Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 24 of 109
Found at i:8169374 original size:85 final size:84
Alignment explanation
Indices: 8169167--8169382 Score: 256
Period size: 85 Copynumber: 2.6 Consensus size: 84
8169157 GGCGCTTAAA
* * * ** *
8169167 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-ATAAAAAAAACGCCGCTAAAGGTCATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATAAAAACGCCGCTAAAGAACATGA
* * * *
8169231 TCTTTAGCGGCACTTTCTC
66 CCTATAGCGGCACCTACTC
* * * *
8169250 GAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTTTGTAACAAACGCCGCTAAAGAACATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATAA-AAACGCCGCTAAAGAACATG
8169315 ACCTATAGCGGCACCTAC-C
65 ACCTATAGCGGCACCTACTC
* *
8169334 AACAAACGCCGCTAAAGCTCATGTTCTTTAGCGGCACTTTTATAAAAAC
1 AA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATAAAAAC
8169383 ACCACTAATT
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
83 33 0.30
84 9 0.08
85 69 0.62
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATAAAAACGCCGCTAAAGAACATGA
CCTATAGCGGCACCTACTC
Found at i:8170176 original size:21 final size:21
Alignment explanation
Indices: 8170151--8170202 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
8170141 TTTCTTTTGA
*
8170151 ACCTCTGCTTCTCTCGCTAC-
1 ACCTCTGCTTCCCTCGCTACT
*
8170171 AGCCTCTGCTTCCCTCGCTGCT
1 A-CCTCTGCTTCCCTCGCTACT
8170193 ACCTCTGCTT
1 ACCTCTGCTT
8170203 TAAGTTGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.08, C:0.44, G:0.13, T:0.35
Consensus pattern (21 bp):
ACCTCTGCTTCCCTCGCTACT
Found at i:8174396 original size:18 final size:18
Alignment explanation
Indices: 8174373--8174407 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8174363 TTTGCCCCTA
8174373 GTAATCGACAGAGGCAAC
1 GTAATCGACAGAGGCAAC
*
8174391 GTAATCGATAGAGGCAA
1 GTAATCGACAGAGGCAA
8174408 ACCCTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (18 bp):
GTAATCGACAGAGGCAAC
Found at i:8175217 original size:21 final size:21
Alignment explanation
Indices: 8175191--8175232 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8175181 GAGAGTGATG
* *
8175191 CATTTTTAAAAAATAATTACA
1 CATTTTAAAAAAATAAATACA
8175212 CATTTTAAAAAAATAAATACA
1 CATTTTAAAAAAATAAATACA
8175233 TCAATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
CATTTTAAAAAAATAAATACA
Found at i:8175786 original size:22 final size:21
Alignment explanation
Indices: 8175750--8175792 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
8175740 ATTGTAAATC
*
8175750 TTAAACCCTAAACCATAAACA
1 TTAAACCCTAAACCACAAACA
8175771 TTAAACCCTTAAACCACAAACA
1 TTAAACCC-TAAACCACAAACA
8175793 ACAAACACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (21 bp):
TTAAACCCTAAACCACAAACA
Found at i:8175798 original size:22 final size:21
Alignment explanation
Indices: 8175752--8175798 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
8175742 TGTAAATCTT
* **
8175752 AAACCCTAAACCATAAACATT
1 AAACCCTAAACCACAAACAAC
8175773 AAACCCTTAAACCACAAACAAC
1 AAACCC-TAAACCACAAACAAC
8175795 AAAC
1 AAAC
8175799 ACCAAATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.55, C:0.32, G:0.00, T:0.13
Consensus pattern (21 bp):
AAACCCTAAACCACAAACAAC
Found at i:8176870 original size:115 final size:113
Alignment explanation
Indices: 8176535--8177039 Score: 500
Period size: 114 Copynumber: 4.4 Consensus size: 113
8176525 ATTGGCTCTG
* * ** * * * *
8176535 TACCTGAAAACCAAACGCTGCGTTTCAGTTAAGATATTTTGCGACGCTTTTTTTATTACGCCGCT
1 TACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATA-TTTGCGGCGCTTCTTATATTGCGCCGCT
* * *
8176600 AATATTGTGCTTTAGCGGTG-ATTTTCATAAGCGCCACTAATTCTAATA
65 AATACTGTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATA
* * * * * * * *
8176648 TGCCTGAAGACCAAACGCTGCGTTCTGGTTAAGAAATTTTGCGGCGCTTTTTTACATAGTGCCGC
1 TACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATA-TTTGCGGCGC-TTCTTATATTGCGCCGC
* * *
8176713 TAATACTGTGCTTTAGCGGCGTTTTCT-ATAAGCGCCACTAATTCTGATT
64 TAATACTGTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATA
* * * *
8176762 TACCTCAATACCAAAACGTTGCGTTTTTGGTTAAGATATTTGGCGGTGCTTCTTATATTGCACCG
1 TACCTCAAGACC-AAACGCTGCG-TTTTGGTTAAGATATTT-GCGGCGCTTCTTATATTGCGCCG
* *
8176827 CAAATACTGTG-TCTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATA
63 CTAATACTGTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATA
* * *
8176877 CACCTCAAGACCAAACGCTACGTTTTGGTTAAGATAGTTTGCGGCG-GTCTGTATGA-TGCGCCG
1 TACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATA-TTTGCGGCGCTTCT-TAT-ATTGCGCCG
* * * *
8176940 CTAATACTATGCTTTAGCAGCGTTTTTGCATAAGCGCCACTAATCCTAATA
63 CTAATACTGTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATA
** * * * *
8176991 TACCTCAAG-CTCGTATGCTGCGTTTTGTTTAACATTTTCTGCGGCGCTT
1 TACCTCAAGAC-CAAACGCTGCGTTTTGGTTAAGATATT-TGCGGCGCTT
8177040 ACGGATAAAC
Statistics
Matches: 322, Mismatches: 57, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
112 3 0.01
113 80 0.25
114 154 0.48
115 67 0.21
116 18 0.06
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (113 bp):
TACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTGCGGCGCTTCTTATATTGCGCCGCTA
ATACTGTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATA
Found at i:8177575 original size:18 final size:18
Alignment explanation
Indices: 8177552--8177593 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
8177542 TTTATACTTT
* *
8177552 ATAATTTAACATAAATTA
1 ATAATTTAACACAAATAA
8177570 ATAATTTAACACAAATAA
1 ATAATTTAACACAAATAA
8177588 ATAATT
1 ATAATT
8177594 AATCCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATTTAACACAAATAA
Found at i:8195706 original size:24 final size:25
Alignment explanation
Indices: 8195678--8195724 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
8195668 TAATAGTATA
8195678 AATTTATCACATAT-CTTATTTTTT
1 AATTTATCACATATCCTTATTTTTT
**
8195702 AATTTATCATGTATCCTTATTTT
1 AATTTATCACATATCCTTATTTT
8195725 GAAACTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.28, C:0.13, G:0.02, T:0.57
Consensus pattern (25 bp):
AATTTATCACATATCCTTATTTTTT
Found at i:8198764 original size:3 final size:3
Alignment explanation
Indices: 8198756--8198789 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
8198746 TTATTTCAAC
8198756 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8198790 ATACTATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8199784 original size:26 final size:26
Alignment explanation
Indices: 8199755--8199808 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
8199745 ATAAAAAGGG
8199755 AAGGATCGTATTTTAAAATCTTTTCA
1 AAGGATCGTATTTTAAAATCTTTTCA
8199781 AAGGATCGTATTTTAAAATCTTTTCA
1 AAGGATCGTATTTTAAAATCTTTTCA
8199807 AA
1 AA
8199809 TGCTCGACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (26 bp):
AAGGATCGTATTTTAAAATCTTTTCA
Found at i:8200448 original size:24 final size:25
Alignment explanation
Indices: 8200406--8200454 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
8200396 AGCCTATAAT
8200406 GGGTGAGGACCGAGGAATCTGCTGG
1 GGGTGAGGACCGAGGAATCTGCTGG
8200431 GGGTGAGGA-CGAGGAATCTGCTGG
1 GGGTGAGGACCGAGGAATCTGCTGG
8200455 TTCGGGTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.20, C:0.14, G:0.49, T:0.16
Consensus pattern (25 bp):
GGGTGAGGACCGAGGAATCTGCTGG
Found at i:8207513 original size:44 final size:44
Alignment explanation
Indices: 8207241--8207514 Score: 109
Period size: 44 Copynumber: 6.2 Consensus size: 44
8207231 GAGAATTACA
** ***
8207241 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
1 GATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAAATAGT
* * * * **
8207285 AATCTTAAT-TCCCTGAGATTACAGTGGAACGGATT-AAAATAAAA
1 GATCTT-ATCTCCCTGAGATTACAATGGAGCAGATTGAAAAT-AGT
** * ** * * *
8207329 GATCTTATCTCTTTGA-AGTTACAGTAAAGTAGATCG--CATCAG-
1 GATCTTATCTCCCTGAGA-TTACAATGGAGCAGATTGAAAAT-AGT
* ** ** *
8207371 G-TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAAA-ATTT
1 GATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAAATA-GT
* * **
8207414 CAGATCTTATCTCCCTGAGATTACAGTTGAGCAGATTGAAGCTAGT
1 --GATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAAATAGT
* * *
8207460 AATCCTATCTCCCTGAGATTACAATGGAGCGGATT-AAAATAAAG-
1 GATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAAAT--AGT
8207504 GATCTTATCTC
1 GATCTTATCTC
8207515 TGAAGTTACA
Statistics
Matches: 168, Mismatches: 46, Indels: 32
0.68 0.19 0.13
Matches are distributed among these distances:
41 27 0.16
42 2 0.01
43 12 0.07
44 89 0.53
45 5 0.03
46 32 0.19
47 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAAATAGT
Found at i:8207695 original size:50 final size:51
Alignment explanation
Indices: 8207641--8207774 Score: 132
Period size: 50 Copynumber: 2.7 Consensus size: 51
8207631 ACAACGGCGG
* * **
8207641 ATCTTGCTTCCCCAACATTGCAGTTAGAA-AGATTGAAGATGCAATAGTGA
1 ATCTTGCTTCCCCAACATTGCAGTTAGAACAGATTGAAGATACAACAACGA
* * * * * *
8207691 ATCTTAC-TGCCCAGTCAGTGCAG-TGGAACAGATTGAAGCTACAACAACGA
1 ATCTTGCTTCCCCA-ACATTGCAGTTAGAACAGATTGAAGATACAACAACGA
*
8207741 ATCTTGCTTCCCCGACATTGCAGTTA-AACAGATT
1 ATCTTGCTTCCCCAACATTGCAGTTAGAACAGATT
8207775 AAAGTTTCGA
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
49 9 0.14
50 50 0.78
51 5 0.08
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (51 bp):
ATCTTGCTTCCCCAACATTGCAGTTAGAACAGATTGAAGATACAACAACGA
Found at i:8208472 original size:16 final size:16
Alignment explanation
Indices: 8208433--8208477 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
8208423 TTGTAAGGGT
8208433 TACACACAA-AAAAAAA
1 TACA-ACAACAAAAAAA
8208449 T-CAA-AACAAAAAAA
1 TACAACAACAAAAAAA
8208463 TACAACAACAGAAAA
1 TACAACAACA-AAAA
8208478 TCAAAGAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 2 0.08
14 9 0.36
15 5 0.20
16 5 0.20
17 4 0.16
ACGTcount: A:0.73, C:0.18, G:0.02, T:0.07
Consensus pattern (16 bp):
TACAACAACAAAAAAA
Found at i:8209268 original size:24 final size:24
Alignment explanation
Indices: 8209222--8209268 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
8209212 TAATAGTATA
* *
8209222 AATTTATCACATATCTTTTTTTTT
1 AATTTATCACATATCCTTATTTTT
**
8209246 AATTTATCATGTATCCTTATTTT
1 AATTTATCACATATCCTTATTTT
8209269 GAAACTCAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.60
Consensus pattern (24 bp):
AATTTATCACATATCCTTATTTTT
Found at i:8213734 original size:30 final size:30
Alignment explanation
Indices: 8213698--8213912 Score: 108
Period size: 30 Copynumber: 7.2 Consensus size: 30
8213688 GGTTCACATG
* *
8213698 TAGGGTTCATGCA-TATAGGGTTTGCATATT
1 TAGGGTTC-TGCACTATAGGGTTCGCATATA
*
