG
1 ATATGAAGACTG
893424 TTCAACTATG
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:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATATGAAGACTGC
Found at i:897498 original size:2 final size:2
Alignment explanation
Indices: 897491--897543 Score: 97
Period size: 2 Copynumber: 26.0 Consensus size: 2
897481 TAAGATAAAG
897491 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
897533 AT AT AT CAT AT
1 AT AT AT -AT AT
897544 TCATTTCACA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 48 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:899041 original size:21 final size:21
Alignment explanation
Indices: 899017--899075 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
899007 ATTCTCCAAT
*
899017 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
*
899038 AAACATGAAATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
*
899059 CAACTTGAAATCCATAA
1 AAACTTGAAATCCATAA
899076 TTAAATCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.51, C:0.25, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:905777 original size:30 final size:29
Alignment explanation
Indices: 905674--905822 Score: 185
Period size: 29 Copynumber: 5.1 Consensus size: 29
905664 CATTTTACAG
* * ** *
905674 AAATAACACCCTTTTTAAAACAATTACCA
1 AAATAGCACCCTTTTCAAATTAATTCCCA
905703 AAATAGCACCCTTTTCAAATTAATTCCCA
1 AAATAGCACCCTTTTCAAATTAATTCCCA
*
905732 AAATAGCA--CTTTTCGAATTAAATTCCCA
1 AAATAGCACCCTTTTCAAATT-AATTCCCA
* *
905760 AAATAGCACCTTTTTCGAATTAAATTCCCA
1 AAATAGCACCCTTTTCAAATT-AATTCCCA
*
905790 AAATAGCACCCATTTCAAATTAATTCCCA
1 AAATAGCACCCTTTTCAAATTAATTCCCA
905819 AAAT
1 AAAT
905823 GTCACCCGGT
Statistics
Matches: 107, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
27 10 0.09
28 16 0.15
29 44 0.41
30 37 0.35
ACGTcount: A:0.42, C:0.24, G:0.04, T:0.30
Consensus pattern (29 bp):
AAATAGCACCCTTTTCAAATTAATTCCCA
Found at i:912944 original size:29 final size:29
Alignment explanation
Indices: 912893--913070 Score: 211
Period size: 29 Copynumber: 6.1 Consensus size: 29
912883 CATTTTACAG
* * *
912893 AAATAGCACCTTTTTAAAAT-AATTACCA
1 AAATAGCACCTTTTTGAATTAAATTCCCA
*
912921 AAATAGCACCCTTTTCGAATT-AATTCCCA
1 AAATAGCA-CCTTTTTGAATTAAATTCCCA
* *
912950 AAATAGCACCTTTTCGAATTAAACTCCCA
1 AAATAGCACCTTTTTGAATTAAATTCCCA
912979 AAATAGCA-CTTTTTGAATTAAATTCCCA
1 AAATAGCACCTTTTTGAATTAAATTCCCA
* *
913007 AAATAGTACCCTTTTTTGAATTAAAATCCCA
1 AAATAGCA-CC-TTTTTGAATTAAATTCCCA
*
913038 AAATAGCACCCATTTTGAATT-AATTCCCA
1 AAATAGCA-CCTTTTTGAATTAAATTCCCA
913067 AAAT
1 AAAT
913071 GTCATCCGAT
Statistics
Matches: 133, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
28 45 0.34
29 50 0.38
30 10 0.08
31 28 0.21
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (29 bp):
AAATAGCACCTTTTTGAATTAAATTCCCA
Found at i:915889 original size:21 final size:21
Alignment explanation
Indices: 915853--915911 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
915843 GTCCGAGTTA
* *
915853 CCCGCAACGGCCGCAATAGCG
