Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001991.1 Hibiscus syriacus cultivar Beakdansim tig00004072_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: 2373627
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 13
Found at i:1332668 original size:9 final size:9
Alignment explanation
Indices: 1332654--1332719 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
1332644 TTTGGAGGAA
1332654 GAGGAAGAG
1 GAGGAAGAG
1332663 GAGGAAGAG
1 GAGGAAGAG
1332672 GA-G--GAG
1 GAGGAAGAG
*
1332678 GAAGAAGAG
1 GAGGAAGAG
*
1332687 GAAGAAGAG
1 GAGGAAGAG
*
1332696 GAAGAGCAGATG
1 G-AG-GAAGA-G
1332708 GAGGAAGAG
1 GAGGAAGAG
1332717 GAG
1 GAG
1332720 TTGGAGGATG
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
6 5 0.10
7 1 0.02
8 1 0.02
9 28 0.58
10 5 0.10
11 6 0.12
12 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.52, T:0.02
Consensus pattern (9 bp):
GAGGAAGAG
Found at i:1332675 original size:12 final size:12
Alignment explanation
Indices: 1332660--1332697 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
1332650 GGAAGAGGAA
1332660 GAGGAGGAAGAG
1 GAGGAGGAAGAG
*
1332672 GAGGAGGAAGAA
1 GAGGAGGAAGAG
*
1332684 GAGGAAGAAGAG
1 GAGGAGGAAGAG
1332696 GA
1 GA
1332698 AGAGCAGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAGGAGGAAGAG
Found at i:1332718 original size:6 final size:6
Alignment explanation
Indices: 1332648--1332701 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
1332638 GGGTGATTTG
* * * *
1332648 GAGGAA GAGGAA GA-G-- GAGGAA GAGGAG GAGGAA GAAGAG GAAGAA
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA
1332693 GAGGAA GAG
1 GAGGAA GAG
1332702 CAGATGGAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 2 0.05
4 1 0.03
5 1 0.03
6 35 0.90
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:1332727 original size:30 final size:31
Alignment explanation
Indices: 1332646--1332718 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
1332636 TGGGGTGATT
*
1332646 TGGAGGAAGAGGAAGAGGAGGAAGAGGAGGA
1 TGGAGGAAGAGGAAGAGGAGGAAGAGCAGGA
* *
1332677 -GGAAGAAGAGGAAGAAGAGGAAGAGCA-GA
1 TGGAGGAAGAGGAAGAGGAGGAAGAGCAGGA
1332706 TGGAGGAAGAGGA
1 TGGAGGAAGAGGA
1332719 GTTGGAGGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 2 0.05
30 35 0.95
ACGTcount: A:0.45, C:0.01, G:0.51, T:0.03
Consensus pattern (31 bp):
TGGAGGAAGAGGAAGAGGAGGAAGAGCAGGA
Found at i:1337856 original size:43 final size:43
Alignment explanation
Indices: 1337795--1338066 Score: 386
Period size: 43 Copynumber: 6.3 Consensus size: 43
1337785 TTAATTACCA
* *
1337795 TTACAG-TTCCCTCAGGTCCCTTTGCTGTGTGCAATGGTAAGTC
1 TTACAGTTTCCC-CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
1337838 TTACAGTTTCCCCAGGTCCCTTTTGCTGTGTGTAAGGGTAAGCC
1 TTACAGTTTCCCCAGGTCCC-TTTGCTGTGTGCAAGGGTAAGCC
*
1337882 TTACAGTTTCTCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
1337925 TTACAGTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGATAAGCC
1 TTACAGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * * *
1337968 TTACAGTTCCCCCAGGTTCCTTTGCTGTGTGCAAAGATAAGCC
1 TTACAGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
1338011 TTACAGTTT-CCCAGGTTCTTTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1338053 TTACAGTTTCCCCA
1 TTACAGTTTCCCCA
1338067 AGCTCTTTTG
Statistics
Matches: 211, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
42 38 0.18
43 129 0.61
44 44 0.21
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (43 bp):
TTACAGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:1338077 original size:85 final size:85
Alignment explanation
Indices: 1337813--1338099 Score: 344
Period size: 86 Copynumber: 3.3 Consensus size: 85