8213728 TAGGGTT-TGCACGTATAGGGTTCGCATGTA
1 TAGGGTTCTGCAC-TATAGGGTTCGCATATA
* * **
8213758 TAGGGTTC-GCACATATA-GGATCTACACGTA
1 TAGGGTTCTGCAC-TATAGGGTTC-GCATATA
* * *
8213788 TAGGGTTCACGTA-TATA-GGTTCACATATA
1 TAGGGTTC-TGCACTATAGGGTTCGCATATA
* * *
8213817 AAGGGTTC-ACACATATAGGGTTCGCATCTA
1 TAGGGTTCTGCAC-TATAGGGTTCGCATATA
* ** *
8213847 T-GGGTT-TACACATATAGGGTTCGTGTATC
1 TAGGGTTCTGCAC-TATAGGGTTCGCATATA
* * *
8213876 TAGGGTTC-GCATATATAGGGTTCACATATC
1 TAGGGTTCTGCA-CTATAGGGTTCGCATATA
8213906 TAGGGTT
1 TAGGGTT
8213913 TTGGATGAAG
Statistics
Matches: 146, Mismatches: 26, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
27 1 0.01
28 4 0.03
29 44 0.30
30 95 0.65
32 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (30 bp):
TAGGGTTCTGCACTATAGGGTTCGCATATA
Found at i:8213746 original size:15 final size:15
Alignment explanation
Indices: 8213711--8213802 Score: 80
Period size: 15 Copynumber: 6.3 Consensus size: 15
8213701 GGTTCATGCA
**
8213711 TATAGGGTTTGCATA
1 TATAGGGTTTGCACG
*
8213726 TTTAGGGTTTGCACG
1 TATAGGGTTTGCACG
* *
8213741 TATAGGGTTCGCATG
1 TATAGGGTTTGCACG
* *
8213756 TATAGGGTTCGCACA
1 TATAGGGTTTGCACG
* * *
8213771 TATAGGATCTACACG
1 TATAGGGTTTGCACG
8213786 TATAGGG-TT-CACG
1 TATAGGGTTTGCACG
8213799 TATA
1 TATA
8213803 TAGGTTCACA
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
13 8 0.13
14 1 0.02
15 53 0.85
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (15 bp):
TATAGGGTTTGCACG
Found at i:8213804 original size:15 final size:15
Alignment explanation
Indices: 8213741--8213912 Score: 134
Period size: 15 Copynumber: 11.6 Consensus size: 15
8213731 GGTTTGCACG
* *
8213741 TATAGGGTTCGCATG
1 TATAGGGTTCACATA
* *
8213756 TATAGGGTTCGCACA
1 TATAGGGTTCACATA
* **
8213771 TATA-GGATCTACACG
1 TATAGGGTTC-ACATA
*
8213786 TATAGGGTTCACGTA
1 TATAGGGTTCACATA
8213801 TATA-GGTTCACATA
1 TATAGGGTTCACATA
* *
8213815 TAAAGGGTTCACACA
1 TATAGGGTTCACATA
* *
8213830 TATAGGGTTCGCATC
1 TATAGGGTTCACATA
* *
8213845 TAT-GGGTTTACACA
1 TATAGGGTTCACATA
***
8213859 TATAGGGTTCGTGTA
1 TATAGGGTTCACATA
* *
8213874 TCTAGGGTTCGCATA
1 TATAGGGTTCACATA
8213889 TATAGGGTTCACATA
1 TATAGGGTTCACATA
*
8213904 TCTAGGGTT
1 TATAGGGTT
8213913 TTGGATGAAG
Statistics
Matches: 122, Mismatches: 31, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
14 26 0.21
15 92 0.75
16 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (15 bp):
TATAGGGTTCACATA
Found at i:8223990 original size:20 final size:19
Alignment explanation
Indices: 8223967--8224013 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
8223957 ATTAAAATAC
*
8223967 CAAAAATTTCAAAAAAAATT
1 CAAAAATATC-AAAAAAATT
8223987 CAAAAAATATCAAAAAAATT
1 C-AAAAATATCAAAAAAATT
8224007 -AAAAATA
1 CAAAAATA
8224014 AGAAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 7 0.28
20 10 0.40
21 8 0.32
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (19 bp):
CAAAAATATCAAAAAAATT
Found at i:8226790 original size:15 final size:15
Alignment explanation
Indices: 8226770--8226801 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8226760 CATTTCACTA
*
8226770 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
8226785 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
8226800 TT
1 TT
8226802 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:8228421 original size:19 final size:19
Alignment explanation
Indices: 8228397--8228469 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
8228387 ATTTCAAAAA
*
8228397 AATATTATTTTAATAGTTT
1 AATATTAATTTAATAGTTT
*
8228416 AATATTAAATT-ATA-TTT
1 AATATTAATTTAATAGTTT
8228433 AATACTT-ATCTTAATAGTATT
1 AATA-TTAAT-TTAATAGT-TT
*
8228454 -TTATTAATTTAATAGT
1 AATATTAATTTAATAGT
8228470 GATTATTTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
17 8 0.18
18 7 0.16
19 22 0.50
20 5 0.11
21 2 0.05
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (19 bp):
AATATTAATTTAATAGTTT
Found at i:8228564 original size:62 final size:59
Alignment explanation
Indices: 8228398--8228593 Score: 159
Period size: 62 Copynumber: 3.2 Consensus size: 59
8228388 TTTCAAAAAA
* * * *
8228398 ATATTATTTTAAT-AG-TTTAATATTAAAT-TATATTTAATACTTATCTTA-AT-AGTATT
1 ATATTAATTTAATAAGATTTAATATTAAATATA-ATCTAATATTTATC-TAGATAAATATT
* * * * *
8228454 TTATTAATTTAATAGTGATTATTTGGATATTAAATTTAATTTAATATTTATCTACAAGATAAATA
1 ATATTAATTTAATA---A-GATTT-AATATTAAATATAATCTAATATTTATCT---AGATAAATA
8228519 TT
58 TT
* * *
8228521 TTATTATTTTAATAAGATTTAATATTAAATATAATCTAATATTTATCTTGATAAATATT
1 ATATTAATTTAATAAGATTTAATATTAAATATAATCTAATATTTATCTAGATAAATATT
8228580 ATATTAATTTAATA
1 ATATTAATTTAATA
8228594 TTAAAGTGAT
Statistics
Matches: 113, Mismatches: 14, Indels: 23
0.75 0.09 0.15
Matches are distributed among these distances:
56 11 0.10
59 22 0.19
60 1 0.01
62 29 0.26
63 26 0.23
64 3 0.03
65 1 0.01
66 2 0.02
67 18 0.16
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (59 bp):
ATATTAATTTAATAAGATTTAATATTAAATATAATCTAATATTTATCTAGATAAATATT
Found at i:8228752 original size:25 final size:26
Alignment explanation
Indices: 8228702--8228753 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
8228692 AGTTGTAGAG
8228702 AGAAAATTCTCTAAAGAGATTATTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
* * *
8228728 AGAAAATT-TCTAGAGATATTTTTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
8228753 A
1 A
8228754 ATTTATAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAGATTATTCT
Found at i:8230120 original size:21 final size:21
Alignment explanation
Indices: 8230095--8230150 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
8230085 AACAGCGGTG
*
8230095 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
8230116 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
8230137 GTGGTGAGATTAGA
1 GCGGTGAGATTAGA
8230151 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:8230359 original size:27 final size:27
Alignment explanation
Indices: 8230319--8230485 Score: 127
Period size: 31 Copynumber: 5.7 Consensus size: 27
8230309 ATTCATTTAA
*
8230319 TAAAATACACTACATATATATATATTT
1 TAAAATACACTACATATATATTTATTT
*
8230346 TAAAATACAGTACATATATATTTTTTATTT
1 TAAAATACACTACATATATA---TTTATTT
* *
8230376 CTAGAATACACTACATATATTTTTTATTTT
1 -TAAAATACACTACATATA-TATTTA-TTT
* *
8230406 TAAAATACATTACATATATTTTTTTTATTTT
1 TAAAATACACTACATATA---TATTTA-TTT
* *
8230437 TAAAATACACTACATGTATTTTTTTATTTT
1 TAAAATACACTACA--TATATATTTA-TTT
* *
8230467 TAAAATCCATTACATATAT
1 TAAAATACACTACATATAT
8230486 TTTTTTATTT
Statistics
Matches: 118, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
27 19 0.16
28 4 0.03
29 20 0.17
30 31 0.26
31 40 0.34
32 1 0.01
33 3 0.03
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (27 bp):
TAAAATACACTACATATATATTTATTT
Found at i:8230503 original size:31 final size:30
Alignment explanation
Indices: 8230319--8230501 Score: 239
Period size: 30 Copynumber: 6.2 Consensus size: 30
8230309 ATTCATTTAA
* *
8230319 TAAAATACACTACATATA--TATATA-TTT
1 TAAAATACACTACATATATTTTTTTATTTT
* *
8230346 TAAAATACAGTACATATATATTTTTTATTTC
1 TAAAATACACTACATATAT-TTTTTTATTTT
*
8230377 TAGAATACACTACATATA-TTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
*
8230406 TAAAATACATTACATATATTTTTTTTATTTT
1 TAAAATACACTACATATA-TTTTTTTATTTT
*
8230437 TAAAATACACTACATGTATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
* *
8230467 TAAAATCCATTACATATATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
8230497 TAAAA
1 TAAAA
8230502 ATTTAAATAC
Statistics
Matches: 136, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
27 17 0.12
29 26 0.19
30 48 0.35
31 45 0.33
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (30 bp):
TAAAATACACTACATATATTTTTTTATTTT
Found at i:8230626 original size:58 final size:59
Alignment explanation
Indices: 8230519--8230700 Score: 171
Period size: 58 Copynumber: 3.1 Consensus size: 59
8230509 TACAATGAAA
* * * *
8230519 TCCCATCT-CCCTTCTTCCATC-ATTCCCCTCTTCCACCGTATCCTTCTCCCATTTCCCAT
1 TCCCATCTACCC-TATTCCA-CGATTCCCCTATTCCACCGTACCCTCCTCCCATTTCCCAT
* *
8230578 TCCCATGCAATACCC-ATTCC-C-ATTTCCC-ATTCCACCGTGCCCTCCTCCCATTTCCCAT
1 TCCCAT-C--TACCCTATTCCACGATTCCCCTATTCCACCGTACCCTCCTCCCATTTCCCAT
* * * *
8230636 TCCCATCTCCCCTCTTCCATCGATTCCCCTCTTCCACCGTTCCCTCCTCCCA-TTCCCAT
1 TCCCATCTACCCTATTCCA-CGATTCCCCTATTCCACCGTACCCTCCTCCCATTTCCCAT
8230695 TCCCAT
1 TCCCAT
8230701 TCCCATTTCC
Statistics
Matches: 103, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
55 4 0.04
56 4 0.04
57 1 0.01
58 33 0.32
59 32 0.31
60 21 0.20
61 4 0.04
62 1 0.01
63 3 0.03
ACGTcount: A:0.13, C:0.51, G:0.03, T:0.33
Consensus pattern (59 bp):
TCCCATCTACCCTATTCCACGATTCCCCTATTCCACCGTACCCTCCTCCCATTTCCCAT
Found at i:8230635 original size:28 final size:28
Alignment explanation
Indices: 8230595--8230697 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 28
8230585 CAATACCCAT
*
8230595 TCCCATTTCCCATTCCACCGTGCCCTCC
1 TCCCATTTCCCATTCCACCGTCCCCTCC
* *
8230623 TCCCATTTCCCATTCCCATC-TCCCCTCT
1 TCCCATTTCCCATT-CCACCGTCCCCTCC
* * *
8230651 TCCATCGATTCCCCTCTTCCACCGTTCCCTCC
1 TCC--C-ATTTCCC-ATTCCACCGTCCCCTCC
8230683 TCCCA-TTCCCATTCC
1 TCCCATTTCCCATTCC
8230698 CATTCCCATT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
27 4 0.07
28 27 0.46
29 5 0.08
30 2 0.03
31 10 0.17
32 11 0.19
ACGTcount: A:0.11, C:0.53, G:0.04, T:0.32
Consensus pattern (28 bp):
TCCCATTTCCCATTCCACCGTCCCCTCC
Found at i:8230691 original size:21 final size:21
Alignment explanation
Indices: 8230602--8230691 Score: 50
Period size: 21 Copynumber: 4.4 Consensus size: 21
8230592 CATTCCCATT
*
8230602 TCCCATTCCACCGTGCCCTCC
1 TCCCATTCCACCGTTCCCTCC
* *
8230623 TCCCATTTC-CCATTCCCAT-C
1 TCCCATTCCACCGTTCCC-TCC
* *
8230643 TCCCCTCTTCCATCGATT-CC-CC
1 T-CCC-ATTCCACCG-TTCCCTCC
8230665 T--C-TTCCACCGTTCCCTCC
1 TCCCATTCCACCGTTCCCTCC
8230683 TCCCATTCC
1 TCCCATTCC
8230692 CATTCCCATT
Statistics
Matches: 50, Mismatches: 8, Indels: 22
0.62 0.10 0.28
Matches are distributed among these distances:
16 2 0.04
17 9 0.18
18 3 0.06
19 1 0.02
20 9 0.18
21 16 0.32
22 5 0.10
23 3 0.06
24 2 0.04
ACGTcount: A:0.10, C:0.54, G:0.04, T:0.31
Consensus pattern (21 bp):
TCCCATTCCACCGTTCCCTCC
Found at i:8230694 original size:6 final size:6
Alignment explanation
Indices: 8230683--8230726 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
8230673 CGTTCCCTCC
*
8230683 TCCCAT TCCCAT TCCCAT TCCCATT TCCCAT TCCTAT TCCCAT T
1 TCCCAT TCCCAT TCCCAT TCCCA-T TCCCAT TCCCAT TCCCAT T
8230727 ATCAACAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.16, C:0.45, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCAT
Found at i:8230710 original size:19 final size:19
Alignment explanation
Indices: 8230683--8230726 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
8230673 CGTTCCCTCC
8230683 TCCCA-TTCCCATTCCCAT
1 TCCCATTTCCCATTCCCAT
*
8230701 TCCCATTTCCCATTCCTAT
1 TCCCATTTCCCATTCCCAT
8230720 TCCCATT
1 TCCCATT
8230727 ATCAACAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.16, C:0.45, G:0.00, T:0.39
Consensus pattern (19 bp):
TCCCATTTCCCATTCCCAT
Found at i:8231852 original size:122 final size:123
Alignment explanation
Indices: 8231630--8231878 Score: 482
Period size: 122 Copynumber: 2.0 Consensus size: 123
8231620 TAGAACTACC
8231630 TATAGCTCCTTCCCAACCCTTAAATAGGAGGATAATGCGCTTCAGCGCACTCAAACTCACATCCT
1 TATAGCTCCTTCCCAACCCTTAAATAGGAGGATAATGCGCTTCAGCGCACTCAAACTCACATCCT
*
8231695 CCTATATTAACAATAATGCACATACTAATCGAACCAAGACTCAATCTACAATTTAATA
66 CCTATATTAACAATAATGCACATACTAATCGAACCAAGACTCAATCTACAAATTAATA
8231753 TATA-CTCCTTCCCAACCCTTAAATAGGAGGATAATGCGCTTCAGCGCACTCAAACTCACATCCT
1 TATAGCTCCTTCCCAACCCTTAAATAGGAGGATAATGCGCTTCAGCGCACTCAAACTCACATCCT
8231817 CCTATATTAACAATAATGCACATACTAATCGAACCAAGACTCAATCTACAAATTAATA
66 CCTATATTAACAATAATGCACATACTAATCGAACCAAGACTCAATCTACAAATTAATA
8231875 TATA
1 TATA
8231879 TATATATATA
Statistics
Matches: 125, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
122 121 0.97
123 4 0.03
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.26
Consensus pattern (123 bp):
TATAGCTCCTTCCCAACCCTTAAATAGGAGGATAATGCGCTTCAGCGCACTCAAACTCACATCCT
CCTATATTAACAATAATGCACATACTAATCGAACCAAGACTCAATCTACAAATTAATA
Found at i:8231879 original size:2 final size:2
Alignment explanation
Indices: 8231872--8231898 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8231862 CTACAAATTA
8231872 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8231899 AAGAATTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8233560 original size:14 final size:14
Alignment explanation
Indices: 8233538--8233567 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8233528 TGATCACGAA
8233538 TGTGAAAATTTTAG
1 TGTGAAAATTTTAG
*
8233552 TGTGCAAATTTTAG
1 TGTGAAAATTTTAG
8233566 TG
1 TG
8233568 ACCCCAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.43
Consensus pattern (14 bp):
TGTGAAAATTTTAG
Found at i:8234787 original size:15 final size:15
Alignment explanation
Indices: 8234767--8234795 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8234757 ATGCCTTACA
8234767 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
8234782 CACCGTGTTATCAA
1 CACCGTGTTATCAA
8234796 GAAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:8238372 original size:42 final size:42
Alignment explanation
Indices: 8238316--8238408 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
8238306 AGGATTGAAC
* * * *
8238316 GAAATCTCATAAGAGTTGAA-TGGAAACCCATAAGGGTTAAACT
1 GAAA-CTCAAAAGAGCTGAACT-GAAACCCAGAAAGGTTAAACT
* *
8238359 GAAGCTCAAAAGAGCTGAACTGAAACCCAGAAATGTTAAACT
1 GAAACTCAAAAGAGCTGAACTGAAACCCAGAAAGGTTAAACT
8238401 GAAACTCA
1 GAAACTCA
8238409 TATGAGATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 38 0.90
43 4 0.10
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (42 bp):
GAAACTCAAAAGAGCTGAACTGAAACCCAGAAAGGTTAAACT
Found at i:8241868 original size:21 final size:21
Alignment explanation
Indices: 8241844--8241976 Score: 70
Period size: 21 Copynumber: 5.8 Consensus size: 21
8241834 ATTGTCATGT
*
8241844 ATATTTGCATGAACTTGTAAA
1 ATATTTGAATGAACTTGTAAA
* **
8241865 ATATTTGAACGAACTTGATTGTCATGT
1 ATATTTGAATGAAC----TTGT-A-AA
*
8241892 ATATTTGCATGAACTTGTAAA
1 ATATTTGAATGAACTTGTAAA
* **
8241913 ATATTTGAATAAACTTGATGGGTATGT
1 ATATTTGAATGAAC-T--T--GTA-AA
*
8241940 ATATTTGCATGAACTTGTAAA
1 ATATTTGAATGAACTTGTAAA
8241961 AT-TTTGAATGAACTTG
1 ATATTTGAATGAACTTG
8241977 ATGGGCATGT
Statistics
Matches: 83, Mismatches: 17, Indels: 25
0.66 0.14 0.20
Matches are distributed among these distances:
20 13 0.16
21 26 0.31
22 5 0.06
23 4 0.05
24 2 0.02
25 4 0.05
26 5 0.06
27 24 0.29
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (21 bp):
ATATTTGAATGAACTTGTAAA
Found at i:8241886 original size:48 final size:48
Alignment explanation
Indices: 8241825--8242004 Score: 283
Period size: 48 Copynumber: 3.8 Consensus size: 48
8241815 ATATACTTTC
* *
8241825 ATGAACTTTATTGTCATGTATATTTGCATGAACTTGTAAAATATTTGA
1 ATGAACTTGATGGTCATGTATATTTGCATGAACTTGTAAAATATTTGA
* *
8241873 ACGAACTTGATTGTCATGTATATTTGCATGAACTTGTAAAATATTTGA
1 ATGAACTTGATGGTCATGTATATTTGCATGAACTTGTAAAATATTTGA
*
8241921 ATAAACTTGATGGGT-ATGTATATTTGCATGAACTTGTAAAAT-TTTGA
1 ATGAACTTGAT-GGTCATGTATATTTGCATGAACTTGTAAAATATTTGA
*
8241968 ATGAACTTGATGGGCATGTATATTTGCATGAACTTGT
1 ATGAACTTGATGGTCATGTATATTTGCATGAACTTGT
8242005 TTCAAATATT
Statistics
Matches: 123, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
46 2 0.02
47 37 0.30
48 82 0.67
49 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (48 bp):
ATGAACTTGATGGTCATGTATATTTGCATGAACTTGTAAAATATTTGA
Found at i:8241908 original size:27 final size:27
Alignment explanation
Indices: 8241816--8241908 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 27
8241806 TTTATTTACA
*
8241816 TATACTTT-CATGAACTTTATTGTCATG
1 TATA-TTTGCATGAACTTGATTGTCATG
*
8241843 TATATTTGCATGAAC----TTGT-A-A
1 TATATTTGCATGAACTTGATTGTCATG
* * *
8241864 AATATTTGAACGAACTTGATTGTCATG
1 TATATTTGCATGAACTTGATTGTCATG
8241891 TATATTTGCATGAACTTG
1 TATATTTGCATGAACTTG
8241909 TAAAATATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
21 12 0.24
22 1 0.02
23 4 0.08
25 4 0.08
26 4 0.08
27 26 0.51
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (27 bp):
TATATTTGCATGAACTTGATTGTCATG
Found at i:8241954 original size:27 final size:27
Alignment explanation
Indices: 8241913--8242003 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 27
8241903 AACTTGTAAA
*
8241913 ATATTTGAATAAACTTGATGGGTATGT
1 ATATTTGAATGAACTTGATGGGTATGT
* **
8241940 ATATTTGCATGAAC-T--T--GTA-AA
1 ATATTTGAATGAACTTGATGGGTATGT
*
8241961 AT-TTTGAATGAACTTGATGGGCATGT
1 ATATTTGAATGAACTTGATGGGTATGT
*
8241987 ATATTTGCATGAACTTG
1 ATATTTGAATGAACTTG
8242004 TTTCAAATAT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
20 10 0.21
21 3 0.06
22 3 0.06
23 1 0.02
24 1 0.02
25 2 0.04
26 3 0.06
27 25 0.52
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
ATATTTGAATGAACTTGATGGGTATGT
Found at i:8248688 original size:30 final size:31
Alignment explanation
Indices: 8248652--8248721 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
8248642 AATTTTTAAA
*
8248652 TTTTTTAAAAATTCA-AAAAATATATAAAT-T
1 TTTTTTAAAAATT-ATAAAAATATAAAAATAT
*
8248682 TTTTTTAAAAATTATTAAAATTATAAAAATAT
1 TTTTTTAAAAATTA-TAAAAATATAAAAATAT
8248714 TTTTTTAA
1 TTTTTTAA
8248722 TTTTAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 1 0.03
30 13 0.37
31 12 0.34
32 9 0.26
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
TTTTTTAAAAATTATAAAAATATAAAAATAT
Found at i:8248717 original size:31 final size:30
Alignment explanation
Indices: 8248651--8248718 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
8248641 TAATTTTTAA
*
8248651 ATTTTTTAAAAATTCAAAAAATATATAAAT
1 ATTTTTTAAAAATTCAAAAAATATAAAAAT
* *
8248681 TTTTTTTAAAAATT-ATTAAAATTATAAAAAT
1 ATTTTTTAAAAATTCA--AAAAATATAAAAAT
8248712 ATTTTTT
1 ATTTTTT
8248719 TAATTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 13 0.41
31 18 0.56
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTTTTTAAAAATTCAAAAAATATAAAAAT
Found at i:8253635 original size:18 final size:18
Alignment explanation
Indices: 8253612--8253646 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8253602 TCTTTCAGCA
*
8253612 TTTATGTATTGTTTTGCT
1 TTTATGTATTATTTTGCT
8253630 TTTATGTATTATTTTGC
1 TTTATGTATTATTTTGC
8253647 AGCTATTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.06, G:0.14, T:0.66
Consensus pattern (18 bp):
TTTATGTATTATTTTGCT
Found at i:8259806 original size:21 final size:21
Alignment explanation
Indices: 8259765--8259806 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8259755 TATATATAGG
*
8259765 TATAATAATATTAATATCTAA
1 TATAATAATAATAATATCTAA
8259786 TATAATAATAAATAATA-CTAA
1 TATAATAAT-AATAATATCTAA
8259807 CAATAAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TATAATAATAATAATATCTAA
Found at i:8261374 original size:88 final size:89
Alignment explanation
Indices: 8261179--8261375 Score: 288
Period size: 89 Copynumber: 2.2 Consensus size: 89
8261169 GGTTATTTCA
* * * * ** *
8261179 ATCTGCTTCGCTGCCAGTACAGGAAGGCAAAATTTGCTGTTTTTAGTCTGCTCCGCTGCAAACCT
1 ATCTGCTTCGCTGCCAGTACAAGAAGGCAAAATCTGCTATTTTCAACCTGCTCCACTGCAAACCT
8261244 AGGGAGGCAAGGCTGGTGTCTTCG
66 AGGGAGGCAAGGCTGGTGTCTTCG
* * *
8261268 ACCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGC-AACCT
1 ATCTGCTTCGCTGCCAGTACAAGAAGGCAAAATCTGCTATTTTCAACCTGCTCCACTGCAAACCT
*
8261332 AGGGAGGCAAGGCTGGTGTCTTTG
66 AGGGAGGCAAGGCTGGTGTCTTCG
8261356 ATCTGCTTCGCTGCCAGTAC
1 ATCTGCTTCGCTGCCAGTAC
8261376 TAAATGAAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 46 0.48
89 49 0.52
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.27
Consensus pattern (89 bp):
ATCTGCTTCGCTGCCAGTACAAGAAGGCAAAATCTGCTATTTTCAACCTGCTCCACTGCAAACCT
AGGGAGGCAAGGCTGGTGTCTTCG
Found at i:8261590 original size:102 final size:103
Alignment explanation
Indices: 8261405--8261620 Score: 371
Period size: 102 Copynumber: 2.1 Consensus size: 103
8261395 AATTCATAAA
* * *
8261405 ATATATGTATATGTACGTATGCATATAAAACTAAGAAAAATAAAGTATAATAATAAAATATATAA
1 ATATATATATATGTACGAATGCATATAAAACTAAGAAAAATAAAG-ATAATAATAAAATATACAA
8261470 GACACGTATATATATTTTAAAACCATTTAAAACATGTAC
65 GACACGTATATATATTTTAAAACCATTTAAAACATGTAC
*
8261509 ATATATATATATGTACGAATGCATATAAAACTAAGAAAAATATAG-TAATAATAAAATATACAAG
1 ATATATATATATGTACGAATGCATATAAAACTAAGAAAAATAAAGATAATAATAAAATATACAAG
*
8261573 ACACGTTTATATATTTTAAAACCATTTAAAACATGTAC
66 ACACGTATATATATTTTAAAACCATTTAAAACATGTAC
8261611 ATATATATAT
1 ATATATATAT
8261621 TAACATACAT
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
102 65 0.61
104 42 0.39
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (103 bp):
ATATATATATATGTACGAATGCATATAAAACTAAGAAAAATAAAGATAATAATAAAATATACAAG
ACACGTATATATATTTTAAAACCATTTAAAACATGTAC
Found at i:8261693 original size:21 final size:21
Alignment explanation
Indices: 8261652--8261693 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8261642 TATATATAGG
*
8261652 TATAATAATATTAATATCTAA
1 TATAATAATAATAATATCTAA
8261673 TATAATAATAAATAATA-CTAA
1 TATAATAAT-AATAATATCTAA