1 CCCGCGACGACCGCAATAGCG
* *
915874 TCTGCGACGACCGCAATAGCG
1 CCCGCGACGACCGCAATAGCG
*
915895 CCCGCGACGGCCGCAAT
1 CCCGCGACGACCGCAAT
915912 CACGGTAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.41, G:0.29, T:0.08
Consensus pattern (21 bp):
CCCGCGACGACCGCAATAGCG
Found at i:917837 original size:81 final size:80
Alignment explanation
Indices: 917616--917912 Score: 285
Period size: 81 Copynumber: 3.6 Consensus size: 80
917606 ATATCGGTTT
* * ** * * * * *
917616 TTTTAACAGAAACGCCACTATATATCAAGCTATTGTGGCGTTTTTAACATAAACGCCGCTAAAG-
1 TTTTCACAAAAACGCCACTATATATCTGGCTATAG-CG-GTTTTTTACATAAAAGCCACTAAAGT
* *
917680 -TGCACTTACTTTAGTGGCG
64 ATGC-CTT--TTTAGCGGCA
* * * * *
917699 TTTACAC-AAAACACCACTATATATCTTGCTATAGCGACATTTTTTACATAAATGCCACTAAAGT
1 TTTTCACAAAAACGCCACTATATATCTGGCTATAGCG--GTTTTTTACATAAAAGCCACTAAAGT
917763 ATGCCTTTTTAGCGGCA
64 ATGCCTTTTTAGCGGCA
*** *
917780 TTTATGTTAAAAACGCCACTATATATCTGGCTATAGTGGTTTTTTACATAAAAGCCACTAAAGTA
1 TTT-TCACAAAAACGCCACTATATATCTGGCTATAGCGGTTTTTTACATAAAAGCCACTAAAGTA
* **
917845 TGCGTTTTTAGCGGTG
65 TGCCTTTTTAGCGGCA
917861 TTTTCACAAAAACGCCACTATATATCTGGCTATAGCGGCTTTTTTACATAAA
1 TTTTCACAAAAACGCCACTATATATCTGGCTATAGCGG-TTTTTTACATAAA
917913 TGCCGCTATA
Statistics
Matches: 178, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
80 31 0.17
81 66 0.37
82 44 0.25
83 34 0.19
84 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (80 bp):
TTTTCACAAAAACGCCACTATATATCTGGCTATAGCGGTTTTTTACATAAAAGCCACTAAAGTAT
GCCTTTTTAGCGGCA
Found at i:917922 original size:40 final size:40
Alignment explanation
Indices: 917707--917925 Score: 146
Period size: 40 Copynumber: 5.4 Consensus size: 40
917697 CGTTTACACA
* * *
917707 AAACACCACTATATATCTTGCTATAGCGACATTTTTTACAT
1 AAACGCCACTATATATCTGGCTATAGCGGC-TTTTTTACAT
* * * *
917748 AAATGCCACTAAAGTATGCCT--TTTTAGCGGCATTTATGTTA-A-
1 AAACGCCACTATA-TAT--CTGGCTATAGCGGC-TTT-T-TTACAT
*
917790 AAACGCCACTATATATCTGGCTATAGTGG-TTTTTTACAT
1 AAACGCCACTATATATCTGGCTATAGCGGCTTTTTTACAT
* * ** * * *
917829 AAAAGCCACTAAAGTATGC-GTTTTTAGCGG-TGTTTTCACAA
1 AAACGCCACTATA-TAT-CTGGCTATAGCGGCT-TTTTTACAT
917870 AAACGCCACTATATATCTGGCTATAGCGGCTTTTTTACAT
1 AAACGCCACTATATATCTGGCTATAGCGGCTTTTTTACAT
* *
917910 AAATGCCGCTATATAT
1 AAACGCCACTATATAT
917926 TAGGATATCG
Statistics
Matches: 136, Mismatches: 28, Indels: 29
0.70 0.15 0.15
Matches are distributed among these distances:
37 3 0.02
38 2 0.01
39 17 0.12
40 43 0.32
41 39 0.29
42 25 0.18
43 2 0.01
44 5 0.04
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (40 bp):
AAACGCCACTATATATCTGGCTATAGCGGCTTTTTTACAT
Found at i:917956 original size:80 final size:80
Alignment explanation
Indices: 917695--917943 Score: 214
Period size: 81 Copynumber: 3.1 Consensus size: 80
917685 TTACTTTAGT
* * * * *
917695 GGCGTTTACAC-AAAACACCACTATATATCTTGCTATAGCGACATTTTTTACATAAATGCCACTA
1 GGCGTTTTCACAAAAACGCCACTATATATCTGGCTATAGCG--GTTTTTTACATAAAAGCCACTA
**** *
917759 AAGTATGCCTTTTTAGC
64 AAGTATGAGGATATAGC
* *** *
