Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 345 of 352
Found at i:110420418 original size:3 final size:3
Alignment explanation
Indices: 110420410--110420434 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
110420400 TTTCTGCATT
110420410 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
110420435 ATAGTAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:110423369 original size:43 final size:43
Alignment explanation
Indices: 110423323--110423638 Score: 587
Period size: 43 Copynumber: 7.3 Consensus size: 43
110423313 GTTTATTAAA
* *
110423323 AAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAA
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
110423366 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
110423409 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
110423452 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
110423495 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
110423538 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
* * *
110423581 AAAAAGCACCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
110423624 AAAAAGCGCCGCTAA
1 AAAAAGCGCCGCTAA
110423639 TTTTGGCAGA
Statistics
Matches: 267, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 267 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
Found at i:110423727 original size:31 final size:30
Alignment explanation
Indices: 110423692--110423757 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
110423682 CTTCCTGCAT
110423692 TAAAATCCAACC-AAATACAACAAATATAGCA
1 TAAAATCCAACCAAAATAC--CAAATATAGCA
* * *
110423723 TAAAATGCAGCCAAAATACCAAATTTAGCA
1 TAAAATCCAACCAAAATACCAAATATAGCA
110423753 TAAAA
1 TAAAA
110423758 AAATACGACC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 15 0.48
31 10 0.32
32 6 0.19
ACGTcount: A:0.56, C:0.20, G:0.06, T:0.18
Consensus pattern (30 bp):
TAAAATCCAACCAAAATACCAAATATAGCA
Found at i:110424019 original size:21 final size:21
Alignment explanation
Indices: 110423989--110424053 Score: 98
Period size: 21 Copynumber: 3.1 Consensus size: 21
110423979 CTTTTTCCTA
110423989 TGCT-CTGCCTCCCTCGCTGC
1 TGCTGCTGCCTCCCTCGCTGC
110424009 TG-TCGCTGCCTCCCTCGCTGC
1 TGCT-GCTGCCTCCCTCGCTGC
*
110424030 TGCTGCTGCCTCCCTCTCTGC
1 TGCTGCTGCCTCCCTCGCTGC
110424051 TGC
1 TGC
110424054 CTCCGCTCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
19 1 0.02
20 2 0.05
21 37 0.90
22 1 0.02
ACGTcount: A:0.00, C:0.48, G:0.22, T:0.31
Consensus pattern (21 bp):
TGCTGCTGCCTCCCTCGCTGC
Found at i:110424050 original size:15 final size:16
Alignment explanation
Indices: 110424032--110424062 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
110424022 CTCGCTGCTG
110424032 CTGCTGCCTCC-CTCT
1 CTGCTGCCTCCGCTCT
110424047 CTGCTGCCTCCGCTCT
1 CTGCTGCCTCCGCTCT
110424063 AAGTTGTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.00, C:0.52, G:0.16, T:0.32
Consensus pattern (16 bp):
CTGCTGCCTCCGCTCT
Found at i:110424491 original size:13 final size:14
Alignment explanation
Indices: 110424466--110424494 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
110424456 TGATGAATTG
110424466 AATTAAACAATTAT
1 AATTAAACAATTAT
110424480 AATTAAAC-ATTAT
1 AATTAAACAATTAT
110424493 AA
1 AA
110424495 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:110424698 original size:16 final size:17
Alignment explanation
Indices: 110424661--110424699 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
110424651 AAAATATTAT
*
110424661 TTAATATTAGAAAGTTA
1 TTAATATTAGAAAGTAA
*
110424678 TTAATATTTGAAAG-AA
1 TTAATATTAGAAAGTAA
110424694 TTAATA
1 TTAATA
110424700 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATATTAGAAAGTAA
Found at i:110429714 original size:9 final size:9
Alignment explanation
Indices: 110429700--110429871 Score: 71
Period size: 9 Copynumber: 18.6 Consensus size: 9
110429690 TATTTAAGTA
110429700 TTATGTAAG
1 TTATGTAAG
110429709 TTATGTAAG
1 TTATGTAAG
*
110429718 TTATGATATG
1 TTATG-TAAG
* * *
110429728 ATATAT-AT
1 TTATGTAAG
*
110429736 TTATGTAAA
1 TTATGTAAG
* *
110429745 TTATAT-AT
1 TTATGTAAG
*
110429753 TTATCTAAG
1 TTATGTAAG
*
110429762 TTATATAAG
1 TTATGTAAG
*
110429771 TTATGTAAA
1 TTATGTAAG
*
110429780 TTATGATATAAAA
1 TTATG---T-AAG
*
110429793 TATATTTAAG
1 T-TATGTAAG
110429803 TATTATGTAAG
1 --TTATGTAAG
* *
110429814 TTATAT-AT
1 TTATGTAAG
*
110429822 TTATCTAAG
1 TTATGTAAG
*
110429831 TTATATAAG
1 TTATGTAAG
*
110429840 TTATGTACG
1 TTATGTAAG
*
110429849 TTTTGTAAG
1 TTATGTAAG
* *
110429858 TTATATAAA
1 TTATGTAAG
110429867 TTATG
1 TTATG
110429872 ATATCAAATA
Statistics
Matches: 121, Mismatches: 31, Indels: 22
0.70 0.18 0.13
Matches are distributed among these distances:
8 16 0.13
9 80 0.66
10 8 0.07
11 8 0.07
12 2 0.02
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:110429751 original size:17 final size:17
Alignment explanation
Indices: 110429729--110429788 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
110429719 TATGATATGA
110429729 TATATATTTATGTAAAT
1 TATATATTTATGTAAAT
* *
110429746 TATATATTTATCTAAGT
1 TATATATTTATGTAAAT
*
110429763 TATATAAGTTATGTAAAT
1 TATAT-ATTTATGTAAAT
110429781 TATGATAT
1 TAT-ATAT
110429789 AAAATATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
17 20 0.57
18 13 0.37
19 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (17 bp):
TATATATTTATGTAAAT
Found at i:110429771 original size:62 final size:67
Alignment explanation
Indices: 110429700--110429846 Score: 205
Period size: 69 Copynumber: 2.2 Consensus size: 67
110429690 TATTTAAGTA
* * *
110429700 TTATGTAAGTTATGTAAGTTATGATAT-GATATA-T-A-T-TTATGTAAATTATATATTTATCTA
1 TTATATAAGTTATGTAAATTATGATATAAATATATTAAGTATTATGTAAATTATATATTTATCTA
110429760 AG
66 AG
*
110429762 TTATATAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATATATTTATC
1 TTATATAAGTTATGTAAATTATGATAT-AAATATA-TTAAGTATTATGTAAATTATATATTTATC
110429827 TAAG
64 TAAG
110429831 TTATATAAGTTATGTA
1 TTATATAAGTTATGTA
110429847 CGTTTTGTAA
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
62 25 0.34
64 5 0.07
66 1 0.01
67 1 0.01
68 1 0.01
69 41 0.55
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (67 bp):
TTATATAAGTTATGTAAATTATGATATAAATATATTAAGTATTATGTAAATTATATATTTATCTA
AG
Found at i:110429830 original size:17 final size:17
Alignment explanation
Indices: 110429805--110429837 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
110429795 TATTTAAGTA
*
110429805 TTATGTAAGTTATATAT
1 TTATCTAAGTTATATAT
110429822 TTATCTAAGTTATATA
1 TTATCTAAGTTATATA
110429838 AGTTATGTAC
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:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
TTATCTAAGTTATATAT
Found at i:110429867 original size:87 final size:86
Alignment explanation
Indices: 110429729--110429902 Score: 249
Period size: 87 Copynumber: 2.0 Consensus size: 86
110429719 TATGATATGA
* * *
110429729 TATATATTTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAATTATGATATAAAAT
1 TATATATTTATCTAAATTATATAGTTATCTAAGTTATATAAGTTATATAAATTATGATATAAAAT
110429794 ATATTTAAGTATTATGTAAGT
66 ATATTTAAGTATTATGTAAGT
* * * * * *
110429815 TATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTATATAAATTATGATATCAAA
1 TATATATTTATCTAAATTATAT-AGTTATCTAAGTTATATAAGTTATATAAATTATGATATAAAA
*
110429880 TATATTTATGTATTATGTAAGT
65 TATATTTAAGTATTATGTAAGT
110429902 T
1 T
110429903 TTTTATTTCA
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 20 0.26
87 57 0.74
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.48
Consensus pattern (86 bp):
TATATATTTATCTAAATTATATAGTTATCTAAGTTATATAAGTTATATAAATTATGATATAAAAT
ATATTTAAGTATTATGTAAGT
Found at i:110429996 original size:15 final size:15
Alignment explanation
Indices: 110429976--110430031 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
110429966 AAGTAGCGGG
110429976 ATTAAATAATATTTA
1 ATTAAATAATATTTA
110429991 ATTAAATAATATTT-
1 ATTAAATAATATTTA
110430005 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
110430020 ATTAAGTAATAT
1 ATTAAATAATAT
110430032 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:110431011 original size:358 final size:359
Alignment explanation
Indices: 110430357--110431039 Score: 1287
Period size: 358 Copynumber: 1.9 Consensus size: 359
110430347 TTGAATCTTT
*
110430357 AAAATATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAAT
1 AAAATATTTAAATATTAAAATCAAACATTATTAATACAAAAAAATAGTAATTTGAATATAATAAT
110430422 ATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGA
66 ATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGA
110430487 GCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTAC
131 GCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTAC
110430552 ACCTAGGGAGGATCCATTATATCTTGCAGCTCGAAATAAGGCAACCCGTCAGGTTTCCAGCCTAT
196 ACCTAGGGAGGATCCATTATATCTTGCAGCTCGAAATAAGGCAACCCGTCAGGTTTCCAGCCTAT
*
110430617 ATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTT
261 ATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGACAGCCATTGTTGTAATTTT
110430682 GATAAAAATTAGTTATAACTTTTAAAGACATTTA
326 GATAAAAATTAGTTATAACTTTTAAAGACATTTA
* * *
110430716 AAAATA-TTAAATATTAAAATCAAACATTATTAATGCAAAAAATTAGTAATTTGAATATAATACT
1 AAAATATTTAAATATTAAAATCAAACATTATTAATACAAAAAAATAGTAATTTGAATATAATAAT
110430780 ATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGA
66 ATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGA
110430845 GCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTAC
131 GCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTAC
* *
110430910 ACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCTAGCCTAT
196 ACCTAGGGAGGATCCATTATATCTTGCAGCTCGAAATAAGGCAACCCGTCAGGTTTCCAGCCTAT
*
110430975 ATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGACATCCATTGTTGTAATTTT
261 ATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGACAGCCATTGTTGTAATTTT
110431040 AATGGACAAG
Statistics
Matches: 316, Mismatches: 8, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
358 310 0.98
359 6 0.02
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (359 bp):
AAAATATTTAAATATTAAAATCAAACATTATTAATACAAAAAAATAGTAATTTGAATATAATAAT
ATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGA
GCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTAC
ACCTAGGGAGGATCCATTATATCTTGCAGCTCGAAATAAGGCAACCCGTCAGGTTTCCAGCCTAT
ATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGACAGCCATTGTTGTAATTTT
GATAAAAATTAGTTATAACTTTTAAAGACATTTA
Found at i:110431283 original size:15 final size:15
Alignment explanation
Indices: 110431263--110431291 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
110431253 AGAATTTTGA
110431263 AATAAAACGTACCTT
1 AATAAAACGTACCTT
110431278 AATAAAACGTACCT
1 AATAAAACGTACCT
110431292 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:110434324 original size:16 final size:17
