Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 34 of 410
Found at i:8502444 original size:44 final size:44
Alignment explanation
Indices: 8502394--8503827 Score: 495
Period size: 44 Copynumber: 32.6 Consensus size: 44
8502384 CTTCTTCGAT
* * *
8502394 TTGTTCCCCATAAACACAAGGATGCCAAATCTGTTGTTTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
*
8502438 TTGTTCCCTATAAACATAGGGATGCCAAATCTGCTGTTTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* * *** * *
8502482 TTGTTCCTTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTGTTTTCAAC
* * * * * * * * *
8502524 TCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTTGATC
1 T-TG-TTCCCTATAAACACAGGGATGCCAAATCTGCTGT-TTTCAAC
* * *
8502571 -TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* *** * *
8502614 TTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGATC
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTGTTTTC-AAC
** * * * ** * * * *
8502658 TACTTCACC-GTAAGCACAGGAATGTGAGATCTGCTATCTTCGA-
1 TTGTTC-CCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
*
8502701 TCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAAC
1 T-TGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
*** * *
8502746 TTGTTCCCTATAAGA-ACAGGGATGCC--ATGCTGAAATCTTCGA-
1 TTGTTCCCTATAA-ACACAGGGATGCCAAAT-CTGCTGTTTTCAAC
* * * * * * * * * *
8502788 TCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGA-
1 T-TG-TTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* *
8502833 TCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAAC
1 T-TGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* *** * *
8502878 TTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTGTTTTCAAC
* * * * * * * * * *
8502920 TCTGCTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCGA-
1 T-TG-TTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* * *
8502965 TCTGTTCCCTATAAGCACAGGGATGCCAAATATGTTGTTTTCAAC
1 T-TGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* *** * *
8503010 TTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTGTTTTCAAC
* * * * * * * * * *
8503052 TCTGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCGA-
1 T-TG-TTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* * *
8503097 TCTGTTCCCTATAAGCACAAGGATGCCAAATATGCTGTTTTCAAC
1 T-TGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* **** * *
8503142 TTGTTCCCTATAAGCACAGGGATGCC--ATGCTAAAATCTTCGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTGTTTTCAAC
* * * * * * * * *
8503184 TCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-
1 T-TG-TTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* *
8503229 TCTGTTCCCTATAAGCACGGGGATGCCAAATCTGCTGTTTTCAAC
1 T-TGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* *** * *
8503274 TTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTGT-TTTCAAC
* * * * * * * * *
8503318 -TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-
1 TTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* *
8503361 TCTGTTCCCTATAAGCACGGGGATGCCAAATCTGCTGTTTTCAAC
1 T-TGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* *** * *
8503406 TTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTGT-TTTCAAC
* * * * * * * * *
8503450 -TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-
1 TTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
*
8503493 TCTGTTCCCTATAAGCAC-GGGATGCCAAATCTGCTGTTTTCAAC
1 T-TGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* *** * *
8503537 TTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTGT-TTTCAAC
* * * * * * ** * * *
8503581 -TGCTTCACTGTAAGCACAGGAATGTCAGATCTATTATCTTCGA-
1 TTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* * *
8503624 TCTATTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAAC
1 T-TGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* *** * *
8503669 TTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTGTTTTCAAC
* * * * * * * ** * * *
8503711 TCTGCTTCACTGTAAGCACAGGAATGTCAGATGTATTATCTTCTA-
1 T-TG-TTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
* * * *
8503756 TCTATTCCCTATAAGCACAGGGATACCAAATCTGCTATTTTCAAC
1 T-TGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
*
8503801 TTGTTCCCTATAAGCACAGGGATGCCA
1 TTGTTCCCTATAAACACAGGGATGCCA
8503828 TGCTGAAATC
Statistics
Matches: 1068, Mismatches: 249, Indels: 146
0.73 0.17 0.10
Matches are distributed among these distances:
42 26 0.02
43 128 0.12
44 779 0.73
45 113 0.11
46 22 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTGTTTTCAAC
Found at i:8502664 original size:132 final size:132
Alignment explanation
Indices: 8502439--8503922 Score: 2628
Period size: 132 Copynumber: 11.2 Consensus size: 132
8502429 GTTTTCAACT
* * *
8502439 TGTTCCCTATAAACATAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCTTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
8502504 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTTGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
8502569 TC
131 TC
* *
8502571 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
* * *
8502636 TGCCATGCTGAAATCTTCGATCTACTTCACCGTAAGCACAGGAATGTGAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
8502701 TC
131 TC
*
8502703 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGAACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
8502768 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
8502833 TC
131 TC
*
8502835 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
8502900 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
8502965 TC
131 TC
* *
8502967 TGTTCCCTATAAGCACAGGGATGCCAAATATGTTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
8503032 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
8503097 TC
131 TC
* *
8503099 TGTTCCCTATAAGCACAAGGATGCCAAATATGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
8503164 TGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
8503229 TC
131 TC
*
8503231 TGTTCCCTATAAGCACGGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
8503296 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
8503361 TC
131 TC
*
8503363 TGTTCCCTATAAGCACGGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
8503428 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
8503493 TC
131 TC
8503495 TGTTCCCTATAAGCAC-GGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
* **
8503559 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTATTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
8503624 TC
131 TC
* *
8503626 TATTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
* ** *
8503691 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATGTATTATCTTCTA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
8503756 TC
131 TC
* * *
8503758 TATTCCCTATAAGCACAGGGATACCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
8503823 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
8503888 TC
131 TC
*
8503890 TGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGC
8503923 AATCTTCGAT
Statistics
Matches: 1303, Mismatches: 48, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
131 128 0.10
132 1175 0.90
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
TC
Found at i:8504305 original size:205 final size:205
Alignment explanation
Indices: 8503950--8504426 Score: 740
Period size: 205 Copynumber: 2.3 Consensus size: 205
8503940 CCGCCGCTAT
* *
8503950 AGAGATGCCAAATTATCTTTGATTTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCT
1 AGAGATGCCAAATCATCTTAGATTTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCT
* *
8504015 TCGATTTGCTCCTTGTAAGCACAAGGATGGCAAACCATCTTGGATCTGCTTCAGTATAAACATTT
66 TCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATTT
*
8504080 GAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATGCCAGACTTCAATTTGTTCT
131 GAAGGTTGGATCTACTATGTGTCTACCCTCCATCGAAGTGGAGATGCCAGACTTCAATTTGTTCT
*
8504145 CTGACAATAC
196 CTAACAATAC
* * * * *
8504155 AGAGATGCCAAATCATCTTAGATTTCCTTTAACATAAGCAGGTGAAAGCCAAATCAGCTATGTCT
1 AGAGATGCCAAATCATCTTAGATTTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCT
*
8504220 TTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAAC-TTC
66 TCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATT-
* * * * * * *
8504284 TGAATGTTGGATTTACTATGTGTCTGCCTTCCGTCGAAGTGGAGATGCTAGACTTCGATTTGTTC
130 TGAAGGTTGGATCTACTATGTGTCTACCCTCCATCGAAGTGGAGATGCCAGACTTCAATTTGTTC
8504349 TCTAACAATAC
195 TCTAACAATAC
* * *
8504360 AGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGGAAGCTAAATCAGCTATGTCT
1 AGAGATGCCAAATCATCTTAGATTTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCT
8504425 TC
66 TC
8504427 AATCTGTTCT
Statistics
Matches: 244, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
204 2 0.01
205 242 0.99
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
AGAGATGCCAAATCATCTTAGATTTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCT
TCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATTT
GAAGGTTGGATCTACTATGTGTCTACCCTCCATCGAAGTGGAGATGCCAGACTTCAATTTGTTCT
CTAACAATAC
Found at i:8504697 original size:61 final size:64
Alignment explanation
Indices: 8504580--8504704 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 64
8504570 TCATGTATCC
8504580 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* *
8504644 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
8504705 CTATTGTAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 31 0.53
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.34
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:8505841 original size:7 final size:7
Alignment explanation
Indices: 8505829--8505862 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
8505819 TTTTTTAGAA
8505829 TTTTTTG
1 TTTTTTG
8505836 TTTTTTG
1 TTTTTTG
8505843 TTTTTT-
1 TTTTTTG
8505849 TTTTTGTG
1 TTTTT-TG
8505857 TTTTTT
1 TTTTTT
8505863 TTAGGGCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 5 0.20
7 15 0.60
8 5 0.20
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:8510936 original size:2 final size:2
Alignment explanation
Indices: 8510929--8510966 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
8510919 ATAATAATAC
* *
8510929 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8510967 ATAGAAATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:8511208 original size:3 final size:3
Alignment explanation
Indices: 8511202--8511258 Score: 53
Period size: 3 Copynumber: 18.0 Consensus size: 3
8511192 AATAGGGGTG
* *
8511202 ATA ATA ATA ATA GTA ATA ATA ATA ATA CA-A ACA ATA ATA CATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA
8511249 TATA ATA ATA
1 -ATA ATA ATA
8511259 GTAGTCAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 1 0.02
3 35 0.74
4 11 0.23
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8511220 original size:15 final size:15
Alignment explanation
Indices: 8511202--8511261 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
8511192 AATAGGGGTG
8511202 ATAATAATAATAGTA
1 ATAATAATAATAGTA
**
8511217 ATAATAATAATACAA
1 ATAATAATAATAGTA
*
8511232 ACAATAATACATA-T-
1 ATAATAATA-ATAGTA
8511246 ATATATAATAATAGTA
1 ATA-ATAATAATAGTA
8511262 GTCAGAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
14 5 0.14
15 28 0.78
16 3 0.08
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (15 bp):
ATAATAATAATAGTA
Found at i:8511346 original size:3 final size:3
Alignment explanation
Indices: 8511333--8511429 Score: 62
Period size: 3 Copynumber: 32.3 Consensus size: 3
8511323 GAGGGCATAT
8511333 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* * * *
8511377 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA AAA AAA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8511421 ATA A-A ATA A
1 ATA ATA ATA A
8511430 AGCTCTCAAC
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
2 11 0.14
3 54 0.71
4 9 0.12
5 2 0.03
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:8511359 original size:18 final size:18
Alignment explanation
Indices: 8511329--8511430 Score: 89
Period size: 18 Copynumber: 5.4 Consensus size: 18
8511319 TGGAGAGGGC
8511329 ATATATAAT-ATAATAATA
1 ATATA-AATAATAATAATA
8511347 ATATAAATAATAATATATA
1 ATATAAATAATAATA-ATA
*
8511366 CATGAGAAATAATAATAATA
1 -AT-ATAAATAATAATAATA
* *
8511386 ATATAAATAATAGTAAAA
1 ATATAAATAATAATAATA
* *
8511404 ATAATAAAATAAAAAAAATA
1 AT-AT-AAATAATAATAATA
*
8511424 AAATAAA
1 ATATAAA
8511431 GCTCTCAACT
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.04
18 29 0.42
19 9 0.13
20 16 0.23
21 12 0.17
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (18 bp):
ATATAAATAATAATAATA
Found at i:8511834 original size:22 final size:25
Alignment explanation
Indices: 8511806--8511898 Score: 101
Period size: 26 Copynumber: 3.9 Consensus size: 25
8511796 TGCAGGCAAA
8511806 TGGAGTGG-TT-G-GGGTGGTTTAG
1 TGGAGTGGTTTAGTGGGTGGTTTAG
8511828 TGGAGTGGTTTAGTAGGGTGG-TT-G
1 TGGAGTGGTTTAGT-GGGTGGTTTAG
8511852 -GG-GTGGTTTAGTGGAGTGGTTTAG
1 TGGAGTGGTTTAGTGG-GTGGTTTAG
*
8511876 TGTAGTGGTTTAGTGGAGTGGTT
1 TGGAGTGGTTTAGTGG-GTGGTT
8511899 AGAGTGGTTG
Statistics
Matches: 61, Mismatches: 1, Indels: 14
0.80 0.01 0.18
Matches are distributed among these distances:
21 2 0.03
22 22 0.36
23 6 0.10
24 3 0.05
25 3 0.05
26 25 0.41
ACGTcount: A:0.12, C:0.00, G:0.49, T:0.39
Consensus pattern (25 bp):
TGGAGTGGTTTAGTGGGTGGTTTAG
Found at i:8511837 original size:13 final size:13
Alignment explanation
Indices: 8511819--8511898 Score: 107
Period size: 13 Copynumber: 6.5 Consensus size: 13
8511809 AGTGGTTGGG
8511819 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
8511832 GTGGTTTAGTAGG-
1 GTGGTTTAGT-GGA
8511845 GTGG-TT-G-GG-
1 GTGGTTTAGTGGA
8511854 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
*
8511867 GTGGTTTAGTGTA
1 GTGGTTTAGTGGA
8511880 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
8511893 GTGGTT
1 GTGGTT
8511899 AGAGTGGTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
9 6 0.10
10 2 0.03
11 2 0.03
12 4 0.07
13 44 0.73
14 2 0.03
ACGTcount: A:0.12, C:0.00, G:0.47, T:0.40
Consensus pattern (13 bp):
GTGGTTTAGTGGA
Found at i:8511856 original size:35 final size:35
Alignment explanation
Indices: 8511810--8511876 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
8511800 GGCAAATGGA
8511810 GTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGTAGG
1 GTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGTAGG
8511845 GTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGT
1 GTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGT
8511877 GTAGTGGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.10, C:0.00, G:0.51, T:0.39
Consensus pattern (35 bp):
GTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGTAGG
Found at i:8511884 original size:35 final size:35
Alignment explanation
Indices: 8511808--8511885 Score: 131
Period size: 35 Copynumber: 2.2 Consensus size: 35
8511798 CAGGCAAATG
8511808 GAGTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGTA
1 GAGTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGTA
*
8511843 GGGTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGT-
1 GAGTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGTA
8511877 GTAGTGGTT
1 G-AGTGGTT
8511886 TAGTGGAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 1 0.03
35 39 0.98
ACGTcount: A:0.12, C:0.00, G:0.50, T:0.38
Consensus pattern (35 bp):
GAGTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGTA
Found at i:8511915 original size:26 final size:26
Alignment explanation
Indices: 8511860--8511915 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
8511850 TGGGGTGGTT
* **
8511860 TAGTGGAGTGGTTTAGTGTAGTGGTT
1 TAGTGGAGTGGTTTAGAGTAGTGGAG
*
8511886 TAGTGGAGTGG-TTAGAGTGGTTGGAG
1 TAGTGGAGTGGTTTAGAGTAG-TGGAG
8511912 TAGT
1 TAGT
8511916 TTAGTGGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.38
Consensus pattern (26 bp):
TAGTGGAGTGGTTTAGAGTAGTGGAG
Found at i:8511925 original size:22 final size:22
Alignment explanation
Indices: 8511900--8511947 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
8511890 GGAGTGGTTA
*
8511900 GAGTGGTTGGAGTAGTTTAGTG
1 GAGTGGTTGGAGTAGTTTAATG
*
8511922 GAGTGGTTGGAGTGGTTTAATG
1 GAGTGGTTGGAGTAGTTTAATG
8511944 GAGT
1 GAGT
8511948 AAAGATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (22 bp):
GAGTGGTTGGAGTAGTTTAATG
Found at i:8514806 original size:33 final size:33
Alignment explanation
Indices: 8514769--8514890 Score: 97
Period size: 33 Copynumber: 3.7 Consensus size: 33
8514759 ATTTATAAGG
* *
8514769 AAGACCATAGCTGGGCTATGGCA-TTCTAATGAT
1 AAGACCATAGCTGGGCTATGGCACTACGAATG-T
** *
8514802 AAGACCATAATTGGGTTATGGCACTACGAATGT
1 AAGACCATAGCTGGGCTATGGCACTACGAATGT
* * * *
8514835 AAGACCATGGCTGGGCCT-TGGCAATGC-ATGTGT
1 AAGACCATAGCTGGG-CTATGGCACTACGA-ATGT
* *
8514868 AAGACCATAGTTGGACTATGGCA
1 AAGACCATAGCTGGGCTATGGCA
8514891 TAAAGATAAT
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
32 3 0.04
33 60 0.86
34 7 0.10
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (33 bp):
AAGACCATAGCTGGGCTATGGCACTACGAATGT
Found at i:8514817 original size:101 final size:101
Alignment explanation