917776 GGCATTTATGTTAAAAACGCCACTATATATCTGGCTATAGTGGTTTTTTACATAAAAGCCACTAA
1 GGCGTTT-TCACAAAAACGCCACTATATATCTGGCTATAGCGGTTTTTTACATAAAAGCCACTAA
* ** *
917841 AGTATGCGTTTTTAGC
65 AGTATGAGGATATAGC
* * * *
917857 GGTGTTTTCACAAAAACGCCACTATATATCTGGCTATAGCGGCTTTTTTACATAAATGCCGCTAT
1 GGCGTTTTCACAAAAACGCCACTATATATCTGGCTATAGCGG-TTTTTTACATAAAAGCCACTAA
* * *
917922 A-TATTAGGATATCGT
65 AGTATGAGGATATAGC
917937 GGCGTTT
1 GGCGTTT
917944 GTCTAGAAAC
Statistics
Matches: 137, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
80 44 0.32
81 67 0.49
83 26 0.19
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (80 bp):
GGCGTTTTCACAAAAACGCCACTATATATCTGGCTATAGCGGTTTTTTACATAAAAGCCACTAAA
GTATGAGGATATAGC
Found at i:925132 original size:22 final size:21
Alignment explanation
Indices: 925064--925151 Score: 70
Period size: 22 Copynumber: 4.1 Consensus size: 21
925054 TTCGATGATC
* *
925064 AAAGTACTTAATC-TTTCAATT
1 AAAGTACTTAACCTTTTC-ATG
* * *
925085 AAAGGACTTATCCTTTTGATG
1 AAAGTACTTAACCTTTTCATG
*
925106 AAAAGTGCTTAACCTTTTTCATG
1 -AAAGTACTTAACC-TTTTCATG
* *
925129 AAAGTATTTAATCTTTTCATG
1 AAAGTACTTAACCTTTTCATG
925150 AA
1 AA
925152 GAGAATTGTT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
21 22 0.42
22 23 0.44
23 7 0.13
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (21 bp):
AAAGTACTTAACCTTTTCATG
Found at i:928376 original size:22 final size:22
Alignment explanation
Indices: 928351--928410 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
928341 CCTTTCAATG
*
928351 AAAGTACTTAATCTTTTAATTA
1 AAAGTACTTAATCTTTTAATAA
*
928373 AAAG-ACTT-ATCCTTTTGATAA
1 AAAGTACTTAAT-CTTTTAATAA
* *
928394 AAAGTGCTTAACCTTTT
1 AAAGTACTTAATCTTTT
928411 TCATGAAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.52
22 12 0.39
23 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (22 bp):
AAAGTACTTAATCTTTTAATAA
Found at i:929030 original size:30 final size:30
Alignment explanation
Indices: 928994--929075 Score: 110
Period size: 31 Copynumber: 2.7 Consensus size: 30
928984 CCCAACAGTT
928994 ATGTTGGGGACCATATTGCAAACGGACTAA
1 ATGTTGGGGACCATATTGCAAACGGACTAA
**
929024 ATGTTGGGGGACCATATTATAAACGGACTAA
1 ATGTT-GGGGACCATATTGCAAACGGACTAA
* **
929055 ATGTAGGGGACTGTATTGCAA
1 ATGTTGGGGACCATATTGCAA
929076 GTTTTAAAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 17 0.39
31 27 0.61
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (30 bp):
ATGTTGGGGACCATATTGCAAACGGACTAA
Found at i:930124 original size:31 final size:31
Alignment explanation
Indices: 930087--930154 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
930077 CAGTTGCGTT
930087 GGGGACCATATTGCAAAC-AGACTAAATGTTG
1 GGGGACCATATTGCAAACGA-ACTAAATGTTG
930118 GGGGACCATATTGCAAACGAACTAAATGTTG
1 GGGGACCATATTGCAAACGAACTAAATGTTG
930149 GGGGAC
1 GGGGAC
930155 TGTATTACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (31 bp):
GGGGACCATATTGCAAACGAACTAAATGTTG
Found at i:932587 original size:3 final size:3
Alignment explanation