Alignment explanation
Indices: 110434305--110434340 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
110434295 ATTATTTAAT
110434305 ATATAAA-TAAAAAACA
1 ATATAAATTAAAAAACA
110434321 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
110434338 ATA
1 ATA
110434341 AGTTATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:110434497 original size:16 final size:16
Alignment explanation
Indices: 110434453--110434501 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
110434443 TACATAAAAT
*
110434453 TTAAAATCTTGAAAATTA
1 TTAAAAT-TTG-AAATCA
*
110434471 TTGACAATTTGAAATCA
1 TT-AAAATTTGAAATCA
110434488 TTAAAATTTGAAAT
1 TTAAAATTTGAAAT
110434502 TATTTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 11 0.41
17 7 0.26
18 5 0.19
19 4 0.15
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (16 bp):
TTAAAATTTGAAATCA
Found at i:110434657 original size:8 final size:8
Alignment explanation
Indices: 110434616--110434670 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
110434606 CACTAATTAT
110434616 CCTAAA-C
1 CCTAAACC
*
110434623 CCTTAACC
1 CCTAAACC
*
110434631 CCTATATCC
1 CCTA-AACC
* *
110434640 CATTAACC
1 CCTAAACC
110434648 CCTAAACC
1 CCTAAACC
110434656 CCTAAA-C
1 CCTAAACC
110434663 CCTAAACC
1 CCTAAACC
110434671 ATTAACCCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
7 12 0.32
8 20 0.54
9 5 0.14
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.20
Consensus pattern (8 bp):
CCTAAACC
Found at i:110434667 original size:15 final size:15
Alignment explanation
Indices: 110434616--110434678 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
110434606 CACTAATTAT
110434616 CCTAAACCCTTAACC
1 CCTAAACCCTTAACC
*
110434631 CCTATATCCCATTAACC
1 CCTA-AACCC-TTAACC
* *
110434648 CCTAAACCCCTAAAC
1 CCTAAACCCTTAACC
*
110434663 CCTAAACCATTAACC
1 CCTAAACCCTTAACC
110434678 C
1 C
110434679 TTAATCCCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
15 21 0.54
16 8 0.21
17 10 0.26
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (15 bp):
CCTAAACCCTTAACC
Found at i:110434751 original size:73 final size:72
Alignment explanation
Indices: 110434646--110434813 Score: 194
Period size: 73 Copynumber: 2.3 Consensus size: 72
110434636 ATCCCATTAA
* * *
110434646 CCCCTAAACCCCTAAACCCTAAACCATTAACCCTTAATCCCTAAAATTTAAACACTAAACCTTAA
1 CCCCTAAACCCCTAAACCCTAAACCATAAACCCTTAATCCATAAAATTTAAACACTAAACCCTAA
*
110434711 ACAATGT
66 ACAATAT
* * * * *
110434718 CCCCTTAACTCCC-AAACCCATAAACCCTAAACCCTTAATCCATAGACTTTGAACACTAAACCCT
1 CCCCTAAAC-CCCTAAACCC-TAAACCATAAACCCTTAATCCATAAAATTTAAACACTAAACCCT
*
110434782 AAACTATAT
64 AAACAATAT
* *
110434791 CCCCTCAACCCCTTAACTCCTAA
1 CCCCTAAACCCCTAAAC-CCTAA
110434814 CCTTTGACCC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
72 17 0.21
73 61 0.76
74 2 0.03
ACGTcount: A:0.38, C:0.37, G:0.02, T:0.23
Consensus pattern (72 bp):
CCCCTAAACCCCTAAACCCTAAACCATAAACCCTTAATCCATAAAATTTAAACACTAAACCCTAA
ACAATAT
Found at i:110435039 original size:7 final size:7
Alignment explanation
Indices: 110435027--110435080 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
110435017 ATTAACTTGT
*
110435027 CATAATC
1 CATAAAC
*
110435034 CATAATC
1 CATAAAC
110435041 CATAAAC
1 CATAAAC
110435048 CATAAAC
1 CATAAAC
110435055 CATAAAC
1 CATAAAC
110435062 CATATATAC
1 CATA-A-AC
*
110435071 CCTAAAC
1 CATAAAC
110435078 CAT
1 CAT
110435081 GCATAAACCT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
7 35 0.83
8 2 0.05
9 5 0.12
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (7 bp):
CATAAAC
Found at i:110435329 original size:14 final size:14
Alignment explanation
Indices: 110435307--110435352 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
110435297 GTGTCCTTCA
*
110435307 TTTAGGGTTTATAG
1 TTTAAGGTTTATAG
*
110435321 TTTAAGGTTTCA-AA
1 TTTAAGGTTT-ATAG
110435335 TTTAAGGTTTATAG
1 TTTAAGGTTTATAG
110435349 TTTA
1 TTTA
110435353 TGGGTTTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (14 bp):
TTTAAGGTTTATAG
Found at i:110435839 original size:42 final size:42
Alignment explanation
Indices: 110435780--110435900 Score: 194
Period size: 42 Copynumber: 2.9 Consensus size: 42
110435770 GATCTTTAGT
110435780 GGCGTTTTTCCAAAAAGCGCCGCTGAAACTCATATCTATTGC
1 GGCGTTTTTCCAAAAAGCGCCGCTGAAACTCATATCTATTGC
110435822 GGCGTTTTTCCAAAAAGCGCCGCTGAAACTCATATCTATTGC
1 GGCGTTTTTCCAAAAAGCGCCGCTGAAACTCATATCTATTGC
* *
110435864 GGTG-TTTTCTAAAAAGCGCCGCT-AATACTCA-ATCTAT
1 GGCGTTTTTCCAAAAAGCGCCGCTGAA-ACTCATATCTAT
110435901 AGTGGTGTTT
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
40 8 0.11
41 23 0.30
42 45 0.59
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
GGCGTTTTTCCAAAAAGCGCCGCTGAAACTCATATCTATTGC
Found at i:110435910 original size:40 final size:42
Alignment explanation
Indices: 110435771--110435912 Score: 182
Period size: 42 Copynumber: 3.4 Consensus size: 42
110435761 AATAGTTTAG
* *
110435771 ATCTTTAGTGGCGTTTTTCCAAAAAGCGCCGCTGAAACTCAT
1 ATCTATAGCGGCGTTTTTCCAAAAAGCGCCGCTGAAACTCAT
*
110435813 ATCTATTGCGGCGTTTTTCCAAAAAGCGCCGCTGAAACTCAT
1 ATCTATAGCGGCGTTTTTCCAAAAAGCGCCGCTGAAACTCAT
* * *
110435855 ATCTATTGCGGTG-TTTTCTAAAAAGCGCCGCT-AATACTCA-
1 ATCTATAGCGGCGTTTTTCCAAAAAGCGCCGCTGAA-ACTCAT
* *
110435895 ATCTATAGTGGTGTTTTT
1 ATCTATAGCGGCGTTTTT
110435913 GCGCAAGCGC
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
40 13 0.14
41 27 0.30
42 51 0.56
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTTCCAAAAAGCGCCGCTGAAACTCAT
Found at i:110436073 original size:152 final size:151
Alignment explanation
Indices: 110435869--110436232 Score: 444
Period size: 152 Copynumber: 2.4 Consensus size: 151
110435859 ATTGCGGTGT
* * * ***
110435869 TTTCTAAAAAGCGCCGCTAATACTCAATCTATAGTGGTGTTTTTGCGCAAGCGCCGCTATTGCCA
1 TTTCTAAAAAACGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAAAAAGCGCCGCTATTGCCA
* * *** *
110435934 GTGAAGCTCAAAATAAACGATGCCGTTCGGTTTAATTTTTTAGCT-GCGTTTCTATAAAAACGCC
66 CTGAAGCTCAAAATAAACGACGCCGTTC-ACCTAATCTTTTAG-TGGCGTTTCTATAAAAACGCC
110435998 GCTATA-CGACCTATAGCGGCAC
129 GCTATATCGACCTATAGCGGCAC
* * *
110436020 TTTCTAAAAAATGCCGCTAATACTCAAACCTATAGCGGCGTTTTTGATAAAGCGCCGCTATTGCC
1 TTTCTAAAAAACGCCGCTAATACTC-AATCTATAGCGGCGTTTTTGAAAAAGCGCCGCTATTGCC
* * * *
110436085 ACTGAAGCTCACAATAAACGACGTCGTTCACCTAATCTTTTAGTGGCGTTTTTATAAAAATGCCG
65 ACTGAAGCTCAAAATAAACGACGCCGTTCACCTAATCTTTTAGTGGCGTTTCTATAAAAACGCCG
110436150 CTATATGTCGACCTATAGCGGCAC
130 CTATA--TCGACCTATAGCGGCAC
* * ** * *
110436174 TTCCTTAAAAACGCCGCTAATTTTCGATCTATAGCGGCGTTTTTGAAAAAACGCCGCTA
1 TTTCTAAAAAACGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAAAAAGCGCCGCTA
110436233 ATACTCAATT
Statistics
Matches: 181, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
150 1 0.01
151 56 0.31
152 58 0.32
153 30 0.17
154 36 0.20
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (151 bp):
TTTCTAAAAAACGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAAAAAGCGCCGCTATTGCCA
CTGAAGCTCAAAATAAACGACGCCGTTCACCTAATCTTTTAGTGGCGTTTCTATAAAAACGCCGC
TATATCGACCTATAGCGGCAC
Found at i:110438102 original size:9 final size:9
Alignment explanation
Indices: 110438088--110438113 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
110438078 GCAGATTCAA
110438088 AAAAAAAAG
1 AAAAAAAAG
110438097 AAAAAAAAG
1 AAAAAAAAG
110438106 AAAAAAAA
1 AAAAAAAA
110438114 AGAAGAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:110438102 original size:10 final size:10
Alignment explanation
Indices: 110438087--110438117 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
110438077 GGCAGATTCA
110438087 AAAAAAAAAG
1 AAAAAAAAAG
110438097 -AAAAAAAAG
1 AAAAAAAAAG
110438106 AAAAAAAAAG
1 AAAAAAAAAG
110438116 AA
1 AA
110438118 GAATACTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:110439964 original size:66 final size:66
Alignment explanation
Indices: 110439883--110440014 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
110439873 ATTCATATAT
*
110439883 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGAC
1 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGAC
110439948 A
66 A
* *
110439949 CATTCATAACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATCATTTGAC
1 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGAC
110440014 A
66 A
110440015 TAAGCATAGA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (66 bp):
CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGAC
A
Found at i:110440320 original size:68 final size:68
Alignment explanation
Indices: 110440210--110441426 Score: 1653
Period size: 68 Copynumber: 17.9 Consensus size: 68
110440200 ATTACAAATT
* *
110440210 TCTTCTTCCCTGAAATAGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTG
1 TCTTCTT-CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
110440275 GATC
65 GATC
*
110440279 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
110440344 ATC
66 ATC
* * *
110440347 TCTTCTTCTTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
110440412 ATC
66 ATC
* * * * *
110440415 GCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAACCACAGCAGATCTCTTTGAAGTTTCAATGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
110440480 ATC
66 ATC
* * *
110440483 TTTTCTTCCTGAAATGGCGTTGGAGCGGCTAGAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
110440548 ATC
66 ATC
* *
110440551 TCTTCTTCCTGAAATTGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
110440616 ATC
66 ATC
* *
110440619 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
110440684 ATC
66 ATC
* *
110440687 TTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
110440752 ATC
66 ATC
* * *
110440755 TCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
110440820 ATC
66 ATC
* * * * * * *
110440823 TCCTTC-CCCTGAAATAGCGTTGGAGTGGCTAAAAGCCATAACAAATCTCCTTGAAGTTTCAGCG
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
110440887 GATC
65 GATC
* * * * * * * * *
110440891 TCCTTC-CCCTGAAGTGGCATTGGAACAGCT-GAAGTCACAGCAGACCTCCTTGAAGTTTCAGCG
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
110440954 GATC
65 GATC
* * * * * *
110440958 TCCTTC-CCCTAAAATGGCGTTGGAGCGGCTAAAAGCCATAACAGATGTCCTTGAAGTTTCAATG
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
110441022 GATC
65 GATC
* * *
110441026 TCCTT-TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCATAACAGATCTCCTTGAAGTTTCAG-G
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
110441089 GATC
65 GATC
* *
110441093 TCTT-TTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCAGAACAGATCTCCTTGAAGTTTCAGTG
1 TCTTCTT-CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
110441157 GATC
65 GATC
* *
110441161 TCCTTC-CCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
110441225 GATC
65 GATC
* * * * *