Indices: 8514641--8514826 Score: 239
Period size: 101 Copynumber: 1.8 Consensus size: 101
8514631 ATAAGACTGC
* * * * *
8514641 GGTTGGACCATGACAATGTTTATATATAAGACCATAGCCAGGTTATGACATTTTAATGAAAAGGC
1 GGTTGGACCATGACAATATTTATATAGAAGACCATAGCCAGGCTATGACATTCTAATGAAAAGAC
8514706 CATAACTGGGTTATGACACTTTGAACGCAAAACCAT
66 CATAACTGGGTTATGACACTTTGAACGCAAAACCAT
* * ** * *
8514742 GGTTGGACCATGATAGTATTTATA-AGGAAGACCATAGCTGGGCTATGGCATTCTAATGATAAGA
1 GGTTGGACCATGACAATATTTATATA-GAAGACCATAGCCAGGCTATGACATTCTAATGAAAAGA
* *
8514806 CCATAATTGGGTTATGGCACT
65 CCATAACTGGGTTATGACACT
8514827 ACGAATGTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
100 1 0.01
101 70 0.99
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (101 bp):
GGTTGGACCATGACAATATTTATATAGAAGACCATAGCCAGGCTATGACATTCTAATGAAAAGAC
CATAACTGGGTTATGACACTTTGAACGCAAAACCAT
Found at i:8516316 original size:37 final size:37
Alignment explanation
Indices: 8516265--8516345 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
8516255 TTGAGAGAAT
*
8516265 TTTGTCAGAAAATCTTTACTGTTCATCTCCATCTCATC
1 TTTGT-AGAAAATCTTTACTATTCATCTCCATCTCATC
* **
8516303 TTTGTAGAAAATCTTTACTATTCATCTTCATCTTTTC
1 TTTGTAGAAAATCTTTACTATTCATCTCCATCTCATC
8516340 TTTGTA
1 TTTGTA
8516346 AAGAATCACT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 34 0.87
38 5 0.13
ACGTcount: A:0.23, C:0.21, G:0.07, T:0.48
Consensus pattern (37 bp):
TTTGTAGAAAATCTTTACTATTCATCTCCATCTCATC
Found at i:8532554 original size:25 final size:25
Alignment explanation
Indices: 8532481--8532564 Score: 63
Period size: 25 Copynumber: 3.5 Consensus size: 25
8532471 ATAGTATTTG
8532481 AAATATATACATAA-AATAGTA-A-A
1 AAATATATACATAATAATA-TATATA
* *
8532504 AAATATAT--ATAACTAGTA-ATGTTA
1 AAATATATACATAA-TAATATAT-ATA
8532528 AAATATATACATAATAATATATATA
1 AAATATATACATAATAATATATATA
* *
8532553 AAAAAAATACAT
1 AAATATATACAT
8532565 TGAAAAATGT
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
21 5 0.11
23 11 0.23
24 9 0.19
25 16 0.34
26 6 0.13
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.31
Consensus pattern (25 bp):
AAATATATACATAATAATATATATA
Found at i:8533483 original size:19 final size:19
Alignment explanation
Indices: 8533442--8533483 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
8533432 GCATTAACAT
**
8533442 GATAAAACATAACAATCTT
1 GATAAAACATAACAATCAA
8533461 GATAAAACATAAC-ATACAA
1 GATAAAACATAACAAT-CAA
8533480 GATA
1 GATA
8533484 GTGTCGTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (19 bp):
GATAAAACATAACAATCAA
Found at i:8533981 original size:21 final size:22
Alignment explanation
Indices: 8533957--8534007 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
8533947 ATGAGTGAAT
8533957 TAAAATAAACATAT-AACA-ATC
1 TAAAATAAACATATGAA-AGATC
*
8533978 TAAAAT-AACATATGAAAGGTC
1 TAAAATAAACATATGAAAGATC
8533999 TAAAATAAA
1 TAAAATAAA
8534008 TAACAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.31
21 16 0.62
22 2 0.08
ACGTcount: A:0.61, C:0.10, G:0.06, T:0.24
Consensus pattern (22 bp):
TAAAATAAACATATGAAAGATC
Found at i:8534429 original size:14 final size:14
Alignment explanation
Indices: 8534410--8534438 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8534400 GTAATTTGAA
8534410 ATATATATATGTAT
1 ATATATATATGTAT
8534424 ATATATATATGTAT
1 ATATATATATGTAT
8534438 A
1 A
8534439 AAAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:8536099 original size:17 final size:17
Alignment explanation
Indices: 8536074--8536106 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8536064 GTGCTTGCAG
*
8536074 AGGCGTGGGGTGGCAAA
1 AGGCATGGGGTGGCAAA
8536091 AGGCATGGGGTGGCAA
1 AGGCATGGGGTGGCAA
8536107 GGCAGCATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (17 bp):
AGGCATGGGGTGGCAAA
Found at i:8536274 original size:24 final size:24
Alignment explanation
Indices: 8536247--8536293 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
8536237 GCCTGTACAA
*
8536247 ATACTATATATAA-AAAGTATATAT
1 ATAC-ATATATAATAAAATATATAT
*
8536271 ATACATGTATAATAAAATATATA
1 ATACATATATAATAAAATATATA
8536294 CTAATATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (24 bp):
ATACATATATAATAAAATATATAT
Found at i:8536394 original size:24 final size:22
Alignment explanation
Indices: 8536364--8536410 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
8536354 AATACGATAT
*
8536364 TTAAAAATATATATATATATAGTA
1 TTAAAAA-A-ATATATACATAGTA
*
8536388 TTAAAAAAATGTATACATAGTA
1 TTAAAAAAATATATACATAGTA
8536410 T
1 T
8536411 ATATACTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 1 0.05
24 7 0.33
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (22 bp):
TTAAAAAAATATATACATAGTA
Found at i:8536998 original size:23 final size:24
Alignment explanation
Indices: 8536928--8537008 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 24
8536918 AAAAAATTAT
*
8536928 TAATA-ATATTACATAAATATATACA
1 TAATATATATTA-A-AAGTATATACA
*
8536953 T-ATATATATT-AAAGATAAATACA
1 TAATATATATTAAAAG-TATATACA
*
8536976 TAATA-ATATTAAAAGTATGTACA
1 TAATATATATTAAAAGTATATACA
8536999 TAATATATAT
1 TAATATATAT
8537009 ACATTATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.04
23 25 0.53
24 14 0.30
25 6 0.13
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (24 bp):
TAATATATATTAAAAGTATATACA
Found at i:8537205 original size:3 final size:3
Alignment explanation
Indices: 8537183--8537344 Score: 52
Period size: 3 Copynumber: 53.0 Consensus size: 3
8537173 GTATATACGT
* * *
8537183 ATA ATA ATG ATA A-A AAA ATA ATA ATA GTGA A-A ATA ATA A-A TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA -ATA
* ** * *
8537227 ATA ATA A-A TATA GTA ATA GA-A ACG ATA ATA CTA TATA AAA ATA TATA
1 ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA -ATA
* *
8537274 TATA CATA TATA ATA A-A ATA TATA CTA ATA TTA ATA ATGA AT- ATA
1 -ATA -ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA AT-A ATA ATA
* * *
8537319 AT- ATT ATA ATA CTA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
8537345 TGAAATTAAA
Statistics
Matches: 118, Mismatches: 25, Indels: 32
0.67 0.14 0.18
Matches are distributed among these distances:
2 13 0.11
3 80 0.68
4 25 0.21
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8537229 original size:12 final size:12
Alignment explanation
Indices: 8537214--8537339 Score: 70
Period size: 12 Copynumber: 10.7 Consensus size: 12
8537204 TAATAGTGAA
8537214 AATAATAAATAT
1 AATAATAAATAT
8537226 AATAATAAATAT
1 AATAATAAATAT
* *
8537238 AGTAATAGAA-AC
1 AATAATA-AATAT
* *
8537250 GATAAT-ACTAT
1 AATAATAAATAT
8537261 -ATAA-AAATAT
1 AATAATAAATAT
*
8537271 -ATATATACATAT
1 AATA-ATAAATAT
8537283 -ATAATAAA-AT
1 AATAATAAATAT
*
8537293 ATATACT-AATATT
1 A-ATAATAAATA-T
*
8537306 AATAATGAATAT
1 AATAATAAATAT
*
8537318 AATATTATAATACT
1 AATAATA-AATA-T
8537332 AATAATAA
1 AATAATAA
8537340 CAATATGAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 23
0.70 0.11 0.18
Matches are distributed among these distances:
10 14 0.16
11 8 0.09
12 46 0.52
13 13 0.15
14 7 0.08
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:8537286 original size:22 final size:21
Alignment explanation
Indices: 8537254--8537310 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
8537244 AGAAACGATA
8537254 ATACTATATAA-AAATATATAT
1 ATACTATATAATAAA-ATATAT
8537275 ATACATATATAATAAAATATAT
1 ATAC-TATATAATAAAATATAT
*
8537297 ACTAATAT-TAATAA
1 A-TACTATATAATAA
8537311 TGAATATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 10 0.31
22 17 0.53
23 5 0.16
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
ATACTATATAATAAAATATAT
Found at i:8537304 original size:20 final size:21
Alignment explanation
Indices: 8537271--8537310 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
8537261 ATAAAAATAT
8537271 ATATATACATATA-TAATAAA
1 ATATATACATATATTAATAAA
8537291 ATATATAC-TAATATTAATAA
1 ATATATACAT-ATATTAATAA
8537311 TGAATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 11 0.61
21 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATATACATATATTAATAAA
Found at i:8537455 original size:18 final size:18
Alignment explanation
Indices: 8537418--8537477 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
8537408 AAACATACAC
*
8537418 TAATATATAAAAATAATAA
1 TAATAT-TAGAAATAATAA
*
8537437 TAATATT-GATAATATTAA
1 TAATATTAGA-AATAATAA
*
8537455 TAATATTAGAAATAGTAA
1 TAATATTAGAAATAATAA
8537473 TAATA
1 TAATA
8537478 ATATTTACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.75
19 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
TAATATTAGAAATAATAA
Found at i:8539772 original size:20 final size:20
Alignment explanation
