Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 77 of 125
Found at i:24108687 original size:78 final size:78
Alignment explanation
Indices: 24108528--24108955 Score: 543
Period size: 78 Copynumber: 5.5 Consensus size: 78
24108518 GGTAAATAAA
* * * * * *
24108528 AGATTGGGTGTTTCAATTTGCCCCATGATCGGGGTAAGAAATTGCA-TGTCTTAAATCTGCCTTT
1 AGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAAATTGGATTGTCTTCAATCTGCCTTC
24108592 TGATTAAGGTAAG
66 TGATTAAGGTAAG
* * *
24108605 AGATTGGATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGGATTGTCTTCAATCTGCCTTT
1 AGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAAATTGGATTGTCTTCAATCTGCCTTC
24108670 TGATTAAGGTAAG
66 TGATTAAGGTAAG
* * * * * *
24108683 AGATTGGATGCTTTAATCTGCCCCATGATCGGGGTAAGAGATTAGTTTGTCTTCAATTTGCCCTC
1 AGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAAATTGGATTGTCTTCAATCTGCCTTC
* *
24108748 TGATTAGGGTAAA
66 TGATTAAGGTAAG
* * * * *
24108761 AGATTGGATGCTTCAAGCTGCCCTATGATTGGGGTAAGAAATTGGTTTGTCTTCAATCTGCCCTC
1 AGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAAATTGGATTGTCTTCAATCTGCCTTC
* *
24108826 TGATTAGGGTAAA
66 TGATTAAGGTAAG
* * * ** * * *
24108839 AGATTAGATGCTTCAATTTGCCCTATGATCTAGGTAAGAAATTGGATTATTTTCAATCTACCTTC
1 AGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAAATTGGATTGTCTTCAATCTGCCTTC
*
24108904 TAATTAAGGTAAG
66 TGATTAAGGTAAG
*
24108917 AGATTGGATGCTTCAATCTGCCCCATGATTGGGGTAAGA
1 AGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGA
24108956 GATTAGTTTT
Statistics
Matches: 309, Mismatches: 41, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
77 42 0.14
78 267 0.86
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (78 bp):
AGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAAATTGGATTGTCTTCAATCTGCCTTC
TGATTAAGGTAAG
Found at i:24108937 original size:234 final size:233
Alignment explanation
Indices: 24108524--24108964 Score: 648
Period size: 234 Copynumber: 1.9 Consensus size: 233
24108514 TTAGGGTAAA
* * **
24108524 TAAAAGATTGGGTGTTTCAATTTGCCCCATGATCGGGGTAAGAAATTGCATGTCTTAAATCTGCC
1 TAAAAGATTGGATGCTTCAAGCTGCCCCATGATCGGGGTAAGAAATTGCATGTCTTAAATCTGCC
* * * * * * *
24108589 TTTTGATTAAGGTAAGAGATTGGATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGGATTG
66 CTCTGATTAAGGTAAAAGATTAGATGCTTCAATTTGCCCCATGATCGAGGTAAGAAATTGGATTA
* * * *
24108654 TCTTCAATCTGCCTTTTGATTAAGGTAAGAGATTGGATGCTTTAATCTGCCCCATGATCGGGGTA
131 TCTTCAATCTACCTTCTAATTAAGGTAAGAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTA
24108719 AGAGATTAGTTTGTCTTCAATTTGCCCTCTGATTAGGG
196 AGAGATTAGTTTGTCTTCAATTTGCCCTCTGATTAGGG
* * ** *
24108757 TAAAAGATTGGATGCTTCAAGCTGCCCTATGATTGGGGTAAGAAATTGGTTTGTCTTCAATCTGC
1 TAAAAGATTGGATGCTTCAAGCTGCCCCATGATCGGGGTAAGAAATT-GCATGTCTTAAATCTGC
* * *
24108822 CCTCTGATTAGGGTAAAAGATTAGATGCTTCAATTTGCCCTATGATCTAGGTAAGAAATTGGATT
65 CCTCTGATTAAGGTAAAAGATTAGATGCTTCAATTTGCCCCATGATCGAGGTAAGAAATTGGATT
* *
24108887 ATTTTCAATCTACCTTCTAATTAAGGTAAGAGATTGGATGCTTCAATCTGCCCCATGATTGGGGT
130 ATCTTCAATCTACCTTCTAATTAAGGTAAGAGATTGGATGCTTCAATCTGCCCCATGATCGGGGT
24108952 AAGAGATTAGTTT
195 AAGAGATTAGTTT
24108965 TGCTTCACTG
Statistics
Matches: 182, Mismatches: 25, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
233 41 0.23
234 141 0.77
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (233 bp):
TAAAAGATTGGATGCTTCAAGCTGCCCCATGATCGGGGTAAGAAATTGCATGTCTTAAATCTGCC
CTCTGATTAAGGTAAAAGATTAGATGCTTCAATTTGCCCCATGATCGAGGTAAGAAATTGGATTA
TCTTCAATCTACCTTCTAATTAAGGTAAGAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTA
AGAGATTAGTTTGTCTTCAATTTGCCCTCTGATTAGGG
Found at i:24120841 original size:59 final size:58
Alignment explanation
Indices: 24120771--24120975 Score: 177
Period size: 60 Copynumber: 3.5 Consensus size: 58
24120761 AAGAAAAACG
* * *
24120771 GGGTCACAAATGAAAATTT-GAAAAGTTTACGGGTTAAAATGTAATTTTCAAAAAGTTTAA
1 GGGTCA-AAATGAAAATTTAG-AAAGTTTAAGGG-TAAAATGTAGTTTTTAAAAAGTTTAA
* * *
24120831 GGGTCAAAATGAAATATTTAGAAAGTTCAAGGGCTAAAATTTAGTTTTTAAACAA-TTT-G
1 GGGTCAAAATGAAA-ATTTAGAAAGTTTAAGGG-TAAAATGTAGTTTTTAAA-AAGTTTAA
* * * * * *
24120890 GGGCCAAAATGAAATTTTTATAAAG-TTAAGGGCAAAATGTAGTTTTTAGAAAGTGTAA
1 GGGTCAAAATGAAA-ATTTAGAAAGTTTAAGGGTAAAATGTAGTTTTTAAAAAGTTTAA
*
24120948 GGGTTAAAAT-AAAATTTTTAGAAAGTTT
1 GGGTCAAAATGAAAA--TTTAGAAAGTTT
24120976 GGGAGCCAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
56 2 0.02
57 20 0.17
58 22 0.19
59 32 0.27
60 38 0.32
61 3 0.03
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (58 bp):
GGGTCAAAATGAAAATTTAGAAAGTTTAAGGGTAAAATGTAGTTTTTAAAAAGTTTAA
Found at i:24120856 original size:30 final size:30
Alignment explanation
Indices: 24120771--24120975 Score: 152
Period size: 30 Copynumber: 6.9 Consensus size: 30
24120761 AAGAAAAACG
* * *
24120771 GGGTCACAAATGAAAATTTGA-AAAGTTTAC
1 GGGTCA-AAATGAAATTTTTAGAAAGTTTAA
* * * *
24120801 GGGTTAAAATGTAATTTTCAAAAAGTTTAA
1 GGGTCAAAATGAAATTTTTAGAAAGTTTAA
* *
24120831 GGGTCAAAATGAAATATTTAGAAAGTTCAA
1 GGGTCAAAATGAAATTTTTAGAAAGTTTAA
** * * *
24120861 GGG-CTAAAATTTAGTTTTTA-AACAATTT-G
1 GGGTC-AAAATGAAATTTTTAGAA-AGTTTAA
* *
24120890 GGGCCAAAATGAAATTTTTATAAAG-TTAA
1 GGGTCAAAATGAAATTTTTAGAAAGTTTAA
* * *
24120919 GGG-CAAAATGTAGTTTTTAGAAAGTGTAA
1 GGGTCAAAATGAAATTTTTAGAAAGTTTAA
* *
24120948 GGGTTAAAATAAAATTTTTAGAAAGTTT
1 GGGTCAAAATGAAATTTTTAGAAAGTTT
24120976 GGGAGCCAAA
Statistics
Matches: 135, Mismatches: 32, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
28 20 0.15
29 39 0.29
30 76 0.56
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (30 bp):
GGGTCAAAATGAAATTTTTAGAAAGTTTAA
Found at i:24120950 original size:87 final size:90
Alignment explanation
Indices: 24120806--24120996 Score: 223
Period size: 87 Copynumber: 2.2 Consensus size: 90
24120796 TTTACGGGTT
*
24120806 AAAATGTAATTTTCAAAAAGTTTAAGGGTCAAAATGAAATATTTAGAAAGTTCAAGGGCTAAAAT
1 AAAATGTAATTTTTAAAAAGTTTAAGGGTCAAAATGAAATATTTAGAAAGTTCAAGGGCTAAAAT
** *
24120871 TTAGTTTTTA-AACAATTTGGG-GCC
66 AAAATTTTTAGAA-AATTTGGGAGCC
* * * * * *
24120895 AAAATGAAATTTTTATAAAG-TTAAGGG-CAAAATGTAGTTTTTAGAAAGTGT-AAGGGTTAAAA
1 AAAATGTAATTTTTAAAAAGTTTAAGGGTCAAAATGAAATATTTAGAAAGT-TCAAGGGCTAAAA
*
24120957 TAAAATTTTTAGAAAGTTTGGGAGCC
65 TAAAATTTTTAGAAAATTTGGGAGCC
24120983 -AAATGTAATTTTTA
1 AAAATGTAATTTTTA
24120997 GAATAAAACA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
87 57 0.66
88 13 0.15
89 17 0.20
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (90 bp):
AAAATGTAATTTTTAAAAAGTTTAAGGGTCAAAATGAAATATTTAGAAAGTTCAAGGGCTAAAAT
AAAATTTTTAGAAAATTTGGGAGCC
Found at i:24122843 original size:17 final size:17
Alignment explanation
Indices: 24122800--24122853 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 17
24122790 GATACTCAAA
*
24122800 TTGAACAATTGAATCTCT
1 TTGAACAATTGTATCT-T
*
24122818 TGATGAACAGTTGTATCTT
1 T--TGAACAATTGTATCTT
24122837 TTGAACAATTGTATCTT
1 TTGAACAATTGTATCTT
24122854 ATGGTGAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 15 0.48
18 1 0.03
19 2 0.06
20 13 0.42
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (17 bp):
TTGAACAATTGTATCTT
Found at i:24126566 original size:82 final size:82
Alignment explanation
Indices: 24126416--24126577 Score: 243
Period size: 82 Copynumber: 2.0 Consensus size: 82
24126406 TGAAAAACCG
* * * * *
24126416 TTGGTTAATCCAACTAGAGCTGGGCTCACTTATTGCGGTTTATCTGCTAGGTACTGGATGCTAGG
1 TTGGTTAATCCAACTAAAGCTGGGCTCACTTATTGCGGTTTATCCGCTAGGCACCGGATGCCAGG
24126481 AATTGACAGAATTATCA
66 AATTGACAGAATTATCA
* * *
24126498 TTGGTTAATCCAACTAAAGTTGGGCTCACTTATTGCGGTTTATCCGCTAGGCACCGGGTGCCATG
1 TTGGTTAATCCAACTAAAGCTGGGCTCACTTATTGCGGTTTATCCGCTAGGCACCGGATGCCAGG
*
24126563 AATTGACAGATTTAT
66 AATTGACAGAATTAT
24126578 ACGGTGATAA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (82 bp):
TTGGTTAATCCAACTAAAGCTGGGCTCACTTATTGCGGTTTATCCGCTAGGCACCGGATGCCAGG
AATTGACAGAATTATCA
Found at i:24137829 original size:6 final size:7
Alignment explanation
Indices: 24137789--24137833 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
24137779 TCATTTGTTA
24137789 ATTTTTT
1 ATTTTTT
*
24137796 ATGTTTT
1 ATTTTTT
* *
24137803 ATGTATAT
1 AT-TTTTT
24137811 ATTTTTT
1 ATTTTTT
24137818 ATTTTTT
1 ATTTTTT
24137825 ATTTTTT
1 ATTTTTT
24137832 AT
1 AT
24137834 AATTTTCTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 27 0.87
8 4 0.13
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (7 bp):
ATTTTTT
Found at i:24137995 original size:10 final size:11
Alignment explanation
Indices: 24137953--24137993 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
24137943 GAGAGTAACA
24137953 TAAAT-TTTAT
1 TAAATATTTAT
*
24137963 TAAATTTTTAT
1 TAAATATTTAT
24137974 TAAAATATTT-T
1 T-AAATATTTAT
24137985 TAAATATTT
1 TAAATATTT
24137994 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 13 0.46
11 8 0.29
12 7 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TAAATATTTAT
Found at i:24140759 original size:41 final size:41
Alignment explanation
Indices: 24140714--24140844 Score: 172
Period size: 41 Copynumber: 3.2 Consensus size: 41
24140704 GACTATCTCA
*
24140714 ACCTTTAGCGGCGCTTTCACATAAGCGTCACTATTGCTCTG
1 ACCTTTAGCGGCGCTTTCACATAAGCGCCACTATTGCTCTG
* * * * * *
24140755 ACCTTTAGTGACGCTTTCCCATAAGCGCCGCTATTACTCTA
1 ACCTTTAGCGGCGCTTTCACATAAGCGCCACTATTGCTCTG
* * *
24140796 ACCTTTAGCGGCGCTTTCTCAAAAGCGCCACTATTGCTTTG
1 ACCTTTAGCGGCGCTTTCACATAAGCGCCACTATTGCTCTG
24140837 ACCTTTAG
1 ACCTTTAG
24140845 GCTATTGCTC
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.32
Consensus pattern (41 bp):
ACCTTTAGCGGCGCTTTCACATAAGCGCCACTATTGCTCTG
Found at i:24140851 original size:20 final size:20
Alignment explanation
Indices: 24140826--24140863 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24140816 AAAAGCGCCA
*
24140826 CTATTGCTTTGACCTTTAGG
1 CTATTGCTCTGACCTTTAGG
24140846 CTATTGCTCTGACCTTTA
1 CTATTGCTCTGACCTTTA
24140864 ACGCTGCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.45
Consensus pattern (20 bp):
CTATTGCTCTGACCTTTAGG
Found at i:24140936 original size:41 final size:41
Alignment explanation
Indices: 24140879--24141258 Score: 490
Period size: 41 Copynumber: 9.3 Consensus size: 41
24140869 GCTTAAAGCT
24140879 GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCC
1 GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCC
24140920 GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCC
1 GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCC
* * * * *
24140961 GCTATTACTCTGACCTTTAGCAGCGCCTTCACATAAGCGTC
1 GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCC
* ** ** * *
24141002 GCTATTGCTTTGACCTTTAGCGGCATTTTCTAAAAAGCGCA
1 GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCC
* * *
24141043 GCTATTGCTCTGACCTTTAGCGACGCTTGCCCGTAAGCGCC
1 GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCC
** *
24141084 GCTATTAATCTGACCTTTAGCGGCGCTTTCCCATAAGTGCC
1 GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCC
* * * *
24141125 GCTATTGCTCTAACCTTTAACGGTGCTTTCCTATAAGCGCC
1 GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCC
* * * ** *
24141166 TCTATTGCTCTGACCTTTAACGGAGCTTTTTCATAAGCGTC
1 GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCC
* *
24141207 GCTATTGCTCTGACCTTTAGCGGCGCTTTTCCATAAGTGCC
1 GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCC
24141248 GCTATTGCTCT
1 GCTATTGCTCT
24141259 ATCTTTTGCG
Statistics
Matches: 287, Mismatches: 52, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 287 1.00
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.32
Consensus pattern (41 bp):
GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCC
Found at i:24141057 original size:123 final size:122
Alignment explanation
Indices: 24140879--24141304 Score: 484
Period size: 123 Copynumber: 3.5 Consensus size: 122
24140869 GCTTAAAGCT
** ** *
24140879 GCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGC
1 GCTATTGCTCTGACCTTTAGCGGCATTTTCTAAAAAGCGCCGCTATTGCTCTGACCTTTAGCGGC
* * * *
24140944 GCTTTCCCATAAGCGCCGCTATTACTCTGACCTTTAGCAGCGCCTTCACATAAGCGTC
66 GCTTTCCCATAAGCGCCGCTATTACTCTGACCTTTAGCGGCGCTTTC-CATAAGTGCC
* * *
24141002 GCTATTGCTTTGACCTTTAGCGGCATTTTCTAAAAAGCGCAGCTATTGCTCTGACCTTTAGCGAC
1 GCTATTGCTCTGACCTTTAGCGGCATTTTCTAAAAAGCGCCGCTATTGCTCTGACCTTTAGCGGC
* * *
24141067 GCTTGCCCGTAAGCGCCGCTATTAATCTGACCTTTAGCGGCGCTTTCCCATAAGTGCC
66 GCTTTCCCATAAGCGCCGCTATTACTCTGACCTTTAGCGGCGCTTT-CCATAAGTGCC
* * * * * *
24141125 GCTATTGCTCTAACCTTTAACGGTGC-TTTCCT-ATAAGCGCCTCTATTGCTCTGACCTTTAACG
1 GCTATTGCTCTGACCTTTAGC-G-GCATTTTCTAAAAAGCGCCGCTATTGCTCTGACCTTTAGCG
* ** * *
24141188 GAGCTTTTTCATAAGCGTCGCTATTGCTCTGACCTTTAGCGGCGCTTTTCCATAAGTGCC
64 GCGCTTTCCCATAAGCGCCGCTATTACTCTGACCTTTAGCGGCGC-TTTCCATAAGTGCC
* * * * *
24141248 GCTATTGCTCT-ATCTTTTGCGGCATTTATGTAAAAA-CGTCGCTATTGCT-TTACCTTT
1 GCTATTGCTCTGACCTTTAGCGGCATTT-TCTAAAAAGCGCCGCTATTGCTCTGACCTTT
24141305 TGAGGCGTTT
Statistics
Matches: 255, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
120 2 0.01
121 11 0.04
122 18 0.07
123 212 0.83
124 10 0.04
125 2 0.01
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (122 bp):
GCTATTGCTCTGACCTTTAGCGGCATTTTCTAAAAAGCGCCGCTATTGCTCTGACCTTTAGCGGC
GCTTTCCCATAAGCGCCGCTATTACTCTGACCTTTAGCGGCGCTTTCCATAAGTGCC
Found at i:24142497 original size:18 final size:18
Alignment explanation
Indices: 24142474--24142508 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24142464 CCTTTGTTAC
