Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 41 of 78
Found at i:8163718 original size:21 final size:22
Alignment explanation
Indices: 8163671--8163720 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
8163661 TGTATGAACA
8163671 GTATCGATACCATATGGATGAG
1 GTATCGATACCATATGGATGAG
*
8163693 GTATCGATACC-TATGTA-GAG
1 GTATCGATACCATATGGATGAG
8163713 GCTATCGA
1 G-TATCGA
8163721 CACATGGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 11 0.42
22 11 0.42
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (22 bp):
GTATCGATACCATATGGATGAG
Found at i:8164194 original size:2 final size:2
Alignment explanation
Indices: 8164187--8164219 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8164177 GATATAAGTG
8164187 AT AT AT 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 AT AT AT A
8164220 AGTTATATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8164422 original size:9 final size:9
Alignment explanation
Indices: 8164385--8164430 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
8164375 ACAGTAAAAA
*
8164385 TGATCTATG
1 TGATATATG
8164394 TG-TATATG
1 TGATATATG
8164402 TGA-ATATG
1 TGATATATG
*
8164410 TGATATATA
1 TGATATATG
8164419 TGATATATG
1 TGATATATG
8164428 TGA
1 TGA
8164431 AACATATATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 15 0.47
9 17 0.53
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (9 bp):
TGATATATG
Found at i:8167114 original size:2 final size:2
Alignment explanation
Indices: 8167109--8167141 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8167099 TATAAAAAAT
*
8167109 TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8167142 GATTATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8167628 original size:23 final size:23
Alignment explanation
Indices: 8167595--8167662 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
8167585 AATCTTATAT
8167595 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * * **
8167618 GGCACTACGGTGTAATTCTACAT
1 GGCACTTCGGTGCATTTCTACGC
*
8167641 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
8167663 AGTTGTGGTG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:8173654 original size:63 final size:63
Alignment explanation
Indices: 8173560--8173681 Score: 151
Period size: 63 Copynumber: 1.9 Consensus size: 63
8173550 CATTAAAATC
* *
8173560 AATTTTCATACGTTTTAATTATATATTTTAATTT-TTCTT-TATTATAATTTAGTCACTATAATA
1 AATTTTCATACATTTTAATTATATATCTTAATTTATT-TTCT-TTATAATTTAGTCACTATAATA
* *
8173623 AATTTTCATACATTTTAATTCA-GTCTCTTAATTTAATTTTCTTTATAATTTAGTCACTA
1 AATTTTCATACATTTTAATT-ATATATCTTAATTT-ATTTTCTTTATAATTTAGTCACTA
8173682 ATATGCTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
63 28 0.55
64 20 0.39
65 3 0.06
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.54
Consensus pattern (63 bp):
AATTTTCATACATTTTAATTATATATCTTAATTTATTTTCTTTATAATTTAGTCACTATAATA
Found at i:8174528 original size:135 final size:135
Alignment explanation
Indices: 8174190--8174555 Score: 539
Period size: 132 Copynumber: 2.7 Consensus size: 135
8174180 TTAAATAATA
* * * *
8174190 ATATTTATGTATTTTTAATATTAAGAAAATGGTTGTCTTAAAGCACCTAAAAGTCATTTTCTGAT
1 ATATTTATTTATTTTTAATATTAAGAAAATGGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTGAT
*
8174255 ATTTTTAATAAAT-ATCATATTTTTATAAA-T-TATATATTAATCTATTTTTTAGAGAAATGTTT
66 ATTTTTAAAAAATAATCATATTTTTATAAATTATATATATTAATCTATTTTTTAGAGAAATGTTT
8174317 TATTT
131 TATTT
*
8174322 ATATTTATTTATTTTTAATATTAAGAAAAAGGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTGAT
1 ATATTTATTTATTTTTAATATTAAGAAAATGGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTGAT
*
8174387 ATTTTTAAAAAATAATCCTATTTTTATAAATTATATATATTAATCTATTTTTTAGAGAAATGTTT
66 ATTTTTAAAAAATAATCATATTTTTATAAATTATATATATTAATCTATTTTTTAGAGAAATGTTT
8174452 TATTT
131 TATTT
* * * *
8174457 ATATTTATTTATTTTTTAAATATTAAG-AAATGACAGTCTTAAAGCAACTAGATGTCCTTTTCTG
1 ATATTTATTTA-TTTTT-AATATTAAGAAAATGGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTG
* *
8174521 AT-GTTTTAAATAAATAA--ATATTTTTATAATTTATA
64 ATATTTTTAAA-AAATAATCATATTTTTATAAATTATA
8174556 AAAATTATTT
Statistics
Matches: 213, Mismatches: 15, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
132 72 0.34
133 15 0.07
134 17 0.08
135 55 0.26
136 45 0.21
137 9 0.04
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (135 bp):
ATATTTATTTATTTTTAATATTAAGAAAATGGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTGAT
ATTTTTAAAAAATAATCATATTTTTATAAATTATATATATTAATCTATTTTTTAGAGAAATGTTT
TATTT
Found at i:8179940 original size:10 final size:10
Alignment explanation
Indices: 8179918--8179990 Score: 64
Period size: 10 Copynumber: 7.5 Consensus size: 10
8179908 CATTCATCAG
8179918 AAAAA-AGAA
1 AAAAAGAGAA
*
8179927 AAAAAGAGAT
1 AAAAAGAGAA
8179937 AAAAAGAAGAA
1 AAAAAG-AGAA
*
8179948 AAAAAG-GGA
1 AAAAAGAGAA
*
8179957 AAAAAGATAA
1 AAAAAGAGAA
8179967 AAAAA-A-AA
1 AAAAAGAGAA
*
8179975 GAAAAGAAGAA
1 AAAAAG-AGAA
8179986 AAAAA
1 AAAAA
8179991 ATTGAATCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
8 6 0.12
9 14 0.27
10 16 0.31
11 15 0.29
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (10 bp):
AAAAAGAGAA
Found at i:8179948 original size:21 final size:19
Alignment explanation
Indices: 8179916--8179991 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 19
8179906 CACATTCATC
8179916 AGAAAAAAG--AAAAAAAG
1 AGAAAAAAGAAAAAAAAAG
8179933 AGATAAAAAGAAGAAAAAAAG
1 AGA-AAAAAGAA-AAAAAAAG
* *
8179954 GGAAAAAAGATAAAAAAAAA
1 AGAAAAAAGA-AAAAAAAAG
8179974 AGAAAAGAAGAAAAAAAA
1 AGAAAA-AAGAAAAAAAA
8179992 TTGAATCAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
17 3 0.06
18 6 0.12
20 26 0.52
21 15 0.30
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (19 bp):
AGAAAAAAGAAAAAAAAAG
Found at i:8179949 original size:20 final size:19
Alignment explanation
Indices: 8179916--8179989 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 19
8179906 CACATTCATC
8179916 AGAAAAAAG-A-AAAAAAG
1 AGAAAAAAGAAGAAAAAAG
8179933 AGATAAAAAGAAGAAAAAAAG
1 AGA-AAAAAGAAG-AAAAAAG
*
8179954 GGAAAAAAGATA-AAAAAA-
1 AGAAAAAAGA-AGAAAAAAG
8179972 A-AAGAAAAGAAGAAAAAA
1 AGAA-AAAAGAAGAAAAAA
8179990 AATTGAATCA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
17 6 0.12
18 18 0.38
19 7 0.15
20 7 0.15
21 10 0.21
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (19 bp):
AGAAAAAAGAAGAAAAAAG
Found at i:8179960 original size:30 final size:29
Alignment explanation
Indices: 8179918--8179990 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 29
8179908 CATTCATCAG
* *
8179918 AAAAAAGAAAAAAAGAGATAAAAAGAAGA
1 AAAAAAGAAAAAAAGAGAAAAAAAAAAGA
* *
8179947 AAAAAAGGGAAAAAAGATAAAAAAAAAAGA
1 AAAAAA-GAAAAAAAGAGAAAAAAAAAAGA
*
8179977 AAAGAAGAAAAAAA
1 AAAAAAGAAAAAAA
8179991 ATTGAATCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 13 0.35
30 24 0.65
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (29 bp):
AAAAAAGAAAAAAAGAGAAAAAAAAAAGA
Found at i:8179969 original size:38 final size:38
Alignment explanation
Indices: 8179917--8179990 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
8179907 ACATTCATCA
* *
8179917 GAAAAAAGAAAAAAAGAGATA-AAAAGAAGAAAAAAAGG
1 GAAAAAAGAAAAAAA-AAAAAGAAAAGAAGAAAAAAAGG
*
8179955 GAAAAAAGATAAAAAAAAAAGAAAAGAAGAAAAAAA
1 GAAAAAAGAAAAAAAAAAAAGAAAAGAAGAAAAAAA
8179991 ATTGAATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 3 0.09
38 29 0.91
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (38 bp):
GAAAAAAGAAAAAAAAAAAAGAAAAGAAGAAAAAAAGG
Found at i:8185231 original size:76 final size:76
Alignment explanation
Indices: 8185104--8185457 Score: 530
Period size: 76 Copynumber: 4.7 Consensus size: 76
8185094 CTACAGTGCA
* ** *
8185104 TGATGTTTTTAAAGCCTACGGATCATCCGTAAGACCTGTAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTTAAAGCCTCCGGATCATCCGTAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTT
8185169 CGGGAGCTTTT
66 CGGGAGCTTTT
* * * *
8185180 TGATGTTTTTAAAGCCTCCGGATCATTCGTAAGACCTACACTGCAATATGTTTTCAAAAAGTCTT
1 TGATGTTTTTAAAGCCTCCGGATCATCCGTAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTT
8185245 CGGGAGCTTTT
66 CGGGAGCTTTT
* * * *
8185256 TGATGTTTTTAAAGCCTCTGGGTCATCCCTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTTAAAGCCTCCGGATCATCCGTAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTT
8185321 CGGGAGCTTTT
66 CGGGAGCTTTT
* * * *
8185332 TGATGTTTTTAAAACCTCCTGG-TTATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCT
1 TGATGTTTTTAAAGCCTCC-GGATCATCCGTAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCT
8185396 TCGGGAGCTTTT
65 TCGGGAGCTTTT
* *
8185408 TGATGTTTTTAAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATG
1 TGATGTTTTTAAAGCCTCCGGATCATCCGTAAGACCTACAGTGCAAGATG
8185458 ATAAGACCTC
Statistics
Matches: 250, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
75 2 0.01
76 246 0.98
77 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (76 bp):
TGATGTTTTTAAAGCCTCCGGATCATCCGTAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:8185639 original size:3 final size:3
Alignment explanation
Indices: 8185633--8185710 Score: 138
Period size: 3 Copynumber: 26.0 Consensus size: 3
8185623 CTTTTTTCTT
**
8185633 TTA TTA TTA TTA CAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8185681 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8185711 AATTACATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:8186857 original size:14 final size:14
Alignment explanation
Indices: 8186790--8186857 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
8186780 AATTTGTATC
* *
8186790 TTTAATTTCAATA-
1 TTTAATTTTATTAT
*
8186803 TTTATATTTTAATAT
1 TTTA-ATTTTATTAT
*
8186818 TATAAGTTTT-TTAT
1 TTTAA-TTTTATTAT
**
8186832 TTTAATCCTATTAT
1 TTTAATTTTATTAT
8186846 TTTAATTTTATT
1 TTTAATTTTATT
8186858 TGTTTTAGTC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
13 6 0.14
14 30 0.70
15 7 0.16
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (14 bp):
TTTAATTTTATTAT
Found at i:8186938 original size:35 final size:32
Alignment explanation
Indices: 8186878--8186942 Score: 94
Period size: 35 Copynumber: 1.9 Consensus size: 32
8186868 ACTGTTTAGT
*
8186878 TATATTTAATTTTATTTTTATTATTACTTTTGA
1 TATATTTAATTTTACTTTTATTATTA-TTTTGA
8186911 TATATTTAAATTATTACTTTTATTATTATTTT
1 TATATTT-AATT-TTACTTTTATTATTATTTT
8186943 AGTATTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 7 0.24
34 8 0.28
35 14 0.48
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (32 bp):
TATATTTAATTTTACTTTTATTATTATTTTGA
Found at i:8186948 original size:11 final size:11
Alignment explanation
Indices: 8186922--8186956 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
8186912 ATATTTAAAT
*
8186922 TATTACTTTTAT
1 TATTA-TTTTAG
8186934 TATTATTTTAG
1 TATTATTTTAG