Indices: 8539747--8539786 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8539737 GGAAAAAGTA
8539747 AAACAAAGTAAACATGTAAT
1 AAACAAAGTAAACATGTAAT
8539767 AAACAAAGTAAACATGTAAT
1 AAACAAAGTAAACATGTAAT
8539787 TTTTAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (20 bp):
AAACAAAGTAAACATGTAAT
Found at i:8540455 original size:25 final size:25
Alignment explanation
Indices: 8540427--8540478 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
8540417 TTTGGGTTGA
*
8540427 CATTTACTAAGCAATATCAGATATT
1 CATTTACTAAGCAATATCAAATATT
* * *
8540452 CATTTATTAGGCAATATTAAATATT
1 CATTTACTAAGCAATATCAAATATT
8540477 CA
1 CA
8540479 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:8545878 original size:25 final size:23
Alignment explanation
Indices: 8545848--8545912 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 23
8545838 TCGAGCCATA
8545848 TAACGGGAAGCTCATGTGAGTCATG
1 TAACGGGAAGCTCATGTGA-TC-TG
* *
8545873 TAACGGGAAACTCATTTGATCTG
1 TAACGGGAAGCTCATGTGATCTG
8545896 TATAGCGGGAAGCTCAT
1 TA-A-CGGGAAGCTCAT
8545913 AAGAGCCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.11
24 3 0.09
25 28 0.80
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (23 bp):
TAACGGGAAGCTCATGTGATCTG
Found at i:8547072 original size:21 final size:20
Alignment explanation
Indices: 8547026--8547073 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
8547016 GATGATATTT
8547026 TTTTATTTTTTTATTTATCA
1 TTTTATTTTTTTATTTATCA
8547046 TCTTTATTTTTTTACTTT-TCAA
1 T-TTTATTTTTTTA-TTTATC-A
8547068 TTTTAT
1 TTTTAT
8547074 CCTTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.04
21 19 0.76
22 5 0.20
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATTTTTTTATTTATCA
Found at i:8549422 original size:37 final size:36
Alignment explanation
Indices: 8549289--8549424 Score: 101
Period size: 37 Copynumber: 3.6 Consensus size: 36
8549279 AAAGATTCCC
* * * *
8549289 TAAAAAAAAGACAGAGATGAATATAAGTGATTCTCTG
1 TAAAAAAAAGATAGAGATGAACA-GAGTGGTTCTCTG
* * * *
8549326 CAAATAAAAGATAGAGATAAACATGAGTGGTTCTTTG
1 TAAAAAAAAGATAGAGATGAACA-GAGTGGTTCTCTG
* * *
8549363 CAAAAAAAAAAAAGACGAAGATGAACAGATGTGGTTCTCTG
1 --TAAAAAAAAGATA-G-AGATGAACAGA-GTGGTTCTCTG
*
8549404 TAAAGAAAAGATAGAGATGAA
1 TAAAAAAAAGATAGAGATGAA
8549425 TAGTAAAGAT
Statistics
Matches: 76, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
37 36 0.47
38 1 0.01
39 18 0.24
40 3 0.04
41 18 0.24
ACGTcount: A:0.49, C:0.08, G:0.21, T:0.21
Consensus pattern (36 bp):
TAAAAAAAAGATAGAGATGAACAGAGTGGTTCTCTG
Found at i:8549748 original size:15 final size:16
Alignment explanation
Indices: 8549718--8549755 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
8549708 TTTTGTTTAC
8549718 AAATTTAAATTTTCAA
1 AAATTTAAATTTTCAA
8549734 AAATTTAAA-TTTCAA
1 AAATTTAAATTTTCAA
*
8549749 AATTTTA
1 AAATTTA
8549756 CTTCCATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTTAAATTTTCAA
Found at i:8550151 original size:9 final size:9
Alignment explanation
Indices: 8550134--8550202 Score: 57
Period size: 9 Copynumber: 7.2 Consensus size: 9
8550124 TTAATTTTTT
8550134 AAATATAAA
1 AAATATAAA
*
8550143 AAATTTAAA
1 AAATATAAA
8550152 AAATATAAA
1 AAATATAAA
*
8550161 AAGTATTAAA
1 AAATA-TAAA
*
8550171 AAGTATTTTAAA
1 AA--A-TATAAA
*
8550183 AAGTATAAA
1 AAATATAAA
*
8550192 AATTATAAA
1 AAATATAAA
8550201 AA
1 AA
8550203 TATTTTTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
9 35 0.73
10 6 0.12
12 6 0.12
13 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (9 bp):
AAATATAAA
Found at i:8550182 original size:31 final size:29
Alignment explanation
Indices: 8550137--8550208 Score: 94
Period size: 31 Copynumber: 2.5 Consensus size: 29
8550127 ATTTTTTAAA
8550137 TATAAAAA-A-TTTAAAAAATATAAAAAG
1 TATAAAAATATTTTAAAAAATATAAAAAG
* *
8550164 TATTAAAAAGTATTTTAAAAAGTATAAAAAT
1 TA-TAAAAA-TATTTTAAAAAATATAAAAAG
8550195 TATAAAAATATTTT
1 TATAAAAATATTTT
8550209 TAATTTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 2 0.05
28 6 0.15
29 6 0.15
30 7 0.18
31 18 0.46
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (29 bp):
TATAAAAATATTTTAAAAAATATAAAAAG
Found at i:8556337 original size:2 final size:2
Alignment explanation
Indices: 8556332--8556357 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8556322 GAACTAAAAC
8556332 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8556358 TTGTAACTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8557174 original size:6 final size:6
Alignment explanation
Indices: 8557163--8557188 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8557153 CAAAATTAAA
8557163 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
8557189 AATTCGAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:8566372 original size:6 final size:6
Alignment explanation
Indices: 8566363--8566389 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8566353 ACAGCAACAG
8566363 CACCGC CACCGC CACCGC CACCGC CAC
1 CACCGC CACCGC CACCGC CACCGC CAC
8566390 TGACAGCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.67, G:0.15, T:0.00
Consensus pattern (6 bp):
CACCGC
Found at i:8566864 original size:27 final size:25
Alignment explanation
Indices: 8566831--8566902 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
8566821 AATTTTTTAA
8566831 AAAATTA--AAAAATTAAAAATCATT
1 AAAATTATTAAAAATTAAAAAT-ATT
* *
8566855 AAAATTATTAAAACTATAAAAATTTT
1 AAAATTATTAAAAAT-TAAAAATATT
* *
8566881 AATATTATTTAAAATTTAAAAA
1 AAAATTA-TTAAAAATTAAAAA
8566903 ACTAATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 7 0.17
26 19 0.47
27 14 0.35
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (25 bp):
AAAATTATTAAAAATTAAAAATATT
Found at i:8569335 original size:35 final size:35
Alignment explanation
Indices: 8569289--8569358 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
8569279 AATTTAACTC
8569289 AGTTTACTAAGCATCTTTGACTGAATCTGCAAAAA
1 AGTTTACTAAGCATCTTTGACTGAATCTGCAAAAA
8569324 AGTTTACTAAGCATCTTTGACTGAATCTGCAAAAA
1 AGTTTACTAAGCATCTTTGACTGAATCTGCAAAAA
8569359 CCCAATGGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (35 bp):
AGTTTACTAAGCATCTTTGACTGAATCTGCAAAAA
Found at i:8571077 original size:29 final size:29
Alignment explanation
Indices: 8571035--8571091 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
8571025 TACAATCTGT
*
8571035 ACAAGACTACATATACATACGGACAAAGC
1 ACAAGACTACATATACATACAGACAAAGC
8571064 ACAAGACTACATATACATACAGACAAAG
1 ACAAGACTACATATACATACAGACAAAG
8571092 ACTGATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.51, C:0.23, G:0.12, T:0.14
Consensus pattern (29 bp):
ACAAGACTACATATACATACAGACAAAGC
Found at i:8571770 original size:17 final size:17
Alignment explanation
Indices: 8571746--8571780 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
8571736 ATATATATAT
8571746 ATATATATTTGAATATTAA
1 ATATATA-TTGAA-ATTAA
8571765 ATATATATTGAAATTA
1 ATATATATTGAAATTA
8571781 TTTTGTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
ATATATATTGAAATTAA
Found at i:8571772 original size:2 final size:2
Alignment explanation
Indices: 8571715--8571753 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8571705 TTGAAATGTT
8571715 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8571754 TTGAATATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8571810 original size:14 final size:14
Alignment explanation
Indices: 8571791--8571850 Score: 55
Period size: 14 Copynumber: 4.9 Consensus size: 14
8571781 TTTTGTTAAA
8571791 TTTTAAATATTATT
1 TTTTAAATATTATT
8571805 TTTT-AA-ATTATT
1 TTTTAAATATTATT
8571817 TTTT-AA-A--A--
1 TTTTAAATATTATT
8571825 TTTTAAATATTATT
1 TTTTAAATATTATT
*
8571839 TTTAAAATATTA
1 TTTTAAATATTA
8571851 AATATATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
8 4 0.10
9 2 0.05
10 2 0.05
12 14 0.36
13 2 0.05
14 15 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAAATATTATT
Found at i:8571814 original size:12 final size:12
Alignment explanation
Indices: 8571799--8571823 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8571789 AATTTTAAAT
8571799 ATTATTTTTTAA
1 ATTATTTTTTAA
8571811 ATTATTTTTTAA
1 ATTATTTTTTAA
8571823 A
1 A
8571824 ATTTTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTATTTTTTAA
Found at i:8571841 original size:33 final size:33
Alignment explanation
Indices: 8571761--8571849 Score: 119
Period size: 34 Copynumber: 2.7 Consensus size: 33
8571751 TATTTGAATA
* *
8571761 TTAAATA-TATATTGAAATTATTTTGTTAAATT
1 TTAAATATTATTTTTAAATTATTTTGTTAAATT
8571793 TTAAATATTATTTTTTAAATTATTTT-TTAAAATT
1 TTAAATATTA-TTTTTAAATTATTTTGTT-AAATT
*