*
24142474 TTTTCTTGTTTTCTTTGT
1 TTTTCTTATTTTCTTTGT
*
24142492 TTTTCTTATTTTGTTTG
1 TTTTCTTATTTTCTTTG
24142509 CTTGACGAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.09, G:0.11, T:0.77
Consensus pattern (18 bp):
TTTTCTTATTTTCTTTGT
Found at i:24148621 original size:32 final size:32
Alignment explanation
Indices: 24148566--24149243 Score: 658
Period size: 32 Copynumber: 21.3 Consensus size: 32
24148556 AAGATTGTAT
* * *
24148566 GAGCTAATAAATCAGTAAATAGTATGCTCGTAA
1 GAGCT-ATCAATCTGTAACTAGTATGCTCGTAA
* * * *
24148599 GAGCAATCAATCTATAACTAGTATGCTTGTAG
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
* * * *
24148631 GAGCTACCAATCTATAAATAGTATGCTCATAA
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
* *
24148663 GAGCTATCAATTTGTAAATAGTATGCTCGTAA
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
* * *
24148695 GAGCTACCAATCTATAACCAGTATGCTCGTAA
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
* * * * * *
24148727 GAGCTATTAATCTATAAATAATATACTTGTAA
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
* *
24148759 GAGCTATCAATTTGTAAATAGTATGCTCGTAA
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
*
24148791 GAGCTATCAATCTGTAA-TAGTATGCTCATAA
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
*
24148822 GAGCTATCAGAT-TGTAACCAGTATGCTCGTAA
1 GAGCTATCA-ATCTGTAACTAGTATGCTCGTAA
*
24148854 GAGCTATCAATCTGTAAAC-AGTATGCTCATAA
1 GAGCTATCAATCTGT-AACTAGTATGCTCGTAA
* *
24148886 GAGCAATCAATCTGTAAATAGTATGCTCGTAA
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
24148918 GAGCTATCAATCTGTAAC-AGTATGCTCGTAA
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
* * * *
24148949 AAGCTATCAGAT-TGTAGCCAGTATACTCGTAA
1 GAGCTATCA-ATCTGTAACTAGTATGCTCGTAA
* *
24148981 AAGCTATCAATCTGTGAAC-AGTATGCTCATAA
1 GAGCTATCAATCTGT-AACTAGTATGCTCGTAA
* * *
24149013 GAGTTATCAATCTATAAATAGTATGCTCGTAA
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
** * * *
24149045 GATTTATCAATCTGTAGC-AGTAAGCTCATAA
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
* * *
24149076 GAGCTACCAGTCTGTAACCAGTATGCTCGTAA
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
* * *
24149108 AAGATATCAATTTGTAA-TCAGTATGCTCGTAA
1 GAGCTATCAATCTGTAACT-AGTATGCTCGTAA
* ** *
24149140 AAGCTATCAATCTGTTAAC-AGTAAACTCATAA
1 GAGCTATCAATCTG-TAACTAGTATGCTCGTAA
* * * * *
24149172 GAGCTATCAATCTATGAC-AATAAGCTCGCAA
1 GAGCTATCAATCTGTAACTAGTATGCTCGTAA
* * *
24149203 GAGCTGTCAATCTGTGAA-TTGTAAGCTCGTAA
1 GAGCTATCAATCTGT-AACTAGTATGCTCGTAA
24149235 GAGCTATCA
1 GAGCTATCA
24149244 GTCTATGAAC
Statistics
Matches: 535, Mismatches: 94, Indels: 33
0.81 0.14 0.05
Matches are distributed among these distances:
31 110 0.21
32 413 0.77
33 12 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (32 bp):
GAGCTATCAATCTGTAACTAGTATGCTCGTAA
Found at i:24148829 original size:159 final size:159
Alignment explanation
Indices: 24148566--24149243 Score: 697
Period size: 159 Copynumber: 4.3 Consensus size: 159
24148556 AAGATTGTAT
* * * * * *
24148566 GAGCTAATAAATCAGTAAATAGTATGCTCGTAAGAGCAATCAATCTAT-AACTAGTATGCTTGTA
1 GAGCT-ATCAATCTGTAAATAGTATACTCGTAAGAGCTATCAATCTGTAAAC-AGTATGCTCGTA
** * * * * * *
24148630 GGAGCTACCAATCTATAAATAGTATGCTCATAAGAGCTATCAATTTGTAAATAGTATGCTCGTAA
64 AAAGCTATCAATCTGT-AATAGTATGCTCATAAAAGCTATCAATCTGTAAACAGTATGCTCATAA
* *
24148695 GAGCTACCAATCTATAACCAGTATGCTCGTAA
128 GAGCTATCAATCTATAAACAGTATGCTCGTAA
* * * * * * *
24148727 GAGCTATTAATCTATAAATAATATACTTGTAAGAGCTATCAATTTGTAAATAGTATGCTCGTAAG
1 GAGCTATCAATCTGTAAATAGTATACTCGTAAGAGCTATCAATCTGTAAACAGTATGCTCGTAAA
* * *
24148792 AGCTATCAATCTGTAATAGTATGCTCATAAGAGCTATCAGAT-TGTAACCAGTATGCTCGTAAGA
66 AGCTATCAATCTGTAATAGTATGCTCATAAAAGCTATCA-ATCTGTAAACAGTATGCTCATAAGA
* *
24148856 GCTATCAATCTGTAAACAGTATGCTCATAA
130 GCTATCAATCTATAAACAGTATGCTCGTAA
* *
24148886 GAGCAATCAATCTGTAAATAGTATGCTCGTAAGAGCTATCAATCTGT-AACAGTATGCTCGTAAA
1 GAGCTATCAATCTGTAAATAGTATACTCGTAAGAGCTATCAATCTGTAAACAGTATGCTCGTAAA
** * * *
24148950 AGCTATCAGAT-TGTAGCCAGTATACTCGTAAAAGCTATCAATCTGTGAACAGTATGCTCATAAG
66 AGCTATCA-ATCTGTA-ATAGTATGCTCATAAAAGCTATCAATCTGTAAACAGTATGCTCATAAG
* *
24149014 AGTTATCAATCTATAAATAGTATGCTCGTAA
129 AGCTATCAATCTATAAACAGTATGCTCGTAA
** ** * * * *
24149045 GATTTATCAATCTGT-AGCAGTA-AGCTCATAAGAGCTACCAGTCTGTAACCAGTATGCTCGTAA
1 GAGCTATCAATCTGTAAATAGTATA-CTCGTAAGAGCTATCAATCTGTAAACAGTATGCTCGTAA
* * * * **
24149108 AAGATATCAATTTGTAATCAGTATGCTCGTAAAAGCTATCAATCTGTTAACAGTAAACTCATAAG
65 AAGCTATCAATCTGTAAT-AGTATGCTCATAAAAGCTATCAATCTGTAAACAGTATGCTCATAAG
* * * *
24149173 AGCTATCAATCTAT-GACAATAAGCTCGCAA
129 AGCTATCAATCTATAAACAGTATGCTCGTAA
* * *
24149203 GAGCTGTCAATCTGTGAATTGTA-AGCTCGTAAGAGCTATCA
1 GAGCTATCAATCTGTAAATAGTATA-CTCGTAAGAGCTATCA
24149244 GTCTATGAAC
Statistics
Matches: 435, Mismatches: 72, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
158 78 0.18
159 291 0.67
160 59 0.14
161 7 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (159 bp):
GAGCTATCAATCTGTAAATAGTATACTCGTAAGAGCTATCAATCTGTAAACAGTATGCTCGTAAA
AGCTATCAATCTGTAATAGTATGCTCATAAAAGCTATCAATCTGTAAACAGTATGCTCATAAGAG
CTATCAATCTATAAACAGTATGCTCGTAA
Found at i:24148887 original size:127 final size:128
Alignment explanation
Indices: 24148586--24149184 Score: 731
Period size: 127 Copynumber: 4.7 Consensus size: 128
24148576 ATCAGTAAAT
* * * * * *
24148586 AGTATGCTCGTAAGAGCAATCAATCTAT-AACTAGTATGCTTGTAGGAGCTACCAATCTATAAAT
1 AGTATGCTCGTAAGAGCTATCAATCTGTAAAC-AGTATGCTCGTAAGAGCTATCAATCTGTAAAT
* * * * *
24148650 AGTATGCTCATAAGAGCTATCAATTTGTAAATAGTATGCTCGTAAGAGCTACCA-ATCTATAACC
65 AGTATGCTCGTAAGAGCTATCAATCTGT-AACAGTATGCTCATAAGAGCTACCAGATCTGTAACC
* * * * * * *
24148714 AGTATGCTCGTAAGAGCTATTAATCTATAAATAATATACTTGTAAGAGCTATCAATTTGTAAATA
1 AGTATGCTCGTAAGAGCTATCAATCTGTAAACAGTATGCTCGTAAGAGCTATCAATCTGTAAATA
* *
24148779 GTATGCTCGTAAGAGCTATCAATCTGTAATAGTATGCTCATAAGAGCTATCAGAT-TGTAACC
66 GTATGCTCGTAAGAGCTATCAATCTGTAACAGTATGCTCATAAGAGCTACCAGATCTGTAACC
* *
24148841 AGTATGCTCGTAAGAGCTATCAATCTGTAAACAGTATGCTCATAAGAGCAATCAATCTGTAAATA
1 AGTATGCTCGTAAGAGCTATCAATCTGTAAACAGTATGCTCGTAAGAGCTATCAATCTGTAAATA
* * * *
24148906 GTATGCTCGTAAGAGCTATCAATCTGTAACAGTATGCTCGTAAAAGCTATCAGAT-TGTAGCC
66 GTATGCTCGTAAGAGCTATCAATCTGTAACAGTATGCTCATAAGAGCTACCAGATCTGTAACC
* * * * * *
24148968 AGTATACTCGTAAAAGCTATCAATCTGTGAACAGTATGCTCATAAGAGTTATCAATCTATAAATA
1 AGTATGCTCGTAAGAGCTATCAATCTGTAAACAGTATGCTCGTAAGAGCTATCAATCTGTAAATA
** * *
24149033 GTATGCTCGTAAGATTTATCAATCTGTAGCAGTAAGCTCATAAGAGCTACCAG-TCTGTAACC
66 GTATGCTCGTAAGAGCTATCAATCTGTAACAGTATGCTCATAAGAGCTACCAGATCTGTAACC
* * * * * * *
24149095 AGTATGCTCGTAAAAGATATCAATTTGTAATCAGTATGCTCGTAAAAGCTATCAATCTGTTAACA
1 AGTATGCTCGTAAGAGCTATCAATCTGTAAACAGTATGCTCGTAAGAGCTATCAATCTGTAAATA
** *
24149160 GTAAACTCATAAGAGCTATCAATCT
66 GTATGCTCGTAAGAGCTATCAATCT
24149185 ATGACAATAA
Statistics
Matches: 411, Mismatches: 57, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
126 1 0.00
127 328 0.80
128 80 0.19
129 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (128 bp):
AGTATGCTCGTAAGAGCTATCAATCTGTAAACAGTATGCTCGTAAGAGCTATCAATCTGTAAATA
GTATGCTCGTAAGAGCTATCAATCTGTAACAGTATGCTCATAAGAGCTACCAGATCTGTAACC
Found at i:24149283 original size:64 final size:63
Alignment explanation
Indices: 24149141--24149284 Score: 189
Period size: 63 Copynumber: 2.3 Consensus size: 63
24149131 TGCTCGTAAA
* * ** *
24149141 AGCTATCAATCTGTTAACAGTAAACTCATAAGAGCTATCAATCTATGACAATAAGCTCGCAAG
1 AGCTGTCAATCTGTGAATTGTAAACTCATAAGAGCTATCAATCTATGACAATAAGCTCACAAG
* * *
24149204 AGCTGTCAATCTGTGAATTGTAAGCTCGTAAGAGCTATCAGTCTATGAACAATAAGCTCACAAG
1 AGCTGTCAATCTGTGAATTGTAAACTCATAAGAGCTATCAATCTATG-ACAATAAGCTCACAAG
* *
24149268 AGTTGTCAATTTGTGAA
1 AGCTGTCAATCTGTGAA
24149285 CATTGTTTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
63 40 0.57
64 30 0.43
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (63 bp):
AGCTGTCAATCTGTGAATTGTAAACTCATAAGAGCTATCAATCTATGACAATAAGCTCACAAG
Found at i:24150875 original size:49 final size:50
Alignment explanation
Indices: 24150781--24150878 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 50
24150771 AGATCTGAAT
*
24150781 AAAACAACATAAATAAATATTTATGTTTATGTAAAACACCAAATCTAAAC
1 AAAACAACATAAATAAATATTTATATTTATGTAAAACACCAAATCTAAAC
* *
24150831 AAAACAA-ATTAAATAAATA-TTATATTTATTTAAAACATCAAATCTAAA
1 AAAACAACA-TAAATAAATATTTATATTTATGTAAAACACCAAATCTAAA
24150879 ATAATTTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 27 0.61
50 17 0.39
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (50 bp):
AAAACAACATAAATAAATATTTATATTTATGTAAAACACCAAATCTAAAC
Found at i:24153034 original size:51 final size:51
Alignment explanation
Indices: 24152924--24153263 Score: 461
Period size: 51 Copynumber: 6.6 Consensus size: 51
24152914 TTTCATTTAA
* * *
24152924 TACTCACGATGACA-TATTGTCATCGGACCATTTAAT-TCGTCATGGATTCATT
1 TACTCACGATGACACT-TAGTCATCGGACC-TTTAATCT-GTAAAGGATTCATT
*
24152976 TACTCACGATGACACTTAGTCATCGGACCTTTAATCTGTAAAGGTTTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCTGTAAAGGATTCATT
* * * * *
24153027 TAGTCACGATGACACTTTGTCATCAGACCTTTAATCCGTAAAGGATTTATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCTGTAAAGGATTCATT
24153078 TACTCACGATGACACTTAGTCATCGGACCTTTAAT-TCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCT-GTAAAGGATTCATT
* * **
24153129 TAGTCACGATGACACTTAGTCATTGGACCTTTAATCCATAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCTGTAAAGGATTCATT
**
24153180 TACTCACGATGACACTTAGTCATCGGACCTAGAATCTGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCTGTAAAGGATTCATT
* *
24153231 TACTCACAATGACACTTAGTCATCAGACTCTTT
1 TACTCACGATGACACTTAGTCATCGGAC-CTTT
24153264 CGTTTATAGC
Statistics
Matches: 254, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
51 224 0.88
52 29 0.11
53 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.34
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCTGTAAAGGATTCATT
Found at i:24160377 original size:51 final size:51
Alignment explanation
Indices: 24160317--24160460 Score: 243
Period size: 51 Copynumber: 2.8 Consensus size: 51
24160307 AATTCGTCAT
24160317 GGATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGAAAA
1 GGATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGAAAA
* *
24160368 GGATTCATTTACTCACGATGACACTTAGTCATTGGACCTTTAATCCGTAAA
1 GGATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGAAAA
* *
24160419 GGATTCATTCACTCACAATGACACTTAGTCATCGGACTCTTT
1 GGATTCATTTACTCACGATGACACTTAGTCATCGGAC-CTTT
24160461 CGTTTATAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
51 83 0.95
52 4 0.05
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
GGATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGAAAA
Found at i:24162745 original size:27 final size:27
Alignment explanation
Indices: 24162701--24162753 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
24162691 CTTCACATAT
24162701 TTTCTTACTCATAATCTTCTCTTTTTCG
1 TTTCTTACTCATAATCTT-TCTTTTTCG
** *
24162729 TTTC-TACTCATTTTCTTTTTTTTTC
1 TTTCTTACTCATAATCTTTCTTTTTC
24162754 ACTATTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 7 0.32
27 11 0.50
28 4 0.18
ACGTcount: A:0.11, C:0.23, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTCTTACTCATAATCTTTCTTTTTCG
Found at i:24180862 original size:21 final size:21
Alignment explanation
Indices: 24180805--24180855 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
24180795 TAGAGGTAAG
*
24180805 ACTTGTATCGGTAGAAGAGTC
1 ACTTGTATCGGTAGAACAGTC
* *
24180826 ACTTGTACCGGTAGAACTGTC
1 ACTTGTATCGGTAGAACAGTC
24180847 ACTTGTATC
1 ACTTGTATC
24180856 ATTAGAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (21 bp):
ACTTGTATCGGTAGAACAGTC
Found at i:24185425 original size:4 final size:4
Alignment explanation
Indices: 24185407--24185444 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
24185397 TTAGTTGATA
* *
24185407 AAAT AAA- ATAT AAAT AAAT AAAT AGAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
24185445 ATGAAATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 27 0.93
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:24185435 original size:16 final size:15
Alignment explanation
Indices: 24185407--24185445 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
24185397 TTAGTTGATA
*
24185407 AAATAAAATATAAAT
1 AAATAAAAGATAAAT
24185422 AAATAAATAGATAAAT
1 AAATAAA-AGATAAAT
24185438 AAATAAAA
1 AAATAAAA
24185446 TGAAATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AAATAAAAGATAAAT
Found at i:24193909 original size:29 final size:30
Alignment explanation
Indices: 24193861--24193930 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 30
24193851 TTTTTTCTGG
* *
24193861 TTTAATTTAATATTTCAATTTGA-ATTTTT
1 TTTAATTTAATACTTAAATTTGACATTTTT
*
24193890 TTTAATTTAGTACTTAAATTTGACATTTTT
1 TTTAATTTAATACTTAAATTTGACATTTTT
*
24193920 TTTAAGTTAAT
1 TTTAATTTAAT
24193931 CTTTTCGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 20 0.57
30 15 0.43
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (30 bp):
TTTAATTTAATACTTAAATTTGACATTTTT
Found at i:24198097 original size:30 final size:30
Alignment explanation
Indices: 24198057--24198238 Score: 203
Period size: 30 Copynumber: 6.1 Consensus size: 30
24198047 TTAGGGGGTC
* *
24198057 AAATGTAATTTTTAGAAATTTTGAGGGTTA
1 AAATGAAATTTTTAGAAAGTTTGAGGGTTA
*
24198087 AAATGAAATTTTTAGAAAGTTTAAGGGTTA
1 AAATGAAATTTTTAGAAAGTTTGAGGGTTA