8261694 CAATAAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TATAATAATAATAATATCTAA
Found at i:8263153 original size:44 final size:44
Alignment explanation
Indices: 8263086--8263183 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
8263076 ACTGTAACCT
* * * * *
8263086 CAGGGAGGTAAAATCTGTCATCTTCGATCTACTCCACTA-ATGCC
1 CAGGGAGATAAGACCTGTAATCTTCAATCTACTCCAC-AGATGCC
* * *
8263130 TAGGGAGATAAGACCTGTAATCTTCAATCTATTCCACAGCTGCC
1 CAGGGAGATAAGACCTGTAATCTTCAATCTACTCCACAGATGCC
8263174 CAGGGAGATA
1 CAGGGAGATA
8263184 TAATTACTGG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
43 1 0.02
44 43 0.98
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (44 bp):
CAGGGAGATAAGACCTGTAATCTTCAATCTACTCCACAGATGCC
Found at i:8263850 original size:132 final size:132
Alignment explanation
Indices: 8263573--8263855 Score: 390
Period size: 132 Copynumber: 2.1 Consensus size: 132
8263563 NNNNNNNNNN
8263573 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCACCA
1 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCACCA
* * * * * *
8263638 TCTTTGATCTGCCCCACTACTACTTAGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTGCT
66 TCTTCGATCTACCCCACTAATACCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCC
**
8263703 GC
131 AA
* * **
8263705 CCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAATCACAGGGAGGTAAAA-TCTGTC
1 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATTC-ACC
* * * *
8263769 ATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCATTGC
65 ATCTTCGATCTACCCCACTAATACCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGC
8263834 CAA
130 CAA
8263837 CCAGGG-AGATAGAATTACT
1 CCAGGGAAG-TAGAATTACT
8263856 ATCTTCGATC
Statistics
Matches: 132, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
131 4 0.03
132 128 0.97
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (132 bp):
CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCACCA
TCTTCGATCTACCCCACTAATACCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCC
AA
Found at i:8268951 original size:3 final size:3
Alignment explanation
Indices: 8268943--8268968 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8268933 CAATACAATA
8268943 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
8268969 CTCCTAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8270692 original size:21 final size:21
Alignment explanation
Indices: 8270651--8270692 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8270641 TATATATAGG
*
8270651 TATAATAATATTAATATCTAA
1 TATAATAATAATAATATCTAA
8270672 TATAATAATAAATAATA-CTAA
1 TATAATAAT-AATAATATCTAA
8270693 CAATAAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TATAATAATAATAATATCTAA
Found at i:8282094 original size:27 final size:26
Alignment explanation
Indices: 8282055--8282112 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
8282045 AAAAAAGTTC
* *
8282055 TTTTATAATTTTTGGAGGCTTTTT-TT
1 TTTTATAAATTTTGGAAG-TTTTTATT
8282081 TTTTCATAAATTTTGGAAGTTTTTATT
1 TTTT-ATAAATTTTGGAAGTTTTTATT
8282108 TTTTA
1 TTTTA
8282113 AATTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.64
Consensus pattern (26 bp):
TTTTATAAATTTTGGAAGTTTTTATT
Found at i:8292523 original size:11 final size:11
Alignment explanation
Indices: 8292497--8292596 Score: 57
Period size: 11 Copynumber: 9.4 Consensus size: 11
8292487 AACTAATCCT
*
8292497 CTCTCAAATTTT
1 CTCTC-AATTTC
8292509 CTCTCAATTTC
1 CTCTCAATTTC
* *
8292520 CTCTGAATTTG
1 CTCTCAATTTC
*
8292531 CTCTCAAATTC
1 CTCTCAATTTC
*
8292542 CTTTCAAATTT-
1 CTCTC-AATTTC
*
8292553 CTCTCAA-ATC
1 CTCTCAATTTC
* *
8292563 C-AT--ATTTA
1 CTCTCAATTTC
* *
8292571 ATCTCAATTTG
1 CTCTCAATTTC
8292582 CTCTCAATTTC
1 CTCTCAATTTC
8292593 CTCT
1 CTCT
8292597 TAAATTTCTC
Statistics
Matches: 64, Mismatches: 18, Indels: 13
0.67 0.19 0.14
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 47 0.73
12 9 0.14
ACGTcount: A:0.24, C:0.28, G:0.03, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:8292556 original size:22 final size:22
Alignment explanation
Indices: 8292497--8292561 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
8292487 AACTAATCCT
*
8292497 CTCTCAAATTTTCTCTCAATTTC
1 CTCTCAAA-TTTCTCTCAAATTC
*
8292520 CTCT-GAATTTGCTCTCAAATTC
1 CTCTCAAATTT-CTCTCAAATTC
*
8292542 CTTTCAAATTTCTCTCAAAT
1 CTCTCAAATTTCTCTCAAAT
8292562 CCATATTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 3 0.08
22 24 0.67
23 9 0.25
ACGTcount: A:0.25, C:0.28, G:0.03, T:0.45
Consensus pattern (22 bp):
CTCTCAAATTTCTCTCAAATTC
Found at i:8292941 original size:14 final size:14
Alignment explanation
Indices: 8292919--8292954 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
8292909 ACGTGGCAAC
8292919 AAAGCGCGTCCTTG
1 AAAGCGCGTCCTTG
*
8292933 AAAGTGCGTCCTTG
1 AAAGCGCGTCCTTG
8292947 AAAGCGCG
1 AAAGCGCG
8292955 ATTTGTGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (14 bp):
AAAGCGCGTCCTTG
Found at i:8301263 original size:41 final size:41
Alignment explanation
Indices: 8301202--8301283 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
8301192 TTTATCAAGC
8301202 TAAATAAATGAACATAAAT-AAAATT-TTAAGGCTCATTTAT
1 TAAATAAATGAACATAAATAAAAATTGTTAA-GCTCATTTAT
* *
8301242 TAAATAAACTGAACATGAATAAAAATTGTTAAGTTCATTTAT
1 TAAATAAA-TGAACATAAATAAAAATTGTTAAGCTCATTTAT
8301284 GGTAAACAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 8 0.22
41 10 0.27
42 15 0.41
43 4 0.11
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (41 bp):
TAAATAAATGAACATAAATAAAAATTGTTAAGCTCATTTAT
Found at i:8301522 original size:23 final size:23
Alignment explanation
Indices: 8301477--8301523 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8301467 GTTTTTGAAC
* ** *
8301477 ATGTTCACGAACATGTTCGTTTA
1 ATGTTCACCAACACATTCATTTA
8301500 ATGTTCACCAACACATTCATTTA
1 ATGTTCACCAACACATTCATTTA
8301523 A
1 A
8301524 CTTAAACGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (23 bp):
ATGTTCACCAACACATTCATTTA
Found at i:8305588 original size:32 final size:32
Alignment explanation
Indices: 8305549--8305610 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
8305539 ACATACCATG
8305549 CACTCAATGTTAGCTTGACCAAATATCCCCCT
1 CACTCAATGTTAGCTTGACCAAATATCCCCCT
*
8305581 CACTCAATTTTAGCTTGACCAAATATCCCC
1 CACTCAATGTTAGCTTGACCAAATATCCCC
8305611 TTTCTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.34, G:0.08, T:0.29
Consensus pattern (32 bp):
CACTCAATGTTAGCTTGACCAAATATCCCCCT
Found at i:8309057 original size:25 final size:25
Alignment explanation
Indices: 8309025--8309072 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
8309015 TTTCAAGAAA
*
8309025 TTTT-AAAATAATATTTTATTTTAC
1 TTTTAAAAATAATATTTAATTTTAC
*
8309049 TTTTAAAAAATATTATTTAATTTT
1 TTTT-AAAAATAATATTTAATTTT
8309073 TATTTAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
26 16 0.80
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTTAAAAATAATATTTAATTTTAC
Found at i:8315409 original size:18 final size:17
Alignment explanation
Indices: 8315381--8315422 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
8315371 TATTTTTATA
8315381 AATGATGAATTACAT-TTG
1 AATG-TGAATTA-ATATTG
8315399 ATATGTGAATTAATATTG
1 A-ATGTGAATTAATATTG
8315417 AATGTG
1 AATGTG
8315423 GAGGGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.32
18 12 0.55
19 3 0.14
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (17 bp):
AATGTGAATTAATATTG
Found at i:8315674 original size:23 final size:23
Alignment explanation
Indices: 8315648--8315720 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
8315638 AGTGTTATTG
8315648 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
8315671 ATCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
8315694 TTCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8315717 ATCA
1 ATCA
8315721 ATGTGTCACT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:8315895 original size:38 final size:37
Alignment explanation
Indices: 8315853--8315925 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
8315843 ATGTGTGGAA
* *
8315853 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
8315891 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
8315926 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:8322102 original size:18 final size:19
Alignment explanation
Indices: 8322078--8322121 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
8322068 TAATAAAATC
8322078 ATTTAATATACAAT-TTAAT
1 ATTTAATA-ACAATATTAAT
*
8322097 -TTTAATAATAATATTAAT
1 ATTTAATAACAATATTAAT
8322115 ATTTAAT
1 ATTTAAT
8322122 TCAAATGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.18
18 12 0.55
19 6 0.27
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAATAACAATATTAAT
Found at i:8325730 original size:23 final size:23
Alignment explanation
Indices: 8325685--8325730 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
8325675 TTTCAGTGTC
8325685 TGCCATTTCCTTCCTTCAGATTT
1 TGCCATTTCCTTCCTTCAGATTT
*
8325708 TGCCATTTCTTTCCTTCAGATTT
1 TGCCATTTCCTTCCTTCAGATTT
8325731 CAACACAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.13, C:0.28, G:0.09, T:0.50
Consensus pattern (23 bp):
TGCCATTTCCTTCCTTCAGATTT
Found at i:8325783 original size:28 final size:28
Alignment explanation
Indices: 8325729--8325808 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
8325719 TCCTTCAGAT
* *
8325729 TTCAACACAATGGCT-TCCTTTTTAGAGG
1 TTCACCACAATGGCTATCC-TTTCAGAGG
*
8325757 TTCGCCACAAAT-GCTATCCTTTCAGAGG
1 TTCACCAC-AATGGCTATCCTTTCAGAGG
*
8325785 TTCACCACAATGGTTATCCTTTCA
1 TTCACCACAATGGCTATCCTTTCA
8325809 TTAAAAATGG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 3 0.07
28 35 0.80
29 6 0.14
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (28 bp):
TTCACCACAATGGCTATCCTTTCAGAGG
Found at i:8331408 original size:22 final size:19
Alignment explanation
Indices: 8331368--8331412 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 19
8331358 CTAGAAAAAC
8331368 AGAGGAAGAAAAGAAGAAA
1 AGAGGAAGAAAAGAAGAAA
8331387 AGAGGAAAGAAAAGAGAGGAAA
1 AGAGG-AAGAAAAGA-A-GAAA
8331409 AGAG
1 AGAG
8331413 AATACTAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 9 0.39
21 1 0.04
22 8 0.35
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (19 bp):
AGAGGAAGAAAAGAAGAAA
Found at i:8333309 original size:35 final size:35
Alignment explanation
Indices: 8333237--8333316 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
8333227 ATACACTTAT
* * * *
8333237 TATAACCAAATGTATATATGTATTTATCACCTGCA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
* **
8333272 TATATCCAAATGCATATATGTACTTAACATGTACA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