8186945 TATTATTTTAG
1 TATTATTTTAG
8186956 T
1 T
8186957 CATATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (11 bp):
TATTATTTTAG
Found at i:8187139 original size:134 final size:134
Alignment explanation
Indices: 8186990--8187358 Score: 528
Period size: 134 Copynumber: 2.7 Consensus size: 134
8186980 TTAAATAATA
*
8186990 ATATTTATGTATTTTTAATATTAAGAAAAGAGATGTCTTAAAGCAACTAGAAGTCATTTTCTGAT
1 ATATTTATTTATTTTTAATATTAAGAAAAGAGATGTCTTAAAGCAACTAGAAGTCATTTTCTGAT
* * *
8187055 ATTTTTAATAAATATCCTATTTTTATAAATTATATATATTAATCTATTTTTTAGTGAAATGTTTT
66 ATTTTTAATAAATATCATATTTTTATAAATTATATATATTAATATATTTTTTAGAGAAATGTTTT
8187120 ATTT
131 ATTT
** * * *
8187124 ATATTTATTTATTTTTAATATTAAGAAAATTGCTGTCTTAAAGCACCTAGAAGTCATTTTCTAAT
1 ATATTTATTTATTTTTAATATTAAGAAAAGAGATGTCTTAAAGCAACTAGAAGTCATTTTCTGAT
8187189 ATTTTTAATAAATATCATATTTTTTTATAAATTATATATATTAATATATTTTTTAGAGAAATGTT
66 ATTTTTAATAAATATCATA--TTTTTATAAATTATATATATTAATATATTTTTTAGAGAAATGTT
8187254 TTATTT
129 TTATTT
* * *
8187260 ATATTTATTTATTTTTCAAATATTAA-AAAAGGGCA-GTCTTAAAGCAACTAGATGCCATTTTCT
1 ATATTTATTTATTTTT--AATATTAAGAAAAGAG-ATGTCTTAAAGCAACTAGAAGTCATTTTCT
* * * *
8187323 GATGTTTTAAATAAATA-AATATTTTTATAATTTATA
63 GATATTTTTAATAAATATCATATTTTTATAAATTATA
8187359 AAAATTATTT
Statistics
Matches: 210, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
134 91 0.43
136 67 0.32
137 44 0.21
138 8 0.04
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (134 bp):
ATATTTATTTATTTTTAATATTAAGAAAAGAGATGTCTTAAAGCAACTAGAAGTCATTTTCTGAT
ATTTTTAATAAATATCATATTTTTATAAATTATATATATTAATATATTTTTTAGAGAAATGTTTT
ATTT
Found at i:8187792 original size:17 final size:17
Alignment explanation
Indices: 8187770--8187805 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
8187760 AATCGGTTAC
8187770 GACACACTATATTAGTT
1 GACACACTATATTAGTT
*
8187787 GACACACTATATTTGTT
1 GACACACTATATTAGTT
8187804 GA
1 GA
8187806 AATGACGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (17 bp):
GACACACTATATTAGTT
Found at i:8188051 original size:7 final size:7
Alignment explanation
Indices: 8188039--8188128 Score: 180
Period size: 7 Copynumber: 12.9 Consensus size: 7
8188029 TCGGTGAAAG
8188039 TGGCTAA
1 TGGCTAA
8188046 TGGCTAA
1 TGGCTAA
8188053 TGGCTAA
1 TGGCTAA
8188060 TGGCTAA
1 TGGCTAA
8188067 TGGCTAA
1 TGGCTAA
8188074 TGGCTAA
1 TGGCTAA
8188081 TGGCTAA
1 TGGCTAA
8188088 TGGCTAA
1 TGGCTAA
8188095 TGGCTAA
1 TGGCTAA
8188102 TGGCTAA
1 TGGCTAA
8188109 TGGCTAA
1 TGGCTAA
8188116 TGGCTAA
1 TGGCTAA
8188123 TGGCTA
1 TGGCTA
8188129 GCGTGGGAGA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 83 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (7 bp):
TGGCTAA
Found at i:8191696 original size:16 final size:16
Alignment explanation
Indices: 8191675--8191713 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
8191665 GGTATTACCC
8191675 GACCTGTTTTCAACTT
1 GACCTGTTTTCAACTT
*
8191691 GACCTGTTTTTAACTT
1 GACCTGTTTTCAACTT
*
8191707 AACCTGT
1 GACCTGT
8191714 AAATGATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (16 bp):
GACCTGTTTTCAACTT
Found at i:8198501 original size:14 final size:14
Alignment explanation
Indices: 8198482--8198546 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
8198472 TTCATTAACA
8198482 TTAGGGTTTAAGGT
1 TTAGGGTTTAAGGT
*
8198496 TTAGGGTTT-AGTAT
1 TTAGGGTTTAAG-GT
* *
8198510 TTAGTGTTTATGGT
1 TTAGGGTTTAAGGT
** *
8198524 TTAAAGTTTAGGGT
1 TTAGGGTTTAAGGT
8198538 TTATGGGTT
1 TTA-GGGTT
8198547 ATGATTTAGA
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
13 2 0.05
14 33 0.85
15 4 0.10
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
TTAGGGTTTAAGGT
Found at i:8198512 original size:21 final size:20
Alignment explanation
Indices: 8198494--8198567 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
8198484 AGGGTTTAAG
*
8198494 GTTTAGGGTTTAGTATTTAGT
1 GTTTAGGGTTTA-TATTTAGA
* * *
8198515 GTTTATGGTTTAAAGTTTAGG
1 GTTTAGGGTTTATA-TTTAGA
8198536 GTTTATGGG-TTATGATTTAGA
1 GTTTA-GGGTTTAT-ATTTAGA
8198557 GTTTAGGGTTT
1 GTTTAGGGTTT
8198568 CTATAAATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 4 0.09
21 36 0.84
22 3 0.07
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (20 bp):
GTTTAGGGTTTATATTTAGA
Found at i:8198540 original size:28 final size:28
Alignment explanation
Indices: 8198482--8198567 Score: 84
Period size: 28 Copynumber: 3.1 Consensus size: 28
8198472 TTCATTAACA
* * * **
8198482 TTAGGGTTTAAGGTTTAGGGTTTAGTAT
1 TTAGTGTTTATGGTTTAGAGTTTAGGGT
*
8198510 TTAGTGTTTATGGTTTAAAGTTTAGGGT
1 TTAGTGTTTATGGTTTAGAGTTTAGGGT
* *
8198538 TTA-TGGGTTATGATTTAGAGTTTAGGGT
1 TTAGT-GTTTATGGTTTAGAGTTTAGGGT
8198566 TT
1 TT
8198568 CTATAAATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
27 1 0.02
28 47 0.98
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (28 bp):
TTAGTGTTTATGGTTTAGAGTTTAGGGT
Found at i:8198665 original size:17 final size:17
Alignment explanation
Indices: 8198643--8198698 Score: 85
Period size: 17 Copynumber: 3.2 Consensus size: 17
8198633 TAATTTACTT
* *
8198643 TATATAGTTTTTATATA
1 TATATAGGTTATATATA
8198660 TATATAGGTTATATATA
1 TATATAGGTTATATATA
8198677 TATATAGGTTATATATA
1 TATATAGGTTATATATA
8198694 CTATA
1 -TATA
8198699 CATGGTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 32 0.89
18 4 0.11
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (17 bp):
TATATAGGTTATATATA
Found at i:8198671 original size:15 final size:16
Alignment explanation
Indices: 8198652--8198709 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 16
8198642 TTATATAGTT
8198652 TTTATATATATATAGG
1 TTTATATATATATAGG
8198668 TTATATATATATATAGG
1 TT-TATATATATATAGG
*
8198685 TTATATATACTATACATGG
1 TT-TATATA-TATATA-GG
8198704 TTTATA
1 TTTATA
8198710 CATACATATT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
16 2 0.05
17 23 0.61
18 9 0.24
19 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTATATATATATAGG
Found at i:8199078 original size:7 final size:7
Alignment explanation
Indices: 8199066--8199144 Score: 70
Period size: 7 Copynumber: 11.3 Consensus size: 7
8199056 TCTATTTACA
8199066 TTAGGGT
1 TTAGGGT
8199073 TTAGGGT
1 TTAGGGT
* *
8199080 TTAGAGC
1 TTAGGGT
*
8199087 TTAGTGT
1 TTAGGGT
* *
8199094 TTATGAT
1 TTAGGGT
**
8199101 TTAAAGT
1 TTAGGGT
8199108 TTAGGGT
1 TTAGGGT
8199115 TTATGGG-
1 TTA-GGGT
*
8199122 TTATGGT
1 TTAGGGT
8199129 TTAGGGT
1 TTAGGGT
8199136 TTAGGGT
1 TTAGGGT
8199143 TT
1 TT
8199145 CTATAAATTA
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
6 2 0.04
7 51 0.91
8 3 0.05
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:8199090 original size:21 final size:21
Alignment explanation
Indices: 8199066--8199144 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
8199056 TCTATTTACA
*
8199066 TTAGGGTTTAGGGTTTAGAGC
1 TTAGGGTTTAGGGTTTAGAGT
* * * *
8199087 TTAGTGTTTATGATTTAAAGT
1 TTAGGGTTTAGGGTTTAGAGT
8199108 TTAGGGTTTATGGG-TTATG-GT
1 TTAGGGTTTA-GGGTTTA-GAGT
8199129 TTAGGGTTTAGGGTTT
1 TTAGGGTTTAGGGTTT
8199145 CTATAAATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 3 0.07
21 42 0.91
22 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47
Consensus pattern (21 bp):
TTAGGGTTTAGGGTTTAGAGT
Found at i:8199180 original size:49 final size:49
Alignment explanation
Indices: 8199127--8199229 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 49
8199117 ATGGGTTATG
* * ** *
8199127 GTTTAGGGTTTAGGGTTTCTATAAATTATATACTTTA-TTACTTTATATA
1 GTTTA-GGTATAGGGTTTCTATAAACTATATAAGTAATTTACTTTATATA
* * *
8199176 GTTTATGTATAGTGTTTCTATAAACTGTATAAGTAATTTACTTTATATA
1 GTTTAGGTATAGGGTTTCTATAAACTATATAAGTAATTTACTTTATATA
8199225 GTTTA
1 GTTTA
8199230 TATATATATA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
48 23 0.51
49 22 0.49
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.50
Consensus pattern (49 bp):
GTTTAGGTATAGGGTTTCTATAAACTATATAAGTAATTTACTTTATATA
Found at i:8199193 original size:48 final size:49
Alignment explanation
Indices: 8199141--8199235 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 49
8199131 AGGGTTTAGG
* ** * *
8199141 GTTTCTATAAATTATATACTTTA-TTACTTTATATAGTTTATGTATAGT
1 GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATAGT
*
8199189 GTTTCTATAAACTGTATAAGTAATTTACTTTATATAGTTTATATATA
1 GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATA
8199236 TATAGGATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 18 0.45
49 22 0.55
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (49 bp):
GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATAGT
Found at i:8199238 original size:563 final size:567
Alignment explanation
Indices: 8198153--8200220 Score: 2733
Period size: 543 Copynumber: 3.6 Consensus size: 567
8198143 TAAATAGACC
8198153 TATTATATAAAATTATTTAAT-AAAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGA
1 TATTATATAAAATTATTTAATAAAAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGA
*
8198217 TTAATTAGGTGTTAAATAATTAGTATGCCACATTGCATATTATATGGTTCATAAATAGTAGTACA
66 TTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACA
*
8198282 TGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTCATA
131 TGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATA
* *
8198347 GCCCATTTATTTTGTTGTTATGAATAAGTAATAAT---A--C------AA---C----TCA-AAA
196 GCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTTCATTAG
8198393 TA--AGTCCATTTACATTAGTTTACATAGG-CCAATACATAAGCCCACTCTTTTATTACAAATAT
261 TACTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATAT
* * *
8198455 ATATGCATTAGTACTAGT-TCATTAACATTAGGGTTTAAGGTTTAGGGTTTAGTATTTAGTGTTT
326 ATATGCATTAGTGCTAGTCT-ATTTACATTA--G-----GGTTTAGGGTTTAG-AGTTAGTGTTT
* * *
8198519 ATGGTTTAAAGTTTAGGGTTTATGGGTTATGATTTAGAGTTTAGGGTTTCTATAAATTATATATT
382 ATGATTTAAAGTTTAGGGTTTATGGGTTATGATTTAGGGTTTAGGGTTTCTATAAATTATATACT
8198584 TTATTACTTTATATAGTTTTATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATA
447 TTATTACTTTATATAG-TTTATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATA
*
8198649 GTTTTTATATATATATAGGTTATATATATATATAGGTTATATATACTATACATGGTTTATACATA
511 G------T-TATATATA---TATATATATATATAGATTATATATACTATACATGGTTTATACATA
8198714 CA
566 CA
*
8198716 TATTATATAAAATTATTTAATAAAAA-TAATAAAATTATTTAAATGTAAATTATATAAAACAAGA
1 TATTATATAAAATTATTTAATAAAAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGA
8198780 TTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACA
66 TTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACA
8198845 TGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCAT-TTAGGTTAATTCACATTAATA
131 TGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATA
* * * *
8198909 GCCCATTTATTTTTTTGTTATGAATATGTAATAACAAAACCCAAAAATAAGTTCATTTTCATTAG
196 GCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTTCATTAG
* * * *