* * *
24198117 AAATGAAATTTTCAAAAAGTTTGAGGGTCA
1 AAATGAAATTTTTAGAAAGTTTGAGGGTTA
* *
24198147 AAATGAAA-TTTTAGAAAGTTCGAAGGTTAA
1 AAATGAAATTTTTAGAAAGTTTGAGGGTT-A
*
24198177 AAATGAAA-TTTTAGAAAGCTTG-GGGTTA
1 AAATGAAATTTTTAGAAAGTTTGAGGGTTA
* *
24198205 AATTTG-AATTTTTAGGGAAGTTT-AGGGTTA
1 AA-ATGAAATTTTTA-GAAAGTTTGAGGGTTA
24198235 AAAT
1 AAAT
24198239 TTACTTTTAA
Statistics
Matches: 128, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
28 5 0.04
29 27 0.21
30 96 0.75
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.36
Consensus pattern (30 bp):
AAATGAAATTTTTAGAAAGTTTGAGGGTTA
Found at i:24198140 original size:60 final size:59
Alignment explanation
Indices: 24198001--24198238 Score: 209
Period size: 60 Copynumber: 4.0 Consensus size: 59
24197991 GGTAAAATCA
* * * * * * * *
24198001 AAATTTTGGAAAGTTTTAGGGCCTAAAATGTAATTTGTCA-AATAGTTTAGGGGGTCAAATG
1 AAATTTTAGAAAGTTTGAGGG-TTAAAATGAAATTT-TTAGAA-AGTTTAAGGGTTAAAATG
* *
24198062 TAATTTTTAGAAATTTTGAGGGTTAAAATGAAATTTTTAGAAAGTTTAAGGGTTAAAATG
1 -AAATTTTAGAAAGTTTGAGGGTTAAAATGAAATTTTTAGAAAGTTTAAGGGTTAAAATG
* * *
24198122 AAATTTTCAAAAAGTTTGAGGGTCAAAATGAAA-TTTTAGAAAGTTCGAA-GGTTAAAAATG
1 AAATTTT-AGAAAGTTTGAGGGTTAAAATGAAATTTTTAGAAAGTT-TAAGGGTT-AAAATG
* * *
24198182 AAATTTTAGAAAGCTTG-GGGTTAAATTTG-AATTTTTAGGGAAGTTT-AGGGTTAAAAT
1 AAATTTTAGAAAGTTTGAGGGTTAAA-ATGAAATTTTTA-GAAAGTTTAAGGGTTAAAAT
24198239 TTACTTTTAA
Statistics
Matches: 147, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
58 15 0.10
59 41 0.28
60 60 0.41
61 14 0.10
62 17 0.12
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (59 bp):
AAATTTTAGAAAGTTTGAGGGTTAAAATGAAATTTTTAGAAAGTTTAAGGGTTAAAATG
Found at i:24198234 original size:59 final size:58
Alignment explanation
Indices: 24198057--24198237 Score: 195
Period size: 59 Copynumber: 3.0 Consensus size: 58
24198047 TTAGGGGGTC
* *
24198057 AAATGTAATTTTTAGAAATTTTGAGGGTTAAAATGAAATTTTTAGAAAGTTTAAGGGTT-A
1 AAATG-AAATTTTAGAAAGTTTGAGGGTTAAAATG-AATTTTTAGAAAGTTT-AGGGTTAA
* * * * *
24198117 AAATGAAATTTTCAAAAAGTTTGAGGGTCAAAATGAAATTTTAGAAAGTTCGAAGGTTAA
1 AAATGAAATTTT-AGAAAGTTTGAGGGTTAAAATGAATTTTTAGAAAGTT-TAGGGTTAA
* * *
24198177 AAATGAAATTTTAGAAAGCTTG-GGGTTAAATTTGAATTTTTAGGGAAGTTTAGGGTTAA
1 AAATGAAATTTTAGAAAGTTTGAGGGTTAAA-ATGAATTTTTA-GAAAGTTTAGGGTTAA
24198236 AA
1 AA
24198238 TTTACTTTTA
Statistics
Matches: 101, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
58 7 0.07
59 51 0.50
60 43 0.43
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.35
Consensus pattern (58 bp):
AAATGAAATTTTAGAAAGTTTGAGGGTTAAAATGAATTTTTAGAAAGTTTAGGGTTAA
Found at i:24202784 original size:87 final size:87
Alignment explanation
Indices: 24202598--24202795 Score: 226
Period size: 87 Copynumber: 2.3 Consensus size: 87
24202588 AAAATCCTCG
* * *
24202598 AACTTTTTT-AAAAAA-AATTAAGTCCCTATTTTTTTTACATTCATTTGAGTACTTAAACTTTCA
1 AACTTTTTTAAAAAAAGAATTAAGCCCCTATTTTTTTTACACTCAATTGAGTACTTAAACTTTCA
*
24202661 AAATGCATCAAAAAGGCTCTCA
66 AAATGCATCAAAAAGGCACTCA
* * ** *
24202683 AACCTTTTCAAAAAAAGTAATTAAGCCCCTACTTTTTTTTTGTACTCAATTGAGTACTTGAA-TT
1 AACTTTTTTAAAAAAAG-AATTAAGCCCCTA--TTTTTTTTACACTCAATTGAGTACTTAAACTT
*
24202747 TTAAAATGCATCAAAAA-G-ACTCA
63 TCAAAATGCATCAAAAAGGCACTCA
*
24202770 AACTTTTTTAAAAAACGCAATTAAGC
1 AACTTTTTTAAAAAAAG-AATTAAGC
24202796 TATTGTTTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
85 7 0.07
86 6 0.06
87 26 0.28
88 13 0.14
89 18 0.19
90 24 0.26
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (87 bp):
AACTTTTTTAAAAAAAGAATTAAGCCCCTATTTTTTTTACACTCAATTGAGTACTTAAACTTTCA
AAATGCATCAAAAAGGCACTCA
Found at i:24202784 original size:88 final size:86
Alignment explanation
Indices: 24202598--24202784 Score: 220
Period size: 90 Copynumber: 2.2 Consensus size: 86
24202588 AAAATCCTCG
* * *
24202598 AACTTTTTT-AAAAAAAATTAAGTCCCTATTTTTTTTACATTCATTTGAGTACTTAAACTTTCAA
1 AACTTTTTTAAAAAAAAATTAAGCCCCTATTTTTTTTACACTCAATTGAGTACTTAAACTTTCAA
*
24202662 AATGCATCAAAAAGGCTCTCA
66 AATGCATCAAAAAGGCACTCA
* * ** *
24202683 AACCTTTTCAAAAAAAGTAATTAAGCCCCTACTTTTTTTTTGTACTCAATTGAGTACTTGAA-TT
1 AACTTTTTTAAAAAAA--AATTAAGCCCCTA--TTTTTTTTACACTCAATTGAGTACTTAAACTT
*
24202747 TTAAAATGCATCAAAAA-G-ACTCA
62 TCAAAATGCATCAAAAAGGCACTCA
24202770 AACTTTTTTAAAAAA
1 AACTTTTTTAAAAAA
24202785 CGCAATTAAG
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
85 7 0.08
86 6 0.07
87 17 0.20
88 13 0.15
89 18 0.21
90 24 0.28
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.37
Consensus pattern (86 bp):
AACTTTTTTAAAAAAAAATTAAGCCCCTATTTTTTTTACACTCAATTGAGTACTTAAACTTTCAA
AATGCATCAAAAAGGCACTCA
Found at i:24202822 original size:10 final size:10
Alignment explanation
Indices: 24202804--24202914 Score: 74
Period size: 10 Copynumber: 11.6 Consensus size: 10
24202794 GCTATTGTTT
*
24202804 TTATTAAAAA
1 TTATAAAAAA
24202814 TTAT-AAAAA
1 TTATAAAAAA
24202823 -TATATAAAAA
1 TTATA-AAAAA
**
24202833 TCGTAAAAAA
1 TTATAAAAAA
24202843 -TATAAAAAA
1 TTATAAAAAA
* **
24202852 TTGTAAAATT
1 TTATAAAAAA
24202862 TTAT-AAAAA
1 TTATAAAAAA
**
24202871 TCGTAAAAAA
1 TTATAAAAAA
*
24202881 TTATAAAATA
1 TTATAAAAAA
24202891 -TAT-AAAAA
1 TTATAAAAAA
24202899 -TATAAAAAA
1 TTATAAAAAA
24202908 TTTATAA
1 -TTATAA
24202915 TATTTTATAA
Statistics
Matches: 77, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
8 10 0.13
9 25 0.32
10 35 0.45
11 7 0.09
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:24202832 original size:19 final size:20
Alignment explanation
Indices: 24202808--24202914 Score: 95
Period size: 19 Copynumber: 5.7 Consensus size: 20
24202798 TTGTTTTTAT
24202808 TAAAAAT-TATAAAAATATA
1 TAAAAATCTATAAAAATATA
24202827 TAAAAATCGTA-AAAAATATA
1 TAAAAATC-TATAAAAATATA
* * *
24202847 -AAAAAT-TGTAAAATTTTA
1 TAAAAATCTATAAAAATATA
24202865 TAAAAATCGTA-AAAAAT-TA
1 TAAAAATC-TATAAAAATATA
*
24202884 T-AAAATATATAAAAATATA
1 TAAAAATCTATAAAAATATA
*
24202903 -AAAAATTTATAA
1 TAAAAATCTATAA
24202915 TATTTTATAA
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.04
18 18 0.25
19 34 0.47
20 14 0.19
21 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (20 bp):
TAAAAATCTATAAAAATATA
Found at i:24202851 original size:38 final size:37
Alignment explanation
Indices: 24202809--24202908 Score: 139
Period size: 38 Copynumber: 2.7 Consensus size: 37
24202799 TGTTTTTATT
24202809 AAAAATTATAAAAATATATAAAAATCGTAAAAAATATA
1 AAAAATTATAAAAATATATAAAAATCGTAAAAAAT-TA
* * *
24202847 AAAAATTGTAAAATTTTATAAAAATCGTAAAAAATTA
1 AAAAATTATAAAAATATATAAAAATCGTAAAAAATTA
*
24202884 TAAAATATATAAAAATATA-AAAAAT
1 AAAAAT-TATAAAAATATATAAAAAT
24202909 TTATAATATT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 13 0.24
38 41 0.76
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (37 bp):
AAAAATTATAAAAATATATAAAAATCGTAAAAAATTA
Found at i:24202886 original size:57 final size:57
Alignment explanation
Indices: 24202802--24202963 Score: 183
Period size: 56 Copynumber: 2.8 Consensus size: 57
24202792 AAGCTATTGT
24202802 TTTTATTAAAAAT--TATAAAAATATATAAAAATCGTAAAAAATATAAAAAATTGTA-AA-A
1 TTTTA-TAAAAATCGTA-AAAAAT-TATAAAAAT-GTAAAAAATATAAAAAATT-TATAATA
*
24202860 TTTTATAAAAATCGTAAAAAATTAT-AAAATATATAAAAATATAAAAAATTTATAATA
1 TTTTATAAAAATCGTAAAAAATTATAAAAATGTA-AAAAATATAAAAAATTTATAATA
*
24202917 TTTTAT-AAAGTCGTAAGAAAATTATACAAAATGTAAAGAAATATAAA
1 TTTTATAAAAATCGTAA-AAAATTATA-AAAATGTAAA-AAATATAAA
24202964 TTTCGTAAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 17
0.82 0.03 0.15
Matches are distributed among these distances:
55 4 0.04
56 32 0.35
57 25 0.27
58 13 0.14
59 18 0.20
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (57 bp):
TTTTATAAAAATCGTAAAAAATTATAAAAATGTAAAAAATATAAAAAATTTATAATA
Found at i:24202941 original size:29 final size:28
Alignment explanation
Indices: 24202845--24202942 Score: 101
Period size: 28 Copynumber: 3.4 Consensus size: 28
24202835 GTAAAAAATA
*
24202845 TAAAAAATTGTAAAATTTTATAAAAATCG
1 TAAAAAATTAT-AAATTTTATAAAAATCG
* * *
24202874 TAAAAAATTATAAAATATATAAAAAT-A
1 TAAAAAATTATAAATTTTATAAAAATCG
*
24202901 TAAAAAATTTATAATATTTTAT-AAAGTCG
1 TAAAAAA-TTATAA-ATTTTATAAAAATCG
24202930 TAAGAAAATTATA
1 TAA-AAAATTATA
24202943 CAAAATGTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
27 7 0.12
28 23 0.40
29 23 0.40
30 4 0.07
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (28 bp):
TAAAAAATTATAAATTTTATAAAAATCG
Found at i:24203207 original size:20 final size:20
Alignment explanation
Indices: 24203170--24203208 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24203160 TTAAAGGGAC
24203170 TTTTTGATGCATTTTATAAT
1 TTTTTGATGCATTTTATAAT
*
24203190 TTTTTTATG-ATTTCTATAA
1 TTTTTGATGCATTT-TATAA
24203209 AATTTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTTGATGCATTTTATAAT
Found at i:24203996 original size:16 final size:16
Alignment explanation
Indices: 24203975--24204009 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24203965 ATGAATTTTA
24203975 TTTAAAAT-TTGTTGAT
1 TTTAAAATATT-TTGAT
24203991 TTTAAAATATTTTGAT
1 TTTAAAATATTTTGAT
24204007 TTT
1 TTT
24204010 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (16 bp):
TTTAAAATATTTTGAT
Found at i:24204542 original size:12 final size:12
Alignment explanation
Indices: 24204525--24204551 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24204515 AATATTAAAA
24204525 AAATTAGGTATC
1 AAATTAGGTATC
24204537 AAATTAGGTATC
1 AAATTAGGTATC
24204549 AAA
1 AAA
24204552 GCATGTCGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (12 bp):
AAATTAGGTATC
Found at i:24204739 original size:13 final size:12
Alignment explanation
Indices: 24204721--24204768 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
24204711 CTTGAAACCC
24204721 AAGAAAAAAAAA
1 AAGAAAAAAAAA
24204733 GAAGAAAAAAAACA
1 -AAGAAAAAAAA-A
24204747 AAGAAAAGAAAATA
1 AAGAAAA-AAAA-A
*
24204761 AGGAAAAA
1 AAGAAAAA
24204769 GTCAAGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 19 0.61
14 12 0.39
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:24204758 original size:16 final size:16
Alignment explanation
Indices: 24204721--24204758 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
24204711 CTTGAAACCC
24204721 AAGAAAAAAAAAGAAG
1 AAGAAAAAAAAAGAAG
24204737 AA-AAAAAACAAAGAA-
1 AAGAAAAAA-AAAGAAG
24204752 AAGAAAA
1 AAGAAAA
24204759 TAAGGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAAAAGAAG
Found at i:24205189 original size:81 final size:81
Alignment explanation
Indices: 24205054--24205218 Score: 285
Period size: 81 Copynumber: 2.0 Consensus size: 81
24205044 AGGCAATTAA
* * * *
24205054 CAAGAATATCAAGAAGATCGAGACCTACAAAGATTGACATGAGAAGTTATCATTTGCTTTCTATG
1 CAAGAATATCAAGAAGATCGAGACCTAAAAAGATTGACATGAAAAGTTATCATTTGCTCTCTACG
24205119 CTTATTGAACATCAAT
66 CTTATTGAACATCAAT
*
24205135 CAAGAATATCAAGAAGATCGAGACCTAAAAAGATTGGCATGAAAAGTTATCATTTGCTCTCTACG
1 CAAGAATATCAAGAAGATCGAGACCTAAAAAGATTGACATGAAAAGTTATCATTTGCTCTCTACG
24205200 CTTATTGAACATCAAT
66 CTTATTGAACATCAAT
24205216 CAA
1 CAA
24205219 TTTTTATTGG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (81 bp):
CAAGAATATCAAGAAGATCGAGACCTAAAAAGATTGACATGAAAAGTTATCATTTGCTCTCTACG
CTTATTGAACATCAAT
Found at i:24205686 original size:18 final size:18
Alignment explanation
Indices: 24205655--24205716 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
24205645 AAATAAAAAT
*
24205655 AAAA-AAAGAGAAAAAGG
1 AAAAGAAAGAAAAAAAGG
*
24205672 AAAAGAAAGAAAAAAAAGA
1 AAAAGAAAG-AAAAAAAGG
*
24205691 AAAAGAAA-AAAAGAAGG
1 AAAAGAAAGAAAAAAAGG
24205708 AAAAAGAAA
1 -AAAAGAAA
24205717 ATGAGAGGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
17 11 0.29
18 12 0.32
19 15 0.39
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAGAAAGAAAAAAAGG
Found at i:24205714 original size:33 final size:31
Alignment explanation
Indices: 24205641--24205717 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 31
24205631 AATTTCACCC
* * *
24205641 AAAAAAATAAAAATAAAAAAAGAGAAAAAGG
1 AAAAAAAGAAAAAAAAAAAAAGAGAAAAAAG
24205672 AAAAGAAAGAAAAAAAAGAAAAAGA-AAAAAAG
1 AAAA-AAAGAAAAAAAA-AAAAAGAGAAAAAAG
24205704 AAGGAAAAAGAAAA
1 AA--AAAAAGAAAA
24205718 TGAGAGGTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
31 4 0.10
32 18 0.46
33 15 0.38
34 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (31 bp):
AAAAAAAGAAAAAAAAAAAAAGAGAAAAAAG
Found at i:24205717 original size:18 final size:18
Alignment explanation
Indices: 24205665--24205717 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
24205655 AAAAAAAGAG
24205665 AAAAAGG-AAAAGAAAGAA
1 AAAAAGGAAAAAGAAA-AA
*
24205683 AAAAAAGAAAAAGAAAAA
1 AAAAAGGAAAAAGAAAAA
*
24205701 AAGAAGGAAAAAGAAAA
1 AAAAAGGAAAAAGAAAA
24205718 TGAGAGGTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 23 0.74
19 8 0.26
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAAGGAAAAAGAAAAA
Found at i:24206746 original size:50 final size:50
Alignment explanation
Indices: 24206692--24207131 Score: 376
Period size: 50 Copynumber: 8.9 Consensus size: 50
24206682 CACAACGGCA
* *
24206692 AACCCAATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAACGACG
1 AACCCGATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGACG
* * *
24206742 AACCCGATACCTTAGAAGATGTGATAGGAAGGATTGAGGCCACAACGGCG
1 AACCCGATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGACG
* * ** * *
24206792 AATCCGATACCAT-GAAGATAAGAAGGGAAGG-TTGAGCCCGCAAC-AGCG