*
8333307 TATAATCAAA
1 TATAACCAAA
8333317 CCTATGCAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (35 bp):
TATAACCAAATGCATATATGTACTTAACACCTACA
Found at i:8333769 original size:41 final size:41
Alignment explanation
Indices: 8333711--8333857 Score: 197
Period size: 41 Copynumber: 3.6 Consensus size: 41
8333701 AGCAACAAAT
8333711 AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCGGCATCA
* * * *
8333752 AGCCTGCTAGTCATAAAGTCTGAAATATTTCACCAGTATCA
1 AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCGGCATCA
* ** *
8333793 AGCCTGCTTGACGTAAAGTCTG-AATCATTAAACAGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAAT-ATTTCACCGGCATCA
*
8333834 AGCTTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
8333858 TCATTTTACT
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 3 0.03
41 86 0.96
42 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCGGCATCA
Found at i:8342429 original size:36 final size:36
Alignment explanation
Indices: 8342377--8342451 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
8342367 TGATTTATGG
* * *
8342377 ATTCTAGATGCAAAAAATATCAGGTTATTGTCTTTA
1 ATTCCAGATGCAAAAAATATCAGGTTATCGTCATTA
* *
8342413 ATTCCAGATGCAAAAAATGTCTGGTTATCGTCATTA
1 ATTCCAGATGCAAAAAATATCAGGTTATCGTCATTA
8342449 ATT
1 ATT
8342452 ACTAATTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (36 bp):
ATTCCAGATGCAAAAAATATCAGGTTATCGTCATTA
Found at i:8345500 original size:2 final size:2
Alignment explanation
Indices: 8345493--8345526 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8345483 TCTATCTATC
8345493 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8345527 AACGTTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8346328 original size:7 final size:7
Alignment explanation
Indices: 8346316--8346342 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
8346306 TATTTTAGTC
8346316 TAATGTG
1 TAATGTG
8346323 TAATGTG
1 TAATGTG
8346330 TAATGTG
1 TAATGTG
8346337 TAATGT
1 TAATGT
8346343 TTATATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (7 bp):
TAATGTG
Found at i:8357184 original size:19 final size:19
Alignment explanation
Indices: 8357144--8357186 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8357134 ATAGGTGAAG
*
8357144 TAAATAAAAATAATAATAA
1 TAAATAAAAATAAGAATAA
*
8357163 TAAATAAAAA-ACAGAATCA
1 TAAATAAAAATA-AGAATAA
8357182 TAAAT
1 TAAAT
8357187 NNNNNNNNNN
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:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (19 bp):
TAAATAAAAATAAGAATAA
Found at i:8359062 original size:50 final size:50
Alignment explanation
Indices: 8358809--8359690 Score: 425
Period size: 50 Copynumber: 17.7 Consensus size: 50
8358799 ACTGCAACCT
* *
8358809 CAGGGAAGTAAGATTCGCCGTTGCAGCTTCAATCT-TTTAAATTGCAAT-G
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTCTTT-AATTGCAATAC
** * * ** ** * *
8358858 TTGAGGAAGCAAGATTTGCCGTCATAGCTTCAATCTGC-TCCACTGCACCT-C
1 CAG-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-CTTTAATTGCA-ATAC
* * * **
8358909 CAGGGAAAGTAAGATTCGCCGTTATGGCTTCGATCTCTTTAATTGCAATGT
1 CAGGG-AAGTAAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATAC
* * * * ** ** * * *
8358960 CGGGGAA-CAAGATTCACCATTGTAGCTTCAATCTGATCCACTAC-ATCGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAAT-AC
* **
8359009 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATC-CTTTTAATTGCAATAC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTC-TTTAATTGCAATAC
* * * * * * * **
8359059 CAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTACTCT-ACTGTACTGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-CTTTAATTGCAATAC
* * * **
8359109 CAGGGAAGTGAGATTCACCGTTGTGGCTTCAATCTCTTTAATTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATAC
* * ** ** * *
8359159 CGGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTAC-ATCAC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAAT-AC
* * ** *
8359208 CAGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATAC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATAC
* * ** * * * *
8359258 CAGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGC-TCCACTGTACTGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-CTTTAATTGCAATAC
* * * * **
8359308 CAGGGAAGTGAGAATT-ACCGTTGTTGCTTCAATATCTTTAATTGCAATGT
1 CAGGGAAGTAAG-ATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATAC
* * * ** ** * *
8359358 CGGGGAA-CAAGATTCGTCGTTGTAGCTTCAATCTGATCCACTAC-AT-C
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATAC
* * ** *
8359405 GCTAGGAAAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATAC
1 -C-AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATAC
* * * * ** * * *
8359457 CAGGGAAGTAAGATTCGCCGTCGTAGCTTTAATTTGCTCT-GCTGTACTGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-CTTTAATTGCAATAC
* * * * **
8359507 CAGGGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTGTAATTGAAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATAC
* ** ** * *
8359557 C-GGTGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTAC-ATCAC
1 CAGG-GAAGTAAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAAT-AC
* * * ** *
8359606 TAGGAAAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTTAATTGCAATAC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATAC
* * * *
8359656 CAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT
8359691 GCTCCGTTGC
Statistics
Matches: 590, Mismatches: 210, Indels: 65
0.68 0.24 0.08
Matches are distributed among these distances:
48 12 0.02
49 126 0.21
50 396 0.67
51 54 0.09
52 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATAC
Found at i:8359192 original size:199 final size:199
Alignment explanation
Indices: 8358809--8359695 Score: 1357
Period size: 199 Copynumber: 4.5 Consensus size: 199
8358799 ACTGCAACCT
* * * ***
8358809 CAGGGAAGTAAGATTCGCCGTTGCAGCTTCAATCTTTTAAATTGCAAT-GTTGAGGAAGCAAGAT
1 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAG-GGAAGCAAGAT
* * * * * * *
8358873 TTGCCGTCATAGCTTCAATCTGCTCCACTGCACCT-CCAGGGAAAGTAAGATTCGCCGTTATGGC
65 TCGCCGTCGTAGCTTTAATCTGCTCCACTGTA-CTGCCAGGG-AAGTGAGATTCACCGTTGTGGC
* * *
8358937 TTCGATCTCTTTAATTGCAATGTCGGGGAACAAGATTCACCATTGTAGCTTCAATCTGATCCACT
128 TTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACT
*
8359002 ACATCGC
193 ACATCAC
*
8359009 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCCTTTTAATTGCAATACCAGGGAAGCAAGATT
1 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
* * *
8359074 CGCCGTCGTAGCTTTAATCTACTCTACTGTACTGTCAGGGAAGTGAGATTCACCGTTGTGGCTTC
66 CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCTTC
8359139 AATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTACA
131 AATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTACA
8359204 TCAC
196 TCAC
*
8359208 CAGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
1 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
* *
8359273 CGCCGTTGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGAATT-ACCGTTGTTGCTT
66 CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAG-ATTCACCGTTGTGGCTT
* *
8359337 CAATATCTTTAATTGCAATGTCGGGGAACAAGATTCGTCGTTGTAGCTTCAATCTGATCCACTAC
130 CAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTAC
*
8359402 ATCGC
195 ATCAC
* * *
8359407 TAGGAAAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGTAAGATT
1 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
* ** *
8359472 CGCCGTCGTAGCTTTAATTTGCTCTGCTGTACTGCCAGGGAAGTGAGATTCGCCGTTGTGGCTTC
66 CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCTTC
* * *
8359537 AATCTCTGTAATTGAAATGTCGGTGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTACA
131 AATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTACA
8359602 TCAC
196 TCAC
* *
8359606 TAGGAAAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
1 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
*
8359671 CACCGTCGTAGCTTTAATCTGCTCC
66 CGCCGTCGTAGCTTTAATCTGCTCC
8359696 GTTGCATCGC
Statistics
Matches: 630, Mismatches: 53, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
198 3 0.00
199 537 0.85
200 89 0.14
201 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (199 bp):
CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCTTC
AATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTACA
TCAC
Found at i:8359825 original size:44 final size:43
Alignment explanation
Indices: 8359767--8360245 Score: 346
Period size: 44 Copynumber: 11.0 Consensus size: 43
8359757 ATATCTGTTT
* *
8359767 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCA
1 TCTTCGATCCACTTC-CCACCAATATAGGAAGACAAGATCTGCA
* * * *
8359811 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTACTA
1 TCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATCTGC-A
* * * * ** * * *
8359855 TTTTCGATCTACTTCACGCCAATGCATGAAGACAAAATCTGCT
1 TCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATCTGCA
* * *
8359898 TCTTCGATCCACTTCGCCACCAGTATGGGAAGACAAGACCTGCA
1 TCTTCGATCCACTTC-CCACCAATATAGGAAGACAAGATCTGCA
* * * * * *
8359942 TCTTCGATCCACTTCCTACCAATATTGGGAGATAGGACCTGCTA
1 TCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATCTGC-A
* * * * * * * *
8359986 TCTTCGATCTACTTCACGCCAATACATGAATACAAGATATGCT
1 TCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATCTGCA
* * * *
8360029 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTACTA
1 TCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATCTGC-A
* * * * * * * *
8360073 TCTACGATCTACTTCACGCCAATACATGAAGACAAGATCTCCTT
1 TCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATCTGC-A
* * * * * *
8360117 TCTTCAATCTACTTCGCCGCCAGTATGGGAAGACAAGATTTGCA
1 TCTTCGATCCACTTC-CCACCAATATAGGAAGACAAGATCTGCA
* * * *
8360161 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTACTA
1 TCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATCTGC-A
* * * * * *
8360205 TCTACGATCTACTTCACGCCAATACATGAAGACAAGATCTG
1 TCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATCTG
8360246 ATTTAATGAC
Statistics
Matches: 325, Mismatches: 104, Indels: 12
0.74 0.24 0.03
Matches are distributed among these distances:
43 106 0.33
44 199 0.61
45 20 0.06
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (43 bp):
TCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATCTGCA
Found at i:8359889 original size:87 final size:85
Alignment explanation
Indices: 8359767--8360245 Score: 331
Period size: 87 Copynumber: 5.5 Consensus size: 85
8359757 ATATCTGTTT
*