110441229 TCCTTC-CCCTGAAATGGTGTTGGAGCGGCTAAAAGCCATAACAGATCTCCTTGAAGTTTCAGCG
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
110441293 GATC
65 GATC
* * * * *
110441297 TCCTTC-CCCTGAAATGGTGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTAAAGTTTTAGTA
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
110441361 GATC
65 GATC
* * ** ** * *
110441365 TCTTCTTCCTAAAATGGCGTTGGAACTACTAAAAGTTACAGCAGGTTTCCTTGAAGTTTCAG
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
110441427 CGGAAGAAGA
Statistics
Matches: 1050, Mismatches: 90, Indels: 17
0.91 0.08 0.01
Matches are distributed among these distances:
66 4 0.00
67 120 0.11
68 912 0.87
69 14 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (68 bp):
TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
ATC
Found at i:110441593 original size:44 final size:44
Alignment explanation
Indices: 110441480--110443029 Score: 740
Period size: 44 Copynumber: 34.8 Consensus size: 44
110441470 GGAGCAGACT
* * * *
110441480 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
*
110441525 GAAGACT-TCAG--CATGGCATCCCTGTGCTTATAGGGAACAGATC
1 GAAGA-TAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACAGATC
** * * *
110441568 GAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
** *
110441613 GAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACA-AGTT
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACAGA-TC
* * *
110441656 GAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAGATC
* * ** * * *
110441700 AAAGATAGAAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
** * *
110441745 GAAGATTTCAG--CATGGCATCTCTGTGCTTATAGGGAACTAG-TT
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAAC-AGATC
* * *
110441788 GAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAGATC
** * * *
110441832 GAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
** *
110441877 GAAGATTTCAG--CATGGCATCCCT-TGCTTATAGGGAACA-AGTT
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACAGA-TC
* * *
110441919 GAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAGATC
** * * *
110441963 GAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
** * *
110442008 GAAGATTTCA-A-CATGGAATCCCTGTGCTTATAGGGAACA-AGTT
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACAGA-TC
* * * *
110442051 GAAAACAGCAGATTTGGCATCCTTGTGCTTATAGGGAACAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAGATC
* ** * * *
110442095 AAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
** *
110442140 GAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACTAG-TT
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAAC-AGATC
* * * *
110442183 GAAAACAGCAGAATTTGGCATCCCTGTGCTTATAGGGAATAGATC
1 GAAGATAGCAG-ATCTGGCATCCCTGTGCTTATAGGGAACAGATC
* ** * * * *
110442228 GAAGATAGAAGATCTGATATTCTTGTGCTTACAGTGAAACAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAG-GGAACAGATC
*** * *
110442273 GAAGATTTTAG--CATGGCATCCCTGTGCTTATACGGAACA-AGTT
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACAGA-TC
* * * ** * ** * *
110442316 GAAAACAGCAGAATTTGGCAT-ATTAGCATGGCATCCCTGT-GCTTATACGGAAC
1 GAAGATAGCAG-ATCTGGCATCCCT-G--T-GC-T---TATAG-GGA-ACAGATC
* * * * * * * ** ** *
110442369 -AAG-TTG-AAAACAGCAGAAT--TTG-GCATACCTATGCTTATAGGGAAC
1 GAAGATAGCAGATCTG--GCATCCCTGTGCTTA--TA-G-GGA-ACAGATC
* ** * * *
110442414 AGATCGA-AGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATC
1 -GA-AGATAG----CAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
** * *
110442464 GAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTT
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACAGA-TC
* * *
110442507 GAAAATAGCAGATTTGGCATCCTTGTGCTTATAGGGAACAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAGATC
* ** * * * *
110442551 GAAGATAGTAGATCTGATATTCCTGTGTTTACAGTGAAGCAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
** * * *
110442596 GAAGATTTCAG-TATGGCATCCCTGTGCTTATACGGAACTAG-TT
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAAC-AGATC
* * *
110442639 GAAAACAGCAGAATTTGGCATCCCTGTGCTTATAGGGAACAGATC
1 GAAGATAGCAG-ATCTGGCATCCCTGTGCTTATAGGGAACAGATC
** * * *
110442684 GAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
** *
110442729 GAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACA-AGTT
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACAGA-TC
* * * * *
110442772 GAAAACAGCAAAATTTGGCATACCTGTGCTTATAGGGAACAGATC
1 GAAGATAGC-AGATCTGGCATCCCTGTGCTTATAGGGAACAGATC
** * * * *
110442817 GAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGTAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
** * * * *
110442862 GAAGAT-TTA-AGCATGGCATTCCTGTGCTTATACGGAACA-AGTT
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACAGA-TC
* * *
110442905 GAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAGATC
** * * ***
110442949 GAAGATAGCAGATCTGATATCCTTGTGCTTACAATAAAGCAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
** *
110442994 GAAGATTTC--ATCATGGCATCCCTGTGTTTATAGGGA
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGA
110443030 TCAAAGAGGA
Statistics
Matches: 1100, Mismatches: 306, Indels: 199
0.69 0.19 0.12
Matches are distributed among these distances:
41 2 0.00
42 17 0.02
43 135 0.12
44 615 0.56
45 280 0.25
46 2 0.00
47 2 0.00
48 6 0.01
49 7 0.01
50 8 0.01
51 7 0.01
52 6 0.01
53 8 0.01
54 5 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAGATC
Found at i:110441685 original size:132 final size:132
Alignment explanation
Indices: 110441538--110442336 Score: 1438
Period size: 132 Copynumber: 6.0 Consensus size: 132
110441528 GACTTCAGCA
110441538 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
110441603 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
110441668 TT
131 TT
* *
110441670 TGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGAAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* *
110441735 GAAGCAGATCGAAGATTTCAGCATGGCATCTCTGTGCTTATAGGGAACTAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
110441800 TT
131 TT
110441802 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
110441867 GAAGCAGATCGAAGATTTCAGCATGGCATCCCT-TGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
110441931 TT
131 TT
110441933 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* *
110441998 GAAGCAGATCGAAGATTTCAACATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
110442063 TT
131 TT
* *
110442065 TGGCATCCTTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
*
110442130 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACTAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG-
110442195 ATT
130 ATT
* * *
110442198 TGGCATCCCTGTGCTTATAGGGAATAGATCGAAGATAGAAGATCTGATATTCTTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* * *
110442263 GAAACAGATCGAAGATTTTAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG-
110442328 ATT
130 ATT
110442331 TGGCAT
1 TGGCAT
110442337 ATTAGCATGG
Statistics
Matches: 641, Mismatches: 24, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
131 128 0.20
132 380 0.59
133 133 0.21
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
TT
Found at i:110442347 original size:58 final size:58
Alignment explanation
Indices: 110442280--110442395 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
110442270 ATCGAAGATT
110442280 TTAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATA
1 TTAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATA
110442338 TTAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATA
1 TTAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATA
110442396 CCTATGCTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (58 bp):
TTAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATA
Found at i:110442479 original size:191 final size:190
Alignment explanation
Indices: 110442149--110442526 Score: 639
Period size: 191 Copynumber: 2.0 Consensus size: 190
110442139 CGAAGATTTC
* * * *
110442149 AGCATGGCATCCCTGTGCTTATAGGGAACTAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
1 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATACCTATGCTT
* *
110442214 ATAGGGAATAGATCGAAGATAGAAGATCTGATATTCTTGTGCTTACAGTGAAACAGATCGAAGAT
66 ATAGGGAACAGATCGAAGATAGAAGATCTGATATTCCTGTGCTTACAGTGAAACAGATCGAAGAT
*
110442279 TTTAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATATT
131 TTCAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAG-ATTTGGCATATT
110442340 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATACCTATGCTT
1 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATACCTATGCTT
* *
110442405 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
66 ATAGGGAACAGATCGAAGATAGAAGATCTGATATTCCTGTGCTTACAGTGAAACAGATCGAAGAT
* * *
110442470 TTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCAT
131 TTCAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGATTTGGCAT
110442527 CCTTGTGCTT
Statistics
Matches: 175, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
190 9 0.05
191 166 0.95
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (190 bp):
AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATACCTATGCTT
ATAGGGAACAGATCGAAGATAGAAGATCTGATATTCCTGTGCTTACAGTGAAACAGATCGAAGAT
TTCAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGATTTGGCATATT
Found at i:110442720 original size:133 final size:133
Alignment explanation
Indices: 110442340--110443025 Score: 1162
Period size: 133 Copynumber: 5.2 Consensus size: 133
110442330 TTGGCATATT
* *
110442340 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATACCTATGCTT
1 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
110442405 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
66 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
110442470 TTC
131 TTC
* * * *
110442473 AGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAG-ATTTGGCATCCTTGTGCTT
1 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
* *
110442537 ATAGGGAACAGATCGAAGATAGTAGATCTGATATTCCTGTGTTTACAGTGAAGCAGATCGAAGAT
66 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
110442602 TTC
131 TTC
* *
110442605 AGTATGGCATCCCTGTGCTTATACGGAACTAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
1 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
110442670 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
66 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
110442735 TTC
131 TTC
* * *
110442738 AGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAAAATTTGGCATACCTGTGCTT
1 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
*
110442803 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGTAGATCGAAGAT
66 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
*
110442868 TTA
131 TTC
*
110442871 AGCATGGCATTCCTGTGCTTATACGGAACAAGTTGAAAACAGCAG-ATTTGGCATCCCTGTGCTT