8198974 TGCTAGTCTATTTACATTAGTTTACATAGGCCCAATACATAAGCACACTCTTTTATTACAAAAAT
261 TACTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATAT
* * *
8199039 ATATGTATTAGTGTTGGTCTATTTACATTAGGGTTTAGGGTTTAGAGCTTAGTGTTTATGATTTA
326 ATATGCATTAGTGCTAGTCTATTTACATTAGGGTTTAGGGTTTAGAG-TTAGTGTTTATGATTTA
*
8199104 AAGTTTAGGGTTTATGGGTTATGGTTTAGGGTTTAGGGTTTCTATAAATTATATACTTTATTACT
390 AAGTTTAGGGTTTATGGGTTATGATTTAGGGTTTAGGGTTTCTATAAATTATATACTTTATTACT
* *
8199169 TTATATAGTTTATGTATAGTGTTTCTATAAACTGTATAAGTAATTTACTTTATATAGTTTATATA
455 TTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATAG--------
* *
8199234 TATATAGGATATATATATATATATATATATATAAAAGATATATACTATACATGGTCTATACATAC
512 T-TAT---ATATATATATATATATATAGAT-T-----ATATATACTATACATGGTTTATACATAC
8199299 TA
567 -A
* *
8199301 TACATGGTTTATTCATACA-TA-TTATATAAAAGTATTTAATAAAATTATTTAAATGTAAATTAT
1 T--AT--TATA-T-A-AAATTATTTA-ATAAAA--A-TTAATAAAATTATTTAAATGTAAATTAT
*
8199364 ATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCATATTGCATATTATATGGTTCATAA
55 ATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAA
8199429 ATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAAT
120 ATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAAT
*
8199494 TCACATTCATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCC
185 TCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCC
* * * *
8199559 ATTTGCAATAGTACTAGTCCATTTACATTAGTTTACATATGCCCAATACATAAGCTCACTCTTTT
250 ATTTTCATTAGTACTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTT
* * *
8199624 ATTATAAATATATATGCATTAGGGCTAGTCCA-TT--A-TA----TTAGGGTTT--AG---G-GT
315 ATTACAAATATATATGCATTAGTGCTAGTCTATTTACATTAGGGTTTAGGGTTTAGAGTTAGTGT
*
8199675 TTATGATTTAAAGTTTA--G-----GGGTTATAATTTAGGGGTTTA-GGTTTC--T--A-TA-A-
380 TTATGATTTAAAGTTTAGGGTTTATGGGTTATGATTTA-GGGTTTAGGGTTTCTATAAATTATAT
*
8199725 ACTATA-TACTTTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATA
444 ACTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATA
*
8199789 TAGTTTATATATATATAGGCTATATATATATAGTTTATATATACTATACATGGTTTATACATACA
509 TAG--T-TATATATATA---TATATATATATAGATTATATATACTATACATGGTTTATACATACA
*
8199854 TATTATATAAAATTATTTAA-AAAAATTAATAAAATTATTTAAATGTAAATTATGTAAAACATGA
1 TATTATATAAAATTATTTAATAAAAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGA
*
8199918 TTAATTAGGTATTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACA
66 TTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACA
8199983 TGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATA
131 TGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATA
* * *
8200048 GCACATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAAGTCCATTTACATTAG
196 GCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTTCATTAG
* *
8200113 TACTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAAACCCACTATTTTATTACAAATAT
261 TACTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATAT
* * *
8200178 ATAAGCATTAGTGCTAGTCTATTTATATTAGGGTTTATGGTTT
326 ATATGCATTAGTGCTAGTCTATTTACATTAGGGTTTAGGGTTT
8200221 CTATAAACTA
Statistics
Matches: 1362, Mismatches: 79, Indels: 140
0.86 0.05 0.09
Matches are distributed among these distances:
543 304 0.22
544 3 0.00
546 7 0.01
547 6 0.00
548 4 0.00
549 3 0.00
551 10 0.01
553 2 0.00
554 27 0.02
557 7 0.01
559 1 0.00
560 19 0.01
562 52 0.04
563 165 0.12
564 4 0.00
565 1 0.00
566 59 0.04
567 6 0.00
568 1 0.00
569 2 0.00
570 1 0.00
572 1 0.00
573 2 0.00
574 17 0.01
575 7 0.01
576 49 0.04
577 100 0.07
578 24 0.02
579 2 0.00
580 3 0.00
581 26 0.02
582 2 0.00
583 25 0.02
584 82 0.06
585 3 0.00
586 2 0.00
587 2 0.00
588 9 0.01
589 3 0.00
590 4 0.00
591 9 0.01
592 4 0.00
593 2 0.00
595 146 0.11
596 154 0.11
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (567 bp):
TATTATATAAAATTATTTAATAAAAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGA
TTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACA
TGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATA
GCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTTCATTAG
TACTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATAT
ATATGCATTAGTGCTAGTCTATTTACATTAGGGTTTAGGGTTTAGAGTTAGTGTTTATGATTTAA
AGTTTAGGGTTTATGGGTTATGATTTAGGGTTTAGGGTTTCTATAAATTATATACTTTATTACTT
TATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTATATATA
TATATATATATATAGATTATATATACTATACATGGTTTATACATACA
Found at i:8199277 original size:2 final size:2
Alignment explanation
Indices: 8199228--8199266 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
8199218 TTATATAGTT
*
8199228 TA TA TA TA TA TA GGA 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 TA TA
8199267 AAAGATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 33 0.97
3 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:8199298 original size:20 final size:20
Alignment explanation
Indices: 8199275--8199318 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
8199265 TAAAAGATAT
8199275 ATACTATACATGGTCTATAC
1 ATACTATACATGGTCTATAC
* *
8199295 ATACTATACATGGTTTATTC
1 ATACTATACATGGTCTATAC
8199315 ATAC
1 ATAC
8199319 ATATTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (20 bp):
ATACTATACATGGTCTATAC
Found at i:8199690 original size:21 final size:21
Alignment explanation
Indices: 8199666--8199705 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8199656 TTATATTAGG
* *
8199666 GTTTAGGGTTTATGATTTAAA
1 GTTTAGGGGTTATAATTTAAA
8199687 GTTTAGGGGTTATAATTTA
1 GTTTAGGGGTTATAATTTA
8199706 GGGGTTTAGG
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:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (21 bp):
GTTTAGGGGTTATAATTTAAA
Found at i:8199805 original size:15 final size:15
Alignment explanation
Indices: 8199785--8199836 Score: 77
Period size: 15 Copynumber: 3.4 Consensus size: 15
8199775 TAATTTACTT
8199785 TATATAGTTTATATA
1 TATATAGTTTATATA
**
8199800 TATATAGGCTATATA
1 TATATAGTTTATATA
8199815 TATATAGTTTATATA
1 TATATAGTTTATATA
8199830 TACTATA
1 TA-TATA
8199837 CATGGTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 28 0.88
16 4 0.12
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:8199901 original size:543 final size:544
Alignment explanation
Indices: 8199290--8201437 Score: 1841
Period size: 543 Copynumber: 4.0 Consensus size: 544
8199280 ATACATGGTC
* * *
8199290 TATACATACTATACATGGTTTATTCATACATATTATAT-AAA--A-GTAT----TTAATAAAATT
1 TATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTATAAAATTAATAAAATT
* *
8199347 ATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCATATTGCA
66 ATTTAAATGTAAATTATATAAAACATGATTAATTAGGTATTAAATAATTAGTATGTCACATTGCA
8199412 TATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAG
131 TATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAG
*
8199477 TTGCATGTTAGGTTAATTCACATTCATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAA
196 TTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAA
*
8199542 AACCCAAAAATAAGTCCATTTGCAATAGTACTAGTCCATTTACATTAGTTTACATATGCCCAATA
261 AACCCAAAAATAAGTCCATTTGCAATAGTACTAGTCCATTTACATTAGTTTACATAGGCCCAATA
* * *
8199607 CATAAGCTCACTCTTTTATTATAAATATATATGCATTAGGGCTAGTCCA-TTATATTAGGGTTTA
326 CATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATATTAGGGTTTA
*
8199671 GGGTTTATGATTTAAAGTTTA-GGGGTTATAATTTAGGGGTTTAGGTTTCTATAAACTATA-TAC
391 GGGTTTAGGATTTAAAGTTTAGGGGGTTATAATTTA-GGGTTTAGGTTTCTATAAACTATATTAC
8199734 TTTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATAT
455 TTTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATAT
8199799 ATATATAGGCTATATATATATAGTT
520 ATATATAGGCTATATATATATAGTT
*
8199824 TATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAAAAAAATTAATAAAAT
1 TATATATACTATACATGGTTTATACATACATATTATATAAAATTATTT-ATAAAATTAATAAAAT
*
8199889 TATTTAAATGTAAATTATGTAAAACATGATTAATTAGGTATTAAATAATTAGTATGTCACATTGC
65 TATTTAAATGTAAATTATATAAAACATGATTAATTAGGTATTAAATAATTAGTATGTCACATTGC
8199954 ATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTA
130 ATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTA
*
8200019 GTTGCATGTTAGGTTAATTCACATTAATAGCACATTTATTTTGTTGTTATGAATAAGTAATAATA
195 GTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATA
* * *
8200084 AAACCAAAAAATAAGTCCATTTACATTAGTACTAGTCCATTTACATTAGTTTACATAGGCCCAAT
260 AAACCCAAAAATAAGTCCATTTGCAATAGTACTAGTCCATTTACATTAGTTTACATAGGCCCAAT
* * * *
8200149 ACATAAACCCACTATTTTATTACAAATATATAAGCATTAGTGCTAGTCTATTTATATTAGGGTTT
325 ACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATATTAGGGTTT
* ** * * * ***** * **
8200214 ATGGTTTCTATAAACTATATACTTTATTATTTTATATAGTTTA-TGCATAGTGTTTCTATAAACT
390 A-GGGTT-TA-GGA-TTTAAAGTTTAGGGGGTTATA-A-TTTAGGGTTTAG-GTTTCTATAAACT
** * * * * * * * * *
8200278 ATA-TAAGTAATTTACTTTAT--ATA--GTTTATATATACTATACATGGT--TTATAC-ATACAT
448 ATATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTATATA-AGTAATT-TACTTTATAT
* * * * **
8200335 A--TTATATA-A-A-A--TTATTTAAATGTAAAT
511 AGTTTATATATATATAGGCTATATATATATAGTT
* * * * * ***
8200362 TATATAAAACATGATTA-ATTAGGTGTTA-A-ATA-ATTAGTATGTCACATTGCATATTATATGG
1 TATAT-ATAC-T-A-TACA-T-GGT-TTATACATACA-TATTATATAAAATT--AT-TTATAAAA
* * * * * * ** ** * *
8200423 TTCATACATAGTA-GTACATGT-CA-TAT-TAATTTCATTTTCATAATTA-GTATT--TTAGTTG
55 TTAATA-AAATTATTTAAATGTAAATTATATAA-AACATGAT--TAATTAGGTATTAAATAATT-
* * * * ** ** ** * * * * *
8200481 CATGTTAGGTTA-ATT-CACATTA-ATAGCCCATTTATTTTTTTGT-TATG-AATAAGTAATAAT
115 -A-G-TATGTCACATTGCATATTATATGGTTCA--TAAATAGTAGTACATGTCAT-ATTAAT-TT
* **** * * *** *
8200541 AAAACCCAAAAATAAGT-CCCT--TTGCA--TTAGTGCTAA-TC-CATT--TA---CA-TTAGTT
173 CATTTGC-ATAATTAGTATTTTAGTTGCATGTTAG-GTTAATTCACATTAATAGCCCATTTA-TT
** * * ** * * * *** ** * * *
8200593 TACATAAGCTCAACACAT-AGCCCACT-CTTTTA-TTACAAAT-A-T---TTTGCATTAGTGCTA
235 T-TGT-TG-TTATGA-ATAAG--TAATAATAAAACCCAAAAATAAGTCCATTTGCAATAGTACTA
8200650 GTCCATTTACATTAGTTTACATAGGCCCAATACAT-AGCCCACTCTTTTATTACAAATATATATG
294 GTCCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATG
* * *** * * * *
8200714 CATTACTGCTAGTTCATTTATATTATAATTTATGGTTTAGGGTTTATAGTTTA----G----AGT
359 CATTAGTGCTAGTCCATTTATATTAGGGTTTAGGGTTTAGGATTTAAAGTTTAGGGGGTTATAAT
*** ** * *
8200771 TTAGGGTTTTTATAACCTATATACTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAAC
424 TTAGGGTTTAGGT-TTCTATAAACTATATTACTTTATATAGTTTATGCATAGTGTTTCTATAAAC
*
8200836 TATATAAGTAATTAACTTTATATAGTTTATATATATATAGGCTATATATATATAGTT
488 TATATAAGTAATTTACTTTATATAGTTTATATATATATAGGCTATATATATATAGTT
8200893 TATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAAT
1 TATATATACTATACATGGTTTATACATACATATTATATAAAATTATTT-ATAAAATTAATAAAAT
*
8200958 TATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGC
65 TATTTAAATGTAAATTATATAAAACATGATTAATTAGGTATTAAATAATTAGTATGTCACATTGC
* *
8201023 ATATTATATGGTTCATAAATAGTAGGACATGCCATATTAATTTCATTTGCATAATTAGTATTTTA