8571827 TTAAATATTATTTTTAAAATATT
1 TTAAATATTATTTTTAAATTATT
8571850 AAATATATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
32 7 0.14
33 16 0.31
34 28 0.55
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (33 bp):
TTAAATATTATTTTTAAATTATTTTGTTAAATT
Found at i:8571872 original size:20 final size:21
Alignment explanation
Indices: 8571811--8571869 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
8571801 TATTTTTTAA
*
8571811 ATTATTTTTTAAAATTTTAAAT
1 ATTA-TTTTTAAAATATTAAAT
8571833 ATTATTTTTAAAATATTAAAT
1 ATTATTTTTAAAATATTAAAT
8571854 A-TATTTTTAATAATAT
1 ATTATTTTTAA-AATAT
8571870 AAAACATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 9 0.26
21 22 0.63
22 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATTTTTAAAATATTAAAT
Found at i:8571878 original size:19 final size:20
Alignment explanation
Indices: 8571816--8571878 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
8571806 TTTAAATTAT
* *
8571816 TTTTTAAAATTTTAAATATTA
1 TTTTTAAAATATTAAATA-CA
*
8571837 TTTTTAAAATATTAAATATA
1 TTTTTAAAATATTAAATACA
8571857 TTTTTAATAATA-TAAA-ACA
1 TTTTTAA-AATATTAAATACA
8571876 TTT
1 TTT
8571879 AAATATTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.13
20 13 0.33
21 21 0.54
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTTAAAATATTAAATACA
Found at i:8572010 original size:29 final size:30
Alignment explanation
Indices: 8571975--8572036 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
8571965 GAATATCTTT
8571975 AAAATTA-ATTTTAA-AATTAATAAT-TTATA
1 AAAATTATA-TTTAATAATTAA-AATATTATA
*
8572004 AAAATTATATTTAATATTTAAAATATTATA
1 AAAATTATATTTAATAATTAAAATATTATA
8572034 AAA
1 AAA
8572037 CAAATAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATTATATTTAATAATTAAAATATTATA
Found at i:8572105 original size:24 final size:24
Alignment explanation
Indices: 8572064--8572119 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
8572054 AGGTCATATC
*
8572064 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATAATATATTTAAAAT-A
*
8572089 TTTAAAAATCATA-ATTTAAAATA
1 TTTAAAAATAATATATTTAAAATA
8572112 TTATAAAA
1 TT-TAAAA
8572120 CAAATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.11
24 13 0.46
25 12 0.43
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTAAAAATAATATATTTAAAATA
Found at i:8572138 original size:20 final size:21
Alignment explanation
Indices: 8572101--8572139 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8572091 TAAAAATCAT
*
8572101 AATTTAAAATATTATAAAACA
1 AATTAAAAATATTATAAAACA
*
8572122 AATTAAAAATGTT-TAAAA
1 AATTAAAAATATTATAAAA
8572140 TTTAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
AATTAAAAATATTATAAAACA
Found at i:8572238 original size:22 final size:21
Alignment explanation
Indices: 8572211--8572263 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
8572201 AATTATTTAA
8572211 ATATTTTATATTATTAAAAAAT
1 ATATTTTATATT-TTAAAAAAT
* *
8572233 ATATTTAAAATTTTAAAAAAT
1 ATATTTTATATTTTAAAAAAT
*
8572254 ATATATTATA
1 ATATTTTATA
8572264 AAACATTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTTTATATTTTAAAAAAT
Found at i:8572249 original size:38 final size:38
Alignment explanation
Indices: 8572192--8572266 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
8572182 TTGAAAGGTC
* * * * *
8572192 ATATCTTTAAATTATTTAAATATTTTATATTATTAAAAA
1 ATATATTTAAAATATTTAAAAAATATATATTA-TAAAAA
8572231 ATATATTTAAAAT-TTTAAAAAATATATATTATAAAA
1 ATATATTTAAAATATTTAAAAAATATATATTATAAAA
8572267 CATTTCATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 5 0.16
38 15 0.48
39 11 0.35
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (38 bp):
ATATATTTAAAATATTTAAAAAATATATATTATAAAAA
Found at i:8572987 original size:16 final size:17
Alignment explanation
Indices: 8572968--8573001 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8572958 GTTAAAGTGT
*
8572968 AATTTTATTAATT-TAA
1 AATTTTATAAATTATAA
8572984 AATTTTATAAATTATAA
1 AATTTTATAAATTATAA
8573001 A
1 A
8573002 GAGACTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTTATAAATTATAA
Found at i:8573654 original size:20 final size:20
Alignment explanation
Indices: 8573629--8573681 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
8573619 GGGGCACACA
*
8573629 CCCGTGTGGCCTGGGACAAG
1 CCCGTGTGGCCTGGAACAAG
*
8573649 CCCGTGTGGCCTGGAACATG
1 CCCGTGTGGCCTGGAACAAG
8573669 CCCGTGTGGCCTG
1 CCCGTGTGGCCTG
8573682 CCCATGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.11, C:0.32, G:0.38, T:0.19
Consensus pattern (20 bp):
CCCGTGTGGCCTGGAACAAG
Found at i:8574863 original size:27 final size:26
Alignment explanation
Indices: 8574826--8574937 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
8574816 AGCATAGCTG
* * *
8574826 CCAGAACAGATAATGTGACAGAGTCG
1 CCAGAACAGATAATGTGGCAGAGCCA
8574852 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
8574880 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
8574907 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
8574934 CCAG
1 CCAG
8574938 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
26 5 0.06
27 56 0.73
28 16 0.21
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:8574890 original size:54 final size:54
Alignment explanation
Indices: 8574826--8574937 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
8574816 AGCATAGCTG
* *
8574826 CCAGAACAGATA-ATGTGACAGAGTCGCCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
8574880 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
8574934 CCAG
1 CCAG
8574938 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:8575344 original size:8 final size:8
Alignment explanation
Indices: 8575328--8575357 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
8575318 CTCAAAATAC
8575328 CGGCTTTT
1 CGGCTTTT
*
8575336 CGGCATTT
1 CGGCTTTT
8575344 CGGCTTTT
1 CGGCTTTT
8575352 CGGCTT
1 CGGCTT
8575358 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:8576564 original size:26 final size:26
Alignment explanation
Indices: 8576534--8576615 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
8576524 TGAAATTCCC
8576534 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8576560 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
8576586 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
8576612 ATCA
1 ATCA
8576616 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8576626 original size:10 final size:10
Alignment explanation
Indices: 8576611--8576635 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8576601 CCTAACCTAT
8576611 TATCAATTTG
1 TATCAATTTG
8576621 TATCAATTTG
1 TATCAATTTG
8576631 TATCA
1 TATCA
8576636 TAAATTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (10 bp):
TATCAATTTG
Found at i:8577586 original size:40 final size:37
Alignment explanation
Indices: 8577518--8577611 Score: 100
Period size: 40 Copynumber: 2.5 Consensus size: 37
8577508 ACCAGAATGG
* *
8577518 CGACCAACGCCTCATCGGATAGTTCGAAGCCAAAAAGTGA
1 CGACCAACGTCTCATCGGATAGTCCGAAG-C--AAAGTGA
* * *
8577558 CGACCAACGTCTCATCGGCTAAG-CCGAAGCGAAGTGG
1 CGACCAACGTCTCATCGGAT-AGTCCGAAGCAAAGTGA
8577595 CGACCAACGTCTCATCG
1 CGACCAACGTCTCATCG
8577612 AATCTATCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
37 22 0.46
39 1 0.02
40 23 0.48
41 2 0.04
ACGTcount: A:0.30, C:0.31, G:0.24, T:0.15
Consensus pattern (37 bp):
CGACCAACGTCTCATCGGATAGTCCGAAGCAAAGTGA
Found at i:8578555 original size:14 final size:14
Alignment explanation
Indices: 8578536--8578565 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8578526 TAACCTTCAA
8578536 TTTTCCCTTTTTCT
1 TTTTCCCTTTTTCT
*
8578550 TTTTCCTTTTTTCT
1 TTTTCCCTTTTTCT
8578564 TT
1 TT
8578566 CTTTCTCTCT
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTCCCTTTTTCT
Found at i:8578789 original size:3 final size:3
Alignment explanation
Indices: 8578775--8578832 Score: 107
Period size: 3 Copynumber: 19.0 Consensus size: 3
8578765 TTATCTCCAT
8578775 TAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8578821 TAA TAA TAA TAA
1 TAA TAA TAA TAA
8578833 ATATCTTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8582279 original size:47 final size:48
Alignment explanation
Indices: 8582175--8582283 Score: 116
Period size: 47 Copynumber: 2.3 Consensus size: 48
8582165 TCATGGCAAT
* *
8582175 ATGTGATATGTGATTTTCGTATAAGACCATATCTAGGATATGACATCG
1 ATGTGATATGTGATTCTCGTATAAGACCATATCTAGGATATGACATCA
* * * **
8582223 GTGAT-ATATGTGCTTCT-GTGTAAGACCATATCT-GGAATATGGTATCA
1 ATG-TGATATGTGATTCTCGTATAAGACCATATCTAGG-ATATGACATCA
8582270 ATGTGATATGTGAT
1 ATGTGATATGTGAT
8582284 CCGTGTAAGA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