1337803 CCCTCAGGTC
* * * * *
1337813 CCTTTGCTGTGTGCAATGGTAAGTCTTACAGTTTCCCCAGGTCCCTTTTGCTGTGTGTAAGGGTA
1 CCTTTGCTGTGTGCAAAGATAAGCCTTACAGTTT-CCCAGGT-TCTTTTGCTGTGTGCAAGGGTA
* *
1337878 AGCCTTACAGTTTCTCC-AGGT
64 AGCCTTACAGTTTCCCCAAGCT
* * * * *
1337899 CCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGATA
1 -CCTTTGCTGTGTGCAAAGATAAGCCTTACAGTT-TCCCAGGTTCTTTTGCTGTGTGCAAGGGTA
* * *
1337964 AGCCTTACAGTTCCCCCAGGTT
64 AGCCTTACAGTTTCCCCAAGCT
*
1337986 CCTTTGCTGTGTGCAAAGATAAGCCTTACAGTTTCCCAGGTTCTTTTGTTGTGTGCAAGGGTAAG
1 CCTTTGCTGTGTGCAAAGATAAGCCTTACAGTTTCCCAGGTTCTTTTGCTGTGTGCAAGGGTAAG
1338051 CCTTACAGTTTCCCCAAGCT
66 CCTTACAGTTTCCCCAAGCT
* *
1338071 CTTTTGCTATGTGC-AAGTATAAGACCTTA
1 CCTTTGCTGTGTGCAAAG-ATAAG-CCTTA
1338100 TCATTTTTGC
Statistics
Matches: 174, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
84 3 0.02
85 62 0.36
86 69 0.40
87 40 0.23
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (85 bp):
CCTTTGCTGTGTGCAAAGATAAGCCTTACAGTTTCCCAGGTTCTTTTGCTGTGTGCAAGGGTAAG
CCTTACAGTTTCCCCAAGCT
Found at i:1343906 original size:49 final size:48
Alignment explanation
Indices: 1343808--1343912 Score: 129
Period size: 49 Copynumber: 2.2 Consensus size: 48
1343798 ATAGATAACC
* * * **
1343808 AAAATTAATCAAACCAAAAATTGAAGGACAATTCAATAAATTTTTAAA
1 AAAATTAATCAAACAAAAAACTGAAGGACAATTCAAGAAATTTGGAAA
* **
1343856 AAAATTGATTCAAACAAAAAACTGAAGGACAATTCAAGCTATTTGGAAA
1 AAAATT-AATCAAACAAAAAACTGAAGGACAATTCAAGAAATTTGGAAA
1343905 AAAATTAA
1 AAAATTAA
1343913 ATGTAACTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 7 0.15
49 40 0.85
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (48 bp):
AAAATTAATCAAACAAAAAACTGAAGGACAATTCAAGAAATTTGGAAA
Found at i:1348390 original size:21 final size:21
Alignment explanation
Indices: 1348364--1348414 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
1348354 TTGCTCAGTG
1348364 GTTTCTGTTTTTGATCAATGT
1 GTTTCTGTTTTTGATCAATGT
1348385 GTTTCTGTTTTTGATCAATGT
1 GTTTCTGTTTTTGATCAATGT
1348406 GTTTCTGTT
1 GTTTCTGTT
1348415 AGATGTGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.12, C:0.10, G:0.20, T:0.59
Consensus pattern (21 bp):
GTTTCTGTTTTTGATCAATGT
Found at i:1358194 original size:20 final size:21
Alignment explanation
Indices: 1358146--1358196 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1358136 AATACTCCAT
*
1358146 TATCGATACTTACCCATGAAG
1 TATCGATACTGACCCATGAAG
*
1358167 TATTGATACTGGA-CCATG-AG
1 TATCGATACT-GACCCATGAAG
1358187 TATCGATACT
1 TATCGATACT
1358197 TTTTTAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 11 0.42
21 14 0.54
22 1 0.04
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (21 bp):
TATCGATACTGACCCATGAAG
Found at i:1359489 original size:136 final size:137
Alignment explanation
Indices: 1359313--1359573 Score: 377
Period size: 136 Copynumber: 1.9 Consensus size: 137
1359303 TTTAGTAAAA
*
1359313 AAAAAGTAAGAATTGAAGTTACATAAGTATTCTATTGTGGTGTATGAGCATGTGGTTCAAATTTG
1 AAAAAGTAAGAATTGAAGTTACATAAGTATTCTATGGTGGTGTATGAGCATGTGGTTCAAATTTG
* * *
1359378 ATAAAAATGGACTTGAAATAAAGGATGAATT-TAAGAAAT-AAGAAAATTATGAAAAATTAAAAA
66 ATAAAAATAGACTTGAAATAAAGGATGAATTGAAAAAAATAAAG-AAATTAT-AAAAATTAAAAA
1359441 TTTGTTATC
129 TTTGTTATC
* * * *
1359450 AAAAAG-AGGAATTGAAAG-TACATATGTATTCTATGGTGGTTTATGAGCATGTGGTTCGAATTT
1 AAAAAGTAAGAATTG-AAGTTACATAAGTATTCTATGGTGGTGTATGAGCATGTGGTTCAAATTT
* *
1359513 GGTAAAAATAGATTTGAAATAAAGGATGAATTGAAAAAAATAAAGAAATTATAAAAATTAA
65 GATAAAAATAGACTTGAAATAAAGGATGAATTGAAAAAAATAAAGAAATTATAAAAATTAA
1359574 GGGACTAAAT
Statistics
Matches: 111, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
136 86 0.77
137 22 0.20