1 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
* *
110442935 ATAGGGAACAGATCGAAGATAGCAGATCTGATA-TCCTTGTGCTTACAATAAAGCAGATCGAAGA
66 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCC-TGTGCTTACAGTGAAGCAGATCGAAGA
110442999 TTTC
130 TTTC
* *
110443003 ATCATGGCATCCCTGTGTTTATA
1 AGCATGGCATCCCTGTGCTTATA
110443026 GGGATCAAAG
Statistics
Matches: 517, Mismatches: 34, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
131 3 0.01
132 220 0.43
133 294 0.57
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (133 bp):
AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
TTC
Found at i:110442789 original size:456 final size:454
Alignment explanation
Indices: 110441886--110442793 Score: 1627
Period size: 456 Copynumber: 2.0 Consensus size: 454
110441876 CGAAGATTTC
* * *
110441886 AGCATGGCATCCCTTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTAT
1 AGCATGGCATCCCTTGCTTATACGGAACAAGTTGAAAACAGCAGATTTGGCATACCTATGCTTAT
110441951 AGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTT
66 AGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTT
110442016 CAACATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCTTGTGCTT
131 CAACATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCTTGTGCTT
110442081 ATAGGGAACAGATCAAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
196 ATAGGGAACAGATCAAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
*
110442146 TTCAGCATGGCATCCCTGTGCTTATAGGGAACTAGTTGAAAACAGCAGAATTTGGCATCCCTGTG
261 TTCAGCATGGCATCCCTGTGCTTATACGGAACTAGTTGAAAACAGCAGAATTTGGCATCCCTGTG
* *
110442211 CTTATAGGGAATAGATCGAAGATAGAAGATCTGATATTCTTGTGCTTACAGTGAAACAGATCGAA
326 CTTATAGGGAACAGATCGAAGATAGAAGATCTGATATTCCTGTGCTTACAGTGAAACAGATCGAA
* *
110442276 GATTTTAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATATT
391 GATTTCAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAAAATTTGGCATATT
110442340 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATACCTATGCTT
1 AGCATGGCATCCCT-TGCTTATACGGAACAAGTTGAAAACAGCAG-ATTTGGCATACCTATGCTT
110442405 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
64 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
* * * *
110442470 TTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCTTGTGC
129 TTCAACATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCTTGTGC
* * *
110442535 TTATAGGGAACAGATCGAAGATAGTAGATCTGATATTCCTGTGTTTACAGTGAAGCAGATCGAAG
194 TTATAGGGAACAGATCAAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAG
*
110442600 ATTTCAGTATGGCATCCCTGTGCTTATACGGAACTAGTTGAAAACAGCAGAATTTGGCATCCCTG
259 ATTTCAGCATGGCATCCCTGTGCTTATACGGAACTAGTTGAAAACAGCAGAATTTGGCATCCCTG
* *
110442665 TGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCG
324 TGCTTATAGGGAACAGATCGAAGATAGAAGATCTGATATTCCTGTGCTTACAGTGAAACAGATCG
*
110442730 AAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAAAATTTGGCATA
389 AAGATTTCAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAAAATTTGGCATA
110442794 CCTGTGCTTA
Statistics
Matches: 433, Mismatches: 19, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
454 14 0.03
455 29 0.07
456 390 0.90
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (454 bp):
AGCATGGCATCCCTTGCTTATACGGAACAAGTTGAAAACAGCAGATTTGGCATACCTATGCTTAT
AGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTT
CAACATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCTTGTGCTT
ATAGGGAACAGATCAAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
TTCAGCATGGCATCCCTGTGCTTATACGGAACTAGTTGAAAACAGCAGAATTTGGCATCCCTGTG
CTTATAGGGAACAGATCGAAGATAGAAGATCTGATATTCCTGTGCTTACAGTGAAACAGATCGAA
GATTTCAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAAAATTTGGCATATT
Found at i:110442922 original size:265 final size:265
Alignment explanation
Indices: 110442340--110443029 Score: 1197
Period size: 265 Copynumber: 2.6 Consensus size: 265
110442330 TTGGCATATT
* *
110442340 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATACCTATGCTT
1 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
110442405 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
66 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
* *
110442470 TTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCTTGTGC
131 TTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAACAGCAAATTTGGCATCCTTGTGC
* *
110442535 TTATAGGGAACAGATCGAAGATAGTAGATCTGATATTCCTGTGTTTACAGTGAAGCAGATCGAAG
196 TTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAG
*
110442600 ATTTC
261 ATTTA
* *
110442605 AGTATGGCATCCCTGTGCTTATACGGAACTAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
1 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
110442670 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
66 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
*
110442735 TTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAAAATTTGGCATACC-TGT
131 TTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAACAGC-AAATTTGGCAT-CCTTGT
*
110442799 GCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGTAGATCGA
194 GCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGA
110442864 AGATTTA
259 AGATTTA
*
110442871 AGCATGGCATTCCTGTGCTTATACGGAACAAGTTGAAAACAGCAG-ATTTGGCATCCCTGTGCTT
1 AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
* *
110442935 ATAGGGAACAGATCGAAGATAGCAGATCTGATA-TCCTTGTGCTTACAATAAAGCAGATCGAAGA
66 ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCC-TGTGCTTACAGTGAAGCAGATCGAAGA
*
110442999 TTTCATCATGGCATCCCTGTGTTTATAGGGA
130 TTTCAGCATGGCATCCCTGTGTTTATAGGGA
110443030 TCAAAGAGGA
Statistics
Matches: 404, Mismatches: 18, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
264 3 0.01
265 276 0.68
266 123 0.30
267 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (265 bp):
AGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGAATTTGGCATCCCTGTGCTT
ATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
TTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAACAGCAAATTTGGCATCCTTGTGC
TTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAG
ATTTA
Found at i:110443077 original size:44 final size:45
Alignment explanation
Indices: 110443028--110443125 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
110443018 TGTTTATAGG
* * * *
110443028 GATCAAAGAGGACAGATTTTGTGTCTCTGTATT-GTCAGAGAGCA
1 GATCAAAGAGAACAGATTTGGCGTCTCTGTATTAGACAGAGAGCA
* * * *
110443072 GATCAAAGATAACAGATTTGGCGTCTTTGTATTAGACGGGGAGCA
1 GATCAAAGAGAACAGATTTGGCGTCTCTGTATTAGACAGAGAGCA
110443117 GATCAAAGA
1 GATCAAAGA
110443126 TAGTAGATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 28 0.62
45 17 0.38
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.27
Consensus pattern (45 bp):
GATCAAAGAGAACAGATTTGGCGTCTCTGTATTAGACAGAGAGCA
Found at i:110448231 original size:26 final size:26
Alignment explanation
Indices: 110448195--110448278 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
110448185 CATGAAATTC
110448195 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
110448221 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
110448247 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
110448273 TTATCA
1 TTATCA
110448279 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:110453362 original size:16 final size:16
Alignment explanation
Indices: 110453341--110453392 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
110453331 CATTTAATTA
110453341 AAAATATTTAAACATT
1 AAAATATTTAAACATT
*
110453357 AAAATAATT--A-ATT
1 AAAATATTTAAACATT
110453370 AAATATATTTAAACATT
1 AAA-ATATTTAAACATT
110453387 AAAATA
1 AAAATA
110453393 ATCAAAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 6 0.20
14 6 0.20
16 12 0.40
17 6 0.20
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATATTTAAACATT
Found at i:110453370 original size:30 final size:30
Alignment explanation
Indices: 110453334--110453394 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
110453324 ATTGACACAT
110453334 TTAATTAAAAATATTTAAACATTAAAATAA
1 TTAATTAAAAATATTTAAACATTAAAATAA
*
110453364 TTAATTAAATATATTTAAACATTAAAATAA
1 TTAATTAAAAATATTTAAACATTAAAATAA
110453394 T
1 T
110453395 CAAAAAGTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (30 bp):
TTAATTAAAAATATTTAAACATTAAAATAA
Found at i:110459433 original size:21 final size:21
Alignment explanation
Indices: 110459408--110459471 Score: 119
Period size: 21 Copynumber: 3.0 Consensus size: 21
110459398 TATTCACATG
110459408 CCAAACAACCAATTTATTATT
1 CCAAACAACCAATTTATTATT
110459429 CCAAACAACCAATTTATTATT
1 CCAAACAACCAATTTATTATT
*
110459450 CCAACCAACCAATTTATTATT
1 CCAAACAACCAATTTATTATT
110459471 C
1 C
110459472 ACATGCCAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.33
Consensus pattern (21 bp):
CCAAACAACCAATTTATTATT
Found at i:110461049 original size:30 final size:29
Alignment explanation
Indices: 110461014--110461148 Score: 134
Period size: 30 Copynumber: 4.7 Consensus size: 29
110461004 TTTAACGAAC
*
110461014 TTGCTCACACAAGTTGACTTTATATTAAAA
1 TTGCTCACACAAGCTGACTTTATA-TAAAA
* * * *
110461044 TTGCTCACATAAGTTGACTTTGTA-ATAA
1 TTGCTCACACAAGCTGACTTTATATAAAA
*
110461072 TTGCTCACACAAGCTAACTTTATAATAAAA
1 TTGCTCACACAAGCTGACTTTAT-ATAAAA
* * * *
110461102 TTGTTCACACATGCTGAC-TT-TGTGAAA
1 TTGCTCACACAAGCTGACTTTATATAAAA
110461129 -TGCTCACACAAGCTGACTTT
1 TTGCTCACACAAGCTGACTTT
110461149 GTAATACTTC
Statistics
Matches: 87, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
26 15 0.17
27 6 0.07
28 23 0.26
29 3 0.03
30 40 0.46
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (29 bp):
TTGCTCACACAAGCTGACTTTATATAAAA
Found at i:110461052 original size:28 final size:27
Alignment explanation
Indices: 110461021--110461110 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 27
110461011 AACTTGCTCA
110461021 CACAAGTTGACTTTATATTAAAATTGCT
1 CACAAGTTGACTTTATA-TAAAATTGCT
* *
110461049 CACATAAGTTGACTTTGTA-ATAATTGCT
1 CAC--AAGTTGACTTTATATAAAATTGCT
* * *
110461077 CACACAAGCTAACTTTATAATAAAATTGTT
1 --CACAAGTTGACTTTAT-ATAAAATTGCT
110461107 CACA
1 CACA
110461111 CATGCTGACT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
28 25 0.51
29 1 0.02
30 23 0.47
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (27 bp):
CACAAGTTGACTTTATATAAAATTGCT
Found at i:110461092 original size:58 final size:57
Alignment explanation
Indices: 110461014--110461154 Score: 185
Period size: 58 Copynumber: 2.5 Consensus size: 57
110461004 TTTAACGAAC
* * * *
110461014 TTGCTCACACAAGTTGACTTTATATTAAAATTGCTCACATAAGTTGACTTTGTAATAA
1 TTGCTCACACAAGCTGACTTTATAATAAAATTGCTCACACAAGCTGACTTTGTAA-AA
* * * *
110461072 TTGCTCACACAAGCTAACTTTATAATAAAATTGTTCACACATGCTGACTTTGTGAAA
1 TTGCTCACACAAGCTGACTTTATAATAAAATTGCTCACACAAGCTGACTTTGTAAAA
*
110461129 -TGCTCACACAAGCTGACTTTGTAATA
1 TTGCTCACACAAGCTGACTTTATAATA