46 3 0.06
47 33 0.67
48 12 0.24
49 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (48 bp):
ATGTGATATGTGATTCTCGTATAAGACCATATCTAGGATATGACATCA
Found at i:8584742 original size:20 final size:20
Alignment explanation
Indices: 8584717--8584756 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8584707 TATTCTTTTA
8584717 AATGATAATTTTGGCTAACT
1 AATGATAATTTTGGCTAACT
8584737 AATGATAATTTTGGCTAACT
1 AATGATAATTTTGGCTAACT
8584757 CAAAGTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
AATGATAATTTTGGCTAACT
Found at i:8588640 original size:21 final size:21
Alignment explanation
Indices: 8588614--8588654 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8588604 AGACGAGCGA
* *
8588614 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
8588635 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
8588655 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:8595374 original size:3 final size:3
Alignment explanation
Indices: 8595366--8595422 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
8595356 GAAAAGAATG
*
8595366 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8595414 AAT AGAT AA
1 AAT A-AT AA
8595423 ATTTCAAAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:8595674 original size:31 final size:30
Alignment explanation
Indices: 8595636--8595733 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 30
8595626 ATTTCTTTAA
*
8595636 ATGTATATGATTGAACCAAAATTAAAATTTC
1 ATGTATAT-ATTGAATCAAAATTAAAATTTC
* * * *
8595667 ATTTATATATTCGAATCACAATCAAAGTTTC
1 ATGTATATATT-GAATCAAAATTAAAATTTC
* *
8595698 ATGTGTATAATTGCATC-AAATTAAAATTT-
1 ATGTATAT-ATTGAATCAAAATTAAAATTTC
8595727 ATGTATA
1 ATGTATA
8595734 CAATTGTACA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 6 0.11
30 12 0.23
31 32 0.60
32 3 0.06
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (30 bp):
ATGTATATATTGAATCAAAATTAAAATTTC
Found at i:8604963 original size:20 final size:18
Alignment explanation
Indices: 8604938--8604987 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
8604928 AATTTTTTAT
*
8604938 TTTTTATTTTTTTATTATA
1 TTTTTATTTTTTGA-TATA
8604957 CTTTTTAGTTTTTTGATATA
1 -TTTTTA-TTTTTTGATATA
8604977 TTTTCTATTTT
1 TTTT-TATTTT
8604988 GGTCAGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.30
20 12 0.44
21 7 0.26
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (18 bp):
TTTTTATTTTTTGATATA
Found at i:8607087 original size:13 final size:13
Alignment explanation
Indices: 8607071--8607097 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8607061 TATATTAGTA
8607071 TTTTCTATTCTAT
1 TTTTCTATTCTAT
8607084 TTTTCTATTCTAT
1 TTTTCTATTCTAT
8607097 T
1 T
8607098 AGTATTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCTATTCTAT
Found at i:8607109 original size:5 final size:6
Alignment explanation
Indices: 8607094--8607164 Score: 59
Period size: 5 Copynumber: 13.2 Consensus size: 6
8607084 TTTTCTATTC
* * *
8607094 TATTAG TATTAG -ATTAA TATT-C TATT-C TATTAG TATTAG -ATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
8607138 TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG T
8607165 TAGTGATCCC
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
4 4 0.07
5 27 0.47
6 26 0.46
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (6 bp):
TATTAG
Found at i:8607116 original size:27 final size:27
Alignment explanation
Indices: 8607086--8607141 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
8607076 TATTCTATTT
8607086 TTCTATTCTATTAGTATTAGATTAATA
1 TTCTATTCTATTAGTATTAGATTAATA
*
8607113 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAATA
8607140 TT
1 TT
8607142 AGTTAGATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (27 bp):
TTCTATTCTATTAGTATTAGATTAATA
Found at i:8607153 original size:20 final size:21
Alignment explanation
Indices: 8607123--8607168 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
8607113 TTCTATTCTA
8607123 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
8607144 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
8607164 TTAGT
1 TTAGT
8607169 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:8613947 original size:15 final size:15
Alignment explanation
Indices: 8613899--8613978 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
8613889 CAAAGATAAC
*
8613899 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
8613913 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
8613928 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
8613943 AAGAAATTCAGAATA
1 AAGAAATCCAGAATA
* *
8613958 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
8613973 AAGAAA
1 AAGAAA
8613979 CCAAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:8621601 original size:21 final size:20
Alignment explanation
Indices: 8621577--8621628 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
8621567 ATAAAAATTA
*
8621577 TAAAAATTATTAAATTTTAAT
1 TAAAAATTATTAAATTCT-AT
8621598 TAAAAA-TATTTAAATTCTAT
1 TAAAAATTA-TTAAATTCTAT
8621618 TAAAAAATTAT
1 T-AAAAATTAT
8621629 AAGAATTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
21 20 0.74
22 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAAATTATTAAATTCTAT
Found at i:8621651 original size:28 final size:26
Alignment explanation
Indices: 8621619--8621680 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 26
8621609 AAATTCTATT
8621619 AAAAAATTATAAGAATTGTAAAAAAAATC
1 AAAAAA-TATAA-AATT-TAAAAAAAATC
* *
8621648 AAAAAATATAAAATTTTATAAAAATC
1 AAAAAATATAAAATTTAAAAAAAATC
8621674 ATAAAAA
1 A-AAAAA
8621681 AATTAGACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.33
27 9 0.30
28 5 0.17
29 6 0.20
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (26 bp):
AAAAAATATAAAATTTAAAAAAAATC
Found at i:8621681 original size:29 final size:28
Alignment explanation
Indices: 8621618--8621683 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
8621608 TAAATTCTAT
*
8621618 TAAAAAATTATAAGAATTGTAAAAAAAA
1 TAAAAAAATATAAGAATTGTAAAAAAAA
* * *
8621646 TCAAAAAATATAA-AATTTTATAAAAATCA
1 TAAAAAAATATAAGAATTGTA-AAAAA-AA
8621675 TAAAAAAAT
1 TAAAAAAAT
8621684 TAGACATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 6 0.19
28 16 0.52
29 9 0.29
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (28 bp):
TAAAAAAATATAAGAATTGTAAAAAAAA
Found at i:8623070 original size:15 final size:14
Alignment explanation
Indices: 8623052--8623112 Score: 77
Period size: 14 Copynumber: 4.2 Consensus size: 14
8623042 AGGTAAAATG
8623052 TTTTTCGGAAAATAA
1 TTTTT-GGAAAATAA
8623067 TTTTTGGAAAATAA
1 TTTTTGGAAAATAA
8623081 TTTCTTGGAAAATAA
1 TTT-TTGGAAAATAA
* * *
8623096 TTTCTGAAAAATGA
1 TTTTTGGAAAATAA
8623110 TTT
1 TTT
8623113 ACTTTTCTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
14 23 0.55
15 19 0.45
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.43
Consensus pattern (14 bp):
TTTTTGGAAAATAA
Found at i:8623266 original size:2 final size:2
Alignment explanation
Indices: 8623259--8623299 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8623249 GAGTTTACTT
8623259 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8623300 TAATAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8623374 original size:18 final size:19
Alignment explanation
Indices: 8623344--8623379 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8623334 TTGCAATGAT
8623344 TTATTTATAAATAAATAAA
1 TTATTTATAAATAAATAAA
*
8623363 TTATTT-TAAATATATAA
1 TTATTTATAAATAAATAA
8623380 TAATACTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTATTTATAAATAAATAAA
Found at i:8623623 original size:22 final size:22
Alignment explanation
Indices: 8623598--8623686 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
8623588 ATCCAAGTGC
*
8623598 ATAACTAATATTACACCATATG
1 ATAACTAATATTACACCACATG
8623620 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
* **
8623642 ATAACAACAATATT-GTCCA-AGTG
1 ATAAC--TAATATTACACCACA-TG
8623665 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
8623687 TAAAAGTATC
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 33 0.61
23 9 0.17
24 12 0.22
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:8624702 original size:27 final size:30
Alignment explanation
Indices: 8624636--8624708 Score: 89
Period size: 32 Copynumber: 2.5 Consensus size: 30
8624626 GTCAATCATT
*
8624636 TCAATATCCAACAAGCTTAAAACATAATAAAC
1 TCAATATCTAACAAGCTTAAAAC--AATAAAC
*
8624668 TCAATATCTAACAAGCTTGAAAC-AT-AA-
1 TCAATATCTAACAAGCTTAAAACAATAAAC
8624695 TCAATATCTAACAA
1 TCAATATCTAACAA
8624709 AATCAAGACA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.36