1 AACCCGATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGA-CG
* * *
24206840 AACCCGATACCTTAGAAGATGTGATGGGAAGGATTCAAGCCGCAACGGCG
1 AACCCGATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGACG
* * * * * * * *
24206890 AATCTGGTACCAT-GAA-ATATGAAGGGAAAGG-TTGAGGCTGCAACGGCG
1 AACCCGATACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCGCAACGACG
* * * * * ***
24206938 AACTCGGTACCTTAGAAGATGTAAAGGGAAAGATTGAGGCCGCAACGGTA
1 AACCCGATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGACG
* * * * *
24206988 AACCCGGTACCTTAAAAAATGTGATGGGAAAGATTGAGGCCGCAAC-AGTG
1 AACCCGATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGA-CG
* * * * * * *
24207038 AATCCGGTACC-AAGAAGATATGAAGGGAAAGG-TGGAGGCCGTAACGACG
1 AACCCGATACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCGCAACGACG
* * *
24207087 AACCCGATACCTTAGAAGATGTGATGGGAAAGAGTGAGGCTGCAA
1 AACCCGATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAA
24207132 TGGCAAATCT
Statistics
Matches: 308, Mismatches: 69, Indels: 26
0.76 0.17 0.06
Matches are distributed among these distances:
48 55 0.18
49 77 0.25
50 176 0.57
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.16
Consensus pattern (50 bp):
AACCCGATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGACG
Found at i:24206853 original size:98 final size:97
Alignment explanation
Indices: 24206681--24206985 Score: 344
Period size: 98 Copynumber: 3.1 Consensus size: 97
24206671 AAGGTTAAGA
* * * * * * *
24206681 CCACAACGGCAAACCCAATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAACGACGAACC
1 CCACAACGGCGAATCCGATACCAT-GAAGATATGAAGGGAAGG-TTGAGGCCGCAACG-CGAACC
24206746 CGATACCTTAGAAGATGTGATAGGAAGGATTGAGG
63 CGATACCTTAGAAGATGTGATAGGAAGGATTGAGG
* *
24206781 CCACAACGGCGAATCCGATACCATGAAGATAAGAAGGGAAGGTTGAGCCCGCAACAGCGAACCCG
1 CCACAACGGCGAATCCGATACCATGAAGATATGAAGGGAAGGTTGAGGCCGCAAC-GCGAACCCG
* * *
24206846 ATACCTTAGAAGATGTGATGGGAAGGATTCAAG
65 ATACCTTAGAAGATGTGATAGGAAGGATTGAGG
* * * * *
24206879 CCGCAACGGCGAATCTGGTACCATGAA-ATATGAAGGGAAAGGTTGAGGCTGCAACGGCGAACTC
1 CCACAACGGCGAATCCGATACCATGAAGATATGAAGGG-AAGGTTGAGGCCGCAAC-GCGAACCC
* * *
24206943 GGTACCTTAGAAGATGT-AAAGGGAAAGATTGAGG
64 GATACCTTAGAAGATGTGATA-GGAAGGATTGAGG
*
24206977 CCGCAACGG
1 CCACAACGG
24206986 TAAACCCGGT
Statistics
Matches: 176, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
97 10 0.06
98 130 0.74
99 16 0.09
100 20 0.11
ACGTcount: A:0.34, C:0.20, G:0.30, T:0.16
Consensus pattern (97 bp):
CCACAACGGCGAATCCGATACCATGAAGATATGAAGGGAAGGTTGAGGCCGCAACGCGAACCCGA
TACCTTAGAAGATGTGATAGGAAGGATTGAGG
Found at i:24206997 original size:98 final size:98
Alignment explanation
Indices: 24206720--24207097 Score: 341
Period size: 98 Copynumber: 3.8 Consensus size: 98
24206710 ATGTGATGGG
* * *
24206720 AAGGATTGAGGCCGTAAC-GACGAACCCGATACCTTAGAAGATGTGATA-GGAAGGATTGAGGCC
1 AAGG-TTGAGGCCGCAACAG-CGAACCCGATACCTTAGAAGATGT-AAAGGGAAAGATTGAGGCC
* * *
24206783 ACAACGGCGAATCCGATACCATGAAGATAAGAAGGG-
63 GCAACGGCGAATCCGGTACCATGAA-ATATGAAGGGA
* * * * * *
24206819 AAGGTTGAGCCCGCAACAGCGAACCCGATACCTTAGAAGATGTGATGGGAAGGATTCAAGCCGCA
1 AAGGTTGAGGCCGCAACAGCGAACCCGATACCTTAGAAGATGTAAAGGGAAAGATTGAGGCCGCA
*
24206884 ACGGCGAATCTGGTACCATGAAATATGAAGGGA
66 ACGGCGAATCCGGTACCATGAAATATGAAGGGA
* * * *
24206917 AAGGTTGAGGCTGCAACGGCGAACTCGGTACCTTAGAAGATGTAAAGGGAAAGATTGAGGCCGCA
1 AAGGTTGAGGCCGCAACAGCGAACCCGATACCTTAGAAGATGTAAAGGGAAAGATTGAGGCCGCA
** * ** * *
24206982 ACGGTAAACCCGGTACCTTAAAAAATGTGATGGGA
66 ACGGCGAATCCGGTACC--ATGAAATATGAAGGGA
* * * * * * * * * *
24207017 AAGATTGAGGCCGCAACAGTGAATCCGGTACC-AAGAAGATATGAAGGGAAAGGTGGAGGCCGTA
1 AAGGTTGAGGCCGCAACAGCGAACCCGATACCTTAGAAGATGTAAAGGGAAAGATTGAGGCCGCA
* * *
24207081 ACGACGAACCCGATACC
66 ACGGCGAATCCGGTACC
24207098 TTAGAAGATG
Statistics
Matches: 229, Mismatches: 45, Indels: 10
0.81 0.16 0.04
Matches are distributed among these distances:
97 9 0.04
98 138 0.60
99 44 0.19
100 38 0.17
ACGTcount: A:0.35, C:0.19, G:0.30, T:0.16
Consensus pattern (98 bp):
AAGGTTGAGGCCGCAACAGCGAACCCGATACCTTAGAAGATGTAAAGGGAAAGATTGAGGCCGCA
ACGGCGAATCCGGTACCATGAAATATGAAGGGA
Found at i:24207149 original size:149 final size:148
Alignment explanation
Indices: 24206684--24207138 Score: 411
Period size: 148 Copynumber: 3.1 Consensus size: 148
24206674 GTTAAGACCA
* * * * * * * *
24206684 CAACGGCAAACCCAATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAAC-GACGAACCCG
1 CAACGGCAAACCCGATACCTTAAAAAATGTGATGGGAAAGATTCAAGCCGCAACAG-CGAATCCG
* * * * * * * *
24206748 ATACCTTAGAAGATGTGATA-GG-AAGGATTGAGGCCACAACGGCGAATCCGATACCAT-GAAGA
65 GTACC-AAGAA-ATATGA-AGGGAAAGG-TGGAGGCCGCAACGACGAACCCGATACCTTAGAAGA
* *
24206810 T-AAGAAGGG-AAG-GTTGAGCCCG
126 TGTA-AAGGGAAAGAG-TGAGGCCG
* * * * * * *
24206832 CAACAGCGAACCCGATACCTTAGAAGATGTGATGGGAAGGATTCAAGCCGCAACGGCGAATCTGG
1 CAACGGCAAACCCGATACCTTAAAAAATGTGATGGGAAAGATTCAAGCCGCAACAGCGAATCCGG
* * * * * *
24206897 TACCATGAAATATGAAGGGAAAGGTTGAGGCTGCAACGGCGAACTCGGTACCTTAGAAGATGTAA
66 TACCAAGAAATATGAAGGGAAAGGTGGAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTAA
*
24206962 AGGGAAAGATTGAGGCCG
131 AGGGAAAGAGTGAGGCCG
* * * * *
24206980 CAACGGTAAACCCGGTACCTTAAAAAATGTGATGGGAAAGATTGAGGCCGCAACAGTGAATCCGG
1 CAACGGCAAACCCGATACCTTAAAAAATGTGATGGGAAAGATTCAAGCCGCAACAGCGAATCCGG
* *
24207045 TACCAAGAAGATATGAAGGGAAAGGTGGAGGCCGTAACGACGAACCCGATACCTTAGAAGATGTG
66 TACCAAGAA-ATATGAAGGGAAAGGTGGAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTA
* *
24207110 ATGGGAAAGAGTGAGGCTG
130 AAGGGAAAGAGTGAGGCCG
*
24207129 CAATGGCAAA
1 CAACGGCAAA
24207139 TCTCATACCT
Statistics
Matches: 253, Mismatches: 46, Indels: 15
0.81 0.15 0.05
Matches are distributed among these distances:
145 1 0.00
146 31 0.12
147 18 0.07
148 130 0.51
149 73 0.29
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.16
Consensus pattern (148 bp):
CAACGGCAAACCCGATACCTTAAAAAATGTGATGGGAAAGATTCAAGCCGCAACAGCGAATCCGG
TACCAAGAAATATGAAGGGAAAGGTGGAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTAA
AGGGAAAGAGTGAGGCCG
Found at i:24207154 original size:99 final size:100
Alignment explanation
Indices: 24206904--24207161 Score: 263
Period size: 99 Copynumber: 2.6 Consensus size: 100
24206894 TGGTACCATG
* * * *
24206904 AAATATGAAGGGAAAG-GTTGAGGCTGCAACGGCGAA-CTCGGTACCTTAGAAGATGTAAAGGGA
1 AAATGTGATGGGAAAGAG-TGAGGCTGCAACGGCGAATCTCGGTACCTT-GAAGATATGAAGGGA
* ** *
24206967 AAGATTGAGGCCGCAACGGTAAACCCGGTACCTTAAA
64 AAGATGGAGGCCGCAACGACAAACCCGATACCTTAAA
* * * * **
24207004 AAATGTGATGGGAAAGATTGAGGCCGCAACAGTGAATC-CGGTACCAAGAAGATATGAAGGGAAA
1 AAATGTGATGGGAAAGAGTGAGGCTGCAACGGCGAATCTCGGTACCTTGAAGATATGAAGGGAAA
* * * *
24207068 GGTGGAGGCCGTAACGACGAACCCGATACCTTAGA
66 GATGGAGGCCGCAACGACAAACCCGATACCTTAAA
* * * *
24207103 AGATGTGATGGGAAAGAGTGAGGCTGCAATGGCAAATCTC-ATACCTTGAAGATGATGAA
1 AAATGTGATGGGAAAGAGTGAGGCTGCAACGGCGAATCTCGGTACCTTGAAGAT-ATGAA
24207162 AAGCAGATTA
Statistics
Matches: 126, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
99 83 0.66
100 42 0.33
101 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.17
Consensus pattern (100 bp):
AAATGTGATGGGAAAGAGTGAGGCTGCAACGGCGAATCTCGGTACCTTGAAGATATGAAGGGAAA
GATGGAGGCCGCAACGACAAACCCGATACCTTAAA
Found at i:24207513 original size:42 final size:42
Alignment explanation
Indices: 24207359--24208384 Score: 1193
Period size: 42 Copynumber: 25.2 Consensus size: 42
24207349 AGTAGAGCAA
* **
24207359 ATTGAAGACATAATCCAATCTCTTACCCCGATCATGCAGCAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* * *
24207401 ATT-AA-A-ATCATCCGATTTTTTACCCCGATCATGGGGCAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* * *
24207440 ATT--AGA-GTTATCCAATCTCTTACCCCGATCATGGGGTAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
** **
24207479 ATTGAAGACATCATCCAATCTCTTACCCTAATCATGGGATAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
*
24207521 ATTGAAGACATCATCCAATCACTTACCCCGATCATGGGGCAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* *
24207563 ATTGAAGACATCATCCAATCTCTTACCCC-ATACATGGGGTAA
1 ATTGAAGACATCATCCAATCTCTTACCCCGAT-CATGGGGCAG
* * * *
24207605 ATTGAAGACATAATCCAATCTCTTAACCTGATAATGGGGCAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* *
24207647 ATTGAAGTCATCATCCAATCTCTTACCCCGATCATGGGGCAA
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* *
24207689 ATTGAAG---TCATCCAATCTCTTACCCCGATCTTGAGGCAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* *
24207728 ATTGAAGACATCATCTAATCTCTTACCCCGATCATGAGGCAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* *
24207770 ATTGAAG-C--CATCCAATCTCTTACCCTC-ATCATGAGGTAG
1 ATTGAAGACATCATCCAATCTCTTACCC-CGATCATGGGGCAG
* *
24207809 ATTGAAG---TCATCCAATCTCTTACCTCGATCATGGGGTAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
*
24207848 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAT
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* * * * *
24207890 ATTGAAGACATCATCTAATCTTTTACCTCGATCATAGGGCAA
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* * *
24207932 ATTGAAG---TCATCCAATCTCTTACCCCAATCATGAGGCAA
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* * *
24207971 ATTGAAGATATTATCCAATCTCTTACCCCGATCATGGGGTAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* *
24208013 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGTAA
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* *
24208055 ATTGAAGCCATCATCCAATCTCTTACCCCGATCATGGGGCAA
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* * * * * *
24208097 ATTTACAG-C--CGTTCAATCTCTTACCTCGATCATGAGGCAA
1 ATTGA-AGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
*
24208137 ATTGAAG---TCATCCAATCTCTTACCCTGATCATGGGGCAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* * *
24208176 ATTGAAGACATCATCTAATCTCTTACCACGATCATGGGTCAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
*
24208218 ATTGAAG-C--CATCCAATCTCTTACCCCGATCATGGGGTAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
24208257 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* * * * *
24208299 ATTCAAG-C--CATCCAATCTCTTACCCCTATCATGTGGTAC
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
* * **
24208338 ATTGAAGACA--ATCTAATCTCTTACTCCGATCATGAAGCAG
1 ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
24208378 ATTGAAG
1 ATTGAAG
24208385 TACTCAATCT
Statistics
Matches: 852, Mismatches: 104, Indels: 58
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.00
39 299 0.35
40 65 0.08
41 10 0.01
42 472 0.55
43 4 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAG
Found at i:24207733 original size:81 final size:80
Alignment explanation
Indices: 24207371--24208478 Score: 1061
Period size: 81 Copynumber: 13.7 Consensus size: 80
24207361 TGAAGACATA
* * * *
24207371 ATCCAATCTCTTACCCCGATCATGCA-GCAGATT-AA-AATCATCCGATTTTTTACCCCGATCAT
1 ATCCAATCTCTTACCCCGATCATG-AGGCAGATTGAAGCATCATCCAATCTCTTACCCCGATCAT
*
24207433 GGGGCAGATT-AGAGTT
65 GGGGCAGATTGA-AGTC
* * **
24207449 ATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTACCCTAATCAT
1 ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCAT
**
24207514 GGGATAGATTGAAGACATC
65 GGGGCAGATTGAAG---TC
* *
24207533 ATCCAATCACTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCC-ATACA
1 ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGAT-CA
* * *
24207597 TGGGGTAAATTGAAGACATA
64 TGGGGCAGATTGAAG---TC
* * * *
24207617 ATCCAATCTCTTAACCTGATAATGGGGCAGATTGAAGTCATCATCCAATCTCTTACCCCGATCAT
1 ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCAT
*
24207682 GGGGCAAATTGAAGTC
65 GGGGCAGATTGAAGTC
* *
24207698 ATCCAATCTCTTACCCCGATCTTGAGGCAGATTGAAGACATCATCTAATCTCTTACCCCGATCAT
1 ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCAT
* *
24207763 GAGGCAGATTGAAGCC
65 GGGGCAGATTGAAGTC
* *
24207779 ATCCAATCTCTTACCCTC-ATCATGAGGTAGATTGAAG--TCATCCAATCTCTTACCTCGATCAT
1 ATCCAATCTCTTACCC-CGATCATGAGGCAGATTGAAGCATCATCCAATCTCTTACCCCGATCAT
*
24207841 GGGGTAGATTGAAGACATC
65 GGGGCAGATTGAAG---TC
* * * * *
24207860 ATCCAATCTCTTACCCCGATCATGGGGCATATTGAAGACATCATCTAATCTTTTACCTCGATCAT
1 ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCAT
* *
24207925 AGGGCAAATTGAAGTC
65 GGGGCAGATTGAAGTC
* * * *
24207941 ATCCAATCTCTTACCCCAATCATGAGGCAAATTGAAGATATTATCCAATCTCTTACCCCGATCAT
1 ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCAT
*
24208006 GGGGTAGATTGAAGACATC
65 GGGGCAGATTGAAG---TC
* * *
24208025 ATCCAATCTCTTACCCCGATCATGGGGTAAATTGAAGCCATCATCCAATCTCTTACCCCGATCAT
1 ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCAT
* * *
24208090 GGGGCAAATTTACAGCC
65 GGGGCAGATTGA-AGTC
* * * * *
24208107 GTTCAATCTCTTACCTCGATCATGAGGCAAATTGAAG--TCATCCAATCTCTTACCCTGATCATG
1 ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCATCCAATCTCTTACCCCGATCATG
24208170 GGGCAGATTGAAGACATC
66 GGGCAGATTGAAG---TC
* *
24208188 ATCTAATCTCTTACCACGATCATG-GGTCAGATTGAAGC--CATCCAATCTCTTACCCCGATCAT
1 ATCCAATCTCTTACCCCGATCATGAGG-CAGATTGAAGCATCATCCAATCTCTTACCCCGATCAT
*
24208250 GGGGTAGATTGAAGACATC
65 GGGGCAGATTGAAG---TC
* * *
24208269 ATCCAATCTCTTACCCCGATCATGGGGCAGATTCAAGC--CATCCAATCTCTTACCCCTATCATG
1 ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCATCCAATCTCTTACCCCGATCATG
* * * *
24208332 TGGTACATTGAAGAC
66 GGGCAGATTGAAGTC
* * * * * ** * *
24208347 AATCTAATCTCTTACTCCGATCATGAAGCAGATTGAAGTA-C-T-CAATCTTTTACCCTAATTAA
1 -ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCATCCAATCTCTTACCCCGATCAT
* * *
24208409 AGGGCAAATTGAAGAC