110461155 CTTCCATACA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
56 24 0.33
57 2 0.03
58 47 0.64
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (57 bp):
TTGCTCACACAAGCTGACTTTATAATAAAATTGCTCACACAAGCTGACTTTGTAAAA
Found at i:110463650 original size:18 final size:17
Alignment explanation
Indices: 110463617--110463655 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
110463607 TTGTATAAAT
110463617 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
110463635 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
110463652 TGTG
1 TGTG
110463656 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:110463787 original size:8 final size:8
Alignment explanation
Indices: 110463774--110463802 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
110463764 CACTAGAGAC
110463774 CAGTGTTA
1 CAGTGTTA
110463782 CAGTGTTA
1 CAGTGTTA
110463790 CAGTGTTA
1 CAGTGTTA
110463798 CAGTG
1 CAGTG
110463803 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:110463959 original size:23 final size:23
Alignment explanation
Indices: 110463889--110463961 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
110463879 AGTGCTATTG
110463889 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
110463912 TTCAGTGGTAGCTACGGCTAAAT
1 ATCAGTGGTAGCTTCGGCTACAT
110463935 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
110463958 ATCA
1 ATCA
110463962 ATGTGGCACT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:110466450 original size:28 final size:28
Alignment explanation
Indices: 110466418--110466485 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
110466408 AATTTTTGGG
* * *
110466418 TTTGGGCTTTGTGGGTTAGAAGATAGGT
1 TTTGGGCTTAGGGGGTTAGAAAATAGGT
*
110466446 TTTGGGC-TAGGGGGTTAGAAAATGGGT
1 TTTGGGCTTAGGGGGTTAGAAAATAGGT
110466473 TTTGGGC-TAGGGG
1 TTTGGGCTTAGGGG
110466486 CCAAACGGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 29 0.81
28 7 0.19
ACGTcount: A:0.18, C:0.04, G:0.44, T:0.34
Consensus pattern (28 bp):
TTTGGGCTTAGGGGGTTAGAAAATAGGT
Found at i:110471517 original size:17 final size:18
Alignment explanation
Indices: 110471497--110471530 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
110471487 AAGTGAATTA
110471497 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
*
110471514 AAATTGTGAAAATTAAA
1 AAATTGCGAAAATTAAA
110471531 ATGAAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:110472267 original size:10 final size:10
Alignment explanation
Indices: 110472248--110472297 Score: 75
Period size: 10 Copynumber: 5.0 Consensus size: 10
110472238 CTAATGTCTA
110472248 AAAGATAAAT
1 AAAGATAAAT
110472258 ACAA-ATAAAT
1 A-AAGATAAAT
*
110472268 AAAGATAATT
1 AAAGATAAAT
110472278 AAAGATAAAT
1 AAAGATAAAT
110472288 AAAGATAAAT
1 AAAGATAAAT
110472298 GAAACTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:110472306 original size:20 final size:19
Alignment explanation
Indices: 110472248--110472307 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
110472238 CTAATGTCTA
110472248 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
*
110472268 AAAGATAATTAAAGATAAAT
1 AAAGATAAATAAA-ATAAAT
*
110472288 AAAGATAAATGAAACTAAAT
1 AAAGATAAAT-AAAATAAAT
110472308 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.06
20 30 0.86
21 3 0.09
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:110475941 original size:33 final size:33
Alignment explanation
Indices: 110475877--110475941 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
110475867 ACCATGAACA
**
110475877 ACAAGCAGGGCACCTTATTAACCCATTTTCATT
1 ACAAGCAGGGCACCTTATTAACCCACCTTCATT
* * *
110475910 ACAATCAGGGCACCTTCTTAACCTACCTTCAT
1 ACAAGCAGGGCACCTTATTAACCCACCTTCAT
110475942 CTTCTTCGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (33 bp):
ACAAGCAGGGCACCTTATTAACCCACCTTCATT
Found at i:110485457 original size:17 final size:16
Alignment explanation
Indices: 110485424--110485494 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 16
110485414 TGAATTTTTC
*
110485424 AAATTATTTTTAAGTTT
1 AAATTA-TTTCAAGTTT
110485441 AAGATTATTTCAAGTTT
1 AA-ATTATTTCAAGTTT
* * *
110485458 GAATAATTTTAAGGTTT
1 AAATTATTTCAA-GTTT
* *
110485475 AAATTATTACAAGTGT
1 AAATTATTTCAAGTTT
110485491 AAAT
1 AAAT
110485495 AAATTTGATT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
16 15 0.35
17 24 0.56
18 4 0.09
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.46
Consensus pattern (16 bp):
AAATTATTTCAAGTTT
Found at i:110485496 original size:33 final size:33
Alignment explanation
Indices: 110485431--110485496 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
110485421 TTCAAATTAT
* * *
110485431 TTTTAAGTTTAAGATTATTTCAAGTTTGAATAA
1 TTTTAAGTTTAAGATTATTACAAGTGTAAATAA
110485464 TTTTAAGGTTTAA-ATTATTACAAGTGTAAATAA
1 TTTTAA-GTTTAAGATTATTACAAGTGTAAATAA
110485497 ATTTGATTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 23 0.79
34 6 0.21
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (33 bp):
TTTTAAGTTTAAGATTATTACAAGTGTAAATAA
Found at i:110488749 original size:3 final size:3
Alignment explanation
Indices: 110488741--110488768 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
110488731 CAGCAAGGTT
110488741 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
110488769 AAAAACCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:110491138 original size:16 final size:17
Alignment explanation
Indices: 110491114--110491154 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
110491104 TTTAAGTTAA
*
110491114 TAATATTTTATATTATG
1 TAATTTTTTATATTATG
*
110491131 TTATTTTTATATATTATG
1 TAATTTTT-TATATTATG
110491149 TAATTT
1 TAATTT
110491155 ATATATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TAATTTTTTATATTATG
Found at i:110491145 original size:18 final size:18
Alignment explanation
Indices: 110491122--110491160 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
110491112 AATAATATTT
* *
110491122 TATATTATGTTATTTTTA
1 TATATTATGTAATTTATA
110491140 TATATTATGTAATTTATA
1 TATATTATGTAATTTATA
110491158 TAT
1 TAT
110491161 TAAAATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATATTATGTAATTTATA
Found at i:110491155 original size:16 final size:18
Alignment explanation
Indices: 110491116--110491162 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
110491106 TAAGTTAATA
110491116 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
110491133 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
110491150 A-ATTTATATATTA
1 ATATTTATATATTA
110491163 AAATATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 11 0.41
17 7 0.26
18 9 0.33
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:110492209 original size:13 final size:13
Alignment explanation
Indices: 110492191--110492229 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
110492181 CTTTGTCATT
*
110492191 AAGGAAAAGGAAA
1 AAGGAAAAAGAAA
110492204 AAGGAAAAAGAAA
1 AAGGAAAAAGAAA
*
110492217 AAAGAAAAAGAAA
1 AAGGAAAAAGAAA
110492230 CTTTCTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAGGAAAAAGAAA
Found at i:110508785 original size:27 final size:27
Alignment explanation
Indices: 110508755--110508810 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
110508745 AAATTTTGAA
110508755 TTTTAAAATTCAATTTTATCTTTATTT
1 TTTTAAAATTCAATTTTATCTTTATTT
*** * *
110508782 TTTTACTCTTTAGTTTTATCTTTATTT
1 TTTTAAAATTCAATTTTATCTTTATTT
110508809 TT
1 TT
110508811 GTCATTATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTAAAATTCAATTTTATCTTTATTT
Found at i:110508810 original size:12 final size:12
Alignment explanation
Indices: 110508768--110508810 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
110508758 TAAAATTCAA
110508768 TTTTATCTTTATTT
1 TTTTATCTTTA--T
*
110508782 TTTTACTCTTTAG
1 TTTTA-TCTTTAT
110508795 TTTTATCTTTAT
1 TTTTATCTTTAT
110508807 TTTT
1 TTTT
110508811 GTCATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 10 0.38
13 5 0.19
14 5 0.19
15 6 0.23
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTTATCTTTAT
Found at i:110508935 original size:27 final size:28
Alignment explanation
Indices: 110508864--110508928 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 28
110508854 TCTCCAAAGA
110508864 AATTTTTTCACATAAAATATTTATATTT
1 AATTTTTTCACATAAAATATTTATATTT
110508892 -ATTTTTTCACATAAAATATTTATATTT
1 AATTTTTTCACATAAAATATTTATATTT
110508919 AATTTTTTCA
1 AATTTTTTCA
110508929 ATTAAATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 27 0.75
28 9 0.25
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (28 bp):
AATTTTTTCACATAAAATATTTATATTT
Found at i:110522897 original size:16 final size:16
Alignment explanation
Indices: 110522876--110522910 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
110522866 AATCCACTAG
110522876 CATACATAAACTCTAT
1 CATACATAAACTCTAT
110522892 CATACATAAACTCTAT
1 CATACATAAACTCTAT
110522908 CAT
1 CAT
110522911 GAATCCATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (16 bp):
CATACATAAACTCTAT
Found at i:110530196 original size:56 final size:59
Alignment explanation
Indices: 110530099--110530209 Score: 165
Period size: 56 Copynumber: 1.9 Consensus size: 59
110530089 TTTAGCAACC
* *
110530099 TAAAAATGAAAAAAATATTTTAATCTTTCTAAAAATGATAAAATTACAAATTAATCCATT
1 TAAAAATGAAAAAAATA-TTTAATCTCTCTAAAAATAATAAAATTACAAATTAATCCATT
*
110530159 TAAAAATGAAAAAAA-A-TTAATCTCT-TAAAAATAATAAAATTATAAATTAAT
1 TAAAAATGAAAAAAATATTTAATCTCTCTAAAAATAATAAAATTACAAATTAAT
110530210 ATATAATAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
56 24 0.50
57 8 0.17
59 1 0.02
60 15 0.31
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (59 bp):
TAAAAATGAAAAAAATATTTAATCTCTCTAAAAATAATAAAATTACAAATTAATCCATT
Found at i:110533022 original size:44 final size:44
Alignment explanation
Indices: 110532968--110533061 Score: 181
Period size: 44 Copynumber: 2.2 Consensus size: 44
110532958 GGTGTTTACT
110532968 GTTA-TTATAATTATAATACTGAAAAGGGTAAATTTCACCCATG
1 GTTACTTATAATTATAATACTGAAAAGGGTAAATTTCACCCATG
110533011 GTTACTTATAATTATAATACTGAAAAGGGTAAATTTCACCCATG
1 GTTACTTATAATTATAATACTGAAAAGGGTAAATTTCACCCATG
110533055 GTTACTT
1 GTTACTT
110533062 TTATTTACAT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 4 0.08
44 46 0.92
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (44 bp):
GTTACTTATAATTATAATACTGAAAAGGGTAAATTTCACCCATG
Found at i:110533894 original size:30 final size:31
Alignment explanation
Indices: 110533860--110533918 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
110533850 AAGATAAAAT
*
110533860 TAAAATGATTTAAA-ATTAAA-ATTAAATAAA
1 TAAAATG-TGTAAATATTAAAGATTAAATAAA
*
110533890 TAAAATGTGTAAATATTAAAGGTTAAATA
1 TAAAATGTGTAAATATTAAAGATTAAATA
110533919 TATTATTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 13 0.52