8359767 TCTTCGATCTACTTCGCCACCAAT-ATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTAC
1 TCTTCGATCTACTT--CCGCCAATAAT--GAAGACAAGATCTGCATCTTCGATCCACTTCAC-AC
*
8359830 CAATATAGGAAGACAGGACCTACTA
61 CAATATAGGAAGACAAGACCTACTA
* * * * *
8359855 TTTTCGATCTACTTCACGCCAATGCATGAAGACAAAATCTGCTTCTTCGATCCACTTCGCCACCA
1 TCTTCGATCTACTTC-CGCCAAT-AATGAAGACAAGATCTGCATCTTCGATCCACTTC-ACACCA
* * *
8359920 GTATGGGAAGACAAGACCTGC-A
63 ATATAGGAAGACAAGACCTACTA
* * * * * * * * *
8359942 TCTTCGATCCACTTCCTACCAATATTGGGAGATAGGACCTGCTATCTTCGATCTACTTCACGCCA
1 TCTTCGATCTACTTCC-GCCAATAAT-GAAGACAAGATCTGC-ATCTTCGATCCACTTCACACCA
* * * ** *
8360007 ATACATGAATACAAGATATGCT-
63 ATATAGGAAGACAAGACCTACTA
* * * * * * * * *
8360029 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTACTATCTACGATCTACTTCACGCCA
1 TCTTCGATCTACTTCC-GCCAATA-ATGAAGACAAGATCTGC-ATCTTCGATCCACTTCACACCA
* * * * *
8360094 ATACATGAAGACAAGATCTCCTT
63 ATATAGGAAGACAAGACCTACTA
* * *
8360117 TCTTCAATCTACTTCGCCGCCAGT-ATGGGAAGACAAGATTTGCATCTTCGATCCACTTC-CTAC
1 TCTTCGATCTACTT--CCGCCAATAAT--GAAGACAAGATCTGCATCTTCGATCCACTTCAC-AC
*
8360180 CAATATAGGAAGACAGGACCTACTA
61 CAATATAGGAAGACAAGACCTACTA
*
8360205 TCTACGATCTACTTCACGCCAATACATGAAGACAAGATCTG
1 TCTTCGATCTACTTC-CGCCAATA-ATGAAGACAAGATCTG
8360246 ATTTAATGAC
Statistics
Matches: 312, Mismatches: 60, Indels: 39
0.76 0.15 0.09
Matches are distributed among these distances:
86 4 0.01
87 180 0.58
88 106 0.34
89 20 0.06
90 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (85 bp):
TCTTCGATCTACTTCCGCCAATAATGAAGACAAGATCTGCATCTTCGATCCACTTCACACCAATA
TAGGAAGACAAGACCTACTA
Found at i:8360000 original size:131 final size:131
Alignment explanation
Indices: 8359766--8360219 Score: 491
Period size: 131 Copynumber: 3.5 Consensus size: 131
8359756 AATATCTGTT
* *
8359766 TTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACC
1 TTCTTCGATCCACTTCGCCACCAATATGGGAAGACAAGACCTGCATCTTCGATCCACTTCCTACC
* * *
8359831 AATATAGGAAGACAGGACCTACTATTTTCGATCTACTTCACGCCAATGCATGAAGACAAAATCTG
66 AATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAAATATG
8359896 C
131 C
*
8359897 TTCTTCGATCCACTTCGCCACCAGTATGGGAAGACAAGACCTGCATCTTCGATCCACTTCCTACC
1 TTCTTCGATCCACTTCGCCACCAATATGGGAAGACAAGACCTGCATCTTCGATCCACTTCCTACC
* * * * * *
8359962 AATATTGGGAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAATACAAGATATG
66 AATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAAATATG
8360027 C
131 C
* * * * * * *
8360028 TTCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTACTATCTACGATCTACTTCAC-G
1 TTCTTCGATCCACTTCGCCACCAATATGGGAAGACAAGACCTGC-ATCTTCGATCCACTTC-CTA
* * * * * * * * * *** *
8360091 CCAATACATGAAGACAAGATCTCCTTTCTTCAATCTACTTCGCCGCCAGTATGGGAAGACAAGAT
64 CCAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAAAT
*
8360156 TTGC
128 ATGC
* * * * * * *
8360160 ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTACTATCTACGATCTACTTC
1 TTCTTCGATCCACTTCGCCACCAATATGGGAAGACAAGACCTGC-ATCTTCGATCCACTTC
8360220 ACGCCAATAC
Statistics
Matches: 282, Mismatches: 38, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
130 22 0.08
131 180 0.64
132 80 0.28
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (131 bp):
TTCTTCGATCCACTTCGCCACCAATATGGGAAGACAAGACCTGCATCTTCGATCCACTTCCTACC
AATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAAATATG
C
Found at i:8365226 original size:13 final size:13
Alignment explanation
Indices: 8365208--8365250 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
8365198 AATTCAAAGT
8365208 AAATAATAATTTA
1 AAATAATAATTTA
8365221 AAATAAATAATTTA
1 AAAT-AATAATTTA
* * *
8365235 CAACAACAATTTA
1 AAATAATAATTTA
8365248 AAA
1 AAA
8365251 ATAAATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAATAATTTA
Found at i:8365231 original size:14 final size:14
Alignment explanation
Indices: 8365208--8365259 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
8365198 AATTCAAAGT
8365208 AAAT-AATAATTTA
1 AAATAAATAATTTA
8365221 AAATAAATAATTTA
1 AAATAAATAATTTA
* * *
8365235 CAA-CAACAATTTAA
1 AAATAAATAATTT-A
8365249 AAATAAATAAT
1 AAATAAATAAT
8365260 AAAAGGCTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 11 0.37
14 14 0.47
15 5 0.17
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATAAATAATTTA
Found at i:8365336 original size:53 final size:54
Alignment explanation
Indices: 8365270--8365371 Score: 120
Period size: 53 Copynumber: 1.9 Consensus size: 54
8365260 AAAAGGCTTC
*
8365270 AAATAAACAACATATAAAAACTTAAAAATAA-ATA-ATAATAGTTTAAAACAAAT
1 AAATAAACAACATA-AAAAACTTAAAAAAAATATATATAATAGTTTAAAACAAAT
* * * *
8365323 AAATAAA-AGACATACAACATTTAAAAAAAATATATATAATGGTTTAAAA
1 AAATAAACA-ACATAAAAAACTTAAAAAAAATATATATAATAGTTTAAAA
8365372 TGAATAACCT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
52 13 0.32
53 15 0.37
54 13 0.32
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.25
Consensus pattern (54 bp):
AAATAAACAACATAAAAAACTTAAAAAAAATATATATAATAGTTTAAAACAAAT
Found at i:8366835 original size:3 final size:3
Alignment explanation
Indices: 8366829--8366861 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
8366819 TTTCACTTTA
8366829 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8366862 TTAAGTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8367660 original size:16 final size:16
Alignment explanation
Indices: 8367614--8367660 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
8367604 CGCTGTATTA
* *
8367614 GAATAGAGACGTAAAG
1 GAATAGAGGCGTAATG
*
8367630 GAATAAAGGCGTAATG
1 GAATAGAGGCGTAATG
8367646 GAATAGAGGCGTAAT
1 GAATAGAGGCGTAAT
8367661 AGCAATTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.45, C:0.06, G:0.32, T:0.17
Consensus pattern (16 bp):
GAATAGAGGCGTAATG
Found at i:8367691 original size:45 final size:44
Alignment explanation
Indices: 8367640--8367736 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
8367630 GAATAAAGGC
8367640 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
8367685 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
8367729 GAAATGGA
1 GTAATGGA
8367737 GGTGAAATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 23 0.48
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:8367914 original size:18 final size:17
Alignment explanation
Indices: 8367893--8367927 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8367883 TTATTATTAA
*
8367893 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8367911 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8367928 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8368239 original size:23 final size:21
Alignment explanation
Indices: 8368195--8368235 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
8368185 TATATGAATT
8368195 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATATAA
8368216 TACTAAAATCATAATATATA
1 TACTAAAATCATAATATATA
8368236 TAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
TACTAAAATCATAATATATAA
Found at i:8374707 original size:160 final size:160
Alignment explanation
Indices: 8374516--8374832 Score: 553
Period size: 160 Copynumber: 2.0 Consensus size: 160
8374506 GATGTCCTTC
* * *
8374516 ACGTAGAAGGTGCTTACCAAGTGAGAAACAAGGAAACTCCATGCTCTTCAAGAAACAAAGGCAAG
1 ACGTAAAAGGTGCCTACCAAATGAGAAACAAGGAAACTCCATGCTCTTCAAGAAACAAAGGCAAG
*
8374581 GAGAAATGAAATCAAGCAAGAGAAAGGAAAAAAAGAGATGCTGGAAAGAAAAAGTATCCACCATG
66 AAGAAATGAAATCAAGCAAGAGAAAGGAAAAAAAGAGATGCTGGAAAGAAAAAGTATCCACCATG
* *
8374646 ATCAAATTGCAAAAAGATGGGTCATTCATA
131 ATCAAACTGCAAAAAGATAGGTCATTCATA
8374676 ACGTAAAAGGTGCCTACCAAATGAGAAACAAGGAAACTCCATGCTCTTCAAGAAACAAAGGCAAG
1 ACGTAAAAGGTGCCTACCAAATGAGAAACAAGGAAACTCCATGCTCTTCAAGAAACAAAGGCAAG
* * *
8374741 AAGAAATGGAATCAAGCAAGAGAAAGGCAAAAAAGAGATGGTGGAAAGAAAAAGTATCCACCATG
66 AAGAAATGAAATCAAGCAAGAGAAAGGAAAAAAAGAGATGCTGGAAAGAAAAAGTATCCACCATG
8374806 ATCAAACTGCAAAAAGATAGGTCATTC
131 ATCAAACTGCAAAAAGATAGGTCATTC
8374833 GTAAAAGTTT
Statistics
Matches: 148, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
160 148 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (160 bp):
ACGTAAAAGGTGCCTACCAAATGAGAAACAAGGAAACTCCATGCTCTTCAAGAAACAAAGGCAAG
AAGAAATGAAATCAAGCAAGAGAAAGGAAAAAAAGAGATGCTGGAAAGAAAAAGTATCCACCATG
ATCAAACTGCAAAAAGATAGGTCATTCATA
Found at i:8379504 original size:29 final size:29
Alignment explanation
Indices: 8379471--8379530 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
8379461 TTGAAATAAA
*
8379471 TTTGAAGCAAATAATATAGATATATTAAT
1 TTTGAAGCAAATAATATACATATATTAAT
8379500 TTTGAAGCAAATAATATACATATATTAAT
1 TTTGAAGCAAATAATATACATATATTAAT
8379529 TT
1 TT
8379531 AACATAGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (29 bp):
TTTGAAGCAAATAATATACATATATTAAT
Found at i:8388812 original size:29 final size:29
Alignment explanation
Indices: 8388779--8388844 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
8388769 TTTCCCTAGC
* * **
8388779 CAATGTTGCAACCTTGGGCATTTTGATCT
1 CAATGTTGCAACATTGAGCATTCCGATCT
**
8388808 CAATGTTGCGGCATTGAGCATTCCGATCT
1 CAATGTTGCAACATTGAGCATTCCGATCT
8388837 CAATGTTG
1 CAATGTTG
8388845 TGACATTCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (29 bp):
CAATGTTGCAACATTGAGCATTCCGATCT
Found at i:8391827 original size:23 final size:22
Alignment explanation
Indices: 8391786--8391828 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
8391776 ATATTAAAAT
*
8391786 AAAGAAATAAATAATTTAAACA
1 AAAGAAATAAATAACTTAAACA
*
8391808 AAAGACATGAAATAACTTAAA
1 AAAGAAAT-AAATAACTTAAA
8391829 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.21
Consensus pattern (22 bp):
AAAGAAATAAATAACTTAAACA
Found at i:8397855 original size:27 final size:27
Alignment explanation
Indices: 8397817--8398145 Score: 425
Period size: 27 Copynumber: 12.2 Consensus size: 27
8397807 ATTCGTTCGC
8397817 AAATGA-CTGAAATACCCTCGAAGGGTA
1 AAATGATC-GAAATACCCTCGAAGGGTA
* *
8397844 AAATGACCGAAATACCCCCGAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
* * *
8397871 AAATAATCGAAATACCCACGAATGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
8397898 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
*
8397925 AAATGATCAAAATACCC-CAGAAGGGTA
1 AAATGATCGAAATACCCTC-GAAGGGTA
*
8397952 AAATGATAGAAATACCC-CTGAAGGGTA
1 AAATGATCGAAATACCCTC-GAAGGGTA
* *
8397979 AAATGATTGAAATAGCCTCGAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
*
8398006 AAATGATCGAAATACCCT-GAATGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
*
8398032 AAATGATCGAAATACCCCCGAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
*
8398059 AAATGATCAAAATACCCTCGAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