Indices: 932579--932603 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
932569 CAAGCTCATT
932579 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
932604 AACCCAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:932837 original size:14 final size:14
Alignment explanation
Indices: 932818--932856 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
932808 TAATGGGGTG
932818 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
932832 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
932846 GAATCTCTGCA
1 TAATCCCTGCA
932857 TATATACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:935028 original size:18 final size:19
Alignment explanation
Indices: 934993--935029 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
934983 CACGGAATGT
934993 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
935013 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
935030 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:940847 original size:75 final size:76
Alignment explanation
Indices: 940724--940881 Score: 291
Period size: 75 Copynumber: 2.1 Consensus size: 76
940714 TTAGACAACT
*
940724 AATAAGCTATCATACTAAAATAATAAAATTGAATTTAAATGGTTTGCTAAG-TATCAAACTTAGT
1 AATAAGCTACCATACTAAAATAATAAAATTGAATTTAAATGGTTTGCTAAGATATCAAACTTAGT
940788 TTATGTATACG
66 TTATGTATACG
940799 AATAAGCTACCATACTAAAATAATAAAATTGAATTTAAATGGTTTGCTAAGTATATCAAACTTAG
1 AATAAGCTACCATACTAAAATAATAAAATTGAATTTAAATGGTTTGCTAAG-ATATCAAACTTAG
940864 TTTATGTATACG
65 TTTATGTATACG
940876 AATAAG
1 AATAAG
940882 TGTTATCATG
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
75 50 0.62
77 30 0.38
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (76 bp):
AATAAGCTACCATACTAAAATAATAAAATTGAATTTAAATGGTTTGCTAAGATATCAAACTTAGT
TTATGTATACG
Found at i:940945 original size:25 final size:25
Alignment explanation
Indices: 940915--941005 Score: 166
Period size: 25 Copynumber: 3.7 Consensus size: 25
940905 TTTTTTGATT
940915 CATTGTTTAAATTCGTTAATATATG
1 CATTGTTTAAATTCGTTAATATATG
*
940940 CATTGTTTAAATTCGTTAATAAATG
1 CATTGTTTAAATTCGTTAATATATG
940965 CATTGTTTAAATTCGTTAATATATG
1 CATTGTTTAAATTCGTTAATATATG
940990 CATTGTTTAAA-TCGTT
1 CATTGTTTAAATTCGTT
941006 TCGAGGTTTG
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 5 0.08
25 59 0.92
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (25 bp):
CATTGTTTAAATTCGTTAATATATG
Found at i:943995 original size:15 final size:15
Alignment explanation
Indices: 943964--944004 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
943954 TTTCTAAAAA
943964 AATAATAAGATAATGAT
1 AATAATAA-A-AATGAT
*
943981 AGTAATAAAAATGAT
1 AATAATAAAAATGAT
943996 AATAATAAA
1 AATAATAAA
944005 TAAATATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 1 0.05
17 7 0.32
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (15 bp):
AATAATAAAAATGAT
Found at i:945374 original size:13 final size:13
Alignment explanation
Indices: 945356--945395 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