138 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (137 bp):
AAAAAGTAAGAATTGAAGTTACATAAGTATTCTATGGTGGTGTATGAGCATGTGGTTCAAATTTG
ATAAAAATAGACTTGAAATAAAGGATGAATTGAAAAAAATAAAGAAATTATAAAAATTAAAAATT
TGTTATC
Found at i:1363590 original size:22 final size:22
Alignment explanation
Indices: 1363562--1363769 Score: 317
Period size: 22 Copynumber: 9.5 Consensus size: 22
1363552 TAATAATTTT
*
1363562 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
1363584 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1363606 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
1363628 TTTTAAAATAAATCAAGCTATA
1 TTTTAAAATAAATCAATCCATA
*
1363650 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATCCATA
*
1363672 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
*
1363694 TTTTTAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1363716 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATCCATA
*** *
1363738 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
1363760 TTTTAAAATA
1 TTTTAAAATA
1363770 GATTTAAATA
Statistics
Matches: 170, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 170 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:1366695 original size:12 final size:12
Alignment explanation
Indices: 1366678--1366703 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1366668 GGAAGTCTTT
1366678 ACCAGGGAAGAA
1 ACCAGGGAAGAA
1366690 ACCAGGGAAGAA
1 ACCAGGGAAGAA
1366702 AC
1 AC
1366704 GGACCGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.19, G:0.31, T:0.00
Consensus pattern (12 bp):
ACCAGGGAAGAA
Found at i:1370212 original size:29 final size:29
Alignment explanation
Indices: 1370179--1370234 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1370169 TTTAAATATT
* * *
1370179 ACATATCATTATTAAATATTGATAAAAAA
1 ACATATCATCACTAAATATTAATAAAAAA
*
1370208 ACATATCATCACTATATATTAATAAAA
1 ACATATCATCACTAAATATTAATAAAA
1370235 TAAGTTAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.34
Consensus pattern (29 bp):
ACATATCATCACTAAATATTAATAAAAAA
Found at i:1380383 original size:22 final size:22
Alignment explanation
Indices: 1380338--1380396 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
1380328 GTCTACGCGA
*
1380338 TCCTTCGGGACATATACAGTGG
1 TCCTTCGGGACAAATACAGTGG
*
1380360 TCCTTCAGGACAAATACA-TAGG
1 TCCTTCGGGACAAATACAGT-GG
*
1380382 TCATTCGGGACAAAT
1 TCCTTCGGGACAAAT
1380397 TTGATATGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 1 0.03
22 31 0.97
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (22 bp):
TCCTTCGGGACAAATACAGTGG
Found at i:1381225 original size:13 final size:14
Alignment explanation
Indices: 1381207--1381235 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1381197 TTTTAAACGC
1381207 ATAAATGTA-AATG
1 ATAAATGTATAATG
1381220 ATAAATGTATAATG
1 ATAAATGTATAATG
1381234 AT
1 AT
1381236 GAACGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAAATGTATAATG
Found at i:1386997 original size:12 final size:11
Alignment explanation
Indices: 1386975--1387007 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
1386965 AAAACCCACT
1386975 AAAAATGAAAA
1 AAAAATGAAAA
*
1386986 AAAATTGAAAA
1 AAAAATGAAAA
1386997 AAAAATGAAAA
1 AAAAATGAAAA
1387008 GAATGAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (11 bp):
AAAAATGAAAA
Found at i:1390355 original size:24 final size:23
Alignment explanation
Indices: 1390276--1390386 Score: 107
Period size: 23 Copynumber: 4.8 Consensus size: 23
1390266 AGAATATACA
* *
1390276 CCGAAGTG-CCACGTAGAAATGTT
1 CCGAAG-GACCACGTAGAATTGTC
* * *
1390299 TCGAAAGACCACGTAGAAATGTC
1 CCGAAGGACCACGTAGAATTGTC
* *
1390322 CTGAAGGACCGCGTAGAATTTGTC