31 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (31 bp):
TAAAATGTGTAAATATTAAAGATTAAATAAA
Found at i:110536845 original size:25 final size:25
Alignment explanation
Indices: 110536798--110536845 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
110536788 TATATGTACA
*
110536798 AATATATATAAAAATATTTAAATGG
1 AATATATATAAAAATATTAAAATGG
*
110536823 AATAT-TATACAAAATGTTAAAAT
1 AATATATATA-AAAATATTAAAAT
110536846 AATGTGAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (25 bp):
AATATATATAAAAATATTAAAATGG
Found at i:110538521 original size:39 final size:39
Alignment explanation
Indices: 110538407--110538668 Score: 380
Period size: 39 Copynumber: 6.6 Consensus size: 39
110538397 TTCGTGATCT
** * *
110538407 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
110538446 GAAGCCCAGATGCTAACTTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCC-GAAG---GC-TAACTGAAGCACACAAGTGCTAAACG
* *
110538490 GAAGCCCAAAGGCTAACTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
110538529 GAAGCCCGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
110538568 GAAGCCCGAAGGCTAACTGATGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
110538607 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
110538646 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
110538669 TCATCAGAGC
Statistics
Matches: 203, Mismatches: 15, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
39 166 0.82
40 4 0.02
43 2 0.01
44 31 0.15
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:110541767 original size:23 final size:24
Alignment explanation
Indices: 110541736--110541785 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
110541726 TTTATTTCTC
110541736 TTTGATTTTATTATTTTATT-GTTT
1 TTTGATTTT-TTATTTTATTAGTTT
* *
110541760 TTTG-TTTTTTGTTTTTTTAGTTT
1 TTTGATTTTTTATTTTATTAGTTT
110541783 TTT
1 TTT
110541786 ATAGACTCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.35
23 11 0.48
24 4 0.17
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (24 bp):
TTTGATTTTTTATTTTATTAGTTT
Found at i:110542215 original size:68 final size:68
Alignment explanation
Indices: 110542106--110542244 Score: 278
Period size: 68 Copynumber: 2.0 Consensus size: 68
110542096 AGAATATAAT
110542106 AATGTCAACTTTGTTTATCTCTTTATTTATTTGTAATTCTGTTGGGTTTTTGAAGGAGTAAAGGA
1 AATGTCAACTTTGTTTATCTCTTTATTTATTTGTAATTCTGTTGGGTTTTTGAAGGAGTAAAGGA
110542171 AGA
66 AGA
110542174 AATGTCAACTTTGTTTATCTCTTTATTTATTTGTAATTCTGTTGGGTTTTTGAAGGAGTAAAGGA
1 AATGTCAACTTTGTTTATCTCTTTATTTATTTGTAATTCTGTTGGGTTTTTGAAGGAGTAAAGGA
110542239 AGA
66 AGA
110542242 AAT
1 AAT
110542245 ACAGGACACA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.45
Consensus pattern (68 bp):
AATGTCAACTTTGTTTATCTCTTTATTTATTTGTAATTCTGTTGGGTTTTTGAAGGAGTAAAGGA
AGA
Found at i:110550273 original size:6 final size:6
Alignment explanation
Indices: 110550264--110550299 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
110550254 TATTCACGAA
*
110550264 CCCAAA CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT
1 CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT
110550300 GCGATGCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (6 bp):
CCCAAT
Found at i:110558576 original size:3 final size:3
Alignment explanation
Indices: 110558568--110558641 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
110558558 TAATAACAAC
*
110558568 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA TAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
110558616 GAA GAA GAA GAA AAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
110558642 GGAGGAGGAG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:110559124 original size:18 final size:21
Alignment explanation
Indices: 110559101--110559146 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 21
110559091 CAGAGGAAAC
110559101 AAACAAGAT-GA-AA-AAGAA
1 AAACAAGATAGAGAATAAGAA
*
110559119 AAACAATATAGAGAATAAGAA
1 AAACAAGATAGAGAATAAGAA
110559140 AAA-AAGA
1 AAACAAGA
110559147 GCATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 5 0.22
21 8 0.35
ACGTcount: A:0.72, C:0.04, G:0.15, T:0.09
Consensus pattern (21 bp):
AAACAAGATAGAGAATAAGAA
Found at i:110562567 original size:19 final size:20
Alignment explanation
Indices: 110562532--110562572 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
110562522 ATAAAATAAA
110562532 CAAAATAATTTTAAAAAATT
1 CAAAATAATTTTAAAAAATT
110562552 CAAAAT-A-TTTATAAAAATT
1 CAAAATAATTTTA-AAAAATT
110562571 CA
1 CA
110562573 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (20 bp):
CAAAATAATTTTAAAAAATT
Found at i:110563278 original size:11 final size:12
Alignment explanation
Indices: 110563252--110563286 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
110563242 TAAAATTTAT
*
110563252 ATTTTTAAAAAG
1 ATTTCTAAAAAG
110563264 ATTTCTAAAAA-
1 ATTTCTAAAAAG
110563275 ATTTCTAAAAAG
1 ATTTCTAAAAAG
110563287 TATATAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (12 bp):
ATTTCTAAAAAG
Found at i:110565480 original size:31 final size:31
Alignment explanation
Indices: 110565444--110565504 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
110565434 CCCAAGATTT
* *
110565444 TTTTTTATCCAATTAAGTACTTAAACTTGGTC
1 TTTTTGATCAAATTAA-TACTTAAACTTGGTC
* *
110565476 TTTTTGTTCAAATTAATACTTGAACTTGG
1 TTTTTGATCAAATTAATACTTAAACTTGG
110565505 CTTCATAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 12 0.48
32 13 0.52
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (31 bp):
TTTTTGATCAAATTAATACTTAAACTTGGTC
Found at i:110583145 original size:31 final size:31
Alignment explanation
Indices: 110583102--110583166 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
110583092 TTCACTACTC
*
110583102 AAAATTTATTAAAAGCAATGTGGGACACAAA
1 AAAAATTATTAAAAGCAATGTGGGACACAAA
110583133 AAAAATTATTAAAAGCAATGTGGGACACAAA
1 AAAAATTATTAAAAGCAATGTGGGACACAAA
110583164 AAA
1 AAA
110583167 TTAAGGGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.20
Consensus pattern (31 bp):
AAAAATTATTAAAAGCAATGTGGGACACAAA
Found at i:110586867 original size:12 final size:12
Alignment explanation
Indices: 110586850--110586884 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
110586840 TGAGGGTAGG
110586850 ATCTGAATATGC
1 ATCTGAATATGC
*
110586862 ATCTGAATATGT
1 ATCTGAATATGC
*
110586874 ATCTGATTATG
1 ATCTGAATATG
110586885 AAAATACATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (12 bp):
ATCTGAATATGC
Found at i:110597491 original size:16 final size:16
Alignment explanation
Indices: 110597452--110597484 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
110597442 ACATAATATA
110597452 TAAAAA-AATTAAAAT
1 TAAAAATAATTAAAAT
110597467 TAAAAATAATTAAAAT
1 TAAAAATAATTAAAAT
110597483 TA
1 TA
110597485 TGAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAAATAATTAAAAT
Found at i:110598009 original size:2 final size:2
Alignment explanation
Indices: 110598002--110598028 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
110597992 GGTCCCGTTA
110598002 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
110598029 AATATCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:110610923 original size:23 final size:24
Alignment explanation
Indices: 110610888--110610936 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
110610878 CAATATTCGG
110610888 TTTGATATATGAGATTTTT-TCAA
1 TTTGATATATGAGATTTTTCTCAA
*
110610911 TTTGATACT-TGAGTTTTTTCTCAA
1 TTTGATA-TATGAGATTTTTCTCAA
110610935 TT
1 TT
110610937 AAGTACCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.55
Consensus pattern (24 bp):
TTTGATATATGAGATTTTTCTCAA
Found at i:110612481 original size:19 final size:22
Alignment explanation
Indices: 110612442--110612481 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
110612432 AGAAACCCAA
110612442 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
110612464 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
110612482 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:110612580 original size:27 final size:26
Alignment explanation
Indices: 110612543--110612780 Score: 258
Period size: 27 Copynumber: 9.2 Consensus size: 26
110612533 AGCATGGCTG
** *
110612543 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
110612569 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
110612597 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
110612624 CCAGATCAGATAATCGTGGCATAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
110612651 CCAGAACAGATATATGTGGCAGA---A
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
110612675 -CAG---ATAT-ATGTGGCAGAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
110612696 CCAGATCAGATAATCGTGGCATAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
110612723 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
110612750 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
110612777 CCAG
1 CCAG
110612781 GACGCTTCCT
Statistics
Matches: 182, Mismatches: 14, Indels: 31
0.80 0.06 0.14
Matches are distributed among these distances:
18 10 0.05
20 3 0.02
21 1 0.01
22 3 0.02
23 3 0.02
24 1 0.01
25 3 0.02
26 10 0.05
27 128 0.70
28 20 0.11
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:110612675 original size:18 final size:18
Alignment explanation
Indices: 110612652--110612691 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
110612642 GCATAGCCAC
110612652 CAGAACAGATATATGTGG
1 CAGAACAGATATATGTGG
110612670 CAGAACAGATATATGTGG
1 CAGAACAGATATATGTGG
110612688 CAGA
1 CAGA
110612692 GCCACCAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (18 bp):
CAGAACAGATATATGTGG
Found at i:110612715 original size:72 final size:72
Alignment explanation
Indices: 110612598--110612745 Score: 296
Period size: 72 Copynumber: 2.1 Consensus size: 72
110612588 GCAGAGCCAC
110612598 CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATA
1 CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATA
110612663 TATGTGG
66 TATGTGG
110612670 CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATA
1 CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATA
110612735 TATGTGG
66 TATGTGG
110612742 CAGA
1 CAGA
110612746 GCCACCAGAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (72 bp):
CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATA
TATGTGG
Found at i:110612734 original size:126 final size:126
Alignment explanation
Indices: 110612544--110612780 Score: 413
Period size: 126 Copynumber: 1.9 Consensus size: 126
110612534 GCATGGCTGC
* *
110612544 CAGAACAGATAATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGATA
1 CAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGATA
110612609 TATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGG
66 TATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGG
* *
110612670 CAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGAT
1 CAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
*
110612734 ATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
65 ATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAG
110612781 GACGCTTCCT
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
126 88 0.84
127 17 0.16
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.17
Consensus pattern (126 bp):
CAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGATA
TATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGG
Found at i:110614427 original size:26 final size:26
Alignment explanation
Indices: 110614391--110614500 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
110614381 CATGAAATTC
110614391 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
110614417 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
110614443 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
110614469 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
110614495 TTATCA
1 TTATCA
110614501 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:110615091 original size:19 final size:19
Alignment explanation
Indices: 110615069--110615114 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
110615059 ATTTTTTTTA
110615069 CTTTTTTTTTAACTTTTGT
1 CTTTTTTTTTAACTTTTGT
* ** *
110615088 CTTTTTCTTTATTTTTTTT
1 CTTTTTTTTTAACTTTTGT
110615107 CTTTTTTT
1 CTTTTTTT
110615115 AAGTTTTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (19 bp):
CTTTTTTTTTAACTTTTGT
Found at i:110615112 original size:36 final size:36
Alignment explanation
Indices: 110615054--110615152 Score: 101
Period size: 36 Copynumber: 2.6 Consensus size: 36
110615044 GACAGGTTGC
* *
110615054 TTCTTATTTTTTTTACTTTTTTTTTAACTTTTGT-CTTT
1 TTCTTATTTTTTTT-C--TTTTTTTAACTTTTATATTTT
*
110615092 TTCTTTATTTTTTTTCTTTTTTTAAGTTTTATATTTT
1 TTC-TTATTTTTTTTCTTTTTTTAACTTTTATATTTT
* *
110615129 TTCTTATTTTATTTTGTTTATTTA
1 TTCTTATTTT-TTTTCTTTTTTTA
110615153 TTTTTTGTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
36 21 0.40
37 17 0.32
38 4 0.08
39 11 0.21
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (36 bp):
TTCTTATTTTTTTTCTTTTTTTAACTTTTATATTTT
Found at i:110615130 original size:19 final size:17
Alignment explanation
Indices: 110615063--110615157 Score: 52
Period size: 19 Copynumber: 5.3 Consensus size: 17
110615053 CTTCTTATTT
110615063 TTTTTACTTTTTTTTTAA
1 TTTTTA-TTTTTTTTTAA
* *
110615081 CTTTTGTCTTTTTCTTT-A
1 -TTTT-TATTTTTTTTTAA
*
110615099 TTTTTTTTCTTTTTTTAA
1 TTTTTATT-TTTTTTTAA
*
110615117 GTTTTATATTTTTTCTT-A
1 -TTTT-TATTTTTTTTTAA
*
110615135 -TTTTATTTTGTTTATTTA
1 TTTTTATTTT-TTT-TTAA
110615153 TTTTT
1 TTTTT
110615158 TGTTATTAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
15 6 0.10
16 8 0.13
17 12 0.20
18 4 0.07
19 26 0.43
20 4 0.07
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTTTTTAA
Found at i:110615163 original size:14 final size:14
Alignment explanation
Indices: 110615123--110615170 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
110615113 TTAAGTTTTA
*
110615123 TATTTTTTCTTATT
1 TATTTTTTGTTATT
*
110615137 T-TATTTTGTTTATT
1 TATTTTTTG-TTATT
110615151 TATTTTTTGTTATT
1 TATTTTTTGTTATT
*
110615165 AATTTT
1 TATTTT
110615171 AAAAAATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 5 0.18
14 17 0.61
15 6 0.21
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (14 bp):
TATTTTTTGTTATT
Found at i:110615215 original size:25 final size:23
Alignment explanation
Indices: 110615186--110615231 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
110615176 ATTTGAAATG
110615186 TATATTTGAAATATTTTATAATATA
1 TATATTTGAAA-ATTTTA-AATATA
*
110615211 TATATTTTAAAATTTTAAATA
1 TATATTTGAAAATTTTAAATA
110615232 CTATTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 6 0.30
25 10 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATATTTGAAAATTTTAAATATA
Found at i:110615247 original size:31 final size:29
Alignment explanation
Indices: 110615212--110615431 Score: 99
Period size: 31 Copynumber: 7.1 Consensus size: 29
110615202 TATAATATAT
110615212 ATATTTTAAAATTTTAAATACTATTTTAAAA
1 ATATTTTAAAATTTTAAATA-TATTTT-AAA
*
110615243 ATATTTT-TAATTTTAAATATATATTTAAA
1 ATATTTTAAAATTTTAAATATAT-TTTAAA
*
110615272 ATGATTTCTTATAAATTTTAAAATATATTTTTGAAT
1 AT-A-TT-TTA-AAATTTT-AAATATA-TTTT-AAA
* * * *
110615308 TTTTTTTGAAATTTTAAATATTATTTTTTAA
1 ATATTTTAAAATTTTAAATA-TA-TTTTAAA
** * *
110615339 ATATAAGT-ATATTTTTAATA-ATATTT-AA
1 ATAT-TTTAAAATTTTAAATATAT-TTTAAA
* * *
110615367 ACA-TTAAAAATTTTAAATAAATTATTATAA
1 ATATTTTAAAATTTTAAATATATT-TTA-AA
* * *
110615397 AAATTTTAAAAAGGTTTAAATATATTTAAAA
1 ATATTTT-AAAA-TTTTAAATATATTTTAAA
110615428 ATAT
1 ATAT
110615432 CAATTTTTAC
Statistics
Matches: 143, Mismatches: 26, Indels: 40
0.68 0.12 0.19
Matches are distributed among these distances:
27 11 0.08
28 9 0.06
29 12 0.08
30 19 0.13
31 34 0.24
32 23 0.16
33 13 0.09
34 8 0.06
35 10 0.07
36 4 0.03
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (29 bp):
ATATTTTAAAATTTTAAATATATTTTAAA
Found at i:110615257 original size:18 final size:18
Alignment explanation
Indices: 110615234--110615270 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
110615224 TTTAAATACT
*
110615234 ATTTTAAAAATATTTTTA
1 ATTTTAAAAATATATTTA
*
110615252 ATTTTAAATATATATTTA
1 ATTTTAAAAATATATTTA
110615270 A
1 A
110615271 AATGATTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAAAAATATATTTA
Found at i:110615257 original size:30 final size:31
Alignment explanation
Indices: 110615251--110615333 Score: 53
Period size: 35 Copynumber: 2.6 Consensus size: 31
110615241 AAATATTTTT
110615251 AATTTTAAATATATATTT-AAAATGATTTCTTATA
1 AATTTTAAATATATATTTAAAAAT-A-TT-TTA-A
* * ** * *
110615285 AATTTTAAAATATATTTTTGAATTTTTTTTGA
1 AATTTT-AAATATATATTTAAAAATATTTTAA
110615317 AATTTTAAATAT-TATTT
1 AATTTTAAATATATATTT
110615334 TTTAAATATA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
30 4 0.10
31 6 0.15
32 7 0.17
33 2 0.05
34 8 0.20
35 11 0.27
36 3 0.07
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (31 bp):
AATTTTAAATATATATTTAAAAATATTTTAA
Found at i:110615466 original size:14 final size:14
Alignment explanation
Indices: 110615449--110615475 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
110615439 TACATAGAAT
110615449 TTTTTAAATTATTA
1 TTTTTAAATTATTA
110615463 TTTTTAAATTATT
1 TTTTTAAATTATT
110615476 TTTAAAGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAAATTATTA
Found at i:110615475 original size:11 final size:11
Alignment explanation
Indices: 110615459--110615512 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
110615449 TTTTTAAATT
110615459 ATTATTTTTAA
1 ATTATTTTTAA
110615470 ATTATTTTTAA
1 ATTATTTTTAA
* *
110615481 A-GATATTT-A
1 ATTATTTTTAA
*
110615490 ACTATTTTTAA
1 ATTATTTTTAA
110615501 ATT-TTTATTAA
1 ATTATTT-TTAA
110615512 A
1 A
110615513 AATTTTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 2 0.06
10 13 0.37
11 20 0.57
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTATTTTTAA
Found at i:110615499 original size:10 final size:10
Alignment explanation
Indices: 110615461--110615518 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
110615451 TTTAAATTAT
110615461 TATTTTTAAA
1 TATTTTTAAA
110615471 TTATTTTTAAA
1 -TATTTTTAAA
* * *
110615482 GATATTTAAC
1 TATTTTTAAA
110615492 TATTTTTAAA
1 TATTTTTAAA
*
110615502 TTTTTATTAAA
1 TATTT-TTAAA
*
110615513 AATTTT
1 TATTTT
110615519 ATTTAAAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
10 19 0.51
11 18 0.49
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (10 bp):
TATTTTTAAA
Found at i:110615517 original size:13 final size:14
Alignment explanation
Indices: 110615499--110615531 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
110615489 AACTATTTTT
110615499 AAATTTTTA-TTAA
1 AAATTTTTATTTAA
110615512 AAA-TTTTATTTAA
1 AAATTTTTATTTAA
110615525 AAATTTT
1 AAATTTT
110615532 AAATGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.28
13 10 0.56
14 3 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AAATTTTTATTTAA
Found at i:110615520 original size:12 final size:13
Alignment explanation
Indices: 110615503--110615532 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
110615493 ATTTTTAAAT
110615503 TTTTA-TTAAAAA
1 TTTTATTTAAAAA
110615515 TTTTATTTAAAAA
1 TTTTATTTAAAAA
110615528 TTTTA
1 TTTTA
110615533 AATGTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTTATTTAAAAA
Found at i:110615648 original size:21 final size:22
Alignment explanation
Indices: 110615617--110615663 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
110615607 TCATATTATT
**
110615617 AAAATATATATTTAATTTTTAA
1 AAAATATATATTTAAAATTTAA
110615639 AAAATA-ATATTTAAAATTTAA
1 AAAATATATATTTAAAATTTAA
110615660 AAAA
1 AAAA
110615664 ATTAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATATATATTTAAAATTTAA
Found at i:110615664 original size:22 final size:22
Alignment explanation
Indices: 110615617--110615665 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
110615607 TCATATTATT
* *
110615617 AAAATATATATTTAATTTTTAA
1 AAAATATATATTTAAATTTAAA
110615639 AAAATA-ATATTTAAAATTTAAA
1 AAAATATATATTT-AAATTTAAA
110615661 AAAAT
1 AAAAT
110615666 TAATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATATATATTTAAATTTAAA
Found at i:110615672 original size:20 final size:21
Alignment explanation
Indices: 110615634--110615674 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
110615624 ATATTTAATT
*
110615634 TTTAAAAAATAATATTTAAAA
1 TTTAAAAAATAATAATTAAAA
*
110615655 TTTAAAAAA-ATTAATTAAAA
1 TTTAAAAAATAATAATTAAAA
110615675 ATATATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TTTAAAAAATAATAATTAAAA
Found at i:110615698 original size:33 final size:33
Alignment explanation
Indices: 110615638--110615731 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
110615628 TTAATTTTTA
110615638 AAAAATAATATTTAAAATTTAAAAAAATTAATT
1 AAAAATAATATTTAAAATTTAAAAAAATTAATT
*
110615671 AAAAATATATATTTAAAATTT-AGAAAATTAATT
1 AAAAATA-ATATTTAAAATTTAAAAAAATTAATT
* *
110615704 -TAAATAATATTTAAATTTTTAAAAAAAT
1 AAAAATAATATTTAAA-ATTTAAAAAAAT
110615732 ATATATTATA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
31 9 0.17
32 8 0.15
33 24 0.44
34 13 0.24
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (33 bp):
AAAAATAATATTTAAAATTTAAAAAAATTAATT
Found at i:110615790 original size:14 final size:13
Alignment explanation
Indices: 110615773--110615897 Score: 66
Period size: 13 Copynumber: 9.7 Consensus size: 13
110615763 TAAATTTTTT
110615773 TAAAAAAATAATAA
1 TAAAAAAATAA-AA
*
110615787 TAAACAAATAAAA
1 TAAAAAAATAAAA
110615800 T----AAATAAAA
1 TAAAAAAATAAAA
* *