130 ATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTA
* *
8201088 GTTGCATGTTAGGTCAATTCACATTAATAGCCCATTTATTTTGTGGTTATGAATAAGTAATAATA
195 GTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATA
* * * * *
8201153 TAACCCAAAAATAAGTTCATTTGCAATAGTGCTAGTCCATTTACATTAGTTTACATAGACACAAT
260 AAACCCAAAAATAAGTCCATTTGCAATAGTACTAGTCCATTTACATTAGTTTACATAGGCCCAAT
*
8201218 ACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTACATTAAGGTTT
325 ACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATATT-A-G---
* * ** *
8201283 TGGTTTAGTGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTATGGTTTAGGGTTTAGGGTTTTTA
385 -GGTTTAGGGTTTAGGATTTAAAGTTTA-GG----GGG-TTATAATTTAGGGTTTA-GGTTTCTA
* *
8201348 TAAACTATATACTTTATTACTTTATATAATTTATGCATAGTGTTTCTATAAAGTATATAAGTAAT
442 TAAAC----TA---TATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTAAT
*
8201413 TTAATTTATATAGTTTATATATATA
500 TTACTTTATATAGTTTATATATATA
8201438 GTTTATATAC
Statistics
Matches: 1230, Mismatches: 248, Indels: 241
0.72 0.14 0.14
Matches are distributed among these distances:
517 5 0.00
518 12 0.01
519 13 0.01
521 3 0.00
522 2 0.00
523 17 0.01
524 25 0.02
525 38 0.03
526 31 0.03
527 45 0.04
528 14 0.01
529 10 0.01
530 12 0.01
531 72 0.06
532 60 0.05
533 5 0.00
534 43 0.03
535 10 0.01
536 5 0.00
537 60 0.05
538 70 0.06
539 11 0.01
540 8 0.01
541 15 0.01
542 36 0.03
543 336 0.27
544 75 0.06
545 29 0.02
546 20 0.02
547 3 0.00
548 11 0.01
549 9 0.01
550 29 0.02
551 4 0.00
553 1 0.00
558 17 0.01
559 1 0.00
562 1 0.00
565 72 0.06
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (544 bp):
TATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTATAAAATTAATAAAATT
ATTTAAATGTAAATTATATAAAACATGATTAATTAGGTATTAAATAATTAGTATGTCACATTGCA
TATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAG
TTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAA
AACCCAAAAATAAGTCCATTTGCAATAGTACTAGTCCATTTACATTAGTTTACATAGGCCCAATA
CATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATATTAGGGTTTA
GGGTTTAGGATTTAAAGTTTAGGGGGTTATAATTTAGGGTTTAGGTTTCTATAAACTATATTACT
TTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATA
TATATAGGCTATATATATATAGTT
Found at i:8200313 original size:20 final size:20
Alignment explanation
Indices: 8200290--8200342 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
8200280 ATAAGTAATT
*
8200290 TACTTTATATAGTTTATATA
1 TACTTTATATAGTTTATACA
* * *
8200310 TACTATACATGGTTTATACA
1 TACTTTATATAGTTTATACA
8200330 TACATATTATATA
1 TAC-T-TTATATA
8200343 AAATTATTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 19 0.79
21 1 0.04
22 4 0.17
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (20 bp):
TACTTTATATAGTTTATACA
Found at i:8200685 original size:74 final size:75
Alignment explanation
Indices: 8200561--8200738 Score: 277
Period size: 74 Copynumber: 2.4 Consensus size: 75
8200551 AATAAGTCCC
* *
8200561 TTTGCATTAGTGCTAATCCATTTACATTAGTTTACATAAGCTCAACACATAGCCCACTCTTTTAT
1 TTTGCATTAGTGCTAGTCCATTTACATTAGTTTACATAAGCCCAACACATAGCCCACTCTTTTAT
8200626 TACAAATAT-
66 TACAAATATA
* *
8200635 TTTGCATTAGTGCTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAGCCCACTCTTTTAT
1 TTTGCATTAGTGCTAGTCCATTTACATTAGTTTACATAAGCCCAACACATAGCCCACTCTTTTAT
8200700 TACAAATATA
66 TACAAATATA
* * * *
8200710 TATGCATTACTGCTAGTTCATTTATATTA
1 TTTGCATTAGTGCTAGTCCATTTACATTA
8200739 TAATTTATGG
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
74 70 0.74
75 25 0.26
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (75 bp):
TTTGCATTAGTGCTAGTCCATTTACATTAGTTTACATAAGCCCAACACATAGCCCACTCTTTTAT
TACAAATATA
Found at i:8200760 original size:21 final size:21
Alignment explanation
Indices: 8200736--8200779 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8200726 TTCATTTATA
8200736 TTATAATTTATG-GTTTAGGGT
1 TTATAATTTA-GAGTTTAGGGT
*
8200757 TTATAGTTTAGAGTTTAGGGT
1 TTATAATTTAGAGTTTAGGGT
8200778 TT
1 TT
8200780 TTATAACCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (21 bp):
TTATAATTTAGAGTTTAGGGT
Found at i:8200811 original size:49 final size:49
Alignment explanation
Indices: 8200758--8200864 Score: 117
Period size: 48 Copynumber: 2.2 Consensus size: 49
8200748 GTTTAGGGTT
** * * ** *
8200758 TATAGTTTAGAGTTTAGGGTTTTTATAACCTATATACTTTATT-ACTTTA
1 TATAGTTTA-AGCATAGGGTTTCTATAAACTATATAAGTAATTAACTTTA
* *
8200807 TATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTAATTAACTTTA
1 TATAGTTTAAGCATAGGGTTTCTATAAACTATATAAGTAATTAACTTTA
8200856 TATAGTTTA
1 TATAGTTTA
8200865 TATATATATA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
48 24 0.50
49 24 0.50
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (49 bp):
TATAGTTTAAGCATAGGGTTTCTATAAACTATATAAGTAATTAACTTTA
Found at i:8200874 original size:15 final size:15
Alignment explanation
Indices: 8200854--8200905 Score: 77
Period size: 15 Copynumber: 3.4 Consensus size: 15
8200844 TAATTAACTT
8200854 TATATAGTTTATATA
1 TATATAGTTTATATA
**
8200869 TATATAGGCTATATA
1 TATATAGTTTATATA
8200884 TATATAGTTTATATA
1 TATATAGTTTATATA
8200899 TACTATA
1 TA-TATA
8200906 CATGGTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 28 0.88
16 4 0.12
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:8201297 original size:7 final size:7
Alignment explanation
Indices: 8201284--8201344 Score: 86
Period size: 7 Copynumber: 8.7 Consensus size: 7
8201274 TTAAGGTTTT
8201284 GGTTTAG
1 GGTTTAG
*
8201291 TGTTTAG
1 GGTTTAG
*
8201298 GGTTTAA
1 GGTTTAG
*
8201305 AGTTTAG
1 GGTTTAG
8201312 GGTTTAG
1 GGTTTAG
*
8201319 GGTTTAT
1 GGTTTAG
8201326 GGTTTAG
1 GGTTTAG
8201333 GGTTTAG
1 GGTTTAG
8201340 GGTTT
1 GGTTT
8201345 TTATAAACTA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:8201437 original size:13 final size:13
Alignment explanation
Indices: 8201419--8201446 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8201409 TAATTTAATT
8201419 TATATAGTTTATA
1 TATATAGTTTATA
8201432 TATATAGTTTATA
1 TATATAGTTTATA
8201445 TA
1 TA
8201447 CACTATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:8201604 original size:2 final size:2
Alignment explanation
Indices: 8201597--8201629 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8201587 TTAGTGTTTC
8201597 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 T
8201630 TGAAAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8201856 original size:19 final size:20
Alignment explanation
Indices: 8201842--8201887 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
8201832 AAATTTTTCT
8201842 ATTCCCTCTAAATTTCCCAA
1 ATTCCCTCTAAATTTCCCAA
8201862 ATTCCCTCTAAA-TTCCCAA
1 ATTCCCTCTAAATTTCCCAA
*
8201881 TTTCCCT
1 ATTCCCT
8201888 ATATTCTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTCCCTCTAAATTTCCCAA
Found at i:8201876 original size:11 final size:11
Alignment explanation
Indices: 8201842--8201878 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
8201832 AAATTTTTCT
8201842 ATTCCCTCTAA
1 ATTCCCTCTAA
*
8201853 ATTTCC-C-AA
1 ATTCCCTCTAA
8201862 ATTCCCTCTAA
1 ATTCCCTCTAA
8201873 ATTCCC
1 ATTCCC
8201879 AATTTCCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 13 0.59
ACGTcount: A:0.27, C:0.38, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTCCCTCTAA
Found at i:8202097 original size:26 final size:24
Alignment explanation
Indices: 8202042--8202121 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 24
8202032 TAATAAAAAC
* **
8202042 TATAGTTTATAAACTATATACTTTTT
1 TATAGTTTAT-AA-TATATAGTTTCA
8202068 TATAGTTTATACATATATAGTTTACA
1 TATAGTTTATA-ATATATAGTTT-CA
8202094 TATACAGTTTAT-ATATATAG-TTCA
1 TAT--AGTTTATAATATATAGTTTCA
8202118 TATA
1 TATA
8202122 AACATAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
22 1 0.02
24 5 0.11
25 12 0.26
26 22 0.47
28 7 0.15
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (24 bp):
TATAGTTTATAATATATAGTTTCA
Found at i:8202120 original size:13 final size:13
Alignment explanation
Indices: 8202068--8202170 Score: 73
Period size: 13 Copynumber: 7.3 Consensus size: 13
8202058 TATACTTTTT
8202068 TATAGTTTATACATA
1 TATAGTTTAT--ATA
*
8202083 TATAGTTTACATA
1 TATAGTTTATATA
*
8202096 TACAGTTTATATA
1 TATAGTTTATATA
*
8202109 TATAGTTCATATAAA
1 TATAGTT--TATATA
* *
8202124 CATAATTTATATA
1 TATAGTTTATATA
8202137 TATAGCTTATAATAATTA
1 TATAG-TT-T-AT-A-TA
8202155 TATAGTTTATA-A
1 TATAGTTTATATA
8202167 TATA
1 TATA
8202171 AATATAGTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 17
0.72 0.10 0.17
Matches are distributed among these distances:
12 5 0.07
13 28 0.39
14 3 0.04
15 22 0.31
16 3 0.04
17 3 0.04
18 7 0.10
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:8202175 original size:18 final size:18
Alignment explanation
Indices: 8202131--8202189 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
8202121 AAACATAATT
* *
8202131 TATATATATAGCTTATAA
1 TATAAATATAGTTTATAA
*
8202149 TA-ATTATATAGTTTATAA
1 TATA-AATATAGTTTATAA
8202167 TATAAATATAGTTTAT-A
1 TATAAATATAGTTTATAA
8202184 TATAAA
1 TATAAA
8202190 CTTATATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.22
18 28 0.76
19 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (18 bp):
TATAAATATAGTTTATAA
Found at i:8202184 original size:15 final size:14
Alignment explanation
Indices: 8202068--8202185 Score: 62
Period size: 13 Copynumber: 7.9 Consensus size: 14
8202058 TATACTTTTT
*
8202068 TATAGTTTATACATA
1 TATAGTTTATATA-A
*
8202083 TATAGTTTACAT-A
1 TATAGTTTATATAA
*
8202096 TACAGTTTATAT-A
1 TATAGTTTATATAA
*
8202109 TATAGTTCATATAAA
1 TATAGTTTATAT-AA
* *
8202124 CATAATTTATAT-A
1 TATAGTTTATATAA
*
8202137 TATAGCTTATAATAATTA
1 TATAG-TT-T-AT-ATAA
8202155 TATAGTTTATAATATAAA
1 TATAG-TT-T-ATAT-AA
8202173 TATAGTTTATATA
1 TATAGTTTATATA
8202186 TAAACTTATA
Statistics
Matches: 82, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
13 26 0.32
14 3 0.04
15 25 0.30
16 3 0.04
17 6 0.07
18 19 0.23
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (14 bp):
TATAGTTTATATAA
Found at i:8203814 original size:48 final size:48
Alignment explanation
Indices: 8203758--8203853 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
8203748 GATGATCATA
* *
8203758 AAGTAATATGTATTTGGAAGAATCTCTACTCATTTGATAATAAATGTT
1 AAGTAATATCTATTTGAAAGAATCTCTACTCATTTGATAATAAATGTT
8203806 AAGTAATATCTATTTGAAAGAATCTCTACTCATTTGATAATAAATGTT
1 AAGTAATATCTATTTGAAAGAATCTCTACTCATTTGATAATAAATGTT
8203854 CAAACACTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (48 bp):
AAGTAATATCTATTTGAAAGAATCTCTACTCATTTGATAATAAATGTT
Found at i:8203948 original size:26 final size:26
Alignment explanation
Indices: 8203912--8203963 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
8203902 CAATCATTTT
8203912 TTTTAACTATTGAGATAACTTAATTC
1 TTTTAACTATTGAGATAACTTAATTC
*