1 CCGAAGGACCACGTAGAA-TTGTC
* *
1390346 CCGAATGACCACATAGAATTGTC
1 CCGAAGGACCACGTAGAATTGTC
*
1390369 CCGAAGGACCACATAGAA
1 CCGAAGGACCACGTAGAA
1390387 CCCTCGACTC
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
22 1 0.01
23 54 0.74
24 18 0.25
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (23 bp):
CCGAAGGACCACGTAGAATTGTC
Found at i:1390626 original size:63 final size:63
Alignment explanation
Indices: 1390527--1390653 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
1390517 TAAAATCCAA
1390527 ACAGTGCATGTACGTGTAGTAATAGAATCAAAACCATGCTTATATTCATTTAAACATGTATTC
1 ACAGTGCATGTACGTGTAGTAATAGAATCAAAACCATGCTTATATTCATTTAAACATGTATTC
1390590 ACAGTGCATGTACGTGTAGTAATAGAATCAAAACCATGCTTATATTCATTTAAACATGTATTC
1 ACAGTGCATGTACGTGTAGTAATAGAATCAAAACCATGCTTATATTCATTTAAACATGTATTC
1390653 A
1 A
1390654 TAACATTTAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (63 bp):
ACAGTGCATGTACGTGTAGTAATAGAATCAAAACCATGCTTATATTCATTTAAACATGTATTC
Found at i:1392159 original size:23 final size:20
Alignment explanation
Indices: 1392106--1392184 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
1392096 TCGAAATGGA
1392106 GTGCATGGATGCACTACATG
1 GTGCATGGATGCACTACATG
*
1392126 GTGCATCGATGCACTAGTGGCA-G
1 GTGCATGGATGCACTA----CATG
* *
1392149 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTACA-TG
*
1392170 GTGTATGGATGCACT
1 GTGCATGGATGCACT
1392185 TTGACACCCT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.04
20 15 0.31
21 15 0.31
23 15 0.31
24 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (20 bp):
GTGCATGGATGCACTACATG
Found at i:1393596 original size:19 final size:20
Alignment explanation
Indices: 1393553--1393600 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1393543 TCTAAATCCT
*
1393553 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
1393573 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
1393592 TTTTCAAAA
1 TTTTCAAAA
1393601 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:1394911 original size:20 final size:20
Alignment explanation
Indices: 1394886--1394940 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1394876 TTGCAGCCTT
1394886 GGTGCATGGATGCACAGCAG
1 GGTGCATGGATGCACAGCAG
1394906 GGTGCATGGATGCACAGCAG
1 GGTGCATGGATGCACAGCAG
*
1394926 GGTGCATTGATGCAC
1 GGTGCATGGATGCAC
1394941 TAATTGCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.38, T:0.18
Consensus pattern (20 bp):
GGTGCATGGATGCACAGCAG
Found at i:1399032 original size:25 final size:25
Alignment explanation
Indices: 1399003--1399052 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1398993 ACTAAACAAG
* * *
1399003 TCATAGTCCAGTAAATCTCATAAAA
1 TCATACTCCAATAAATCCCATAAAA
*
1399028 TCATACTGCAATAAATCCCATAAAA
1 TCATACTCCAATAAATCCCATAAAA
1399053 GAATTACCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (25 bp):
TCATACTCCAATAAATCCCATAAAA
Found at i:1399179 original size:31 final size:32
Alignment explanation
Indices: 1399108--1399192 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 32
1399098 ATAGATTTCG
* *
1399108 GGGCCGTAGGGCCTACCTAAGAACACATCTTA
1 GGGCCGCAGGGCCTACCTAAGAACACATCTCA
* * **
1399140 AGGCCGCAGGGCCTACCTGAGAA-TGATCTCA
1 GGGCCGCAGGGCCTACCTAAGAACACATCTCA
*
1399171 GGGCCGCAGAGCCTACCTAAGA
1 GGGCCGCAGGGCCTACCTAAGA
1399193 GTCACATTAG
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 24 0.55
32 20 0.45
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.15
Consensus pattern (32 bp):
GGGCCGCAGGGCCTACCTAAGAACACATCTCA
Found at i:1400118 original size:29 final size:29
Alignment explanation
Indices: 1400081--1400263 Score: 173
Period size: 29 Copynumber: 6.5 Consensus size: 29
1400071 CAGTTAACTT
* * *