* *
8398086 AAATGATCGAAATACCCCCGATGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
* * * *
8398113 AAATAACCAAAATACCC-CTGAAAGGTA
1 AAATGATCGAAATACCCTC-GAAGGGTA
8398140 AAATGA
1 AAATGA
8398146 CTATTATACC
Statistics
Matches: 267, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
26 26 0.10
27 239 0.90
28 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
AAATGATCGAAATACCCTCGAAGGGTA
Found at i:8398339 original size:27 final size:26
Alignment explanation
Indices: 8398299--8398358 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
8398289 AAGTATATTG
*
8398299 TACTGGTGGCTTTGCCACATACACTGT
1 TACTGGCGGCTTTGCCACAT-CACTGT
* * * *
8398326 TACTGGCGGTTTTGCTACGTTACTGT
1 TACTGGCGGCTTTGCCACATCACTGT
8398352 TACTGGC
1 TACTGGC
8398359 AGCCTTGCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (26 bp):
TACTGGCGGCTTTGCCACATCACTGT
Found at i:8398366 original size:26 final size:26
Alignment explanation
Indices: 8398321--8398393 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
8398311 TGCCACATAC
* *
8398321 ACTGTTACTGGCGGTTTTGCTACGTT
1 ACTGTTACTGGCAGCTTTGCTACGTT
* *
8398347 ACTGTTACTGGCAGCCTTGCTGCGTT
1 ACTGTTACTGGCAGCTTTGCTACGTT
* *
8398373 ACTATTATTGGCAGCTTTGCT
1 ACTGTTACTGGCAGCTTTGCT
8398394 GCGATATTGG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.14, C:0.22, G:0.25, T:0.40
Consensus pattern (26 bp):
ACTGTTACTGGCAGCTTTGCTACGTT
Found at i:8401019 original size:9 final size:9
Alignment explanation
Indices: 8401001--8401032 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
8400991 CGAATGGATT
8401001 AAAT-TGTA
1 AAATATGTA
8401009 AAATATGTA
1 AAATATGTA
8401018 AAATATGTA
1 AAATATGTA
8401027 AAATAT
1 AAATAT
8401033 AAGGTTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (9 bp):
AAATATGTA
Found at i:8414440 original size:40 final size:40
Alignment explanation
Indices: 8414386--8414480 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
8414376 TGTTATACTC
* *
8414386 TCTGTCTGGTGTGTTTCGGTTGGATTACCTCTTATAAGCT
1 TCTGTTTGGCGTGTTTCGGTTGGATTACCTCTTATAAGCT
* * * *
8414426 TTTGTTTGGCGTGTTTCGGTTGGATTAGCTCTTGTGAGCT
1 TCTGTTTGGCGTGTTTCGGTTGGATTACCTCTTATAAGCT
8414466 TCTGTTTGGCGTGTT
1 TCTGTTTGGCGTGTT
8414481 CAGTTGATCC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.08, C:0.15, G:0.29, T:0.47
Consensus pattern (40 bp):
TCTGTTTGGCGTGTTTCGGTTGGATTACCTCTTATAAGCT
Found at i:8416365 original size:189 final size:189
Alignment explanation
Indices: 8416045--8416423 Score: 731
Period size: 189 Copynumber: 2.0 Consensus size: 189
8416035 CTCTGGAATC
*
8416045 AAATATGTAAGCTAGATACGCTTCATAACCCTTTCGAATATATTGTTGTGTCATCATAGCTGAGA
1 AAATATGTAAGCTAGATACGCTTCATAACCCTTTCGAATATATTATTGTGTCATCATAGCTGAGA
8416110 TAACATTAGATGTACCATCCAATATGTCTTATTCAATTCGAATCCTTTCACCATTTTGACATTTC
66 TAACATTAGATGTACCATCCAATATGTCTTATTCAATTCGAATCCTTTCACCATTTTGACATTTC
8416175 AATACAATATGCTTTCGTCTACAGTTTACAACAGCATCATGCAAAGTTAACCAGTCTAT
131 AATACAATATGCTTTCGTCTACAGTTTACAACAGCATCATGCAAAGTTAACCAGTCTAT
*
8416234 AAATATGTAAGCTAGATACGCTTCATAACCCTTTCGAATATATTATTGTGTCATCATAGCTGGGA
1 AAATATGTAAGCTAGATACGCTTCATAACCCTTTCGAATATATTATTGTGTCATCATAGCTGAGA
8416299 TAACATTAGATGTACCATCCAATATGTCTTATTCAATTCGAATCCTTTCACCATTTTGACATTTC
66 TAACATTAGATGTACCATCCAATATGTCTTATTCAATTCGAATCCTTTCACCATTTTGACATTTC
*
8416364 AATACAATATGCTTTCGTCTACAGTTTACAACAGCATCATGTAAAGTTAACCAGTCTAT
131 AATACAATATGCTTTCGTCTACAGTTTACAACAGCATCATGCAAAGTTAACCAGTCTAT
8416423 A
1 A
8416424 CCCAGAATCA
Statistics
Matches: 187, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
189 187 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (189 bp):
AAATATGTAAGCTAGATACGCTTCATAACCCTTTCGAATATATTATTGTGTCATCATAGCTGAGA
TAACATTAGATGTACCATCCAATATGTCTTATTCAATTCGAATCCTTTCACCATTTTGACATTTC
AATACAATATGCTTTCGTCTACAGTTTACAACAGCATCATGCAAAGTTAACCAGTCTAT
Found at i:8419663 original size:86 final size:86
Alignment explanation
Indices: 8419548--8419725 Score: 322
Period size: 86 Copynumber: 2.1 Consensus size: 86
8419538 TAAATCCATA
*
8419548 TTAA-CCATAGGTGCAAGGGACTTTGAAACAACTCATATCAACCATCATTTCACAATAAAATGCT
1 TTAATCCATAGGTGCAAGGGACTTTGAAACAACTCATATCAACCATCATTTCACAATAAAAAGCT
8419612 AGAATTTACACATTTAACAAT
66 AGAATTTACACATTTAACAAT
*
8419633 TTAATCCATAGGTGCAAGGGACTTTGAAACAACTCATATCAACCATCATTTCGCAATAAAAAGCT
1 TTAATCCATAGGTGCAAGGGACTTTGAAACAACTCATATCAACCATCATTTCACAATAAAAAGCT
*
8419698 AGAATTTACACCTTTAACAAT
66 AGAATTTACACATTTAACAAT
8419719 TTAATCC
1 TTAATCC
8419726 CTAACTAAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
85 4 0.04
86 85 0.96
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (86 bp):
TTAATCCATAGGTGCAAGGGACTTTGAAACAACTCATATCAACCATCATTTCACAATAAAAAGCT
AGAATTTACACATTTAACAAT
Found at i:8420708 original size:37 final size:37
Alignment explanation
Indices: 8420663--8420839 Score: 214
Period size: 37 Copynumber: 4.8 Consensus size: 37
8420653 GAGGGTGGAT
** **
8420663 GATTAGCTCTTATGAGTGTTTGGCGTGCCATAGGGTG
1 GATTAGCTCTTATGAGCATTTGGCGTGTTATAGGGTG
* * *
8420700 GATTAGCTCATATGAGCATTTGGCCTGTTATAGGGTA
1 GATTAGCTCTTATGAGCATTTGGCGTGTTATAGGGTG
* * * *
8420737 GATTACCTCTTATGAGCATTTGACATGTTATCGGGTG
1 GATTAGCTCTTATGAGCATTTGGCGTGTTATAGGGTG
*
8420774 GATTAGCTCTTATGAGCATTTGGCGTATTATCA-GGTG
1 GATTAGCTCTTATGAGCATTTGGCGTGTTAT-AGGGTG
8420811 GATTAGCTCTTATGAGCGA-TTGGCGTGTT
1 GATTAGCTCTTATGAGC-ATTTGGCGTGTT
8420840 TCAGTTGGAT
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
37 118 0.99
38 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.37
Consensus pattern (37 bp):
GATTAGCTCTTATGAGCATTTGGCGTGTTATAGGGTG
Found at i:8423172 original size:28 final size:28
Alignment explanation
Indices: 8423120--8423249 Score: 113
Period size: 28 Copynumber: 4.7 Consensus size: 28
8423110 ACAAAGTCCG
*
8423120 CCACAAAGGC-TAATCTTTCATAGTTCA
1 CCACAAAGGCTTATTCTTTCATAGTTCA
* **
8423147 CCACAAAGGCTTATTCTTTCGTAGTTTG
1 CCACAAAGGCTTATTCTTTCATAGTTCA
* * ** *
8423175 CAATAAAGGC-TACTGATTT-ATACTTCA
1 CCACAAAGGCTTA-TTCTTTCATAGTTCA
*
8423202 CCAAAAAGGCTTATTCTTTCATAGTTCA
1 CCACAAAGGCTTATTCTTTCATAGTTCA
* * *
8423230 CCAGAAAGGTTTATTATTTC
1 CCACAAAGGCTTATTCTTTC
8423250 CTGACGTGTT
Statistics
Matches: 79, Mismatches: 20, Indels: 7
0.75 0.19 0.07
Matches are distributed among these distances:
27 28 0.35
28 51 0.65
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (28 bp):
CCACAAAGGCTTATTCTTTCATAGTTCA
Found at i:8431306 original size:21 final size:22
Alignment explanation
Indices: 8431256--8431314 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 22
8431246 CATCGTCAAC
8431256 AGAAGCTCATAAGAGCTGAACA
1 AGAAGCTCATAAGAGCTGAACA
*
8431278 A-AAGCTCATAAGAGCTTAA-A
1 AGAAGCTCATAAGAGCTGAACA
* *
8431298 AGAAACTCAAAAGAGCT
1 AGAAGCTCATAAGAGCT
8431315 AATCCACTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.06
21 30 0.91
22 1 0.03
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (22 bp):
AGAAGCTCATAAGAGCTGAACA
Found at i:8437868 original size:23 final size:22
Alignment explanation
Indices: 8437825--8437868 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
8437815 TTCTAAGTCG
8437825 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
8437848 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
8437869 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:8437962 original size:45 final size:45
Alignment explanation
Indices: 8437913--8438006 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
8437903 AACAGATACT
*
8437913 CGGTGGATTCAGCACATAGCAACCACCTTAATAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTAATAATCAATGATGTC
* * *
8437958 CGGTGGAATCGGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTAATAATCAATGATGTC
8438003 CGGT
1 CGGT
8438007 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTAATAATCAATGATGTC
Found at i:8438128 original size:50 final size:50
Alignment explanation
Indices: 8438012--8438138 Score: 152
Period size: 50 Copynumber: 2.5 Consensus size: 50
8438002 TCGGTTCACA
* * *
8438012 TAGTAGCCTACACATAGTACTACACATGTGATCATTACCATCCGGTACATG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCATTA-CATCCGGTACATG
*
8438063 TAGTAGCCTGCACATAGTACTACACATGCGACCCA-T-CATTCTGGTACACT-
1 TAGTAGCCTGCACATAGTACTACACATGCGA-CCATTACA-TCCGGTACA-TG
*
8438113 TAGTAGCCTGTACATAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
8438139 CATGACCATC
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
49 2 0.03
50 33 0.49
51 31 0.46
52 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGCGACCATTACATCCGGTACATG
Found at i:8439246 original size:19 final size:20
Alignment explanation
Indices: 8439204--8439246 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
8439194 TCATACTTTC
*
8439204 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
8439224 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
8439242 TATTC
1 TATTC
8439247 CACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:8439969 original size:25 final size:24
Alignment explanation
Indices: 8439938--8440084 Score: 102
Period size: 25 Copynumber: 6.4 Consensus size: 24
8439928 ATTGTCTAAA
8439938 CAGAGAGCACTAATGTGCTAATAAT
1 CAGAGAGCACT-ATGTGCTAATAAT
* *
8439963 CAGAGAG--C---GTGTTAGTAAT
1 CAGAGAGCACTATGTGCTAATAAT
*
8439982 CAGAGAGAACTGATG-GACTAATAAT
1 CAGAGAGCACT-ATGTG-CTAATAAT
*
8440007 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACT-ATGTGCTAATAAT
*
8440032 TAGAGAG--C-ATGT-C--ATAAT
1 CAGAGAGCACTATGTGCTAATAAT
**
8440050 CAGAGAGCACTGACATGCTAATAAT
1 CAGAGAGCACT-ATGTGCTAATAAT
8440075 CAGAGAGCAC
1 CAGAGAGCAC
8440085 GCTAAACTCC
Statistics
Matches: 95, Mismatches: 12, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
18 11 0.12
19 16 0.17
20 2 0.02
21 4 0.04
22 2 0.02
23 3 0.03
24 1 0.01
25 55 0.58
26 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.21
Consensus pattern (24 bp):
CAGAGAGCACTATGTGCTAATAAT
Found at i:8440069 original size:43 final size:43
Alignment explanation
Indices: 8440002--8440083 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
8439992 TGATGGACTA
* *
8440002 ATAATCAGAGAGCACTAACGTGCTAATAATTAGAGAGCATGTC
1 ATAATCAGAGAGCACTAACATGCTAATAATCAGAGAGCATGTC
*
8440045 ATAATCAGAGAGCACTGACATGCTAATAATCAGAGAGCA
1 ATAATCAGAGAGCACTAACATGCTAATAATCAGAGAGCA
8440084 CGCTAAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (43 bp):
ATAATCAGAGAGCACTAACATGCTAATAATCAGAGAGCATGTC
Found at i:8440081 original size:68 final size:69
Alignment explanation
Indices: 8439938--8440084 Score: 210
Period size: 69 Copynumber: 2.1 Consensus size: 69
8439928 ATTGTCTAAA
* * *