65 GGGGCAGATTGAAGTC
* * ** * * *
24208425 ATGCAATTTCTTACCCTAATCATGGGGCAAATTGAA--A-CAACCAATCTCTTACCC
1 ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCATCCAATCTCTTACCC
24208479 TGACTGTGGG
Statistics
Matches: 879, Mismatches: 119, Indels: 65
0.83 0.11 0.06
Matches are distributed among these distances:
75 2 0.00
77 39 0.04
78 95 0.11
79 69 0.08
80 4 0.00
81 377 0.43
82 37 0.04
83 2 0.00
84 250 0.28
85 4 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (80 bp):
ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCATCCAATCTCTTACCCCGATCATG
GGGCAGATTGAAGTC
Found at i:24208420 original size:38 final size:39
Alignment explanation
Indices: 24208396--24208479 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
24208386 ACTCAATCTT
*
24208396 TTACCCTAATTAAAGGGCAAATTGAAGACATGCAATTTC
1 TTACCCTAATCAAAGGGCAAATTGAAGACATGCAATTTC
** ** *
24208435 TTACCCTAATCATGGGGCAAATTGAA-ACAACCAATCTC
1 TTACCCTAATCAAAGGGCAAATTGAAGACATGCAATTTC
24208473 TTACCCT
1 TTACCCT
24208480 GACTGTGGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 16 0.41
39 23 0.59
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (39 bp):
TTACCCTAATCAAAGGGCAAATTGAAGACATGCAATTTC
Found at i:24209558 original size:30 final size:30
Alignment explanation
Indices: 24209524--24209829 Score: 143
Period size: 30 Copynumber: 10.2 Consensus size: 30
24209514 TTGTTTTGTT
*
24209524 TAAAAGTT-ATATTTTAACCCTAAACTTTCC
1 TAAAAATTCATATTTTAACCCTAAACTTT-C
* *
24209554 TAAAAATTCA-AATTTAACCCCTAAGCTTTC
1 TAAAAATTCATATTTTAA-CCCTAAACTTTC
* * *
24209584 TAAAATTTCAT-TTTTGACCCTCGAACTTTC
1 TAAAAATTCATATTTTAACCCT-AAACTTTC
* * **
24209614 TAAAATTTCAT-TTTTGACCCTTAATTTTTC
1 TAAAAATTCATATTTTAACCC-TAAACTTTC
* *
24209644 TAAAAATT--TCATTTTGACCCTCGAACTTTC
1 TAAAAATTCAT-ATTTTAACCCT-AAACTTTC
* * *
24209674 TAAAAATT-TTATTTTGACCCCCAAACTTTC
1 TAAAAATTCATATTTT-AACCCTAAACTTTC
* * * * *
24209704 TAAAAATT--TCATTATGACTCTCGAACTTTT
1 TAAAAATTCAT-ATTTTAACCCT-AAACTTTC
* * *
24209734 TAAAATTTC--ATTTTGACCTCTAAATTTTC
1 TAAAAATTCATATTTTAACC-CTAAACTTTC
* *
24209763 TAAAAATT-ATATTTTGACCCTCAAACTTTT
1 TAAAAATTCATATTTTAACCCT-AAACTTTC
* *
24209793 TGAAAAATT-ACATTTTAGCCTCTAAAACTTTC
1 T-AAAAATTCATATTTTAACC-CT-AAACTTTC
*
24209825 CAAAA
1 TAAAA
24209830 TTTTGATTTT
Statistics
Matches: 216, Mismatches: 41, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
28 1 0.00
29 29 0.13
30 142 0.66
31 35 0.16
32 9 0.04
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.42
Consensus pattern (30 bp):
TAAAAATTCATATTTTAACCCTAAACTTTC
Found at i:24209617 original size:60 final size:60
Alignment explanation
Indices: 24209546--24209845 Score: 288
Period size: 60 Copynumber: 5.0 Consensus size: 60
24209536 TTTAACCCTA
* * *
24209546 AACTTTCCTAAAAATTCAAATTTAACCCCTAAGCTTTCT-AAAATTTCATTTTTGACCCTCG
1 AACTTT-CTAAAAATTCAATTTTGACCCCTAAACTTTCTAAAAATTTCA-TTTTGACCCTCG
* * * **
24209607 AACTTTCTAAAATTTCATTTTTGACCCTTAATTTTTCTAAAAATTTCATTTTGACCCTCG
1 AACTTTCTAAAAATTCAATTTTGACCCCTAAACTTTCTAAAAATTTCATTTTGACCCTCG
** * * *
24209667 AACTTTCTAAAAATTTTATTTTGACCCCCAAACTTTCTAAAAATTTCATTATGACTCTCG
1 AACTTTCTAAAAATTCAATTTTGACCCCTAAACTTTCTAAAAATTTCATTTTGACCCTCG
* * * * *
24209727 AACTTTTTAAAATTTC-ATTTTGACCTCTAAATTTTCTAAAAATTAT-ATTTTGACCCTCA
1 AACTTTCTAAAAATTCAATTTTGACCCCTAAACTTTCTAAAAATT-TCATTTTGACCCTCG
* * * * *
24209786 AACTTTTTGAAAAATT-ACATTTT-AGCCTCTAAAACTTTCCAAAATTTTGATTTT-ACCCTC
1 AACTTTCT-AAAAATTCA-ATTTTGA-CCCCT-AAACTTTCTAAAAATTTCATTTTGACCCTC
24209846 ATTTTTCCTT
Statistics
Matches: 201, Mismatches: 30, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
59 43 0.21
60 108 0.54
61 32 0.16
62 18 0.09
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (60 bp):
AACTTTCTAAAAATTCAATTTTGACCCCTAAACTTTCTAAAAATTTCATTTTGACCCTCG
Found at i:24209808 original size:120 final size:119
Alignment explanation
Indices: 24209524--24209832 Score: 349
Period size: 120 Copynumber: 2.6 Consensus size: 119
24209514 TTGTTTTGTT
* * * * *
24209524 TAAAAGTTATATTTTAACCCT-AAACTTTCCTAAAAATTCAAATTTAACCCCTAAGCTTTCTAAA
1 TAAAAATTATATTTTGACCCTCAAACTTT-CTAAAAATTC-ATTTTAACCCCCAAACTTTCTAAA
* *
24209588 ATTTCATTTTTGACCCTCGAACTTTCTAAAATTTCATTTTTGACCCTTAATTTTTC
64 ATTTCATTTATGACCCTCGAACTTTCTAAAATTTCATTTTTGACCCTTAAATTTTC
* * *
24209644 TAAAAATT-TCATTTTGACCCTCGAACTTTCTAAAAATTTTATTTTGACCCCCAAACTTTCTAAA
1 TAAAAATTAT-ATTTTGACCCTCAAACTTTCTAAAAA-TTCATTTTAACCCCCAAACTTTCT-AA
* *
24209708 AATTTCA-TTATGACTCTCGAACTTTTTAAAATTTCA-TTTTGA-CCTCTAAATTTTC
63 AATTTCATTTATGACCCTCGAACTTTCTAAAATTTCATTTTTGACCCT-TAAATTTTC
* * ** *
24209763 TAAAAATTATATTTTGACCCTCAAACTTTTTGAAAAATTACATTTTAGCCTCTAAAACTTTCCAA
1 TAAAAATTATATTTTGACCCTCAAACTTTCT-AAAAATT-CATTTTAACC-CCCAAACTTTCTAA
24209828 AATTT
63 AATTT
24209833 TGATTTTACC
Statistics
Matches: 160, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
118 3 0.02
119 44 0.28
120 87 0.54
121 26 0.16
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.42
Consensus pattern (119 bp):
TAAAAATTATATTTTGACCCTCAAACTTTCTAAAAATTCATTTTAACCCCCAAACTTTCTAAAAT
TTCATTTATGACCCTCGAACTTTCTAAAATTTCATTTTTGACCCTTAAATTTTC
Found at i:24213216 original size:18 final size:17
Alignment explanation
Indices: 24213195--24213252 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
24213185 AAAAGTAGTA
24213195 AAAAAACCCTAAACCAT
1 AAAAAACCCTAAACCAT
* *
24213212 AAAAATCCCTTAACCCAT
1 AAAAAACCC-TAAACCAT
*
24213230 AAAAAACCTTAAAACC-T
1 AAAAAACCCT-AAACCAT
24213247 AAAAAA
1 AAAAAA
24213253 ACATAAACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 16 0.47
18 18 0.53
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAAACCCTAAACCAT
Found at i:24213221 original size:17 final size:18
Alignment explanation
Indices: 24213195--24213252 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
24213185 AAAAGTAGTA
24213195 AAAAAACCC-TAAACCAT
1 AAAAAACCCTTAAACCAT
* *
24213212 AAAAATCCCTTAACCCAT
1 AAAAAACCCTTAAACCAT
24213230 AAAAAA-CCTTAAAACC-T
1 AAAAAACCCTT-AAACCAT
24213247 AAAAAA
1 AAAAAA
24213253 ACATAAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 19 0.54
18 16 0.46
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAAACCCTTAAACCAT
Found at i:24213648 original size:18 final size:18
Alignment explanation
Indices: 24213627--24213678 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
24213617 TCATCTTTAA
24213627 ATTAATTTTCATAGTTAT
1 ATTAATTTTCATAGTTAT
* *
24213645 ATTAATATT-AT--TTAA
1 ATTAATTTTCATAGTTAT
*
24213660 ATAAATTTTCATAGTTAT
1 ATTAATTTTCATAGTTAT
24213678 A
1 A
24213679 GTGATATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
15 10 0.38
16 2 0.08
17 2 0.08
18 12 0.46
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (18 bp):
ATTAATTTTCATAGTTAT
Found at i:24213659 original size:33 final size:33
Alignment explanation
Indices: 24213622--24213698 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
24213612 AAAAGTCATC
*
24213622 TTTAAATTAATTTTCATAGTTATATTAATATTA
1 TTTAAATTAATTTTCATAGTTATAGTAATATTA
* *
24213655 TTTAAATAAATTTTCATAGTTATAGTGATATTA
1 TTTAAATTAATTTTCATAGTTATAGTAATATTA
24213688 TTTAAA-TAATT
1 TTTAAATTAATT
24213699 AATTAAACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 4 0.10
33 36 0.90
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (33 bp):
TTTAAATTAATTTTCATAGTTATAGTAATATTA
Found at i:24218613 original size:130 final size:130
Alignment explanation
Indices: 24218380--24218640 Score: 504
Period size: 130 Copynumber: 2.0 Consensus size: 130
24218370 CTCCTATAAA
24218380 TAGAAGTAAAATTTCATTTGGAAAATATACCAAAAATCCTCAAAAGTTCTTTCTATCCTTCCTCC
1 TAGAAGTAAAATTTCATTTGGAAAATATACCAAAAATCCTCAAAAGTTCTTTCTATCCTTCCTCC
*
24218445 ATCTTATTCTATTATTAGATTGTTCTATAAAGAATTACTGCAGATTTTCTTTTATAGAAATTGAT
66 ATCTTATTCTATTATTAGATTGTTCTATAAAGAATTACTGCAAATTTTCTTTTATAGAAATTGAT
*
24218510 TAGAAGTAAGATTTCATTTGGAAAATATACCAAAAATCCTCAAAAGTTCTTTCTATCCTTCCTCC
1 TAGAAGTAAAATTTCATTTGGAAAATATACCAAAAATCCTCAAAAGTTCTTTCTATCCTTCCTCC
24218575 ATCTTATTCTATTATTAGATTGTTCTATAAAGAATTACTGCAAATTTTCTTTTATAGAAATTGAT
66 ATCTTATTCTATTATTAGATTGTTCTATAAAGAATTACTGCAAATTTTCTTTTATAGAAATTGAT
24218640 T
1 T
24218641 TTCTTGTTAT
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 129 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.41
Consensus pattern (130 bp):
TAGAAGTAAAATTTCATTTGGAAAATATACCAAAAATCCTCAAAAGTTCTTTCTATCCTTCCTCC
ATCTTATTCTATTATTAGATTGTTCTATAAAGAATTACTGCAAATTTTCTTTTATAGAAATTGAT
Found at i:24231083 original size:31 final size:31
Alignment explanation
Indices: 24231048--24231106 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
24231038 CAACTTAAAA
** *
24231048 AAAAAGTGTTTAGTTTGGGTATCAAATTAGG
1 AAAAAGTGTCAAGTTTGAGTATCAAATTAGG
24231079 AAAAAGTGTCAAGTTTGAGTATCAAATT
1 AAAAAGTGTCAAGTTTGAGTATCAAATT
24231107 GGACTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (31 bp):
AAAAAGTGTCAAGTTTGAGTATCAAATTAGG
Found at i:24242228 original size:28 final size:27
Alignment explanation
Indices: 24242174--24242226 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
24242164 TTTCTCTTCT
24242174 CTTATTATGATAAAAAGATTGATTTTTA
1 CTTATTATGATAAAAAGATT-ATTTTTA
*
24242202 CTTATTATGATAGAAA-ATTATTTTT
1 CTTATTATGATAAAAAGATTATTTTT
24242227 TTTCTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 6 0.25
27 3 0.12
28 15 0.62
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (27 bp):
CTTATTATGATAAAAAGATTATTTTTA
Found at i:24242661 original size:18 final size:18
Alignment explanation
Indices: 24242640--24242677 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
24242630 TAAATTTTCG
*
24242640 AATTCGAAT-AACTCGAAT
1 AATTCAAATAAAC-CGAAT
24242658 AATTCAAATAAACCGAAT
1 AATTCAAATAAACCGAAT
24242676 AA
1 AA
24242678 AATTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.24
Consensus pattern (18 bp):
AATTCAAATAAACCGAAT
Found at i:24247552 original size:219 final size:219
Alignment explanation
Indices: 24247173--24247614 Score: 884
Period size: 219 Copynumber: 2.0 Consensus size: 219
24247163 ACAATACAAT
24247173 TTTGGGGCTTCTATTGGCATTAGATAGAAGCAATCATAATCTCAAGAAACAGTGGGATTTTCCAA
1 TTTGGGGCTTCTATTGGCATTAGATAGAAGCAATCATAATCTCAAGAAACAGTGGGATTTTCCAA
24247238 TGGAGTGCACTTTGTACGTCTGGTTATAAACACAAGAGTTTGCTAATGAGAAATTCAATGAGGTG
66 TGGAGTGCACTTTGTACGTCTGGTTATAAACACAAGAGTTTGCTAATGAGAAATTCAATGAGGTG
24247303 ATGGAAAATGAACATGGTGGACGTGTTCGATAATCCCATGAAAACTTTGACAATAAAAGTTTGTC
131 ATGGAAAATGAACATGGTGGACGTGTTCGATAATCCCATGAAAACTTTGACAATAAAAGTTTGTC
24247368 AAGCATGATAGTCTCATATCATAG
196 AAGCATGATAGTCTCATATCATAG
24247392 TTTGGGGCTTCTATTGGCATTAGATAGAAGCAATCATAATCTCAAGAAACAGTGGGATTTTCCAA
1 TTTGGGGCTTCTATTGGCATTAGATAGAAGCAATCATAATCTCAAGAAACAGTGGGATTTTCCAA
24247457 TGGAGTGCACTTTGTACGTCTGGTTATAAACACAAGAGTTTGCTAATGAGAAATTCAATGAGGTG
66 TGGAGTGCACTTTGTACGTCTGGTTATAAACACAAGAGTTTGCTAATGAGAAATTCAATGAGGTG
24247522 ATGGAAAATGAACATGGTGGACGTGTTCGATAATCCCATGAAAACTTTGACAATAAAAGTTTGTC
131 ATGGAAAATGAACATGGTGGACGTGTTCGATAATCCCATGAAAACTTTGACAATAAAAGTTTGTC
24247587 AAGCATGATAGTCTCATATCATAG
196 AAGCATGATAGTCTCATATCATAG
24247611 TTTG
1 TTTG
24247615 ATGATCAAGG
Statistics
Matches: 223, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 223 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.30
Consensus pattern (219 bp):
TTTGGGGCTTCTATTGGCATTAGATAGAAGCAATCATAATCTCAAGAAACAGTGGGATTTTCCAA
TGGAGTGCACTTTGTACGTCTGGTTATAAACACAAGAGTTTGCTAATGAGAAATTCAATGAGGTG
ATGGAAAATGAACATGGTGGACGTGTTCGATAATCCCATGAAAACTTTGACAATAAAAGTTTGTC
AAGCATGATAGTCTCATATCATAG
Found at i:24251306 original size:39 final size:39
Alignment explanation
Indices: 24251252--24251328 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
24251242 TCACATAAGA
*
24251252 TTTCAAATTTAAACCAAAATAATTTGAATAAAGGAAAAT
1 TTTCAAATTTAAACCAAAATAATTTGAATAAAGAAAAAT
24251291 TTTCAAATTTAAACCAAAATAATTTGAATAAAGAAAAA
1 TTTCAAATTTAAACCAAAATAATTTGAATAAAGAAAAA
24251329 CTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (39 bp):
TTTCAAATTTAAACCAAAATAATTTGAATAAAGAAAAAT
Found at i:24269862 original size:22 final size:21
Alignment explanation
Indices: 24269816--24269870 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
24269806 AACAAAACAC
* * *
24269816 AAAACCAGCAACCTCTCTTGG
1 AAAACCAGCAGCATCTCTTGA
24269837 AAAACCAGCAGCATCTTCTTGA
1 AAAACCAGCAGCATC-TCTTGA
24269859 AAAACCAGCAGC
1 AAAACCAGCAGC
24269871 CAAGAACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.38, C:0.31, G:0.15, T:0.16
Consensus pattern (21 bp):
AAAACCAGCAGCATCTCTTGA
Found at i:24272167 original size:32 final size:32
Alignment explanation
Indices: 24272131--24272193 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
24272121 ATGTAATATA
*
24272131 TGAACTATCAATATGTATTTTATTATAGTACT
1 TGAACTATCAATATGCATTTTATTATAGTACT
* *
24272163 TGAACTATCTATATGCGTTTTATTATAGTAC
1 TGAACTATCAATATGCATTTTATTATAGTAC
24272194 CTAGTGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (32 bp):
TGAACTATCAATATGCATTTTATTATAGTACT
Found at i:24277417 original size:63 final size:63
Alignment explanation
Indices: 24277281--24277440 Score: 200
Period size: 63 Copynumber: 2.6 Consensus size: 63
24277271 AAAGTACATG
* * * *
24277281 TACCGCATTGGACATTTTATAAAAGTATAAATATCATAATAAAACGCATATTGATAGTTTAGT
1 TACCACATTAGACATTTTATAAAAGTATAAATACCATAATAAAACGCATATTGATAGTTCAGT
* *
24277344 TACCACATTAGACATTTTATAAAAGTACAAATACCATAATAAAACGCGTATTGATAGTTCA-T