110615809 TAAGAAAATAAGA
1 TAAAAAAATAAAA
*
110615822 -AAAAATATAAAA
1 TAAAAAAATAAAA
* *
110615834 CTTTAAAAAATTAAA
1 --TAAAAAAATAAAA
*
110615849 GAAAAATAA-AAAA
1 TAAAAA-AATAAAA
110615862 CTAAAAAAAGTAAAA
1 -TAAAAAAA-TAAAA
* *
110615877 -AAAAAAACAAAT
1 TAAAAAAATAAAA
110615889 TAAAAAAAT
1 TAAAAAAAT
110615898 CAGAAGCAGA
Statistics
Matches: 84, Mismatches: 15, Indels: 25
0.68 0.12 0.20
Matches are distributed among these distances:
9 9 0.11
12 12 0.14
13 33 0.39
14 17 0.20
15 13 0.15
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:110615833 original size:17 final size:17
Alignment explanation
Indices: 110615793--110615896 Score: 52
Period size: 17 Copynumber: 5.9 Consensus size: 17
110615783 ATAATAAACA
*
110615793 AATAAAATAAATAAAAT
1 AATAAAATAAAAAAAAT
*
110615810 AAGAAAATAAGAAAAAAT
1 AATAAAATAA-AAAAAAT
* *
110615828 -ATAAAACTTTAAAAAATT
1 AATAAAA--TAAAAAAAAT
110615846 AA-AGAAA-AATAAAAAACT
1 AATA-AAATAA-AAAAAA-T
* *
110615864 AAAAAAAGTAAAAAAAAA
1 AATAAAA-TAAAAAAAAT
* *
110615882 AACAAATTAAAAAAA
1 AATAAAATAAAAAAA
110615897 TCAGAAGCAG
Statistics
Matches: 67, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
16 1 0.01
17 27 0.40
18 24 0.36
19 13 0.19
20 2 0.03
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.16
Consensus pattern (17 bp):
AATAAAATAAAAAAAAT
Found at i:110615858 original size:18 final size:17
Alignment explanation
Indices: 110615837--110615895 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
110615827 TATAAAACTT
*
110615837 TAAAAAATTAAAGAAAAA
1 TAAAAAACTAAA-AAAAA
*
110615855 TAAAAAACTAAAAAAAG
1 TAAAAAACTAAAAAAAA
110615872 TAAAAAA--AAAAACAAA
1 TAAAAAACTAAAAA-AAA
110615888 TTAAAAAA
1 -TAAAAAA
110615896 ATCAGAAGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.14
16 2 0.06
17 18 0.50
18 11 0.31
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (17 bp):
TAAAAAACTAAAAAAAA
Found at i:110615862 original size:28 final size:27
Alignment explanation
Indices: 110615796--110615897 Score: 88
Period size: 27 Copynumber: 3.8 Consensus size: 27
110615786 ATAAACAAAT
* *
110615796 AAAATAAATAAA-ATAAGAAAA-TAAGAA
1 AAAATAAA-AAACTTAAAAAAATTAA-AA
* *
110615823 AAAATATAAAACTTTAAAAAATTAAAGA
1 AAAATAAAAAACTTAAAAAAATTAAA-A
*
110615851 AAAATAAAAAAC-TAAAAAAAGTAAAA
1 AAAATAAAAAACTTAAAAAAATTAAAA
110615877 AAAA-AAACAAA-TTAAAAAAAT
1 AAAATAAA-AAACTTAAAAAAAT
110615898 CAGAAGCAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
25 3 0.05
26 19 0.31
27 25 0.40
28 15 0.24
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (27 bp):
AAAATAAAAAACTTAAAAAAATTAAAA
Found at i:110616115 original size:21 final size:21
Alignment explanation
Indices: 110616093--110616147 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 21
110616083 ATGTTTAAAT
110616093 ATTATTAAAAAT-ATATTT-A
1 ATTATTAAAAATAATATTTAA
110616112 A-TATTAAAAATAATATTTAAA
1 ATTATTAAAAATAATATTT-AA
110616133 ATT-TTAAAAAATAAT
1 ATTATT-AAAAATAAT
110616148 TTCAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 10 0.32
19 7 0.23
21 4 0.13
22 10 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTATTAAAAATAATATTTAA
Found at i:110616116 original size:18 final size:19
Alignment explanation
Indices: 110616095--110616131 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
110616085 GTTTAAATAT
110616095 TATTAAAAAT-ATATTTAA
1 TATTAAAAATAATATTTAA
110616113 TATTAAAAATAATATTTAA
1 TATTAAAAATAATATTTAA
110616132 AATTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TATTAAAAATAATATTTAA
Found at i:110616186 original size:36 final size:35
Alignment explanation
Indices: 110616117--110616245 Score: 199
Period size: 36 Copynumber: 3.7 Consensus size: 35
110616107 ATTTAATATT
110616117 AAAAATA-ATATTTAAAATTTTAAAAAATAATTTC
1 AAAAATATATATTTAAAATTTTAAAAAATAATTTC
* *
110616151 AAAAATATATTTTTAAAATTTATAAGAAATAATTTC
1 AAAAATATATATTTAAAATTT-TAAAAAATAATTTC
*
110616187 AAATATATATATTTAAAATTTTAAAAAATAATTT-
1 AAAAATATATATTTAAAATTTTAAAAAATAATTTC
*
110616221 AAAAATATATATTTGAAATTTTAAA
1 AAAAATATATATTTAAAATTTTAAA
110616246 GATATTTAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
34 30 0.35
35 24 0.28
36 32 0.37
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (35 bp):
AAAAATATATATTTAAAATTTTAAAAAATAATTTC
Found at i:110616424 original size:34 final size:33
Alignment explanation
Indices: 110616378--110616443 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
110616368 AATATATATT
*
110616378 TTTAAAATTTATAAGAAATAATTTTAAAAAATAA
1 TTTAAAAATTATAAGAAA-AATTTTAAAAAATAA
***
110616412 TTTAAAAATTATATTTAAAATTTTAAAAAATA
1 TTTAAAAATTATAAGAAAAATTTTAAAAAATA
110616444 TATATTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (33 bp):
TTTAAAAATTATAAGAAAAATTTTAAAAAATAA
Found at i:110616427 original size:13 final size:12
Alignment explanation
Indices: 110616383--110616431 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
110616373 ATATTTTTAA
110616383 AATTTATAAGAAAT
1 AATTTA-AA-AAAT
110616397 AATTTTAAAAAAT
1 AA-TTTAAAAAAT
*
110616410 AATTTAAAAATT
1 AATTTAAAAAAT
110616422 ATATTTAAAA
1 A-ATTTAAAA
110616432 TTTTAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 10 0.31
13 14 0.44
14 4 0.12
15 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
AATTTAAAAAAT
Found at i:110616436 original size:21 final size:23
Alignment explanation
Indices: 110616367--110616488 Score: 92
Period size: 23 Copynumber: 5.2 Consensus size: 23
110616357 AATTAATTTC
*
110616367 AAATATATATTTTTAAAATTTATAA
1 AAATATATA-TTTAAAAATTT-TAA
110616392 GAAATA-AT-TTTAAAAAATAATTTAA
1 -AAATATATATTT-AAAAAT--TTTAA
110616417 AAAT-TATATTT-AAAATTTTAAA
1 AAATATATATTTAAAAATTTT-AA
* *
110616439 AAATATATATTATAAAAAATTT-C
1 AAATATATATT-TAAAAATTTTAA
* *
110616462 AAATATATATTTCAAAATTTTTA
1 AAATATATATTTAAAAATTTTAA
110616485 AAAT
1 AAAT
110616489 TAATAACAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
21 3 0.04
22 14 0.17
23 29 0.36
24 12 0.15
25 15 0.19
26 7 0.09
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.43
Consensus pattern (23 bp):
AAATATATATTTAAAAATTTTAA
Found at i:110616439 original size:215 final size:215
Alignment explanation
Indices: 110616024--110616449 Score: 623
Period size: 215 Copynumber: 2.0 Consensus size: 215
110616014 TTTTAATTAT
110616024 TTTTAAAGATATTTAAAACTTTTTAAAAAAATTATAAAAAATTTATTTAAAAATTTTAAATGTTT
1 TTTTAAAGATATTTAAAACTTTTTAAAAAAATTATAAAAAATTTATTTAAAAATTTTAAATGTTT
*
110616089 AAATATTATTAAAAATATATTTAATATTAAAAATAATATTTAAAATTTTAAAAAATAATTTCAAA
66 AAATATTATTAAAAATATATTTAATATTAAAAATAATATTTAAAATTCTAAAAAATAATTTCAAA
*
110616154 AATATATTTTTAAAATTTATAAGAAATAATTTCAAATATATATATTTAAAATTTTAAAAAATAAT
131 AATATATTTTTAAAATTTATAAGAAATAATTTCAAATAAATATATTTAAAATTTTAAAAAAT-AT
110616219 TT-AAAAATATATATTTGAAA
195 TTAAAAAATATATATTTGAAA
* ****
110616239 TTTTAAAGATATTTAAACCTTTTTAAATTTTTTAT-AAAAATTTATTTAAAAATTTT-AATGTTT
1 TTTTAAAGATATTTAAAACTTTTTAAAAAAATTATAAAAAATTTATTTAAAAATTTTAAATGTTT
*
110616302 AAATATTATTAAAAATATATTTAGTATTAAAAAAATAATATTTAAAA-TCTAGAAAAATTAATTT
66 AAATATTATTAAAAATATATTTAATATT--AAAAATAATATTTAAAATTCTA-AAAAA-TAATTT
* * **
110616366 CAAATATATATTTTTAAAATTTATAAGAAATAATTTTAAA-AAATA-ATTTAAAAATTATATTTA
127 CAAAAATATATTTTTAAAATTTATAAGAAATAATTTCAAATAAATATATTT-AAAATT-T-TAAA
110616429 AAAT-TTTAAAAAATATATATT
189 AAATATTTAAAAAATATATATT
110616450 ATAAAAAATT
Statistics
Matches: 191, Mismatches: 12, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
213 34 0.18
214 28 0.15
215 65 0.34
216 58 0.30
217 6 0.03
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (215 bp):
TTTTAAAGATATTTAAAACTTTTTAAAAAAATTATAAAAAATTTATTTAAAAATTTTAAATGTTT
AAATATTATTAAAAATATATTTAATATTAAAAATAATATTTAAAATTCTAAAAAATAATTTCAAA
AATATATTTTTAAAATTTATAAGAAATAATTTCAAATAAATATATTTAAAATTTTAAAAAATATT
TAAAAAATATATATTTGAAA
Found at i:110616479 original size:47 final size:46
Alignment explanation
Indices: 110616354--110616504 Score: 153
Period size: 47 Copynumber: 3.2 Consensus size: 46
110616344 TAAAATCTAG
* * *
110616354 AAAAATTAATTTCAAATATATATTTTTAAAATTTATAAGAAATAATTTT
1 AAAAAATAATTTCAAATATATA--TTTAAAATTT-TAAAAAATAATATT
*
110616403 AAAAAATAATTT-AAAAATTATATTTAAAATTTTAAAAAATATATATT
1 AAAAAATAATTTCAAATA-TATATTTAAAATTTTAAAAAATA-ATATT
* * * **
110616450 ATAAAA-AATTTCAAATATATATTTCAAAATTTTTAAAATTAATAAC
1 AAAAAATAATTTCAAATATATATTT-AAAATTTTAAAAAATAATATT
110616496 AAAAAATAA
1 AAAAAATAA
110616505 AATAAATAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
46 28 0.33
47 39 0.45
48 4 0.05
49 15 0.17
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.40
Consensus pattern (46 bp):
AAAAAATAATTTCAAATATATATTTAAAATTTTAAAAAATAATATT
Found at i:110616545 original size:22 final size:21
Alignment explanation
Indices: 110616498--110616538 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
110616488 TTAATAACAA
110616498 AAAATAAAATAA-ATAAATAAAC
1 AAAATAAAATAAGA-AAA-AAAC
110616520 AAAATAAAATAAGAAAAAA
1 AAAATAAAATAAGAAAAAA
110616539 TATAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 15 0.83
23 1 0.06
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (21 bp):
AAAATAAAATAAGAAAAAAAC
Found at i:110622132 original size:17 final size:17
Alignment explanation
Indices: 110622112--110622145 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
110622102 AAATAGATTT
110622112 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
110622129 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
110622146 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:110624444 original size:33 final size:36
Alignment explanation
Indices: 110624368--110624446 Score: 94
Period size: 33 Copynumber: 2.3 Consensus size: 36
110624358 ATTTTTTTAA
*
110624368 AATATTATTATTTCTCAAAATATAAACTTTATATATG
1 AATA-TATTATTTCTCAAAATATAAACTTTATACATG
* *
110624405 AA-ATATTATTT-TTAAAATTTAAA-TTTATACAT-
1 AATATATTATTTCTCAAAATATAAACTTTATACATG
110624437 AATATATTAT
1 AATATATTAT
110624447 ACTTTCACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 2 0.05
33 15 0.39
34 10 0.26
35 8 0.21
36 1 0.03
37 2 0.05
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (36 bp):
AATATATTATTTCTCAAAATATAAACTTTATACATG
Found at i:110633395 original size:45 final size:45
Alignment explanation
Indices: 110633321--110633416 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
110633311 CCCAGCAGTT
* * *
110633321 ATTTGAATTTCATTATTAGGTTCAACCATACCATAACCATTACCAG
1 ATTT-AATTCCATTATTAGGTTCAACCATACCATAAACAATACCAG
110633367 ATTTAATTCCATTATTAGGTTCAACCATACCATAAACAATACCAG
1 ATTTAATTCCATTATTAGGTTCAACCATACCATAAACAATACCAG
110633412 ATTTA
1 ATTTA
110633417 CAAGCACAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 43 0.91
46 4 0.09
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (45 bp):
ATTTAATTCCATTATTAGGTTCAACCATACCATAAACAATACCAG
Done.