8203938 TTTTAAGTATTGAGATAACTTAATTC
1 TTTTAACTATTGAGATAACTTAATTC
8203964 GTGTACTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (26 bp):
TTTTAACTATTGAGATAACTTAATTC
Found at i:8206070 original size:119 final size:119
Alignment explanation
Indices: 8205941--8206165 Score: 272
Period size: 119 Copynumber: 1.9 Consensus size: 119
8205931 AAAATTCAAC
* * * *
8205941 TTATAATATTTATTTTTCATAAAATATAAAATATAATCTTTTTTGAAA-TTAAATAAATATTATA
1 TTATAATATTTATTTATCATAAAATATAAAATATAA-ATTATTTAAAATTTAAATAAATATTATA
* * * * *
8206005 AGTTGACAGGATATAAATTTTATAATATTTATTTAATAATTTAAACAATAAAAAA
65 AATTAACAGAATATAAATTTTATAATATTTACTAAATAATTTAAACAATAAAAAA
* * * * *
8206060 TTATAATATTTATTTATGATAGAATATAAATTTTAAATTATTTAAAATTTAAATAATTATTATAA
1 TTATAATATTTATTTATCATAAAATATAAAATATAAATTATTTAAAATTTAAATAAATATTATAA
* * * *
8206125 ATTAATATAATATAAGTTTTATATTATTTACTAAATAATTT
66 ATTAACAGAATATAAATTTTATAATATTTACTAAATAATTT
8206166 CAATAATCAT
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
118 8 0.09
119 79 0.91
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.47
Consensus pattern (119 bp):
TTATAATATTTATTTATCATAAAATATAAAATATAAATTATTTAAAATTTAAATAAATATTATAA
ATTAACAGAATATAAATTTTATAATATTTACTAAATAATTTAAACAATAAAAAA
Found at i:8207381 original size:42 final size:44
Alignment explanation
Indices: 8207314--8207402 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 44
8207304 GATACACGTG
*
8207314 TATTTTCTTTTTAACAGCAACCTAACATTCCCCATAC-TCTCCT
1 TATTTTCTTTTCAACAGCAACCTAACATTCCCCATACTTCTCCT
* * *
8207357 TATTTTC-TTTCAACAGC-ACGCTAACATTTCCCTTACTTTTCCT
1 TATTTTCTTTTCAACAGCAAC-CTAACATTCCCCATACTTCTCCT
8207400 TAT
1 TAT
8207403 CATGTTTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
41 2 0.05
42 23 0.57
43 15 0.38
ACGTcount: A:0.24, C:0.30, G:0.03, T:0.43
Consensus pattern (44 bp):
TATTTTCTTTTCAACAGCAACCTAACATTCCCCATACTTCTCCT
Found at i:8213576 original size:19 final size:20
Alignment explanation
Indices: 8213548--8213588 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
8213538 TTGTGAAAAG
8213548 AAAATAATGAAAGAAAAGTA
1 AAAATAATGAAAGAAAAGTA
8213568 AAAAT-ATGAAAGAAAAGTA
1 AAAATAATGAAAGAAAAGTA
8213587 AA
1 AA
8213589 CTTCAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATAATGAAAGAAAAGTA
Found at i:8213752 original size:20 final size:18
Alignment explanation
Indices: 8213719--8213755 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
8213709 TTCTACCAAG
8213719 AATTCTAATAAAATAATT
1 AATTCTAATAAAATAATT
8213737 AATTCCTAATTAAAATAAT
1 AATT-CTAA-TAAAATAAT
8213756 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTCTAATAAAATAATT
Found at i:8215922 original size:11 final size:11
Alignment explanation
Indices: 8215906--8215932 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8215896 CTGATATTTT
8215906 AAAAAAAATTA
1 AAAAAAAATTA
8215917 AAAAAAAATTA
1 AAAAAAAATTA
8215928 AAAAA
1 AAAAA
8215933 TTTCTCTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAAATTA
Found at i:8218290 original size:26 final size:26
Alignment explanation
Indices: 8218227--8218279 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
8218217 TTCTTTTCCT
* *
8218227 TTTTTATTTCTTATTTTTTTACTTACTA
1 TTTTTA-TT-TTATCTTTTTACTTAATA
8218255 TTTTTATTTTATCTTTTTACTTAAT
1 TTTTTATTTTATCTTTTTACTTAAT
8218280 TTGTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 2 0.09
28 6 0.26
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTTTATTTTATCTTTTTACTTAATA
Found at i:8222778 original size:24 final size:25
Alignment explanation
Indices: 8222729--8222783 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
8222719 TTCATTTTGT
* *
8222729 TTATTATTATTATTATATTATTATA
1 TTATTATTATTATTATAATATAATA
8222754 -TATTATTATTATTATTAATA-AATA
1 TTATTATTATTATTA-TAATATAATA
8222778 TTATTA
1 TTATTA
8222784 AATAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTATTATTATTATTATAATATAATA
Found at i:8222779 original size:13 final size:14
Alignment explanation
Indices: 8222763--8222794 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8222753 ATATTATTAT
8222763 TATTATT-AATAAA
1 TATTATTAAATAAA
8222776 TATTATTAAATAAA
1 TATTATTAAATAAA
8222790 TATTA
1 TATTA
8222795 CAGTCCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTATTAAATAAA
Found at i:8222783 original size:3 final size:3
Alignment explanation
Indices: 8222729--8222770 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
8222719 TTCATTTTGT
8222729 TTA TTA TTA TTA TTA -TA TTA TTA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
8222771 ATAAATATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:8233885 original size:19 final size:17
Alignment explanation
Indices: 8233861--8233898 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 17
8233851 ATTATGCTTG
8233861 AAGAAAGAAAAAAATGAAA
1 AAGAAA-AAAAAAA-GAAA
8233880 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
8233897 AA
1 AA
8233899 ATGATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:8233890 original size:16 final size:16
Alignment explanation
Indices: 8233859--8233889 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8233849 ATATTATGCT
8233859 TGAAGAAAGAAAAAAA
1 TGAAGAAAGAAAAAAA
8233875 TGAA-AAAGAAAAAAA
1 TGAAGAAAGAAAAAAA
8233890 AAAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (16 bp):
TGAAGAAAGAAAAAAA
Found at i:8235613 original size:112 final size:114
Alignment explanation
Indices: 8235415--8235976 Score: 603
Period size: 112 Copynumber: 4.9 Consensus size: 114
8235405 TAGCAAAGAT
* *
8235415 TTGAATCCATCA-TTCGATGGATCAACT-GTTCCAGAAGAA--GTTCATAATGAGAAGAACTCAT
1 TTGAATTCATCACTT-GATGGATCAA-TATTTCCAG-AGAAGGGTTCATAATGAGAAGAACTCAT
*
8235476 TTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
63 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
* *
8235528 TTGAATTCATCATTTGATGGATCAATATTTTC-GA-AAGGGTTCATAATGAGAAGAACTCATCTG
1 TTGAATTCATCACTTGATGGATCAATATTTCCAGAGAAGGGTTCATAATGAGAAGAACTCATCTG
8235591 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
* * ** * * *
8235640 TCGAATTCATCACTTGATGGATTAGCATTGCCAG-GTAGGGTTAATAATGAGAAGAACTCATCTG
1 TTGAATTCATCACTTGATGGATCAATATTTCCAGAGAAGGGTTCATAATGAGAAGAACTCATCTG
* * * * * *
8235704 AAGAATGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAACATTTTGA
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT-TAACCTTTTGC
** * *
8235754 TTGAATTCATCACTTGATGGATCAACT-TTTCCAGAGAAAAGTTCATAATGAGAAGAACTTATGT
1 TTGAATTCATCACTTGATGGATCAA-TATTTCCAGAGAAGGGTTCATAATGAGAAGAACTCATCT
* *
8235818 GAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC-TTTGT
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
** * * *
8235866 TTG-ATTCTATCACAGAAGGAGATAGATCAACATCAACATTTCC--AGAAGTGTTCATAATAAGA
1 TTGAATTC-ATCAC-----TTGATGGATC-A-AT----ATTTCCAGAGAAGGGTTCATAATGAGA
*
8235928 AGAACTCATCTGAAGAAGGAA-AATAAGTTCATAATGAGAAGAACTTGTT
54 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
8235977 CAATATAGCC
Statistics
Matches: 381, Mismatches: 45, Indels: 38
0.82 0.10 0.08
Matches are distributed among these distances:
110 2 0.01
111 5 0.01
112 112 0.29
113 90 0.24
114 69 0.18
115 27 0.07
117 7 0.02
118 2 0.01
119 1 0.00
121 56 0.15
122 5 0.01
123 5 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (114 bp):
TTGAATTCATCACTTGATGGATCAATATTTCCAGAGAAGGGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
Found at i:8236400 original size:22 final size:22
Alignment explanation
Indices: 8236359--8236401 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8236349 TATTATTATA
** *
8236359 TTATTATTATTATTATATATTT
1 TTATTATTATTAAAAAATATTT
8236381 TTATTATTATTAAAAAATATT
1 TTATTATTATTAAAAAATATT
8236402 ATTAAATAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATTATTATTAAAAAATATTT
Found at i:8236405 original size:3 final size:3
Alignment explanation
Indices: 8236318--8236392 Score: 125
Period size: 3 Copynumber: 25.0 Consensus size: 3
8236308 TTTATTTTGT
8236318 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
8236365 TTA TTA TTA TATA TTT TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA
8236393 AAAAATATTA
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 2 0.03
3 63 0.93
4 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8238710 original size:15 final size:15
Alignment explanation
Indices: 8238690--8238731 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
8238680 TTCAAATATA
8238690 TTATATTTTATTTCC
1 TTATATTTTATTTCC
*
8238705 TTATATTTTATTTTC
1 TTATATTTTATTTCC
*
8238720 TCATAATTTTAT
1 TTAT-ATTTTAT
8238732 ATATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTTATTTCC
Found at i:8239115 original size:38 final size:35
Alignment explanation
Indices: 8239065--8239134 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
8239055 TTAAAAATAT
**
8239065 ATATATATTCCATCCGAATTTAACCTGATCTGAAAA
1 ATATATATTCCATCC-AATCCAACCTGATCTGAAAA
*
8239101 ATATATACTCTCCATCCAATCCAACTTGATCTGA
1 ATATATA-T-TCCATCCAATCCAACCTGATCTGA
8239135 CTGAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 7 0.24
37 15 0.52
38 7 0.24
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (35 bp):
ATATATATTCCATCCAATCCAACCTGATCTGAAAA
Found at i:8240714 original size:16 final size:16
Alignment explanation
Indices: 8240693--8240723 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8240683 ATAAATAAAT
8240693 GAACATAAACGAACAC
1 GAACATAAACGAACAC
8240709 GAACATAAACGAACA
1 GAACATAAACGAACA
8240724 ATTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:8240814 original size:16 final size:16
Alignment explanation
Indices: 8240793--8240857 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
8240783 TAATAAATAA
**
8240793 ACGAACATAAACGCGC
1 ACGAACATAAACGAAC
8240809 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
8240825 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
8240841 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
8240857 A
1 A
8240858 TAAACGTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.54, C:0.25, G:0.14, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:8241967 original size:14 final size:14
Alignment explanation
Indices: 8241950--8242005 Score: 84
Period size: 14 Copynumber: 4.3 Consensus size: 14
8241940 AATGAACATA
8241950 AACGAACATAACCG
1 AACGAACATAACCG
8241964 AACGAACAT-A---
1 AACGAACATAACCG
8241974 AACGAACATAACCG
1 AACGAACATAACCG
8241988 AACGAACATAACCG
1 AACGAACATAACCG
8242002 AACG
1 AACG
8242006 TTCACGAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.52, C:0.27, G:0.14, T:0.07
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:8242004 original size:10 final size:10
Alignment explanation
Indices: 8241943--8241990 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
8241933 ATAAATGAAT
8241943 GAACATAAAC
1 GAACATAAAC