1 TACCACATTAGACATTTTATAAAAGTATAAATACCATAATAAAACGCATATTGATAGTTCAGT
** * *
24277406 GTATTATATTAGACATTTT-CAAAA-TATAAATACCA
1 -TACCACATTAGACATTTTATAAAAGTATAAATACCA
24277441 CATTGGACAG
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
61 10 0.12
62 5 0.06
63 70 0.82
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (63 bp):
TACCACATTAGACATTTTATAAAAGTATAAATACCATAATAAAACGCATATTGATAGTTCAGT
Found at i:24279702 original size:26 final size:26
Alignment explanation
Indices: 24279673--24279731 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
24279663 AAGAGTCAAC
*
24279673 TGACGCAATTGATGTAAAACGTTAGT
1 TGACACAATTGATGTAAAACGTTAGT
*
24279699 TGACACAATTGATGTAAATCGTTAGT
1 TGACACAATTGATGTAAAACGTTAGT
24279725 TGACACA
1 TGACACA
24279732 TAAAACTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (26 bp):
TGACACAATTGATGTAAAACGTTAGT
Found at i:24284459 original size:40 final size:40
Alignment explanation
Indices: 24284404--24284517 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 40
24284394 TGATAGTATG
* *
24284404 CACCGACACGAAGCCTACTACGCACTAAGCCCGATAAATA
1 CACCGGCACGAAGCCTACTAAGCACTAAGCCCGATAAATA
* * * *
24284444 CACCGGCATGAAGCCTGCTAGGCATTAAGCCCGATAAATA
1 CACCGGCACGAAGCCTACTAAGCACTAAGCCCGATAAATA
*
24284484 CACCGGCACGAAGCCTACTAAGCACAAAGCCCGA
1 CACCGGCACGAAGCCTACTAAGCACTAAGCCCGA
24284518 ATATTTAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.35, C:0.33, G:0.19, T:0.12
Consensus pattern (40 bp):
CACCGGCACGAAGCCTACTAAGCACTAAGCCCGATAAATA
Found at i:24286920 original size:23 final size:23
Alignment explanation
Indices: 24286867--24286937 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
24286857 GGCAACAGTA
* *
24286867 GGCACACAAAGTGCTAAACAGA-
1 GGCACACACAGTGCTAAATAGAG
*
24286889 AGCACACACAGTGCTAAATAGAG
1 GGCACACACAGTGCTAAATAGAG
* *
24286912 GGCACACACAATGCTGAATAGAG
1 GGCACACACAGTGCTAAATAGAG
24286935 GGC
1 GGC
24286938 GCGCAAATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 19 0.45
23 23 0.55
ACGTcount: A:0.41, C:0.23, G:0.25, T:0.11
Consensus pattern (23 bp):
GGCACACACAGTGCTAAATAGAG
Found at i:24294811 original size:89 final size:89
Alignment explanation
Indices: 24294660--24294837 Score: 311
Period size: 89 Copynumber: 2.0 Consensus size: 89
24294650 ATACCTAACC
**
24294660 AAAAGCTCATGTGTCTCCCGATAATTGAGTTGATTATCCACCAACTTTCTCCTTTCCCCGATTAA
1 AAAAGCTCACATGTCTCCCGATAATTGAGTTGATTATCCACCAACTTTCTCCTTTCCCCGATTAA
*
24294725 CAATTGTTCTGCTTGTTTCTTGAT
66 CAATTATTCTGCTTGTTTCTTGAT
24294749 AAAAGCTCACATGTCTCCCGATAATTGAGTTGATTATCCACCAACTTTCTCCTTTCCCCGATTAA
1 AAAAGCTCACATGTCTCCCGATAATTGAGTTGATTATCCACCAACTTTCTCCTTTCCCCGATTAA
* *
24294814 CAATTATTTTGTTTGTTTCTTGAT
66 CAATTATTCTGCTTGTTTCTTGAT
24294838 CTAAATACAA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 84 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (89 bp):
AAAAGCTCACATGTCTCCCGATAATTGAGTTGATTATCCACCAACTTTCTCCTTTCCCCGATTAA
CAATTATTCTGCTTGTTTCTTGAT
Found at i:24299475 original size:10 final size:10
Alignment explanation
Indices: 24299460--24299484 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24299450 CCACTTGTTG
24299460 AGTTCAACTT
1 AGTTCAACTT
24299470 AGTTCAACTT
1 AGTTCAACTT
24299480 AGTTC
1 AGTTC
24299485 TTGTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (10 bp):
AGTTCAACTT
Found at i:24302719 original size:14 final size:15
Alignment explanation
Indices: 24302702--24302735 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24302692 TTTTTTGAAT
24302702 ATTTT-CTCTACAAA
1 ATTTTACTCTACAAA
*
24302716 ATTTTACTCTCCAAA
1 ATTTTACTCTACAAA
24302731 ATTTT
1 ATTTT
24302736 TTATTTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTACTCTACAAA
Found at i:24307750 original size:9 final size:9
Alignment explanation
Indices: 24307738--24307944 Score: 59
Period size: 9 Copynumber: 21.9 Consensus size: 9
24307728 AATAATCAAC
24307738 AAAATTATA
1 AAAATTATA
24307747 AAAATTAT-
1 AAAATTATA
* *
24307755 TAAATTTTAA
1 AAAATTAT-A
24307765 TAAAATATATA
1 -AAAAT-TATA
* *
24307776 TAAATTTATT
1 -AAAATTATA
24307786 AAAA--ATA
1 AAAATTATA
* * *
24307793 GAAATAAAA
1 AAAATTATA
24307802 AAAATTTATA
1 AAAA-TTATA
*
24307812 AAATTTCTTATA
1 AAA-AT-T-ATA
*
24307824 AAAATCATA
1 AAAATTATA
24307833 AAAA-TATTA
1 AAAATTA-TA
24307842 TAAAATATATA
1 -AAAAT-TATA
* *
24307853 GAAA-TGTA
1 AAAATTATA
24307861 AAAATTAT-
1 AAAATTATA
* *
24307869 AAACTTTTA
1 AAAATTATA
*
24307878 TAAATTCATAA
1 AAAATT-AT-A
24307889 GAAAATTATA
1 -AAAATTATA
24307899 AAAA-TATA
1 AAAATTATA
*
24307907 AAGAATTATG
1 AA-AATTATA
* *
24307917 AAATTCGTAAA
1 AAAAT--TATA
24307928 AAAATTATA
1 AAAATTATA
24307937 AAAATTAT
1 AAAATTAT
24307945 CCTACCAAAA
Statistics
Matches: 142, Mismatches: 33, Indels: 46
0.64 0.15 0.21
Matches are distributed among these distances:
7 5 0.04
8 25 0.18
9 50 0.35
10 24 0.17
11 23 0.16
12 15 0.11
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:24307769 original size:20 final size:21
Alignment explanation
Indices: 24307744--24307792 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
24307734 CAACAAAATT
24307744 ATAAAAAT-TAT-TAAATTTTA
1 ATAAAAATATATATAAA-TTTA
24307764 AT-AAAATATATATAAATTTA
1 ATAAAAATATATATAAATTTA
*
24307784 TTAAAAATA
1 ATAAAAATA
24307793 GAAATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.20
20 10 0.40
21 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAAAATATATATAAATTTA
Found at i:24307790 original size:21 final size:19
Alignment explanation
Indices: 24307745--24307792 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
24307735 AACAAAATTA
24307745 TAAAAAT-TATTAAATTTT
1 TAAAAATATATTAAATTTT
*
24307763 AATAAAATATATATAAATTTAT
1 TA-AAAATATAT-TAAATTT-T
24307785 TAAAAATA
1 TAAAAATA
24307793 GAAATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 5 0.21
20 3 0.12
21 13 0.54
22 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAAAATATATTAAATTTT
Found at i:24307881 original size:56 final size:55
Alignment explanation
Indices: 24307739--24307906 Score: 150
Period size: 55 Copynumber: 3.0 Consensus size: 55
24307729 ATAATCAACA
* * *
24307739 AAATTATAAAAATTATTAAATTTTAATAAAATAT-ATATAAAT-TTATTAAAA-ATAG
1 AAATAATAAAAATTA-TAAATTTT-ATAAAA-ATCATAAAAATATTATAAAAATATAG
*
24307794 AAATAAAAAAAATTTATAAAATTTCTTATAAAAATCATAAAAATATTATAAAATATATAG
1 AAATAATAAAAA-TTAT-AAA-TT-TTATAAAAATCATAAAAATATTATAAAA-ATATAG
* *
24307854 AAAT-GTAAAAATTATAAACTTTTAT-AAATTCATAAGAAA-ATTATAAAAATATA
1 AAATAATAAAAATTATAAA-TTTTATAAAAATCATAA-AAATATTATAAAAATATA
24307907 AAGAATTATG
Statistics
Matches: 96, Mismatches: 8, Indels: 19
0.78 0.07 0.15
Matches are distributed among these distances:
54 5 0.05
55 29 0.30
56 15 0.16
57 20 0.21
58 13 0.14
59 6 0.06
60 8 0.08
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (55 bp):
AAATAATAAAAATTATAAATTTTATAAAAATCATAAAAATATTATAAAAATATAG
Found at i:24307897 original size:19 final size:19
Alignment explanation
Indices: 24307819--24307939 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 19
24307809 ATAAAATTTC
*
24307819 TTATAAAAATCATAAAAATA
1 TTATAAAATTCATAAAAA-A
*
24307839 TTATAAAA-T-ATATAGAAA
1 TTATAAAATTCATA-AAAAA
***
24307857 TGTA-AAAATT-ATAAACTT
1 T-TATAAAATTCATAAAAAA
24307875 TTAT-AAATTCATAAGAAAA
1 TTATAAAATTCATAA-AAAA
* *
24307894 TTATAAAAAT-ATAAAGAA
1 TTATAAAATTCATAAAAAA
* *
24307912 TTATGAAATTCGTAAAAAAA
1 TTATAAAATTCAT-AAAAAA
24307932 TTATAAAA
1 TTATAAAA
24307940 ATTATCCTAC
Statistics
Matches: 77, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
17 7 0.09
18 26 0.34
19 20 0.26
20 24 0.31
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
TTATAAAATTCATAAAAAA
Found at i:24308113 original size:10 final size:10
Alignment explanation
Indices: 24308098--24308149 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
24308088 CTTTTATGTA
24308098 TTTTATAATT
1 TTTTATAATT
*
24308108 TTTTATGA-T
1 TTTTATAATT
**
24308117 TTTTATAAAA
1 TTTTATAATT
*
24308127 TTTTACAATT
1 TTTTATAATT
*
24308137 TTTTACAATT
1 TTTTATAATT
24308147 TTT
1 TTT
24308150 ATTTTTTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.23
10 27 0.77
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:24308130 original size:19 final size:19
Alignment explanation
Indices: 24308089--24308131 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
24308079 TTAAATGACC
**
24308089 TTTTATGTATTTTATAATT
1 TTTTATGTATTTTATAAAA
24308108 TTTTATG-ATTTTTATAAAA
1 TTTTATGTA-TTTTATAAAA
24308127 TTTTA
1 TTTTA
24308132 CAATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTATGTATTTTATAAAA
Found at i:24320309 original size:26 final size:26
Alignment explanation
Indices: 24320278--24320331 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
24320268 ACAATTTCTG
* *
24320278 TATATAAATTATATTATATTTATATAAT
1 TATAT-AATTATA-TATAATTAAATAAT
*
24320306 TATATTATTATATATAATTAAATAAT
1 TATATAATTATATATAATTAAATAAT
24320332 CAATTCGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.52
27 6 0.26
28 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TATATAATTATATATAATTAAATAAT
Found at i:24320318 original size:16 final size:19
Alignment explanation
Indices: 24320278--24320325 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 19
24320268 ACAATTTCTG
24320278 TATATAAATTATATTATATT
1 TATAT-AATTATATTATATT
*
24320298 TATATAATTATATTAT-TA
1 TATATAATTATATTATATT
24320316 TATATAATTA
1 TATATAATTA
24320326 AATAATCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 11 0.41
19 11 0.41
20 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATAATTATATTATATT
Found at i:24327220 original size:17 final size:18
Alignment explanation
Indices: 24327190--24327223 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24327180 AATTTCTATA
24327190 CAATTTATATCCTAATTC
1 CAATTTATATCCTAATTC
24327208 CAATTTA-ATCCTAATT
1 CAATTTATATCCTAATT
24327224 AACTCATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTATATCCTAATTC
Found at i:24327850 original size:2 final size:2
Alignment explanation
Indices: 24327843--24327883 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
24327833 GACTTTAATT
24327843 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24327884 TTCATTAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24336152 original size:25 final size:24
Alignment explanation
Indices: 24336090--24336167 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 24
24336080 TTTTCATGTT
* *
24336090 TATAA-TTA-TTATATTTTTCACA
1 TATAATTTATTTATATTTTTTATA
* *
24336112 TATAAATTTGTATATATTTTTTATA
1 TAT-AATTTATTTATATTTTTTATA
*
24336137 TATAATTTCATTTATA--ATTTATA
1 TATAATTT-ATTTATATTTTTTATA
24336160 TATAATTT
1 TATAATTT
24336168 TTATTGAACA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
22 3 0.07
23 16 0.36
24 7 0.16
25 19 0.42
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (24 bp):
TATAATTTATTTATATTTTTTATA
Found at i:24336165 original size:11 final size:11
Alignment explanation
Indices: 24336131--24336167 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
24336121 GTATATATTT
24336131 TTTATATATAA
1 TTTATATATAA
*
24336142 TTTCATTTATAA
1 TTT-ATATATAA
24336154 TTTATATATAA
1 TTTATATATAA
24336165 TTT
1 TTT
24336168 TTATTGAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTATATATAA
Found at i:24340137 original size:29 final size:26
Alignment explanation
Indices: 24340095--24340164 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 26
24340085 AAATTTTAAA
24340095 TTAATAAAAGTAAAATTTCATTTTAATTCT
1 TTAA-AAAA-TAAAATTTCA-TTTAA-TCT
*
24340125 TTAAAATAATAAAATTTGATTTAATCT
1 TTAAAA-AATAAAATTTCATTTAATCT
*
24340152 TTTAAAAATAAAA
1 TTAAAAAATAAAA
24340165 ATATAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 7 0.19
27 8 0.22
28 5 0.14
29 11 0.30
30 6 0.16
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (26 bp):
TTAAAAAATAAAATTTCATTTAATCT
Found at i:24340522 original size:30 final size:29
Alignment explanation
Indices: 24340483--24340558 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
24340473 TTAATATAAT
*
24340483 ATTTGGTATTTAAATTTGATATATTTTTTA
1 ATTTGGTATTTAAATTTGACAT-TTTTTTA
*
24340513 ATTTTGTATTTAAATTTGACATTTTTTTA
1 ATTTGGTATTTAAATTTGACATTTTTTTA
* **
24340542 AGTTGGTACCTAAATTT
1 ATTTGGTATTTAAATTT
24340559 TTTGGATCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 20 0.50
30 20 0.50
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.57
Consensus pattern (29 bp):
ATTTGGTATTTAAATTTGACATTTTTTTA
Found at i:24340848 original size:57 final size:57
Alignment explanation
Indices: 24340777--24340944 Score: 194
Period size: 57 Copynumber: 2.9 Consensus size: 57
24340767 AATTGAATCT
* * *
24340777 TAAAAAAGTTTAGGTACTAAATTAGGAAAAAA-TGTCAAGTTTAGGTACCAAATTGGG
1 TAAAAAAGTTTAGGTACCAAATTA-GAAAAAAGTATCAAGTTCAGGTACCAAATTGGG
* *
24340834 TAAAAAAGTTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCAGGTACCAAATTAGA
1 TAAAAAAGTTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCAGGTACCAAATTGGG
* ** * * * * *
24340891 TCAAAAAAATTTAAATATCAAATTAAAAAAAAATATCAAGTTCAGATACTAAAT
1 T-AAAAAAGTTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCAGGTACCAAAT
24340945 ATTATATTAA
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
56 7 0.07
57 45 0.47
58 44 0.46
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.27
Consensus pattern (57 bp):
TAAAAAAGTTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCAGGTACCAAATTGGG
Found at i:24340849 original size:26 final size:27
Alignment explanation
Indices: 24340777--24340903 Score: 96
Period size: 31 Copynumber: 4.4 Consensus size: 27
24340767 AATTGAATCT
*
24340777 TAAAAAAGTTTAGGTACTAAATTAGGA
1 TAAAAAAGTTTAGGTACCAAATTAGGA
* *
24340804 AAAAATGTCAAGTTTAGGTACCAAATT-GGG
1 TAAAA----AAGTTTAGGTACCAAATTAGGA
*
24340834 TAAAAAAGTTTAGGTACCAAATTAGAA
1 TAAAAAAGTTTAGGTACCAAATTAGGA
* *
24340861 AAAAGTATCAAGTTCAGGTACCAAATTA-GA
1 TAAA--A--AAGTTTAGGTACCAAATTAGGA
*
24340891 TCAAAAAAATTTA
1 T-AAAAAAGTTTA
24340904 AATATCAAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
26 18 0.23
27 13 0.17
29 2 0.03
30 7 0.09
31 38 0.49
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.27
Consensus pattern (27 bp):
TAAAAAAGTTTAGGTACCAAATTAGGA
Found at i:24340890 original size:31 final size:30
Alignment explanation
Indices: 24340782--24340890 Score: 118
Period size: 31 Copynumber: 3.7 Consensus size: 30
24340772 AATCTTAAAA
* *
24340782 AAGTTTAGGTACTAAATTAGGAAAAAATGTC
1 AAGTTTAGGTACCAAATTA-GAAAAAATATC
***
24340813 AAGTTTAGGTACCAAATT-GGGTAAA-A--
1 AAGTTTAGGTACCAAATTAGAAAAAATATC
24340839 AAGTTTAGGTACCAAATTAGAAAAAAGTATC
1 AAGTTTAGGTACCAAATTAGAAAAAA-TATC
*
24340870 AAGTTCAGGTACCAAATTAGA
1 AAGTTTAGGTACCAAATTAGA
24340891 TCAAAAAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
26 18 0.28
27 4 0.06
29 5 0.08
31 37 0.58
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.27
Consensus pattern (30 bp):
AAGTTTAGGTACCAAATTAGAAAAAATATC
Found at i:24340928 original size:58 final size:57
Alignment explanation
Indices: 24340803--24340944 Score: 167
Period size: 58 Copynumber: 2.5 Consensus size: 57
24340793 CTAAATTAGG
* * * * * ** *
24340803 AAAAAATGTCAAGTTTAGGTACCAAATTGGGTAAAAAAGTTTAGGTACCAAATTAGA
1 AAAAAATATCAAGTTCAGGTACCAAATTAGATAAAAAAATTTAAATACCAAATTAAA
* *
24340860 AAAAAGTATCAAGTTCAGGTACCAAATTAGATCAAAAAAATTTAAATATCAAATTAAA
1 AAAAAATATCAAGTTCAGGTACCAAATTAGAT-AAAAAAATTTAAATACCAAATTAAA
* *
24340918 AAAAAATATCAAGTTCAGATACTAAAT
1 AAAAAATATCAAGTTCAGGTACCAAAT
24340945 ATTATATTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
57 27 0.38
58 44 0.62
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (57 bp):
AAAAAATATCAAGTTCAGGTACCAAATTAGATAAAAAAATTTAAATACCAAATTAAA
Found at i:24342175 original size:4 final size:4
Alignment explanation
Indices: 24342166--24342228 Score: 60
Period size: 4 Copynumber: 16.0 Consensus size: 4
24342156 AGAGAAGAAC
* * *
24342166 AAGA AAGA AAGA AAGA AAG- AAGA AA-A AAGGA AA-A AACA AGGA GAGAA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA-GA AAGA AAGA AAGA AAG-A
24342213 AAGA AAGA AAGA AAGA
1 AAGA AAGA AAGA AAGA
24342229 TAATAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
3 9 0.18
4 34 0.69
5 6 0.12
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:24342508 original size:14 final size:14
Alignment explanation
Indices: 24342491--24342546 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
24342481 ATTTTAAGTT
24342491 ATTTGTTTTATTTA
1 ATTTGTTTTATTTA
* *
24342505 ATTTAATTTATATTTG
1 ATTT-GTTT-TATTTA
24342521 ATTTG--TTATTTA
1 ATTTGTTTTATTTA
*
24342533 ATTTTTTTTATTTA
1 ATTTGTTTTATTTA
24342547 GTAGAGTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
12 9 0.27
13 1 0.03
14 11 0.33
15 3 0.09
16 9 0.27
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (14 bp):
ATTTGTTTTATTTA
Found at i:24343979 original size:43 final size:43
Alignment explanation
Indices: 24343930--24344027 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
24343920 TTATTCATCG
*
24343930 ACATGTTATTAAATTATATTA-CTTGACTCGTGTTAATATCGTG
1 ACATGTTATTAAATTATATTATC-TGACTCGTGTTAATATCGTA
* *
24343973 GCATGTTATTAAATTATATTATCTGACTCTTGTTAATATCGTA
1 ACATGTTATTAAATTATATTATCTGACTCGTGTTAATATCGTA
24344016 ACATGTTATTAA
1 ACATGTTATTAA
24344028 TTGTGCAGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 49 0.98
44 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (43 bp):
ACATGTTATTAAATTATATTATCTGACTCGTGTTAATATCGTA
Found at i:24349648 original size:11 final size:11
Alignment explanation
Indices: 24349632--24349656 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24349622 AAAATAATAG
24349632 AAATAAATAAT
1 AAATAAATAAT
24349643 AAATAAATAAT
1 AAATAAATAAT
24349654 AAA
1 AAA
24349657 AGCAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:24350526 original size:30 final size:29
Alignment explanation
Indices: 24350490--24350634 Score: 148
Period size: 30 Copynumber: 4.9 Consensus size: 29
24350480 CACTAAAGGT
*
24350490 CCTTAAACTTTCTAAAAATCATATTTTGAC
1 CCTTAAACTTTCT-AAAATCACATTTTGAC
*
24350520 CCTTAAACTTTCCTAAAATCATATTTTGAC
1 CCTTAAACTTT-CTAAAATCACATTTTGAC
* *
24350550 CCTTAAACTTTCTTTAAATCACATTTT-AA
1 CCTTAAACTTTC-TAAAATCACATTTTGAC
* *
24350579 CCTTAAAATTTTCTAAAATCACATTTTAAC
1 CCTT-AAACTTTCTAAAATCACATTTTGAC
** * * *
24350609 CCCCAAACTTCCAAAAATTACATTTT
1 CCTTAAACTTTCTAAAATCACATTTT
24350635 AGCCCAAACT
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
29 37 0.37
30 60 0.61
31 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.01, T:0.39
Consensus pattern (29 bp):
CCTTAAACTTTCTAAAATCACATTTTGAC
Found at i:24350617 original size:59 final size:60
Alignment explanation
Indices: 24350494--24350634 Score: 160
Period size: 59 Copynumber: 2.4 Consensus size: 60
24350484 AAAGGTCCTT
* * * * * **
24350494 AAACTTTCTAAAAATCATATTTTGACCCTTAAACTTTCCTAAAATCATATTTTGACCCTT
1 AAACTTTCTAAAAATCACATTTTGAACCTTAAAATTTCCTAAAATCACATTTTAACCCCC
** *
24350554 AAACTTTCTTTAAATCACATTTT-AACCTTAAAATTTTCTAAAATCACATTTTAACCCCC
1 AAACTTTCTAAAAATCACATTTTGAACCTTAAAATTTCCTAAAATCACATTTTAACCCCC
* *
24350613 AAAC-TTCCAAAAATTACATTTT
1 AAACTTTCTAAAAATCACATTTT
24350635 AGCCCAAACT
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
58 14 0.21
59 33 0.49
60 20 0.30
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.39
Consensus pattern (60 bp):
AAACTTTCTAAAAATCACATTTTGAACCTTAAAATTTCCTAAAATCACATTTTAACCCCC
Found at i:24350625 original size:29 final size:28
Alignment explanation
Indices: 24350593--24350732 Score: 120
Period size: 29 Copynumber: 4.9 Consensus size: 28
24350583 AAAATTTTCT
24350593 AAAATCACATTTTAACCCCCAAACTTCCA
1 AAAATCACATTTT-ACCCCCAAACTTCCA
* *
24350622 AAAATTACATTTTA-GCCCAAACTTCCA
1 AAAATCACATTTTACCCCCAAACTTCCA
* * * *
24350649 AAAATTACATTTTTACCGTCTAATCTTCCA
1 AAAATCACA-TTTTACC-CCCAAACTTCCA
* ** * *
24350679 AAAATTACAATTTTGTCCTCGAACTTCCA
1 AAAATCAC-ATTTTACCCCCAAACTTCCA
* *
24350708 AAAATCACATTTTGCCCCCGAACTT
1 AAAATCACATTTTACCCCCAAACTT
24350733 TTCCAAAAGT
Statistics
Matches: 91, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
27 21 0.23
28 21 0.23
29 26 0.29
30 22 0.24
31 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.31
Consensus pattern (28 bp):
AAAATCACATTTTACCCCCAAACTTCCA
Found at i:24350648 original size:27 final size:26
Alignment explanation
Indices: 24350610--24350724 Score: 122
Period size: 27 Copynumber: 4.1 Consensus size: 26
24350600 CATTTTAACC
24350610 CCCAAACTTCCAAAAATTACATTTTAG
1 CCCAAACTTCCAAAAATTACATTTT-G
*
24350637 CCCAAACTTCCAAAAATTACATTTTTA
1 CCCAAACTTCCAAAAATTACA-TTTTG
*
24350664 CCGTCTAATCTTCCAAAAATTACAATTTTG
1 CC--C-AAACTTCCAAAAATTAC-ATTTTG
* *
24350694 TCCTCGAACTTCCAAAAATCACATTTTG
1 -CC-CAAACTTCCAAAAATTACATTTTG
24350722 CCC
1 CCC
24350725 CCGAACTTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
26 1 0.01
27 25 0.33
28 10 0.13
29 15 0.20
30 22 0.29
31 3 0.04
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.32
Consensus pattern (26 bp):
CCCAAACTTCCAAAAATTACATTTTG
Found at i:24350750 original size:30 final size:28
Alignment explanation
Indices: 24350674--24350797 Score: 97
Period size: 28 Copynumber: 4.3 Consensus size: 28
24350664 CCGTCTAATC
* * * *
24350674 TTCCAAAAATTACAATTTTGTCCTCGAAC
1 TTCCAAAAGTT-CAATTTTGACCCCGAAT
* *
24350703 TTCCAAAA-ATCACATTTTGCCCCCGAACTT
1 TTCCAAAAGTTCA-ATTTTGACCCCGAA--T
* *
24350733 TTCCAAAAGTTCGATTTTGACCTCGAAT
1 TTCCAAAAGTTCAATTTTGACCCCGAAT
* **
24350761 TTCCAAAAGTTCAATTTTAACCCTAAATT
1 TTCCAAAAGTTCAATTTTGACCCCGAA-T
24350790 TTCCAAAA
1 TTCCAAAA
24350798 AGCCCGATTT
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
27 2 0.03
28 36 0.47
29 17 0.22
30 20 0.26
31 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.34
Consensus pattern (28 bp):
TTCCAAAAGTTCAATTTTGACCCCGAAT
Found at i:24350770 original size:28 final size:28
Alignment explanation
Indices: 24350674--24350778 Score: 104
Period size: 28 Copynumber: 3.6 Consensus size: 28
24350664 CCGTCTAATC
* * *
24350674 TTCCAAAAATTACAATTTTGTCCTCGAAC
1 TTCCAAAAGTT-CAATTTTGACCTCGAAT
* * *
24350703 TTCCAAAA-ATCACATTTTGCCCCCGAACTT
1 TTCCAAAAGTTCA-ATTTTGACCTCGAA--T
*
24350733 TTCCAAAAGTTCGATTTTGACCTCGAAT
1 TTCCAAAAGTTCAATTTTGACCTCGAAT
24350761 TTCCAAAAGTTCAATTTT
1 TTCCAAAAGTTCAATTTT
24350779 AACCCTAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
27 2 0.03
28 31 0.49
29 8 0.13
30 20 0.32
31 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (28 bp):
TTCCAAAAGTTCAATTTTGACCTCGAAT
Found at i:24350778 original size:58 final size:57
Alignment explanation
Indices: 24350593--24350830 Score: 146
Period size: 58 Copynumber: 4.1 Consensus size: 57
24350583 AAAATTTTCT
* * * * *
24350593 AAAATCACATTTTAACCCCCAAA-CTTCCAAAAATTAC-ATTTT-AGCC-CAAACTTCCA
1 AAAATCACATTTTAA-CCCGAAATTTTCCAAAAGTT-CGATTTTGA-CCTCGAATTTCCA
* * * * * * * *
24350649 AAAATTACATTTTTA-CCGTCTAATCTTCCAAAAATTACAATTTTGTCCTCGAACTTCCA
1 AAAATCACATTTTAACCCG--AAATTTTCCAAAAGTT-CGATTTTGACCTCGAATTTCCA
** *
24350708 AAAATCACATTTTGCCCCCGAACTTTTCCAAAAGTTCGATTTTGACCTCGAATTTCCA
1 AAAATCACATTTT-AACCCGAAATTTTCCAAAAGTTCGATTTTGACCTCGAATTTCCA
* * ** *
24350766 AAAGTTCA-ATTTTAACCCTAAATTTTCCAAAAAGCCCGATTTTGACCTTCGAATTTTTCA
1 AAA-ATCACATTTTAACCCGAAATTTTCC-AAAAGTTCGATTTTGACC-TCGAA-TTTCCA
24350826 AAAAT
1 AAAAT
24350831 TACGTTTTTA
Statistics
Matches: 145, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
54 2 0.01
56 15 0.10
57 25 0.17
58 50 0.34
59 42 0.29
60 8 0.06
61 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (57 bp):
AAAATCACATTTTAACCCGAAATTTTCCAAAAGTTCGATTTTGACCTCGAATTTCCA
Found at i:24356314 original size:20 final size:18
Alignment explanation
Indices: 24356289--24356357 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 18
24356279 GGATTCAATG
24356289 AAGAAAAAAATTAAATAAAA
1 AAGAAAAAAA--AAATAAAA
*
24356309 AAGAAAGAAAAGAAAGAAAA
1 AAGAAA-AAAA-AAATAAAA
*
24356329 AAGGAAAAAAAAATAGAAA
1 AAGAAAAAAAAAATA-AAA
24356348 ATAGAAAAAA
1 A-AGAAAAAA
24356358 TAGGAAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 4 0.10
19 8 0.20
20 25 0.61
21 4 0.10
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (18 bp):
AAGAAAAAAAAAATAAAA
Found at i:24356337 original size:29 final size:29
Alignment explanation
Indices: 24356305--24356371 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
24356295 AAAATTAAAT
*
24356305 AAAAAAGAA-AGAAAAGA-AAGAAAAAAGG
1 AAAAAAAAATAGAAAAGAGAA-AAAAAAGG
* *
24356333 AAAAAAAAATAGAAAATAGAAAAAATAGG
1 AAAAAAAAATAGAAAAGAGAAAAAAAAGG
24356362 AAAAAGAAAA
1 AAAAA-AAAA
24356372 GGAGAGGTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 8 0.24
29 19 0.58
30 6 0.18
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.04
Consensus pattern (29 bp):
AAAAAAAAATAGAAAAGAGAAAAAAAAGG
Found at i:24356357 original size:16 final size:16
Alignment explanation
Indices: 24356336--24356371 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
24356326 AAAAAGGAAA
24356336 AAAAAATA-GAAAATAG
1 AAAAAATAGGAAAA-AG
24356352 AAAAAATAGGAAAAAG
1 AAAAAATAGGAAAAAG
24356368 AAAA
1 AAAA
24356372 GGAGAGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (16 bp):
AAAAAATAGGAAAAAG
Found at i:24357436 original size:50 final size:50
Alignment explanation
Indices: 24357319--24357807 Score: 328
Period size: 50 Copynumber: 9.9 Consensus size: 50
24357309 ACATGAAACA
* * * * * * *
24357319 TGATGGGAAAGGTTGAGGCTGCAATGGCGACCCCGGTACCAT-GAAGATC
1 TGATAGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATG
* * *
24357368 TGA-AGGGAAAGGTTGAGGCTGCAACGACGAACTCAGTACCTTAGAAGATG
1 TGATA-GGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATG
* * * * *
24357418 TGATAGGAAAGGTTGAGGCCGTAACGGCGAACCCGATACCAT-GAAGATA
1 TGATAGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATG
* * *
24357467 TGA-AGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTAGAAGATG
1 TGATA-GGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATG
* ** * *
24357517 TGATAGGAAAGGTTAATACC-CTAACGGCGAACCCAGTACCTTAGAAGATG
1 TGATAGGAAAGGTTGAGGCCGC-AACGGCGAACTCGGTACCTTAGAAGATG
* * * * * *
24357567 TGAT-GGGAAGGATTTAGGCCACAACGGCGAATTTGGTACCAT-GAA-ATG
1 TGATAGGAAAGG-TTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATG
* * *
24357615 TGATGGGAAAGGTTGAGGCCGCAACGACAAACTCGGTACCTTAGAAGATG
1 TGATAGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATG
* * * * *
24357665 TGATGGGGAGAA--TTGAGGCCACAATGGCGAA-TCCGGTTCCAT-GAA-ATG
1 TGAT-AGGA-AAGGTTGAGGCCGCAACGGCGAACT-CGGTACCTTAGAAGATG
* * * * * * * *
24357713 TGATGGGAAAGGTTAATGTCGCAATGGTGAACCCGGTACCAT-GAAGA-G
1 TGATAGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATG
* * * *
24357761 TTGA-AGGAAAAGGTTGAGGTCGCAAAGACGAAC-CTAGTACCTTAGAA
1 -TGATAGG-AAAGGTTGAGGCCGCAACGGCGAACTC-GGTACCTTAGAA
24357808 TCATGACGAA
Statistics
Matches: 353, Mismatches: 64, Indels: 45