28 2 0.05
29 2 0.05
32 21 0.54
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.25
Consensus pattern (30 bp):
TCAATATCTAACAAGCTTAAAACAATAAAC
Found at i:8626240 original size:15 final size:15
Alignment explanation
Indices: 8626220--8626248 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8626210 TTCTCAAGTA
8626220 ATGACTAAAGTTACC
1 ATGACTAAAGTTACC
8626235 ATGACTAAAGTTAC
1 ATGACTAAAGTTAC
8626249 ACTTATACAT
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:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (15 bp):
ATGACTAAAGTTACC
Found at i:8628428 original size:2 final size:2
Alignment explanation
Indices: 8628423--8628462 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8628413 ATATACACAC
8628423 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8628463 GTTCTTGTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8634971 original size:25 final size:25
Alignment explanation
Indices: 8634942--8635017 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
8634932 ATACCATGGT
8634942 TGAAAGATACCATAGCAACATGATA
1 TGAAAGATACCATAGCAACATGATA
* ** * *
8634967 TGAAATAT-GTA-AG-ACCATGGT-
1 TGAAAGATACCATAGCAACATGATA
* *
8634988 TGAAAGACACCATGGCAACATGATA
1 TGAAAGATACCATAGCAACATGATA
8635013 TGAAA
1 TGAAA
8635018 TGTGTAAGAC
Statistics
Matches: 35, Mismatches: 12, Indels: 8
0.64 0.22 0.15
Matches are distributed among these distances:
21 6 0.17
22 7 0.20
23 3 0.09
24 7 0.20
25 12 0.34
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (25 bp):
TGAAAGATACCATAGCAACATGATA
Found at i:8634987 original size:46 final size:46
Alignment explanation
Indices: 8634920--8635244 Score: 418
Period size: 46 Copynumber: 7.0 Consensus size: 46
8634910 GCTTTCTGAA
* *
8634920 ATGAAATGTGTAATACCATGGTTGAAAGATACCATAGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
8634966 ATGAAATATGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
8635012 ATGAAATGTGTAAGACCAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGT---A--AGACCATGGTTGAAAGATACCATGGCAACATGAT
*
8635063 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
8635109 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ** * *
8635155 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
8635201 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
8635245 TCGAAGATAA
Statistics
Matches: 250, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
45 1 0.00
46 202 0.81
48 1 0.00
49 1 0.00
51 45 0.18
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:8635068 original size:25 final size:25
Alignment explanation
Indices: 8634988--8635068 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
8634978 AGACCATGGT
8634988 TGAAAGACACCATGGCAACATGATA
1 TGAAAGACACCATGGCAACATGATA
* * *
8635013 TGAAATGTGTAAGACCA--G-ACCATGGT-
1 TGAAA---G--ACACCATGGCAACATGATA
8635039 TGAAAGACACCATGGCAACATGATA
1 TGAAAGACACCATGGCAACATGATA
8635064 TGAAA
1 TGAAA
8635069 TGTGTAAGAC
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
21 5 0.12
23 2 0.05
24 6 0.15
25 10 0.24
26 5 0.12
27 6 0.15
28 2 0.05
30 5 0.12
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (25 bp):
TGAAAGACACCATGGCAACATGATA
Found at i:8635081 original size:97 final size:97
Alignment explanation
Indices: 8634934--8635218 Score: 393
Period size: 97 Copynumber: 3.0 Consensus size: 97
8634924 AATGTGTAAT
* * *
8634934 ACCATGGTTGAAAGATACCATAGCAACATGATATGAAATATGTAAGACCATGGTTGAAAGACACC
1 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
8634999 ATGGCAACATGATATGAAATGTGTAAGACCAG
66 ATGGCAACATGATATGAAATGTGTAAGACCAG
*
8635031 ACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
* *
8635096 ATGGCAACAGGATATAAAATGTGT---A--AG
66 ATGGCAACATGATATGAAATGTGTAAGACCAG
* * * **
8635123 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
* * *
8635188 ATGGCAACCTGACA-GAAAATGAGTAAGACCA
66 ATGGCAACATGATATG-AAATGTGTAAGACCA
8635219 TAGTTGAAAG
Statistics
Matches: 165, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
92 79 0.48
94 1 0.01
95 1 0.01
97 84 0.51
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (97 bp):
ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACATGATATGAAATGTGTAAGACCAG
Found at i:8638620 original size:20 final size:20
Alignment explanation
Indices: 8638595--8638634 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8638585 CACATCTATC
*
8638595 ATTGGTTTATCTCACTAGCG
1 ATTGGTTTATCTAACTAGCG
8638615 ATTGGTTTATCTAACTAGCG
1 ATTGGTTTATCTAACTAGCG
8638635 CTGGACGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (20 bp):
ATTGGTTTATCTAACTAGCG
Found at i:8641751 original size:26 final size:25
Alignment explanation
Indices: 8641693--8641800 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 25
8641683 CATGAAATTC
8641693 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
8641718 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
* *
8641744 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
8641770 TTATCATGGAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
8641795 TTATCA
1 TTATCA
8641801 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 31 0.40
26 47 0.60
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:8647620 original size:26 final size:26
Alignment explanation
Indices: 8647584--8647693 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
8647574 CATGAAATTC
*
8647584 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
8647610 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
8647636 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
8647662 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
8647688 TTATCA
1 TTATCA
8647694 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8651502 original size:17 final size:17
Alignment explanation
Indices: 8651482--8651514 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8651472 ATTTAATAAC
8651482 TAAATAAATTTCTCAAT
1 TAAATAAATTTCTCAAT
*
8651499 TAAATAATTTTCTCAA
1 TAAATAAATTTCTCAA
8651515 CCCAATTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATAAATTTCTCAAT
Found at i:8654277 original size:35 final size:35
Alignment explanation
Indices: 8654231--8654301 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
8654221 CCAGGCTAAA
* *
8654231 TCCTTTCAGTGAAAAATACTCTATTAAGCTCGATT
1 TCCTTTCAGTGAAAAATACTCCATTAAGCTAGATT
*
8654266 TCCTTTCAGTGACAAATACTCCATTAAGCTAGATT
1 TCCTTTCAGTGAAAAATACTCCATTAAGCTAGATT
8654301 T
1 T
8654302 GGATTACCCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (35 bp):
TCCTTTCAGTGAAAAATACTCCATTAAGCTAGATT
Found at i:8654779 original size:21 final size:21
Alignment explanation
Indices: 8654749--8654788 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8654739 TGTTTTATAT
8654749 ATATAATATAATAATAATAGA
1 ATATAATATAATAATAATAGA
* *
8654770 ATATATTATAATATTAATA
1 ATATAATATAATAATAATA
8654789 CTTAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
ATATAATATAATAATAATAGA
Found at i:8655543 original size:16 final size:18
Alignment explanation
Indices: 8655504--8655541 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
8655494 AAATTACAAG
*
8655504 TATACAAAGCAAATATAT
1 TATACAAAACAAATATAT
8655522 TATACAAAACAAATATAT
1 TATACAAAACAAATATAT
8655540 TA
1 TA
8655542 CACTTAGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.29
Consensus pattern (18 bp):
TATACAAAACAAATATAT
Found at i:8658437 original size:13 final size:13
Alignment explanation
Indices: 8658419--8658469 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
8658409 TTTAACATTA
8658419 CTTTTAAAAATTG
1 CTTTTAAAAATTG
* *
8658432 CTTTTAAAAAATA
1 CTTTTAAAAATTG
*
8658445 C-TTTAGAAAAGTG
1 CTTTTA-AAAATTG
8658458 CTTTTAAAAATT
1 CTTTTAAAAATT
8658470 TTGATTTAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 4 0.13
13 23 0.74
14 4 0.13
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (13 bp):
CTTTTAAAAATTG
Found at i:8667287 original size:3 final size:3
Alignment explanation
Indices: 8667279--8667313 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8667269 CAAGTATTAA
8667279 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8667314 ATTTGATCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8668689 original size:19 final size:18
Alignment explanation
Indices: 8668665--8668705 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
8668655 TGGTCGACTT
* *
8668665 TTATTTTAATATTTTTTTA
1 TTATTTTAA-ATGTATTTA
8668684 TTATTTTAAATGTATTTA
1 TTATTTTAAATGTATTTA
8668702 TTAT
1 TTAT
8668706 ATCTTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TTATTTTAAATGTATTTA
Found at i:8669131 original size:16 final size:16