8241953 GAACATAACCGAAC
1 GAACAT-A---AAC
8241967 GAACATAAAC
1 GAACATAAAC
*
8241977 GAACATAACC
1 GAACATAAAC
8241987 GAAC
1 GAAC
8241991 GAACATAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACATAAAC
Found at i:8242015 original size:24 final size:24
Alignment explanation
Indices: 8241943--8242004 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
8241933 ATAAATGAAT
8241943 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
8241967 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
8241991 GAACATAACCGAAC
1 GAACATAAACGAAC
8242005 GTTCACGAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.53, C:0.26, G:0.13, T:0.08
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:8243492 original size:24 final size:24
Alignment explanation
Indices: 8243465--8243520 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
8243455 AATATTTAAT
8243465 TAATAATACATCAA-ATTAAAACAA
1 TAATAATACAT-AACATTAAAACAA
* * *
8243489 TAATATTACATAACATTATAATAA
1 TAATAATACATAACATTAAAACAA
8243513 TAATAATA
1 TAATAATA
8243521 GTGTCAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (24 bp):
TAATAATACATAACATTAAAACAA
Found at i:8253982 original size:22 final size:22
Alignment explanation
Indices: 8253955--8254009 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
8253945 GCAACACATA
8253955 ACTAAAGCAACATACCAAACAC
1 ACTAAAGCAACATACCAAACAC
* *
8253977 ACTAAAGCAACGTACCGAACAC
1 ACTAAAGCAACATACCAAACAC
8253999 ACTACAAGCAA
1 ACTA-AAGCAA
8254010 ACTTTGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.51, C:0.31, G:0.09, T:0.09
Consensus pattern (22 bp):
ACTAAAGCAACATACCAAACAC
Found at i:8255106 original size:16 final size:16
Alignment explanation
Indices: 8255085--8255125 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
8255075 TATCAATTTT
**
8255085 AAAATTAACGGAATTA
1 AAAATTAACAAAATTA
8255101 AAAATTAACAAAATTA
1 AAAATTAACAAAATTA
*
8255117 AACATTAAC
1 AAAATTAAC
8255126 CCCAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.61, C:0.10, G:0.05, T:0.24
Consensus pattern (16 bp):
AAAATTAACAAAATTA
Found at i:8255116 original size:86 final size:86
Alignment explanation
Indices: 8255026--8255188 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 86
8255016 AAATTAATGG
* * *
8255026 AATTAAACATTGACCCCAAAATTT-T-TGGTATAATTATTTTTTAAGACAATATCAATTTTAAAA
1 AATTAAACATTAACCCC-AAATTTATCTAGTATAATTACTTTTTAAGAC-ATATCAATTTTAAAA
*
8255089 TTAACGGAATTAAAAATTAACAA
64 TTAACGAAATTAAAAATTAACAA
* * * *
8255112 AATTAAACATTAACCCCAAATTTATCTAGTTTAATTACTTTTTAAGACCTTTGAATTTTAAAATT
1 AATTAAACATTAACCCCAAATTTATCTAGTATAATTACTTTTTAAGACATATCAATTTTAAAATT
*
8255177 AATGAAATTAAA
66 AACGAAATTAAA
8255189 CACTTAATCT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 6 0.09
86 41 0.62
87 19 0.29
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (86 bp):
AATTAAACATTAACCCCAAATTTATCTAGTATAATTACTTTTTAAGACATATCAATTTTAAAATT
AACGAAATTAAAAATTAACAA
Found at i:8255175 original size:70 final size:72
Alignment explanation
Indices: 8255101--8255250 Score: 171
Period size: 72 Copynumber: 2.1 Consensus size: 72
8255091 AACGGAATTA
*
8255101 AAAATTAACAAAATTAAACA-TTAA-CCCCAAATTTATCTAGTTTAATTACTTTTTAAGACCT-T
1 AAAATTAACAAAATTAAACACTTAATCCCCAAATTTATATAGTTTAATTACTTTTTAAGACCTAT
8255163 TGAATTTT
66 T-AATTTT
** * ** * * * *
8255171 AAAATTAATGAAATTAAACACTTAATCTCTTAATTTTTATGGTTTAATTACTTTTTAGGTCCTAT
1 AAAATTAACAAAATTAAACACTTAATCCCCAAATTTATATAGTTTAATTACTTTTTAAGACCTAT
*
8255236 TTATTTT
66 TAATTTT
8255243 AAAATTAA
1 AAAATTAA
8255251 ACAACTTGCC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
70 18 0.27
71 4 0.06
72 42 0.64
73 2 0.03
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.44
Consensus pattern (72 bp):
AAAATTAACAAAATTAAACACTTAATCCCCAAATTTATATAGTTTAATTACTTTTTAAGACCTAT
TAATTTT
Found at i:8255465 original size:3 final size:3
Alignment explanation
Indices: 8255448--8255512 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
8255438 GGGTTATAAT
* **
8255448 TTA TCA TTA -TA TTA TTA TTA TTA CAA TTA TTA TT- TATA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA
*
8255493 TTA TTA TTA TTT TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA
8255513 CAAAGCGGGA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
2 5 0.10
3 40 0.82
4 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:8255487 original size:9 final size:10
Alignment explanation
Indices: 8255441--8255500 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
8255431 TTTGTCCGGG
*
8255441 TTATAATTTA
1 TTATTATTTA
*
8255451 TCATTATATTA
1 TTATTAT-TTA
*
8255462 TTATTATTACAA
1 TTATTATT--TA
8255474 TTATTATTTA
1 TTATTATTTA
8255484 -TATTATTTA
1 TTATTATTTA
8255493 TTATTATT
1 TTATTATT
8255501 ATTTTTATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 9 0.22
10 14 0.34
11 9 0.22
12 9 0.22
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATTATTTA
Found at i:8256781 original size:31 final size:30
Alignment explanation
Indices: 8256660--8256783 Score: 83
Period size: 31 Copynumber: 3.9 Consensus size: 30
8256650 TTAGGTCCAT
*
8256660 AAGGAATTACCAGTCAGTG-TTGAACCTATTC
1 AAGGAATTACCAG-CAGCGATTGAACCTA-TC
* *
8256691 AAGGAATTACCAGCAGCGACTGAACCTGTC
1 AAGGAATTACCAGCAGCGATTGAACCTATC
* *
8256721 AGAGATATGAATTTCCA--ATCGATGCTGAACCTATAC
1 A-AG----GAATTACCAGCAGCGAT--TGAACCTAT-C
*
8256757 AAGGAATTACCAGCAACGATTGAACCT
1 AAGGAATTACCAGCAGCGATTGAACCT
8256784 GCCAGATTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
30 7 0.10
31 37 0.51
33 9 0.12
35 18 0.25
36 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (30 bp):
AAGGAATTACCAGCAGCGATTGAACCTATC
Found at i:8257757 original size:27 final size:27
Alignment explanation
Indices: 8257702--8257770 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
8257692 TGCTTAGAGA
* *
8257702 TATTTTGGATTATTTTACTGTTCAGGGG
1 TATTTTGG-TTATTTTACGGTTCAAGGG
* *
8257730 TATTTTGGTTATTTTGCGGTTTAAGGG
1 TATTTTGGTTATTTTACGGTTCAAGGG
**
8257757 TATTTCAGTTATTT
1 TATTTTGGTTATTT
8257771 CCTTCAGTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
27 27 0.77
28 8 0.23
ACGTcount: A:0.17, C:0.06, G:0.23, T:0.54
Consensus pattern (27 bp):
TATTTTGGTTATTTTACGGTTCAAGGG
Found at i:8268323 original size:4 final size:4
Alignment explanation
Indices: 8268314--8268369 Score: 51
Period size: 4 Copynumber: 13.2 Consensus size: 4
8268304 CACCACGTAG
* *
8268314 AGAA AGAA AGAA AAAA ATGAA A-AA AGAAA ATAA AGAAA ATGAA AGAA
1 AGAA AGAA AGAA AGAA A-GAA AGAA AG-AA AGAA AG-AA A-GAA AGAA
8268361 AGAA AGAA A
1 AGAA AGAA A
8268370 AAGAAAAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 3 0.07
4 27 0.63
5 12 0.28
6 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (4 bp):
AGAA
Found at i:8268348 original size:9 final size:8
Alignment explanation
Indices: 8268314--8268411 Score: 65
Period size: 8 Copynumber: 11.4 Consensus size: 8
8268304 CACCACGTAG
*
8268314 AGAAAGAA
1 AGAAAAAA
8268322 AGAAAAAA
1 AGAAAAAA
8268330 ATG-AAAAA
1 A-GAAAAAA
8268338 AGAAAATAA
1 AGAAAA-AA
8268347 AGAAAATGAA
1 AGAAAA--AA
8268357 AGAAAGAAA
1 AGAAA-AAA
*
8268366 GAAAAAGAAA
1 -AGAAA-AAA
*
8268376 AGAAAAGA
1 AGAAAAAA
8268384 AGAAATAAA
1 AGAAA-AAA
8268393 AGAAGAAAA
1 AGAA-AAAA
*
8268402 A-ATAAAA
1 AGAAAAAA
8268409 AGA
1 AGA
8268412 GAATAAACAA
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
7 6 0.08
8 26 0.35
9 25 0.34
10 16 0.22
11 1 0.01
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (8 bp):
AGAAAAAA
Found at i:8268360 original size:19 final size:20
Alignment explanation
Indices: 8268335--8268401 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 20
8268325 AAAAAATGAA
* *
8268335 AAAAGAAAATAAAGAAAATG
1 AAAAGAAAAGAAAGAAAAAG
8268355 -AAAG-AAAGAAAGAAAAAG
1 AAAAGAAAAGAAAGAAAAAG
8268373 AAAAGAAAAG-AAGAAATAA-
1 AAAAGAAAAGAAAGAAA-AAG
8268392 AAGAAGAAAA
1 AA-AAGAAAA
8268402 AATAAAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 12 0.29
19 16 0.39
20 13 0.32
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (20 bp):
AAAAGAAAAGAAAGAAAAAG
Found at i:8268393 original size:23 final size:23
Alignment explanation
Indices: 8268327--8268396 Score: 83
Period size: 22 Copynumber: 3.1 Consensus size: 23
8268317 AAGAAAGAAA
*
8268327 AAAATGAAAA-AAGAAAATAAAG
1 AAAATGAAAAGAAGAAAAAAAAG
8268349 AAAATG-AAAGAAAGAAAGAAAAAG
1 AAAATGAAAAG-AAGAAA-AAAAAG
*
8268373 AAAA-GAAAAGAAGAAATAAAAG
1 AAAATGAAAAGAAGAAAAAAAAG
8268395 AA
1 AA
8268397 GAAAAAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 3 0.07
22 13 0.31
23 13 0.31
24 13 0.31
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (23 bp):
AAAATGAAAAGAAGAAAAAAAAG
Found at i:8269890 original size:134 final size:134
Alignment explanation
Indices: 8269650--8269958 Score: 381
Period size: 134 Copynumber: 2.3 Consensus size: 134
8269640 GCAAATCGAA
* * * ** * *
8269650 CTCGATTCAATCTTCCTTGAAG-AATAGTGGAATGAATCAACATTTTCTGATCTGATTTTCCCTT
1 CTCGATTCAATCTTCCATG-AGTAACAGTGGAATGAATCAACAGTCCCTGATATGATTTTCCCTC
* * * *
8269714 AAGAAGAAGCTGAATAGATCTCTATCTTTCAAGATTTGATATTACCTAAGTAACAGTGAATCAAG
65 AAGAAGAAGCGGAATAAATCCCTATCTTTCAAGATTTGATATTACCTAAGTAACAGTGAAACAAG
8269779 TCTT-C
130 T-TTAC
*
8269784 CTCGATTCAATCCTCCATGAGTAACAGTGGAATGAATCAA-AGTCCCTAGATATGATTTTCCCTC
1 CTCGATTCAATCTTCCATGAGTAACAGTGGAATGAATCAACAGTCCCT-GATATGATTTTCCCTC
* * * * *
8269848 AAGATGAAGCGGGATAAATCCCTCTCTTTCAAGATTTGATATTCCCTAAGTGACAGTGAAACAAG
65 AAGAAGAAGCGGAATAAATCCCTATCTTTCAAGATTTGATATTACCTAAGTAACAGTGAAACAAG
8269913 TTTAC
130 TTTAC
* * * *
8269918 CTCAATTCAATCTTCCCTGAATAACAGTGGAATGAGTCAAC
1 CTCGATTCAATCTTCCATGAGTAACAGTGGAATGAATCAAC
8269959 GTTTTGCGAT
Statistics
Matches: 149, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
133 8 0.05
134 141 0.95
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (134 bp):
CTCGATTCAATCTTCCATGAGTAACAGTGGAATGAATCAACAGTCCCTGATATGATTTTCCCTCA
AGAAGAAGCGGAATAAATCCCTATCTTTCAAGATTTGATATTACCTAAGTAACAGTGAAACAAGT
TTAC
Found at i:8270147 original size:3 final size:3
Alignment explanation
Indices: 8270130--8270187 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
8270120 GAATTATAGT
* * *
8270130 TTA TCA TTA -TA TTA TTA TTA TT- TTA CTA TTA TTA TTA ATA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8270175 TT- TTA TTA TTA TT
1 TTA TTA TTA TTA TT
8270188 TTCATATTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
2 8 0.17
3 38 0.83
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8270181 original size:22 final size:23
Alignment explanation
Indices: 8270135--8270187 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
8270125 ATAGTTTATC
*
8270135 ATTA-TATTATTATTATTTTACT
1 ATTATTATTAATATTATTTTACT
*
8270157 ATTATTATTAATATTATTTT-TT
1 ATTATTATTAATATTATTTTACT
8270179 ATTATTATT
1 ATTATTATT