1400081 TTACGAAAATAGCACCTTTTTTAAACTAA
1 TTACAAAAATATCACCTTTTTTAAAATAA
* * * *
1400110 TTACAAAAATAACATCTTTTTAAAAATAT
1 TTACAAAAATATCACCTTTTTTAAAATAA
* *
1400139 TTACAAAAATATCA--ATTTTTACAAAAAA
1 TTACAAAAATATCACCTTTTTTA-AAATAA
*
1400167 TTACAAAAATATCA-C--TTTTACAA-AA
1 TTACAAAAATATCACCTTTTTTAAAATAA
**
1400192 TTATGAAAATATCACC-TTTTTAAAATAA
1 TTACAAAAATATCACCTTTTTTAAAATAA
* * *
1400220 TTACGAATATATCACCTTTTTCAAAATAA
1 TTACAAAAATATCACCTTTTTTAAAATAA
1400249 TTACAAAAATATCAC
1 TTACAAAAATATCAC
1400264 TGGGTCGGGT
Statistics
Matches: 128, Mismatches: 20, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
25 14 0.11
26 3 0.02
27 17 0.13
28 34 0.27
29 60 0.47
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (29 bp):
TTACAAAAATATCACCTTTTTTAAAATAA
Found at i:1400200 original size:25 final size:26
Alignment explanation
Indices: 1400081--1400246 Score: 102
Period size: 28 Copynumber: 6.0 Consensus size: 26
1400071 CAGTTAACTT
*
1400081 TTACGAAAATAGCACCTTTTTTA-AACTAA
1 TTACGAAAATATCACC--TTTTACAA--AA
* * * *
1400110 TTACAAAAATAACATCTTTTTAAAAATA
1 TTACGAAAATATCA-CCTTTTACAAA-A
* **
1400138 TTTACAAAAATATCAATTTTTACAAAAAA
1 -TTACGAAAATATCACCTTTTAC--AAAA
*
1400167 TTACAAAAATATCA-CTTTTACAAAA
1 TTACGAAAATATCACCTTTTACAAAA
* *
1400192 TTATGAAAATATCACCTTTTTAAAATAA
1 TTACGAAAATATCACC-TTTTACAA-AA
* *
1400220 TTACGAATATATCACCTTTTTCAAAA
1 TTACGAAAATATCACCTTTTACAAAA
1400246 T
1 T
1400247 AATTACAAAA
Statistics
Matches: 114, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
25 16 0.14
26 4 0.04
27 20 0.18
28 42 0.37
29 28 0.25
30 4 0.04
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (26 bp):
TTACGAAAATATCACCTTTTACAAAA
Found at i:1401848 original size:6 final size:6
Alignment explanation
Indices: 1401834--1401864 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1401824 TCAGCTCGGC
*
1401834 TCGTAG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1401865 AATACGTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.03, C:0.16, G:0.45, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:1402658 original size:6 final size:6
Alignment explanation
Indices: 1402640--1402678 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
1402630 TCGGCTCGGC
* *
1402640 TCGTGG TCTTGG TCGTGG TCGTAG TCGTGG TCGTGG TCG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCG
1402679 GGTAATGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.03, C:0.18, G:0.44, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:1402900 original size:24 final size:24
Alignment explanation
Indices: 1402873--1402921 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1402863 TATTTCCTAA
1402873 ATTAAATCAGAAACGTTAAGATGT
1 ATTAAATCAGAAACGTTAAGATGT
1402897 ATTAAATCAGAAACGTTAAGATGT
1 ATTAAATCAGAAACGTTAAGATGT
1402921 A
1 A
1402922 CCTGGACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (24 bp):
ATTAAATCAGAAACGTTAAGATGT
Found at i:1407726 original size:15 final size:15
Alignment explanation
Indices: 1407708--1407741 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1407698 CTCGTCTCGT
*
1407708 CTCGGCTCGGCACGG
1 CTCGGCTCGGCACAG
1407723 CTCGGCTCGGCACAG
1 CTCGGCTCGGCACAG
1407738 CTCG
1 CTCG
1407742 TGGTCGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.41, G:0.35, T:0.15
Consensus pattern (15 bp):
CTCGGCTCGGCACAG
Found at i:1407750 original size:6 final size:6
Alignment explanation
Indices: 1407739--1407763 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1407729 TCGGCACAGC
1407739 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
1407764 AATGGTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:1409612 original size:28 final size:28