945346 AGCAAAATGT
945356 ATAATATAATTAA
1 ATAATATAATTAA
*
945369 ATAATATAAGGTAA
1 ATAATATAA-TTAA
*
945383 ATAATTTAATTAA
1 ATAATATAATTAA
945396 CTATTTACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (13 bp):
ATAATATAATTAA
Found at i:945775 original size:15 final size:15
Alignment explanation
Indices: 945755--945784 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
945745 ATCTAATTTT
*
945755 TAAAATTTAAAATAA
1 TAAAATTAAAAATAA
945770 TAAAATTAAAAATAA
1 TAAAATTAAAAATAA
945785 CTCTTAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAATTAAAAATAA
Found at i:947980 original size:26 final size:26
Alignment explanation
Indices: 947942--948005 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
947932 CGTTGTTGCT
947942 TTCAAGCACTGACTGGATAACAATAA
1 TTCAAGCACTGACTGGATAACAATAA
* * *
947968 TTCAAGCATTGACTGGATGACAATAT
1 TTCAAGCACTGACTGGATAACAATAA
947994 TTCAAGCACTGA
1 TTCAAGCACTGA
948006 TTCTACAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (26 bp):
TTCAAGCACTGACTGGATAACAATAA
Found at i:951690 original size:24 final size:24
Alignment explanation
Indices: 951663--951708 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
951653 TAAAAATACA
951663 TTTTT-AAATAGAAAATATATTAC
1 TTTTTGAAATAGAAAATATATTAC
* * *
951686 TTTTTGAGATATAATATATATTA
1 TTTTTGAAATAGAAAATATATTA
951709 TAAGTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (24 bp):
TTTTTGAAATAGAAAATATATTAC
Found at i:962294 original size:22 final size:22
Alignment explanation
Indices: 962266--962323 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
962256 GGTTCATAAT
962266 GAGAAGAACTCATCCGATGAGG
1 GAGAAGAACTCATCCGATGAGG
962288 GAGAAGAACTCATCCGATGAGG
1 GAGAAGAACTCATCCGATGAGG
*
962310 GAGAATAAGCTCAT
1 GAGAAGAA-CTCAT
962324 AATGAGAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 29 0.85
23 5 0.15
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.16
Consensus pattern (22 bp):
GAGAAGAACTCATCCGATGAGG
Found at i:962670 original size:117 final size:117
Alignment explanation
Indices: 962542--963076 Score: 618
Period size: 117 Copynumber: 4.6 Consensus size: 117
962532 AAATCATCTA
* * *
962542 ACGAGGGAGAAGAAGTTCATAATGAGAATAACTTGTTCAACCTTGACTCGATTCCATCAAAGAAG
1 ACGAGGTAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCGATTCCATCAAAGAAG
** *
962607 GATATGGATCAAATTTTCTATTGGAAAGATCATAATAAAAAGAACTCATCCG
66 GAGGTGGATCAAATTTTCTATTGGAAAGTTCATAATAAAAAGAACTCATCCG
962659 ACGAGGTAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCGATTCCATCAAAGAAG
1 ACGAGGTAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCGATTCCATCAAAGAAG
* * * * *
962724 GAGGTGGATCAATTTTTCTATTAGAGAGTTCATAATGAAAAGAACTCATTCG
66 GAGGTGGATCAAATTTTCTATTGGAAAGTTCATAATAAAAAGAACTCATCCG
* * * *
962776 ACGAGGTAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAACTTGGTTTGATTCCATCACAGAAG
1 ACGAGGTAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCGATTCCATCAAAGAAG
* ** * * *
962841 GAGGTGGATCAACA-TTTC-AGTT-GAAGGGTTTGTAATAATAAGAACTCGTCTG