8270188 TTCATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTATTATTAATATTATTTTACT
Found at i:8270910 original size:11 final size:11
Alignment explanation
Indices: 8270894--8270932 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
8270884 AACTCTTTTC
8270894 AAAAGAAAAGA
1 AAAAGAAAAGA
8270905 AAAAGAAAA-A
1 AAAAGAAAAGA
8270915 AAAGAGAAAAGA
1 AAA-AGAAAAGA
*
8270927 AGAAGA
1 AAAAGA
8270933 TAGAAGAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 4 0.16
11 18 0.72
12 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:8276741 original size:3 final size:3
Alignment explanation
Indices: 8276733--8276784 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
8276723 TATTTTTAAA
*
8276733 ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8276781 ATT A
1 ATT A
8276785 AATAATAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:8276750 original size:15 final size:15
Alignment explanation
Indices: 8276722--8276784 Score: 90
Period size: 15 Copynumber: 4.2 Consensus size: 15
8276712 TTTTTTCATT
* *
8276722 TTATTTTTAAAATTA
1 TTATTATTATAATTA
8276737 TTATTATTATAATTA
1 TTATTATTATAATTA
*
8276752 TTATTATTATTATTA
1 TTATTATTATAATTA
*
8276767 TTATTATTATTATTA
1 TTATTATTATAATTA
8276782 TTA
1 TTA
8276785 AATAATAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTATTATAATTA
Found at i:8278033 original size:21 final size:20
Alignment explanation
Indices: 8278008--8278050 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
8277998 ATTATTTCTA
8278008 TTAAT-TTAGATATTTTATATT
1 TTAATCTTAGA-ATTTTA-ATT
*
8278029 TTAATCTTATAATTTTAATT
1 TTAATCTTAGAATTTTAATT
8278049 TT
1 TT
8278051 CTTTATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 11 0.55
22 4 0.20
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTAATCTTAGAATTTTAATT
Found at i:8278605 original size:3 final size:3
Alignment explanation
Indices: 8278597--8278678 Score: 118
Period size: 3 Copynumber: 28.3 Consensus size: 3
8278587 GTCTTTTTAT
*
8278597 TTA TTA TTA TTT TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8278643 TTA -TA TTA TTA TTA TTA -TA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
8278679 AATTTATTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
2 8 0.11
3 61 0.85
4 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8278620 original size:14 final size:14
Alignment explanation
Indices: 8278590--8278675 Score: 100
Period size: 14 Copynumber: 5.7 Consensus size: 14
8278580 ATGTTTTGTC
8278590 TTTTTATTTATTATTA
1 TTTTTA-TTA-TATTA
8278606 TTTTTATTATATTA
1 TTTTTATTATATTA
*
8278620 TTATTATTATTATTA
1 TTTTTATTA-TATTA
8278635 TTATATTATTATATTA
1 TT-T-TTATTATATTA
*
8278651 TTATTATTATATTA
1 TTTTTATTATATTA
8278665 TTTATTATTAT
1 TTT-TTATTAT
8278676 TATAATTTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
14 26 0.42
15 17 0.27
16 13 0.21
17 6 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTATTATATTA
Found at i:8278644 original size:40 final size:41
Alignment explanation
Indices: 8278593--8278689 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 41
8278583 TTTTGTCTTT
8278593 TTATT-TATTATTATTTTTATTA-TATTATTATTA-TTATTA
1 TTATTATATTATTATTTTTATTATTATTA-TATTATTTATTA
*
8278632 TTATTATATTATTA-TATTATTATTATTATATTATTTATTA
1 TTATTATATTATTATTTTTATTATTATTATATTATTTATTA
*
8278672 TTATTATAAT-TTATTTTT
1 TTATTATATTATTATTTTT
8278690 CTGAAATATG
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
39 20 0.39
40 31 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (41 bp):
TTATTATATTATTATTTTTATTATTATTATATTATTTATTA
Found at i:8278884 original size:2 final size:2
Alignment explanation
Indices: 8278877--8278918 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
8278867 ATCATGTTTA
*
8278877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8278919 TTACTTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8284921 original size:8 final size:8
Alignment explanation
Indices: 8284909--8284947 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
8284899 ATAAAGAAAA
8284909 AAAAAGAGG
1 AAAAA-AGG
*
8284918 AAAAAAGA
1 AAAAAAGG
8284926 AAAAAAGG
1 AAAAAAGG
8284934 AAAAAAGG
1 AAAAAAGG
8284942 AAAAAA
1 AAAAAA
8284948 TTGAATCAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
8 23 0.82
9 5 0.18
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:8284926 original size:20 final size:21
Alignment explanation
Indices: 8284891--8284931 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
8284881 ATTATGTTTG
8284891 AAGAAGAAATAAAGAAAAAAA
1 AAGAAGAAATAAAGAAAAAAA
*
8284912 AAGAGGAAA-AAAGAAAAAAA
1 AAGAAGAAATAAAGAAAAAAA
8284932 GGAAAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (21 bp):
AAGAAGAAATAAAGAAAAAAA
Found at i:8284934 original size:16 final size:18
Alignment explanation
Indices: 8284908--8284947 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
8284898 AATAAAGAAA
8284908 AAAAAAGAGGAAAAAA-G
1 AAAAAAGAGGAAAAAAGG
8284925 AAAAAA-AGGAAAAAAGG
1 AAAAAAGAGGAAAAAAGG
8284942 AAAAAA
1 AAAAAA
8284948 TTGAATCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAAGAGGAAAAAAGG
Found at i:8287630 original size:17 final size:17
Alignment explanation
Indices: 8287608--8287643 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
8287598 ATCAGCAAAT
8287608 GCTGGGGCATGCTGAAA
1 GCTGGGGCATGCTGAAA
*
8287625 GCTGGGGCATGTTGAAA
1 GCTGGGGCATGCTGAAA
8287642 GC
1 GC
8287644 CTATTTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.42, T:0.19
Consensus pattern (17 bp):
GCTGGGGCATGCTGAAA
Found at i:8287699 original size:92 final size:95
Alignment explanation
Indices: 8287527--8287714 Score: 283
Period size: 92 Copynumber: 2.0 Consensus size: 95
8287517 AAAAACAAAT
8287527 GCTGGGGCATGTTGAAAGCCTATTTCAATCAGAATCAGAATCAGAAATGTTGACGCATTTTGAAC
1 GCTGGGGCATGTTGAAAGCCTATTTCAATCAGAATC--AA-CAGAAATGTTGACGCATTTTGAAC
* * *
8287592 GTTTGTATCAGCAAATGCTGGGGCATGCTGAAA
63 ATTTATATCAACAAATGCTGGGGCATGCTGAAA
**
8287625 GCTGGGGCATGTTGAAAGCCTATTTCAATCAGAATC-A-AG-AATGTTGGTGCATTTTGAACATT
1 GCTGGGGCATGTTGAAAGCCTATTTCAATCAGAATCAACAGAAATGTTGACGCATTTTGAACATT
8287687 TATATCAACAAATGCTGGGGCATGCTGA
66 TATATCAACAAATGCTGGGGCATGCTGA
8287715 TGGCCCACAT
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
92 46 0.54
93 2 0.02
95 1 0.01
98 36 0.42
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (95 bp):
GCTGGGGCATGTTGAAAGCCTATTTCAATCAGAATCAACAGAAATGTTGACGCATTTTGAACATT
TATATCAACAAATGCTGGGGCATGCTGAAA
Found at i:8288949 original size:55 final size:54
Alignment explanation
Indices: 8288856--8289275 Score: 450
Period size: 55 Copynumber: 7.7 Consensus size: 54
8288846 AAACCCATAG
* * *
8288856 AATTCATCATGAGTTGATGAATAACCGTATAGGAACTATGTGTGAGAATCAACGA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGA-AATCCACGA
* *
8288911 AATTCATCATGAGTTAATGAATAACCGTACAGGCACTATGTGTGCAAATCAACGA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTG-AAATCCACGA
* * * * * * *
8288966 AATTCATCATTAGTTGATGAATAACTGTACATGCACTATATGTACAAATCCATGG
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGT-GAAATCCACGA
* *
8289021 AATTTATCATGAGTTGATGAATAACCGTACATGCACTATGTGTGTAAATCCAC-A
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTG-AAATCCACGA
* * * *
8289075 TAATTCATCATGAGTTGATGAATAACCATACAAGCACTATGTGTGTAACCCAC-A
1 -AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGAAATCCACGA
* * * * *
8289129 GGATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTGCAACCCATTG-
1 -AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGAAATCCA-CGA
* * ** * * * *
8289184 GATTCATCGTGAGTTGATGAATAACCGTACATACACTATATGTGCAACCCACAA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGAAATCCACGA
* * *
8289238 AATTCATCATGAGTTGATGAATTACCGTATAGGAACTA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTA
8289276 CTTGTGCGTT
Statistics
Matches: 316, Mismatches: 42, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
54 133 0.42
55 182 0.58
56 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (54 bp):
AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGAAATCCACGA
Found at i:8291816 original size:19 final size:19
Alignment explanation
Indices: 8291777--8291817 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8291767 TTGAGTTCGA
*
8291777 GGATGATAAATGGGTTCGG
1 GGATGATAAATGGGATCGG
8291796 GGATGATAAATAGGGAT-GG
1 GGATGATAAAT-GGGATCGG
8291815 GGA
1 GGA
8291818 CGAGGACAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.32, C:0.02, G:0.44, T:0.22
Consensus pattern (19 bp):
GGATGATAAATGGGATCGG
Found at i:8292003 original size:12 final size:12
Alignment explanation
Indices: 8291986--8292016 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8291976 TTAAATATAT
8291986 ATACCCGGCCCG
1 ATACCCGGCCCG
*
8291998 ATACCCGGCCTG
1 ATACCCGGCCCG
8292010 ATACCCG
1 ATACCCG
8292017 TTTAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.45, G:0.23, T:0.13
Consensus pattern (12 bp):
ATACCCGGCCCG
Found at i:8295841 original size:19 final size:19
Alignment explanation
Indices: 8295817--8295962 Score: 222
Period size: 19 Copynumber: 7.6 Consensus size: 19
8295807 TGATTTAATC
8295817 AGTATCGATACCGAAGGGG
1 AGTATCGATACCGAAGGGG
*
8295836 AGTATCGATATCGAAGGGG
1 AGTATCGATACCGAAGGGG
*
8295855 AGTATCGATATCGAAGGGG
1 AGTATCGATACCGAAGGGG
8295874 AGTATCGATACCGAAGGGG
1 AGTATCGATACCGAAGGGG
8295893 AGTATCGATACCGAAGGGG
1 AGTATCGATACCGAAGGGG
*
8295912 -GATATCAATACCGAAGGGG
1 AG-TATCGATACCGAAGGGG
* *
8295931 AGTATCAATACCGAAGGGA
1 AGTATCGATACCGAAGGGG
8295950 AGGTATCGATACC
1 A-GTATCGATACC
8295963 ATGGTATGGG
Statistics
Matches: 119, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
18 1 0.01
19 107 0.90
20 11 0.09
ACGTcount: A:0.34, C:0.15, G:0.34, T:0.18
Consensus pattern (19 bp):
AGTATCGATACCGAAGGGG
Found at i:8296387 original size:55 final size:55
Alignment explanation
Indices: 8296324--8296733 Score: 492
Period size: 55 Copynumber: 7.5 Consensus size: 55
8296314 GCACTAAATG
* * *
8296324 TTCATCATGAGTGGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAA
1 TTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTGCAAACCCACGGAA
* * * * * ***
8296379 TTCATCATGAGTTGATGAAAAACAGTACATA-CATTATGTGTACAAATCCATATAA
1 TTCATCATGAGTTGATGAATAACCGTACA-AGCACTATGTGTGCAAACCCACGGAA
** *
8296434 TTTGTCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAACCCACGGAA
1 TTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTGCAAACCCACGGAA
* *
8296489 TTCATCATGAGTTGATGGATAACCATACAAGCACTATGTGTGC-AACCCACGGAA
1 TTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTGCAAACCCACGGAA
* * * *
8296543 TTCATCATGAGTTGATGAATAACTAACTGTAGAAGCACTATATGTGCAAATCCACAGAA
1 TTCATCATGAGTTGATGAATAAC---C-GTACAAGCACTATGTGTGCAAACCCACGGAA
* * *
8296602 TTCATCACGAG-T--TGAAGAACCGTACAAGCACTATGTGTGC-AACCCACGGGA