8439938 CAGAGAGCACTAATGTGCTAATAATCAGAGAGCGTGTTAGTAATCAGAGAGAACTGATGGACTAA
1 CAGAGAGCACTAACGTGCTAATAATCAGAGAGCATGTCAGTAATCAGAGAGAACTGATGGACTAA
8440003 TAAT
66 TAAT
* *
8440007 CAGAGAGCACTAACGTGCTAATAATTAGAGAGCATGTCA-TAATCAGAGAGCACTGACAT-G-CT
1 CAGAGAGCACTAACGTGCTAATAATCAGAGAGCATGTCAGTAATCAGAGAGAACTG--ATGGACT
8440069 AATAAT
64 AATAAT
8440075 CAGAGAGCAC
1 CAGAGAGCAC
8440085 GCTAAACTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
68 33 0.46
69 36 0.51
70 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.21
Consensus pattern (69 bp):
CAGAGAGCACTAACGTGCTAATAATCAGAGAGCATGTCAGTAATCAGAGAGAACTGATGGACTAA
TAAT
Found at i:8442339 original size:2 final size:2
Alignment explanation
Indices: 8442332--8442358 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8442322 CTTATAGAAT
8442332 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
8442359 ATTTGACCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8444944 original size:50 final size:50
Alignment explanation
Indices: 8444868--8445152 Score: 344
Period size: 50 Copynumber: 5.7 Consensus size: 50
8444858 ATTTGGGTAA
* *
8444868 AGAGGTCCCATGTAAGACCATATCTGGGACACGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
8444918 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
8444968 AGAGGGCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGAGATGAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT--G
* * * *
8445020 AGAGGTCCCCTGTAAGACCATGTTTGAGACATGGC-TTGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATT-GGCACCGAGATG
** * * *
8445070 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTTC-AG--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGAGATG
* **
8445119 AAACATCCCATGTAAGACCATGTCTGGGACATGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG
8445153 TTTTGGCATG
Statistics
Matches: 203, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
49 30 0.15
50 126 0.62
51 5 0.02
52 42 0.21
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:8445072 original size:102 final size:100
Alignment explanation
Indices: 8444868--8445111 Score: 364
Period size: 102 Copynumber: 2.4 Consensus size: 100
8444858 ATTTGGGTAA
* *
8444868 AGAGGTCCCATGTAAGACCATATCTGGGACACGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
1 AGAGGTCCCATGTAAGACCATATCTGGGATATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
*
8444933 GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
66 GACCATGTCTGAGACATGGCGTTGGCACCGAGATG
* * *
8444968 AGAGGGCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGAGATGAGAGAGGTCCCCTGT
1 AGAGGTCCCATGTAAGACCATATCTGGGATATGGCATTGGCACCGAGAT--GAGAGGTCCCATGT
* *
8445033 AAGACCATGTTTGAGACATGGC-TTGGGCACCGATATG
64 AAGACCATGTCTGAGACATGGCGTT-GGCACCGAGATG
**
8445070 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
8445112 GTTCAGGAAA
Statistics
Matches: 129, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
100 45 0.35
101 2 0.02
102 82 0.64
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.21
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATATCTGGGATATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
GACCATGTCTGAGACATGGCGTTGGCACCGAGATG
Found at i:8459086 original size:15 final size:16
Alignment explanation
Indices: 8459066--8459097 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8459056 TTGGTGCCTT
8459066 ATTGAT-ATGTGTTAA
1 ATTGATAATGTGTTAA
8459081 ATTGATAATGTGTTAA
1 ATTGATAATGTGTTAA
8459097 A
1 A
8459098 GCATGTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
ATTGATAATGTGTTAA
Found at i:8475636 original size:3 final size:3
Alignment explanation
Indices: 8475628--8475685 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
8475618 AACTAATATA
* * * * * * *
8475628 AAT AAT AAT ACT AAT AGT TAT AGT AAC ATT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8475676 AAT AAT AAT A
1 AAT AAT AAT A
8475686 GTTAAGTAAT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8478345 original size:88 final size:88
Alignment explanation
Indices: 8477246--8478343 Score: 1560
Period size: 88 Copynumber: 12.5 Consensus size: 88
8477236 TCAGATAGAT
* *
8477246 AAGATCT-ATATTTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
8477310 CTTCGCTGCCAATACAGGAAGAC
66 CTTCGCTGCCAATACAGGAAGAC
* *
8477333 AAGATCTGCTATTTTCAACCTACTCCACTGTTGCTCAGGGAGACAAGGCTGGAGTCTTCGATCTA
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
8477398 CTTCGCTGCCAATACAGGAAGAC
66 CTTCGCTGCCAATACAGGAAGAC
* * * * *
8477421 AATATCTGCTATTTTTAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGTTTTCAATCTA
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
*
8477486 CTTCGCTGCCAATACTGGAAGAC
66 CTTCGCTGCCAATACAGGAAGAC
* * *
8477509 AAGATCT-TTCATTTTTAACCTACTCCACTGCTGCTTAGGGAGACAAGGCTGGGGTCTTCGATCT
1 AAGATCTGCT-ATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCT
*
8477573 ACTTCGCTGCCAATACAAGAAGAC
65 ACTTCGCTGCCAATACAGGAAGAC
* ** * *
8477597 AAGATCTACTATTTTCAACCTACTCCACTATTGCTTAGGGAGACAAGGCTAGGGTCTTCGATCTA
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
*
8477662 CTTCGCTGCCAATA-ACGGAATAC
66 CTTCGCTGCCAATACA-GGAAGAC
* * * * *
8477685 AAGATCTGATATTTTTAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGAGTTTTCGATCTA
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
*
8477750 CTTCGCTGCCAATACTA-GAAAAC
66 CTTCGCTGCCAATAC-AGGAAGAC
* * *
8477773 AAGATCTG-TCATTTTTAACCTACTCTACTGCTGCTCAGGGAGATAAGGCTGGGGTCTTCGATCT
1 AAGATCTGCT-ATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCT
8477837 ACTTCGCTGCCAATACAAGGAA-AC
65 ACTTCGCTGCCAATAC-AGGAAGAC
*
8477861 AAGATCTGCTATTTTCAACCTACTCCACTGCTGTTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
*
8477926 CTTCGCTGCCAATATAGGAAGAC
66 CTTCGCTGCCAATACAGGAAGAC
* * * * *
8477949 AAGATCTGTTATTTTCAACCTACTCCACTACTGCTAAGGGAGATAAGGTTGGGGTCTTCGATCTA
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
* *
8478014 CTTCACTACCAATACAGGAAGAC
66 CTTCGCTGCCAATACAGGAAGAC
* * *
8478037 GAGATCTGCTATTTTTAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCAATCTA
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
* *
8478102 CTTCGCTGCCAATACAAGAAGGC
66 CTTCGCTGCCAATACAGGAAGAC
* * *
8478125 AAGATCTGCTATTTTCAACCTACTCCATTGCTGCTCAGGGAAACAAGGTTGGGGTCTTCGATCTA
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
*
8478190 CTTCCCTGCCAATACAGGAAGAC
66 CTTCGCTGCCAATACAGGAAGAC
* * * * * * * * * *
8478213 AAAATCTGCTATTTTTAACATACTCCGCTGCTGTTCAGGGAGATAAAGATGAGATCTTCGATCTA
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
* *
8478278 CTTCACTGCCAGTACAGGAAGAC
66 CTTCGCTGCCAATACAGGAAGAC
* *
8478301 AATATCTGCTATTTTCAACCTACTTCACTGCTGCTCAGGGAGA
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
8478344 TAGGATTCAC
Statistics
Matches: 902, Mismatches: 99, Indels: 19
0.88 0.10 0.02
Matches are distributed among these distances:
87 15 0.02
88 881 0.98
89 5 0.01
90 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (88 bp):
AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTA
CTTCGCTGCCAATACAGGAAGAC
Found at i:8478374 original size:44 final size:44
Alignment explanation
Indices: 8478314--8478579 Score: 378
Period size: 44 Copynumber: 6.0 Consensus size: 44
8478304 ATCTGCTATT
8478314 TTCAACCTACTT-CACTGCTG-CTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTA-TTCCACTGCTGTC-CAGGGAGATAGGACTT-ACAATC
* *
8478358 TTCAACCTATTCCACTGCTATCCAGGGAGATAAGACTTACAATC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACAATC
* * *
8478402 TTTAACCTATTCCACTGTTGTCCAGGAAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACAATC
*
8478446 TTCAACCTATTCCACTGTTGTCCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACAATC
* *
8478490 TTCTACCTATTCCACTGCTGTCCAAGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACAATC
* *
8478534 TTTAACCTATTCAACTGCTGTCCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTT-ACAATC
8478578 TT
1 TT
8478580 ACCGATCTGT
Statistics
Matches: 202, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
43 4 0.02
44 195 0.97
45 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACAATC
Found at i:8480796 original size:6 final size:6
Alignment explanation
Indices: 8480780--8480823 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
8480770 TAACCTCTTA
8480780 TTTTC- TTTTCT TTTTCT TTTTCTTT TTTTCT TCTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTC--T TTTTCT T-TTTCT TTTTCT
8480824 CTCATTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.14
6 18 0.51
7 6 0.17
8 6 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:8480796 original size:11 final size:11
Alignment explanation
Indices: 8480780--8480820 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
8480770 TAACCTCTTA
8480780 TTTTCTTTTCT
1 TTTTCTTTTCT
8480791 TTTTCTTTT-T
1 TTTTCTTTTCT
*
8480801 CTTT-TTTTCT
1 TTTTCTTTTCT
8480811 TCTTTCTTTT
1 T-TTTCTTTT
8480821 TCTCTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 4 0.16
10 5 0.20
11 12 0.48
12 4 0.16
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:8480802 original size:17 final size:17
Alignment explanation
Indices: 8480780--8480815 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
8480770 TAACCTCTTA
8480780 TTTTCTTTTCTTT-TTCT
1 TTTTCTTTT-TTTCTTCT
8480797 TTTTCTTTTTTTCTTCT
1 TTTTCTTTTTTTCTTCT
8480814 TT
1 TT
8480816 CTTTTTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTCTTTTTTTCTTCT
Found at i:8480809 original size:14 final size:15
Alignment explanation
Indices: 8480790--8480821 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8480780 TTTTCTTTTC
8480790 TTTTTCTT-TTTCTT
1 TTTTTCTTCTTTCTT
8480804 TTTTTCTTCTTTCTT
1 TTTTTCTTCTTTCTT
8480819 TTT
1 TTT
8480822 CTCTCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTCTTCTTTCTT
Found at i:8480818 original size:21 final size:20
Alignment explanation
Indices: 8480785--8480823 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
8480775 TCTTATTTTC
8480785 TTTTCTTTTTCTTTTTCTTT
1 TTTTCTTTTTCTTTTTCTTT
8480805 TTTTCTTCTTTCTTTTTCT
1 TTTTCTT-TTTCTTTTTCT
8480824 CTCATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTCTTTTTCTTTTTCTTT
Found at i:8480851 original size:19 final size:20
Alignment explanation
Indices: 8480827--8480871 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
8480817 TTTTTCTCTC
* *
8480827 ATTTTTGATTTTA-TTTTTT
1 ATTTTTAATTTGATTTTTTT
8480846 ATTTTTAATTTGATTTTTTT
1 ATTTTTAATTTGATTTTTTT
8480866 ATTTTT
1 ATTTTT
8480872 TTGAATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (20 bp):
ATTTTTAATTTGATTTTTTT
Done.