66 GAGGTGGATCAA-ATTTTCTA-TTGGAA-AGTTCATAATAAAAAGAACTCATCCG
* * * *
962893 ATGAGGGT-GAATAAGTTCATAATGAGAAGAACTTG-TCAATCTTTGCTCGATTCCATCACAA-A
1 ACGA-GGTAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCGATTCCATCA-AAGA
* * * * * *
962955 AGGAGGTGGATC-AATATTTCCAGTGGATAGTTCATAATGAGAAGAACTAATCCG
64 AGGAGGTGGATCAAAT-TTTCTATTGGAAAGTTCATAATAAAAAGAACTCATCCG
** * * * *
963009 AAAAAGG-AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTGGTTCGATTCCATCACATAA
1 -ACGAGGTAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCGATTCCATCAAAGAA
963073 GGAG
65 GGAG
963077 TTAGAACAAC
Statistics
Matches: 355, Mismatches: 50, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
114 1 0.00
115 1 0.00
116 87 0.25
117 263 0.74
118 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (117 bp):
ACGAGGTAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCGATTCCATCAAAGAAG
GAGGTGGATCAAATTTTCTATTGGAAAGTTCATAATAAAAAGAACTCATCCG
Found at i:962811 original size:234 final size:233
Alignment explanation
Indices: 962541--963076 Score: 670
Period size: 233 Copynumber: 2.3 Consensus size: 233
962531 AAAATCATCT
* **
962541 AACGAGGGAGAAGAAGTTCATAATGAGAATAACTTGTTCAACCTTGACTCGATTCCATCAAAGAA
1 AACGA-GGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCAAAGAA
*
962606 GGATATGGATCAA-ATTTTCTA-TTGGAA-AGATCATAATAAAAAGAACTCATCCGACGA-GGTA
65 GGAGATGGATCAACA-TTTC-AGTT-GAAGAGATCATAATAAAAAGAACTCATCCGACGAGGGT-
962667 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCGATTCCATCA-AAGAAGGAGGTGG
126 GAAGAAGTTCATAATGAGAAGAACTTG-TCAACCTTGGCTCGATTCCATCACAA-AAGGAGGTGG
* * * * *
962731 ATCAATTTTTCTATTAGAGAGTTCATAATGAAAAGAACTCATTCG
189 ATCAATATTTCCAGTAGAGAGTTCATAATGAAAAGAACTAATCCG
* * *
962776 -ACGAGGTAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAACTTGGTTTGATTCCATCACAGAA
1 AACGAGG-AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCAAAGAA
* * * ** * * * * *
962840 GGAGGTGGATCAACATTTCAGTTGAAGGGTTTGTAATAATAAGAACTCGTCTGATGAGGGTGAAT
65 GGAGATGGATCAACATTTCAGTTGAAGAGATCATAATAAAAAGAACTCATCCGACGAGGGTGAAG
* *
962905 AAGTTCATAATGAGAAGAACTTGTCAATCTTTGCTCGATTCCATCACAAAAGGAGGTGGATCAAT
130 AAGTTCATAATGAGAAGAACTTGTCAACCTTGGCTCGATTCCATCACAAAAGGAGGTGGATCAAT
* * *
962970 ATTTCCAGTGGATAGTTCATAATGAGAAGAACTAATCCG
195 ATTTCCAGTAGAGAGTTCATAATGAAAAGAACTAATCCG
** * * *
963009 AAAAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTGGTTCGATTCCATCACATAAG
1 AACGAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCAAAGAAG
963074 GAG
66 GAG
963077 TTAGAACAAC
Statistics
Matches: 261, Mismatches: 33, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
233 131 0.50
234 126 0.48
235 4 0.02
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (233 bp):
AACGAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCAAAGAAG
GAGATGGATCAACATTTCAGTTGAAGAGATCATAATAAAAAGAACTCATCCGACGAGGGTGAAGA
AGTTCATAATGAGAAGAACTTGTCAACCTTGGCTCGATTCCATCACAAAAGGAGGTGGATCAATA
TTTCCAGTAGAGAGTTCATAATGAAAAGAACTAATCCG
Done.