0.76 0.14 0.10
Matches are distributed among these distances:
46 2 0.01
47 4 0.01
48 67 0.19
49 130 0.37
50 141 0.40
51 7 0.02
52 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (50 bp):
TGATAGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATG
Found at i:24357495 original size:99 final size:98
Alignment explanation
Indices: 24357319--24357807 Score: 413
Period size: 99 Copynumber: 5.0 Consensus size: 98
24357309 ACATGAAACA
* * * *
24357319 TGATGGGAAAGGTTGAGGCTGCAATGGCGACCCCGGTACCATGAAGATCTGAAGGGAAAGGTTGA
1 TGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGAAGGGAAAGGTTGA
*
24357384 GGCTGCAACGACGAACTCAGTACCTTAGAAGATG
66 GGCCGCAACGACGAACTCAGTACCTTAGAA-ATG
* * * *
24357418 TGATAGGAAAGGTTGAGGCCGTAACGGCGAACCCGATACCATGAAGATATGAAGGGAAAGGTTGA
1 TGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGAAGGGAAAGGTTGA
*
24357483 GGCCGCAACGACGAAC-CCGATACCTTAGAAGATG
66 GGCCGCAACGACGAACTCAG-TACCTTAGAA-ATG
* * ** * * *
24357517 TGATAGGAAAGGTTAATACC-CTAACGGCGAACCCAGTACCTTAGAAGATGTGATGGG-AAGGAT
1 TGATGGGAAAGGTTGAGGCCGC-AACGGCGAACCCGGTACCAT-GAAGATGTGAAGGGAAAGG-T
* * * * ** *
24357580 TTAGGCCACAACGGCGAATTTGGTACCAT-GAAATG
63 TGAGGCCGCAACGACGAACTCAGTACCTTAGAAATG
* * * * *
24357615 TGATGGGAAAGGTTGAGGCCGCAACGACAAACTCGGTACCTTAGAAGATGTGATGGGGAGAA--T
1 TGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT-GAAGATGTGA-AGGGA-AAGGT
* * * * * *
24357678 TGAGGCCACAATGGCGAA-TCCGGTTCCAT-GAAATG
63 TGAGGCCGCAACGACGAACT-CAGTACCTTAGAAATG
* * * * * *
24357713 TGATGGGAAAGGTTAATGTCGCAATGGTGAACCCGGTACCATGAAGA-GTTGAAGGAAAAGGTTG
1 TGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATG-TGAAGGGAAAGGTTG
* *
24357777 AGGTCGCAAAGACGAAC-CTAGTACCTTAGAA
65 AGGCCGCAACGACGAACTC-AGTACCTTAGAA
24357808 TCATGACGAA
Statistics
Matches: 318, Mismatches: 56, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
95 2 0.01
96 5 0.02
97 29 0.09
98 114 0.36
99 132 0.42
100 33 0.10
101 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (98 bp):
TGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGAAGGGAAAGGTTGA
GGCCGCAACGACGAACTCAGTACCTTAGAAATG
Found at i:24357567 original size:149 final size:148
Alignment explanation
Indices: 24357390--24357668 Score: 398
Period size: 148 Copynumber: 1.9 Consensus size: 148
24357380 TTGAGGCTGC
* **
24357390 AACGACGAACTCAGTACCTTAGAAGATGTGATAGGAAAGG-TTGAGGCCGTAACGGCGAACCCGA
1 AACGACGAACCCAGTACCTTAGAAGATGTGAT-GGAAAGGATTGAGGCCACAACGGCGAACCCGA
*
24357454 TACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTG
65 TACCATGAA-ATATGAAGGGAAAGGTTGAGGCCGCAACGACAAACCCGATACCTTAGAAGATGTG
24357519 ATAGGAAAGGTTAATACCCT
129 ATAGGAAAGGTTAATACCCT
* * * *** *
24357539 AACGGCGAACCCAGTACCTTAGAAGATGTGATGGGAAGGATTTAGGCCACAACGGCGAATTTGGT
1 AACGACGAACCCAGTACCTTAGAAGATGTGATGGAAAGGATTGAGGCCACAACGGCGAACCCGAT
* * * *
24357604 ACCATGAAATGTGATGGGAAAGGTTGAGGCCGCAACGACAAACTCGGTACCTTAGAAGATGTGAT
66 ACCATGAAATATGAAGGGAAAGGTTGAGGCCGCAACGACAAACCCGATACCTTAGAAGATGTGAT
24357669 GGGGAGAATT
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
148 58 0.51
149 56 0.49
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (148 bp):
AACGACGAACCCAGTACCTTAGAAGATGTGATGGAAAGGATTGAGGCCACAACGGCGAACCCGAT
ACCATGAAATATGAAGGGAAAGGTTGAGGCCGCAACGACAAACCCGATACCTTAGAAGATGTGAT
AGGAAAGGTTAATACCCT
Found at i:24357736 original size:98 final size:98
Alignment explanation
Indices: 24357415--24357728 Score: 292
Period size: 98 Copynumber: 3.2 Consensus size: 98
24357405 ACCTTAGAAG
* * * * * * * * * *
24357415 ATGTGATAGGAAAGGTTGAGGCCGTAACGGCGAACCCGATACCAT-GAAGATATGAAGGGAA-AG
1 ATGTGATGGGAAAGGTTAAGGCCGCAACGACAAACTCGGTACCTTAGAAGATGTGATGGGAAGA-
* * * * * *
24357478 GTTGAGGCCGCAACGACGAACCCGATACCTTAGAA
65 ATTGAGGCCACAACGGCGAATCCGGTACCAT-GAA
* ** * * * *
24357513 GATGTGATAGGAAAGGTTAATACC-CTAACGGCGAACCCAGTACCTTAGAAGATGTGATGGGAAG
1 -ATGTGATGGGAAAGGTTAAGGCCGC-AACGACAAACTCGGTACCTTAGAAGATGTGATGGGAAG
* * **
24357577 GATTTAGGCCACAACGGCGAATTTGGTACCATGAA
64 AATTGAGGCCACAACGGCGAATCCGGTACCATGAA
* *
24357612 ATGTGATGGGAAAGGTTGAGGCCGCAACGACAAACTCGGTACCTTAGAAGATGTGATGGGGAGAA
1 ATGTGATGGGAAAGGTTAAGGCCGCAACGACAAACTCGGTACCTTAGAAGATGTGATGGGAAGAA
* *
24357677 TTGAGGCCACAATGGCGAATCCGGTTCCATGAA
66 TTGAGGCCACAACGGCGAATCCGGTACCATGAA
24357710 ATGTGATGGGAAAGGTTAA
1 ATGTGATGGGAAAGGTTAA
24357729 TGTCGCAATG
Statistics
Matches: 176, Mismatches: 35, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
98 99 0.56
99 41 0.23
100 36 0.20
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (98 bp):
ATGTGATGGGAAAGGTTAAGGCCGCAACGACAAACTCGGTACCTTAGAAGATGTGATGGGAAGAA
TTGAGGCCACAACGGCGAATCCGGTACCATGAA
Found at i:24358186 original size:41 final size:41
Alignment explanation
Indices: 24358037--24358329 Score: 385
Period size: 41 Copynumber: 7.0 Consensus size: 41
24358027 AAACTACAGT
24358037 CATTCCAATCTTTTACCCCTAATCAA-AATGGGCAGATTGAACA
1 CATTCCAATCTTTTACCCCTAATCAAGAA-GGGCAGATTG-A-A
* *
24358080 CATTCCAATATTTTACCCCTAAGTCAAGAGGGGCAGATTGAA
1 CATTCCAATCTTTTACCCCTAA-TCAAGAAGGGCAGATTGAA
24358122 GCCATTCCAATCTTTTACCCCTAATCAAGAAGGGCAGATTGAA
1 --CATTCCAATCTTTTACCCCTAATCAAGAAGGGCAGATTGAA
* *
24358165 CATTTCAATCTTATACCCCTAATCAAG-AGAGGCAGATTGAA
1 CATTCCAATCTTTTACCCCTAATCAAGAAG-GGCAGATTGAA
* *
24358206 GATTCCAATCTTTTACCCCTAATCAAG-AGAGACAGATTGAA
1 CATTCCAATCTTTTACCCCTAATCAAGAAG-GGCAGATTGAA
*
24358247 GTCATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAA
1 --CATTCCAATCTTTTACCCCTAATCAAGAAGGGCAGATTGAA
* * *
24358290 GATTCTAATCTTTTACCCCTAATCAAGAGGGGCAGATTGA
1 CATTCCAATCTTTTACCCCTAATCAAGAAGGGCAGATTGA
24358330 GGATACACCA
Statistics
Matches: 225, Mismatches: 17, Indels: 18
0.87 0.07 0.07
Matches are distributed among these distances:
40 2 0.01
41 109 0.48
42 1 0.00
43 75 0.33
44 37 0.16
45 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (41 bp):
CATTCCAATCTTTTACCCCTAATCAAGAAGGGCAGATTGAA
Found at i:24358266 original size:84 final size:82
Alignment explanation
Indices: 24358038--24358329 Score: 392
Period size: 84 Copynumber: 3.5 Consensus size: 82
24358028 AACTACAGTC
* *
24358038 ATTCCAATCTTTTACCCCTAATCAAAATG-GGCAGATTGAACACATTCCAATATTTTACCCCTAA
1 ATTCCAATCTTTTACCCCTAATCAAGA-GAGGCAGATTG-A-ACATTCCAATCTTTTACCCCTAA
*
24358102 GTCAAGAGGGGCAGATTGAAG
63 -TCAAGAGAGGCAGATTGAAG
* *
24358123 CCATTCCAATCTTTTACCCCTAATCAAGA-AGGGCAGATTGAACATTTCAATCTTATACCCCTAA
1 --ATTCCAATCTTTTACCCCTAATCAAGAGA-GGCAGATTGAACATTCCAATCTTTTACCCCTAA
24358187 TCAAGAGAGGCAGATTGAAG
63 TCAAGAGAGGCAGATTGAAG
* *
24358207 ATTCCAATCTTTTACCCCTAATCAAGAGAGACAGATTGAAGTCATTCCAATCTTTTACCCTTAAT
1 ATTCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAA--CATTCCAATCTTTTACCCCTAAT
24358272 CAAGA-AGGGCAGATTGAAG
64 CAAGAGA-GGCAGATTGAAG
* *
24358291 ATTCTAATCTTTTACCCCTAATCAAGAGGGGCAGATTGA
1 ATTCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGA
24358330 GGATACACCA
Statistics
Matches: 187, Mismatches: 12, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
82 37 0.20
83 2 0.01
84 92 0.49
85 20 0.11
86 1 0.01
87 35 0.19
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (82 bp):
ATTCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAACATTCCAATCTTTTACCCCTAATCA
AGAGAGGCAGATTGAAG
Found at i:24358272 original size:125 final size:126
Alignment explanation
Indices: 24358037--24358329 Score: 430
Period size: 125 Copynumber: 2.3 Consensus size: 126
24358027 AAACTACAGT
* *
24358037 CATTCCAATCTTTTACCCCTAATCAAAATGGGCAGATTGAACACATTCCAATATTTTACCCCTAA
1 CATTTCAATCTTTTACCCCTAATCAAGA-GGGCAGATTG-ACACATTCCAATATTTTACCCCTAA
* *
24358102 GTCAAGAGGGGCAGATTGAAGCCATTCCAATCTTTTACCCCTAATCAAGAAGGGCAGATTGAA
64 GTCAAGAGAGACAGATTGAAGCCATTCCAATCTTTTACCCCTAATCAAGAAGGGCAGATTGAA
* * *
24358165 CATTTCAATCTTATACCCCTAATCAAGAGAGGCAGATTGA-AGATTCCAATCTTTTACCCCTAA-
1 CATTTCAATCTTTTACCCCTAATCAAGAG-GGCAGATTGACACATTCCAATATTTTACCCCTAAG
* *
24358228 TCAAGAGAGACAGATTGAAGTCATTCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAA
65 TCAAGAGAGACAGATTGAAGCCATTCCAATCTTTTACCCCTAATCAAGAAGGGCAGATTGAA
*
24358290 GA-TTCTAATCTTTTACCCCTAATCAAGAGGGGCAGATTGA
1 CATTTC-AATCTTTTACCCCTAATCAAGA-GGGCAGATTGA
24358330 GGATACACCA
Statistics
Matches: 151, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
124 3 0.02
125 90 0.60
126 22 0.15
127 2 0.01
128 34 0.23
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (126 bp):
CATTTCAATCTTTTACCCCTAATCAAGAGGGCAGATTGACACATTCCAATATTTTACCCCTAAGT
CAAGAGAGACAGATTGAAGCCATTCCAATCTTTTACCCCTAATCAAGAAGGGCAGATTGAA
Found at i:24358392 original size:39 final size:38
Alignment explanation
Indices: 24358361--24358491 Score: 122
Period size: 39 Copynumber: 3.4 Consensus size: 38
24358351 ATGAGGCAAT
24358361 TTGCAGACATCCAATCTCTTACCCAGATCATGGGACAGA
1 TTGCAGACATCCAATCTCTTACCCAGATCATGGG-CAGA
* * *
24358400 TTGCAGCCATCTAATCTCTTACCCCGATCATGGGGCAGA
1 TTGCAGACATCCAATCTCTTACCCAGATCAT-GGGCAGA
* * * * *
24358439 TTACAG-CTACCCGATCTTTTACCCCA-ATCATAGGGTAGA
1 TTGCAGAC-ATCCAATCTCTTA-CCCAGATCAT-GGGCAGA
*
24358478 TTGCAGTCATCCAA
1 TTGCAGACATCCAA
24358492 AGTAATAAAG
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 1 0.01
39 66 0.89
40 7 0.09
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (38 bp):
TTGCAGACATCCAATCTCTTACCCAGATCATGGGCAGA
Found at i:24359000 original size:209 final size:206
Alignment explanation
Indices: 24358527--24359041 Score: 730
Period size: 209 Copynumber: 2.5 Consensus size: 206
24358517 TGAGATATAA
* * * * * * *
24358527 AGAAGTGGACCAAAGCTGTCTTCTTGATGAGATACAGAGAAGCGGATTAAAATAAGTGATGCTGT
1 AGAAGTGAACCAAATCCGTCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAA-TGAAGCAGT
* *
24358592 CATTTTCCTGATGAGATACAGAGAAGTAGACCAAATTAATGAAGTGAAGCTCAATGTGAGTGAAA
65 CATTTTCCTGATGAGATACAGAGAAGTAGACC-AATTAACGAAGTGAAGCTCAATATGAGTGAAA
* *
24358657 CTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGTGGGTCAAACCAATAAATGGTCATCTTTT
129 CTTCAAACCCCATCTTCTTGATGAGATACAAAGAAGTGGGTCAAACCAATAAATGGTCATCTTTC
*
24358722 TGACGAGATGCAG
194 TGACAAGATGCAG
* *
24358735 AGAAGTGAACCAAATCCGTCTTCTTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCAGTC
1 AGAAGTGAACCAAATCCGTCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCAGTC
* * *
24358800 ATTTTTCTGATGAGATATAGAGAAGTAGACCAATTCAGCGAAGTGAAGCTCAATATGAGTGAAAC
66 ATTTTCCTGATGAGATACAGAGAAGTAGACCAATT-AACGAAGTGAAGCTCAATATGAGTGAAAC
* * *
24358865 TTCCAAACCCCATCTTCTTGATGAGATACAAA-AGAGTGGGTTAAAGCAATAAAGTGTTCAT-TT
130 TT-CAAACCCCATCTTCTTGATGAGATACAAAGA-AGTGGGTCAAACCAATAAA-TGGTCATCTT
24358928 TCCTGACAAGATGCAG
192 T-CTGACAAGATGCAG
*
24358944 AGAAGTGAACCAAATCCGTCTT-TCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCGGT
1 AGAAGTGAACCAAATCCGTCTTCT-TGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCAGT
* *
24359008 CATCTTCCTGATGAGATGCAGAGAAGTAGACCAA
65 CATTTTCCTGATGAGATACAGAGAAGTAGACCAA
24359042 GAGGAAGCTA
Statistics
Matches: 275, Mismatches: 26, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
206 4 0.01
207 66 0.24
208 98 0.36
209 107 0.39
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (206 bp):
AGAAGTGAACCAAATCCGTCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCAGTC
ATTTTCCTGATGAGATACAGAGAAGTAGACCAATTAACGAAGTGAAGCTCAATATGAGTGAAACT
TCAAACCCCATCTTCTTGATGAGATACAAAGAAGTGGGTCAAACCAATAAATGGTCATCTTTCTG
ACAAGATGCAG
Found at i:24359886 original size:2 final size:2
Alignment explanation
Indices: 24359881--24359920 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
24359871 CATATACACA
24359881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24359921 TCTCTTTTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24362316 original size:24 final size:23
Alignment explanation
Indices: 24362282--24362413 Score: 70
Period size: 24 Copynumber: 5.4 Consensus size: 23
24362272 TATAAAGTGA
* *
24362282 CGAGCGTAAACGTGTGCAAACTGG
1 CGAGCGAAAACGTATG-AAACTGG
* *
24362306 CGAGCGAAAACGCATAT-ATAGCTGA
1 CGAGCGAAAACG--TATGA-AACTGG
* * * *
24362331 CGAGCGTAAATGTGTGCAAACTGA
1 CGAGCGAAAACGTATG-AAACTGG
*
24362355 CGAGCGTAAAA-GTATGAAAGCTAG
1 CGAGCG-AAAACGTATGAAA-CTGG
* *
24362379 CGAGCGTAAACGTATGAAAGTTGG
1 CGAGCGAAAACGTATGAAA-CTGG
24362403 CGAGCGTAAAA
1 CGAGCG-AAAA
24362414 TGCAATAAAC
Statistics
Matches: 83, Mismatches: 16, Indels: 17
0.72 0.14 0.15
Matches are distributed among these distances:
23 8 0.10
24 52 0.63
25 21 0.25
26 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (23 bp):
CGAGCGAAAACGTATGAAACTGG
Found at i:24362349 original size:49 final size:50
Alignment explanation
Indices: 24362219--24362413 Score: 183
Period size: 50 Copynumber: 3.9 Consensus size: 50
24362209 ATATATATAT
* * * **
24362219 ATATATAAGCTGAAGAGCATAAACGTGTGCCAGTTGGCGAGC-ATAAACGC
1 ATATATAAGCTGACGAGCGTAAACGTGTGCAAACTGGCGAGCGA-AAACGC
24362269 ATATATAAAG-TGACGAGCGTAAACGTGTGCAAACTGGCGAGCGAAAACGC
1 ATATAT-AAGCTGACGAGCGTAAACGTGTGCAAACTGGCGAGCGAAAACGC
* *
24362319 ATATAT-AGCTGACGAGCGTAAATGTGTGCAAACTGACGAGCGTAAAA-G-
1 ATATATAAGCTGACGAGCGTAAACGTGTGCAAACTGGCGAGCG-AAAACGC
* *
24362367 -TATGA-AAGCT-AGCGAGCGTAAACGTATG-AAAGTTGGCGAGCGTAAAA
1 ATAT-ATAAGCTGA-CGAGCGTAAACGTGTGCAAA-CTGGCGAGCG-AAAA
24362414 TGCAATAAAC
Statistics
Matches: 126, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
47 7 0.06
48 34 0.27
49 32 0.25
50 49 0.39
51 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (50 bp):
ATATATAAGCTGACGAGCGTAAACGTGTGCAAACTGGCGAGCGAAAACGC
Done.