Alignment explanation
Indices: 8669112--8669154 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
8669102 TACAGATTAA
*
8669112 AATCATTTCTAATTTT
1 AATCATTTCAAATTTT
*
8669128 AATCACTTCAAATTTT
1 AATCATTTCAAATTTT
8669144 AATCATTTCAA
1 AATCATTTCAA
8669155 GATTGAAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (16 bp):
AATCATTTCAAATTTT
Found at i:8669880 original size:28 final size:29
Alignment explanation
Indices: 8669833--8669893 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
8669823 CACAAATTGA
* *
8669833 AAAAAAACTAAAATCAACTATTAAAAATC
1 AAAAAAACTAAAAACAACTAGTAAAAATC
8669862 TAAAAAAA-TAAAAAC-ACTAGTAAAAATC
1 -AAAAAAACTAAAAACAACTAGTAAAAATC
8669890 AAAA
1 AAAA
8669894 TTTGGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 4 0.14
28 12 0.41
29 6 0.21
30 7 0.24
ACGTcount: A:0.69, C:0.11, G:0.02, T:0.18
Consensus pattern (29 bp):
AAAAAAACTAAAAACAACTAGTAAAAATC
Found at i:8669988 original size:8 final size:9
Alignment explanation
Indices: 8669969--8669993 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8669959 TTATCTGCCT
8669969 AAAAATTAA
1 AAAAATTAA
8669978 AAAAATTAA
1 AAAAATTAA
8669987 AAAAATT
1 AAAAATT
8669994 TATTTGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATTAA
Found at i:8669991 original size:33 final size:34
Alignment explanation
Indices: 8669940--8670012 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
8669930 TTGAAATTTG
** * *
8669940 ATTAAAAATTTTACAAAAA-TTATCTGCCTAAAA
1 ATTAAAAAAATTAAAAAAATTTATCTGCATAAAA
*
8669973 ATTAAAAAAATTAAAAAAATTTATTTGCATAAAA
1 ATTAAAAAAATTAAAAAAATTTATCTGCATAAAA
8670007 A-TAAAA
1 ATTAAAA
8670013 CCTGATTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 21 0.62
34 13 0.38
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.32
Consensus pattern (34 bp):
ATTAAAAAAATTAAAAAAATTTATCTGCATAAAA
Found at i:8677437 original size:33 final size:33
Alignment explanation
Indices: 8677400--8677535 Score: 107
Period size: 33 Copynumber: 4.1 Consensus size: 33
8677390 GCTCAGTCAA
8677400 GGTCTTACATTC-GTAGTGCCATAACCCAGTTAT
1 GGTCTTACATTCAG-AGTGCCATAACCCAGTTAT
* *
8677433 GGTCTTATCA-TCAGAGTGCTATAGCCCAGTTAT
1 GGTCTTA-CATTCAGAGTGCCATAACCCAGTTAT
* * * *** **
8677466 GGTCTTACATATAAACATTGCCATGGTCCA-CCAT
1 GGTCTTACAT-T-CAGAGTGCCATAACCCAGTTAT
* *
8677500 GGTCTTACATTCATAGTGCCATAACCCAATTAT
1 GGTCTTACATTCAGAGTGCCATAACCCAGTTAT
8677533 GGT
1 GGT
8677536 TTTATCCGTC
Statistics
Matches: 79, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
32 13 0.16
33 39 0.49
34 16 0.20
35 11 0.14
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (33 bp):
GGTCTTACATTCAGAGTGCCATAACCCAGTTAT
Found at i:8677533 original size:100 final size:99
Alignment explanation
Indices: 8677349--8677541 Score: 273
Period size: 100 Copynumber: 1.9 Consensus size: 99
8677339 CGTTTTCTTT
* * *
8677349 GTGCCATAGTCCAGTTATGGTCTTACATATACATTACCATGGCTCAGTCAAGGTCTTACATTCGT
1 GTGCCATAGCCCAGTTATGGTCTTACATATACATTACCATGGCTCAGCCAAGGTCTTACATTCAT
*
8677414 AGTGCCATAACCCAGTTATGGTCTTATCATCAGA
66 AGTGCCATAACCCAATTATGGTCTTATCATCAGA
* * *
8677448 GTGCTATAGCCCAGTTATGGTCTTACATATAAACATTGCCATGG-TCCA-CCATGGTCTTACATT
1 GTGCCATAGCCCAGTTATGGTCTTACATAT--ACATTACCATGGCT-CAGCCAAGGTCTTACATT
*
8677511 CATAGTGCCATAACCCAATTATGGTTTTATC
63 CATAGTGCCATAACCCAATTATGGTCTTATC
8677542 CGTCAATTCA
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
99 28 0.34
100 42 0.51
101 13 0.16
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (99 bp):
GTGCCATAGCCCAGTTATGGTCTTACATATACATTACCATGGCTCAGCCAAGGTCTTACATTCAT
AGTGCCATAACCCAATTATGGTCTTATCATCAGA
Found at i:8677590 original size:30 final size:30
Alignment explanation
Indices: 8677568--8677626 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
8677558 ACATTATTGC
8677568 CATAGCCCAGCTATGGTCTTACATATAAAT
1 CATAGCCCAGCTATGGTCTTACATATAAAT
*
8677598 CATAGCCCAGCTATGGTCTTATATATAAA
1 CATAGCCCAGCTATGGTCTTACATATAAA
8677627 CATTGTCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (30 bp):
CATAGCCCAGCTATGGTCTTACATATAAAT
Found at i:8689408 original size:18 final size:18
Alignment explanation
Indices: 8689385--8689421 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8689375 TCGCTTTCAA
8689385 CGAAAAGTGGGCATTGTC
1 CGAAAAGTGGGCATTGTC
8689403 CGAAAAGTGGGCATTGTC
1 CGAAAAGTGGGCATTGTC
8689421 C
1 C
8689422 AAATCAGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (18 bp):
CGAAAAGTGGGCATTGTC
Found at i:8701892 original size:20 final size:20
Alignment explanation
Indices: 8701869--8701917 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
8701859 TAAATATTTA
**
8701869 ATATTAGAAAGGAATAAATT
1 ATATTAGAAACAAATAAATT
*
8701889 ATATTAGAACCAAATAAATT
1 ATATTAGAAACAAATAAATT
8701909 ATATTAGAA
1 ATATTAGAA
8701918 CCATCCTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.55, C:0.04, G:0.10, T:0.31
Consensus pattern (20 bp):
ATATTAGAAACAAATAAATT
Found at i:8701918 original size:20 final size:20
Alignment explanation
Indices: 8701881--8701920 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8701871 ATTAGAAAGG
8701881 AATAAATTATATTAGAACCA
1 AATAAATTATATTAGAACCA
8701901 AATAAATTATATTAGAACCA
1 AATAAATTATATTAGAACCA
8701921 TCCTAGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (20 bp):
AATAAATTATATTAGAACCA
Found at i:8705540 original size:21 final size:21
Alignment explanation
Indices: 8705514--8705554 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8705504 ATCTGCTCAA
* *
8705514 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8705535 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8705555 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:8711154 original size:24 final size:27
Alignment explanation
Indices: 8711100--8711163 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 27
8711090 TTTCACTGAT
*
8711100 TTAAAAATAAAATATTTATTTTTATCA
1 TTAAAAATAAAATATTTATTTATATCA
*
8711127 -TAAAAATTAAA-A-TTATTTATAT-A
1 TTAAAAATAAAATATTTATTTATATCA
8711150 TTAAATAA-AAAATA
1 TTAAA-AATAAAATA
8711164 GAATTTTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 1 0.03
24 16 0.52
25 4 0.13
26 10 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TTAAAAATAAAATATTTATTTATATCA
Found at i:8711157 original size:28 final size:26
Alignment explanation
Indices: 8711101--8711160 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
8711091 TTCACTGATT
* *
8711101 TAAAAATAAAATATTTATTTTTATCA
1 TAAAAATAAAATATTTATTATTATAA
8711127 TAAAAATTAAAATTATTTATATATTA-AA
1 TAAAAA-TAAAA-TATTTAT-TATTATAA
8711155 TAAAAA
1 TAAAAA
8711161 ATAGAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 5 0.17
28 14 0.48
29 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAAATAAAATATTTATTATTATAA
Found at i:8714428 original size:43 final size:43
Alignment explanation
Indices: 8714347--8714457 Score: 179
Period size: 43 Copynumber: 2.6 Consensus size: 43
8714337 AACATGCTTT
* *
8714347 AATGAATATATCAGAATAGA-CTTATCAAAAATTTCACATGAGTA
1 AATGCATATATCAGAACAGAGC--ATCAAAAATTTCACATGAGTA
8714391 AATGCATATATCAGAACAGAGCATCAAAAATTTCACATGAGTA
1 AATGCATATATCAGAACAGAGCATCAAAAATTTCACATGAGTA
8714434 AATGCATATATCAGAACAGAGCAT
1 AATGCATATATCAGAACAGAGCAT
8714458 ATCCTACCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
43 45 0.70
44 18 0.28
45 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (43 bp):
AATGCATATATCAGAACAGAGCATCAAAAATTTCACATGAGTA
Found at i:8723532 original size:2 final size:2
Alignment explanation
Indices: 8723527--8723566 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
8723517 TATATATATT
*
8723527 GA GA GA GA GA GA GA GA GA GA GA GT GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8723567 TGGGAGATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.50, T:0.03
Consensus pattern (2 bp):
GA
Found at i:8728697 original size:16 final size:15
Alignment explanation
Indices: 8728656--8728698 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
8728646 AAAAGAAATA
* *
8728656 CTTTTCTTTTCTTTT
1 CTTTTCTTTCCCTTT
*
8728671 CTTTTCCTTCCCTTT
1 CTTTTCTTTCCCTTT
8728686 CTTTTTCTTTCCC
1 C-TTTTCTTTCCC
8728699 ATCAACAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTTTCTTTCCCTTT
Found at i:8729967 original size:23 final size:22
Alignment explanation
Indices: 8729941--8729983 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
8729931 AAACTCATAT
8729941 TATTATTTAA-AATTAATATTTTA
1 TATT-TTTAATAATTAA-ATTTTA
8729964 TATTTTTAATAATTAAATTT
1 TATTTTTAATAATTAAATTT
8729984 AACTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTTTTAATAATTAAATTTTA
Done.