1 TTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTGCAAACCCACGGAA
* *
8296653 TTCATCATGAGTTGATGAATAACCATACAAGCACTATGTGTGC-AACCCATGGAA
1 TTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTGCAAACCCACGGAA
*
8296707 TTCATCATGAGTTGATGAATTACCGTA
1 TTCATCATGAGTTGATGAATAACCGTA
8296734 TAGGTACTAC
Statistics
Matches: 300, Mismatches: 45, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
51 18 0.06
52 18 0.06
53 1 0.00
54 93 0.31
55 126 0.42
56 7 0.02
57 1 0.00
58 17 0.06
59 19 0.06
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (55 bp):
TTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTGCAAACCCACGGAA
Found at i:8296726 original size:164 final size:165
Alignment explanation
Indices: 8296324--8296726 Score: 548
Period size: 164 Copynumber: 2.4 Consensus size: 165
8296314 GCACTAAATG
* * * *
8296324 TTCATCATGAGTGGATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGA
1 TTCATCATGAGTTGATGAATAACCATACAAGCACTATGTGTGC-AACCCACGGAATTCATCATGA
* * * * ** *
8296389 GTTGATG-A-AAAACAGTACATACATTATGTGTACAAATCCATATAATTTGTCATGAGTTGATGA
65 GTTGATGAATAAAACAGTACATACACTATATGTACAAATCCACAGAATTCATCACGAGTT-ATGA
* *
8296452 ATAACCGTACAGGCACTATGTGTGCAAACCCACGGAA
129 AGAACCGTACAAGCACTATGTGTGCAAACCCACGGAA
*
8296489 TTCATCATGAGTTGATGGATAACCATACAAGCACTATGTGTGCAACCCACGGAATTCATCATGAG
1 TTCATCATGAGTTGATGAATAACCATACAAGCACTATGTGTGCAACCCACGGAATTCATCATGAG
* * *
8296554 TTGATGAATAACTAACTGTAGA-AGCACTATATGTGCAAATCCACAGAATTCATCACGAG-T-TG
66 TTGATGAATAA--AACAGTACATA-CACTATATGTACAAATCCACAGAATTCATCACGAGTTATG
*
8296616 AAGAACCGTACAAGCACTATGTGTGC-AACCCACGGGA
128 AAGAACCGTACAAGCACTATGTGTGCAAACCCACGGAA
*
8296653 TTCATCATGAGTTGATGAATAACCATACAAGCACTATGTGTGCAACCCATGGAATTCATCATGAG
1 TTCATCATGAGTTGATGAATAACCATACAAGCACTATGTGTGCAACCCACGGAATTCATCATGAG
8296718 TTGATGAAT
66 TTGATGAAT
8296727 TACCGTATAG
Statistics
Matches: 213, Mismatches: 20, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
164 109 0.51
165 66 0.31
166 2 0.01
167 2 0.01
168 34 0.16
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (165 bp):
TTCATCATGAGTTGATGAATAACCATACAAGCACTATGTGTGCAACCCACGGAATTCATCATGAG
TTGATGAATAAAACAGTACATACACTATATGTACAAATCCACAGAATTCATCACGAGTTATGAAG
AACCGTACAAGCACTATGTGTGCAAACCCACGGAA
Found at i:8299365 original size:3 final size:3
Alignment explanation
Indices: 8299357--8299383 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8299347 AATATATTTA
8299357 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
8299384 TAGTCATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8299630 original size:153 final size:154
Alignment explanation
Indices: 8299473--8299753 Score: 358
Period size: 154 Copynumber: 1.8 Consensus size: 154
8299463 CCTATTTATA
*
8299473 AATTTAATTT-TATAAATTACTTTTAG-GAAATATAATCATATT-TTA-ATATTTA-TTTTTAAT
1 AATTTAATTTATATAAATTA-TTTTAGAGAAATAT--T-ATATTAATATATATTTATTTTTTAAT
*** * * *
8299533 ATTAAGAAAA-GGGTTGTCTTAGAGCAACTAGAAGTCATTTTCTGATATTTTTAAATAACTAAAT
62 ATTAAGAAAATAACTT-TCTTAAAGCAACTAGAAGTCATTTTCTGATATTTCTAAATAAATAAAT
8299597 ATCATACTTTCATAAATTATATATATATT
126 ATCATACTTTCATAAATTATATATATATT
* * * *
8299626 AATTTAATTTATTTTAATTATTTTAGAGAAATATTTTATTAATATTTATTTATTTTTTAATATTA
1 AATTTAATTTATATAAATTATTTTAGAGAAATATTATATTAATATATATTTATTTTTTAATATTA
* *
8299691 AGAAAATAACTTTCTTAAAGCAACTAGAAGTCTTTTTCTGATATTTCTAAGTAAATAAATATC
66 AGAAAATAACTTTCTTAAAGCAACTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATC
8299754 TTATTTATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
151 4 0.04
152 3 0.03
153 22 0.20
154 78 0.72
155 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (154 bp):
AATTTAATTTATATAAATTATTTTAGAGAAATATTATATTAATATATATTTATTTTTTAATATTA
AGAAAATAACTTTCTTAAAGCAACTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCAT
ACTTTCATAAATTATATATATATT
Found at i:8310847 original size:6 final size:6
Alignment explanation
Indices: 8310836--8310898 Score: 53
Period size: 6 Copynumber: 10.5 Consensus size: 6
8310826 ATGCTTAAAG
8310836 AAGAAA AAG--A AAGAAA AAGAAA AA-AATA GAAGAAA AAG-AA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAA-A -AAGAAA AAGAAA AAGAAA
*
8310882 AAGTAGAA AATAAA AAG
1 AAG-A-AA AAGAAA AAG
8310899 GAGGGTCAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
4 4 0.09
5 7 0.15
6 25 0.53
7 5 0.11
8 6 0.13
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (6 bp):
AAGAAA
Found at i:8310851 original size:10 final size:10
Alignment explanation
Indices: 8310832--8310884 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
8310822 TATTATGCTT
8310832 AAAG-AAGAA
1 AAAGAAAGAA
8310841 AAAGAAAGAA
1 AAAGAAAGAA
8310851 AAAGAAA-AA
1 AAAGAAAGAA
8310860 AATAG-AAGAA
1 AA-AGAAAGAA
8310870 AAAGAAAAGAA
1 AAAG-AAAGAA
8310881 AAAG
1 AAAG
8310885 TAGAAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
9 12 0.31
10 18 0.46
11 9 0.23
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:8310856 original size:19 final size:19
Alignment explanation
Indices: 8310832--8310891 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
8310822 TATTATGCTT
8310832 AAAG-AAGAAAAAGAAAGAA
1 AAAGAAAGAAAAAG-AAGAA
8310851 AAAGAAA-AAAATAGAAGAA
1 AAAGAAAGAAAA-AGAAGAA
*
8310870 AAAGAAAAGAAAAAGTAGAA
1 AAAG-AAAGAAAAAGAAGAA
8310890 AA
1 AA
8310892 TAAAAAGGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 17 0.47
20 15 0.42
21 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (19 bp):
AAAGAAAGAAAAAGAAGAA
Found at i:8310872 original size:29 final size:30
Alignment explanation
Indices: 8310834--8310893 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
8310824 TTATGCTTAA
8310834 AGAAGAAAAAG-AAAGAAAAAGAAAAAAAT
1 AGAAGAAAAAGAAAAGAAAAAGAAAAAAAT
* *
8310863 AGAAGAAAAAGAAAAGAAAAAGTAGAAAAT
1 AGAAGAAAAAGAAAAGAAAAAGAAAAAAAT
8310893 A
1 A
8310894 AAAAGGAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (30 bp):
AGAAGAAAAAGAAAAGAAAAAGAAAAAAAT
Found at i:8310898 original size:20 final size:20
Alignment explanation
Indices: 8310836--8310891 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
8310826 ATGCTTAAAG
8310836 AAGAAAAAGAAAGAAAAAGAA
1 AAGAAAAAG-AAGAAAAAGAA
*
8310857 AA-AAATAGAAGAAAAAGAA
1 AAGAAAAAGAAGAAAAAGAA
*
8310876 AAGAAAAAGTAGAAAA
1 AAGAAAAAGAAGAAAA
8310892 TAAAAAGGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.42
20 16 0.52
21 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (20 bp):
AAGAAAAAGAAGAAAAAGAA
Found at i:8311568 original size:27 final size:27
Alignment explanation
Indices: 8311530--8311592 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
8311520 AACCAATAAT
*
8311530 TATGGTATTGAACCAATGTTGCGATCA
1 TATGGTGTTGAACCAATGTTGCGATCA
8311557 TATGGTGTTGAACCAATGTTGCGATCA
1 TATGGTGTTGAACCAATGTTGCGATCA
8311584 TATGGTGTT
1 TATGGTGTT
8311593 TCTATTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (27 bp):
TATGGTGTTGAACCAATGTTGCGATCA
Found at i:8311939 original size:22 final size:22
Alignment explanation
Indices: 8311911--8312043 Score: 203
Period size: 22 Copynumber: 6.0 Consensus size: 22
8311901 ATATCTACAT
8311911 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
8311933 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
8311955 TCTTCGAAGATGATAGGTTCTC
1 TCTTCAAAGATGATAGATTCTC
* * *
8311977 TTTTCAAAGATAATAGATTTTC
1 TCTTCAAAGATGATAGATTCTC
*
8311999 TCTTCAAAGATAATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
8312021 TCTTCAAAGATGATATATTCTC
1 TCTTCAAAGATGATAGATTCTC
8312043 T
1 T
8312044 TTTTAAAAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 100 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:8312061 original size:44 final size:44
Alignment explanation
Indices: 8311911--8312061 Score: 160
Period size: 44 Copynumber: 3.4 Consensus size: 44
8311901 ATATCTACAT
* *
8311911 TCTTCAAAGATGATAGATTCTCTCTTCAAAGATGATAGATTCTC
1 TCTTCAAAAAAGATAGATTCTCTCTTCAAAGATGATAGATTCTC
* * * * * * *
8311955 TCTTCGAAGATGATAGGTTCTCTTTTCAAAGATAATAGATTTTC
1 TCTTCAAAAAAGATAGATTCTCTCTTCAAAGATGATAGATTCTC
* *
8311999 TCTTCAAAGATA-ATAGATTCTCTCTTCAAAGATGATATATTCTC
1 TCTTCAAA-AAAGATAGATTCTCTCTTCAAAGATGATAGATTCTC
* * *
8312043 TTTTTAAAAAAGAAAGATT
1 TCTTCAAAAAAGATAGATT
8312062 TATTGGATTT
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
43 2 0.02
44 85 0.98
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (44 bp):
TCTTCAAAAAAGATAGATTCTCTCTTCAAAGATGATAGATTCTC
Found at i:8312061 original size:66 final size:66
Alignment explanation
Indices: 8311925--8312062 Score: 188
Period size: 66 Copynumber: 2.1 Consensus size: 66
8311915 CAAAGATGAT
* * * * *
8311925 AGATTCTCTCTTCAAAGATGATAGATTCTCTCTTCGAAGATGATAGGTTCTCTTTTCAAAGATAA
1 AGATTTTCTCTTCAAAGATAATAGATTCTCTCTTCAAAGATGATAGATTCTCTTTTCAAAGAAAA
*
8311990 T
66 A
* *
8311991 AGATTTTCTCTTCAAAGATAATAGATTCTCTCTTCAAAGATGATATATTCTCTTTTTAAA-AAAG
1 AGATTTTCTCTTCAAAGATAATAGATTCTCTCTTCAAAGATGATAGATTCTCTTTTCAAAGAAA-
8312055 AA
65 AA
8312057 AGATTT
1 AGATTT
8312063 ATTGGATTTC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 2 0.03
66 61 0.97
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (66 bp):
AGATTTTCTCTTCAAAGATAATAGATTCTCTCTTCAAAGATGATAGATTCTCTTTTCAAAGAAAA
A
Found at i:8312660 original size:122 final size:122
Alignment explanation
Indices: 8312444--8312891 Score: 727
Period size: 122 Copynumber: 3.7 Consensus size: 122
8312434 CACTCGATGG
* *
8312444 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAAAGAAGTTCATAA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAA
* *
8312509 TGAGAAGAATTTGTTCAACCTTTTACATGACTCTATCACAGAAGGAGATAGATCAGG
66 TGAGAAGAATTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
* * *
8312566 ATCAACATTTCTAGAAGAGTTCATAATGAGAGGAACTCATCTGAAGAATGAGAAGAAGTTCATAA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAA
* *
8312631 TGAGAAGAATTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATTATC
66 TGAGAAGAATTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
* * *
8312688 ATCAACATTTCCAGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAGAAGAAGTTCATAT
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAA
*
8312753 TGAGAAGAATTTGTTCAACCTTTTGC-TCGACTCTATCACAGAAGGAGATATATCAGC
66 TGAGAAGAATTTGTTCAACCTTTTGCAT-GACTCTATCACAGAAGGAGATAGATCAGC
* *
8312810 ATCAACATTTCCAGAGAGAGTTCATAATGAGAAGAACCCATCTGAAGAAGGAGAAGAAATTCATA
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATA
*
8312875 ATTAGAAGAATTTGTTC
65 ATGAGAAGAATTTGTTC
8312892 GAACTTGCCT
Statistics
Matches: 302, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
121 1 0.00
122 240 0.79
123 61 0.20
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (122 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAA
TGAGAAGAATTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
Done.