Alignment explanation
Indices: 1409557--1409615 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
1409547 TGAAGTTTTT
* * *
1409557 AAAAAATATATTAAATTTATTAAAATTA
1 AAAAAATAAATTAAAATTATAAAAATTA
1409585 AAAAAATAAATTAAAATTA-AAAACATTA
1 AAAAAATAAATTAAAATTATAAAA-ATTA
1409613 AAA
1 AAA
1409616 TTTATAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAAATAAATTAAAATTATAAAAATTA
Found at i:1409758 original size:21 final size:20
Alignment explanation
Indices: 1409717--1409759 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1409707 TCTTAGGTTG
*
1409717 TTGGGTCGAGTTGAGCTTAA
1 TTGGGTCGAGTTGAGCCTAA
1409737 TTGGGTC-AGTTCAGAGCCTAA
1 TTGGGTCGAGTT--GAGCCTAA
1409758 TT
1 TT
1409760 AGCCCAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 9 0.45
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (20 bp):
TTGGGTCGAGTTGAGCCTAA
Found at i:1412567 original size:2 final size:2
Alignment explanation
Indices: 1412562--1412588 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1412552 CATATATGAA
1412562 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1412589 AATAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1412943 original size:28 final size:29
Alignment explanation
Indices: 1412912--1412966 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
1412902 GTAAAAAACT
* *
1412912 TAAAAACATATTAAAATTTA-TAAAATGA
1 TAAAAAAATATTAAAATTAATTAAAATGA
*
1412940 TAAAAAAATATTGAAATTAATTAAAAT
1 TAAAAAAATATTAAAATTAATTAAAAT
1412967 TTAACTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (29 bp):
TAAAAAAATATTAAAATTAATTAAAATGA
Found at i:1413371 original size:20 final size:19
Alignment explanation
Indices: 1413346--1413399 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1413336 GCGAAATAAA
1413346 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
1413366 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
1413386 AATCGCAACGCGAT
1 AATCGCAACGCGAT
1413400 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:1413410 original size:21 final size:20
Alignment explanation
Indices: 1413386--1413503 Score: 89
Period size: 20 Copynumber: 5.8 Consensus size: 20
1413376 CAGTTCCCAG
1413386 AATCGCAACGCGATTATGAA
1 AATCGCAACGCGATTATGAA
*
1413406 GAATCGCAATGCGA-TA-GTACA
1 -AATCGCAACGCGATTATG-A-A
* ** *
1413427 AATTTGCATTGCGATTTTGGAA
1 AA-TCGCAACGCGATTAT-GAA
*
1413449 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGATTATGAA
**
1413469 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGATTATGA-A
1413489 AATCGCAACGCGATT
1 AATCGCAACGCGATT
1413504 CTGACTATCG
Statistics
Matches: 78, Mismatches: 12, Indels: 15
0.74 0.11 0.14
Matches are distributed among these distances:
19 2 0.03
20 38 0.49
21 32 0.41
22 4 0.05
23 1 0.01
24 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (20 bp):
AATCGCAACGCGATTATGAA
Found at i:1413471 original size:20 final size:20
Alignment explanation
Indices: 1413446--1413683 Score: 155
Period size: 20 Copynumber: 11.8 Consensus size: 20
1413436 TGCGATTTTG
*
1413446 GAAAATCGCAACGCGAATAT
1 GAAAATCGCAACGCGAATAC
*
1413466 GAAAATCGCAACGCGAACA-
1 GAAAATCGCAACGCGAATAC
* *
1413485 TATAAATCGCAACGCG-ATTC
1 GA-AAATCGCAACGCGAATAC
** * * * *
1413505 TGACTATCGTAACGAGTATCC
1 -GAAAATCGCAACGCGAATAC
*
1413526 GTAAAATCGCAACGCGTAT-C
1 G-AAAATCGCAACGCGAATAC
*
1413546 CATAAATCGCAACGAC-AATAC
1 GA-AAATCGCAACG-CGAATAC
1413567 GTAAAATCGCAACGAC-AATAC
1 G-AAAATCGCAACG-CGAATAC
* *
1413588 GTAAATCGCAACGCGTAT-C
1 GAAAATCGCAACGCGAATAC
* *
1413607 TGTAAATCGCAACGAGAATAC
1 -GAAAATCGCAACGCGAATAC
* * * *
1413628 GTAAATCGCAATGCGTATCC
1 GAAAATCGCAACGCGAATAC
* *
1413648 GTAAATCGCAATGCGAATAC
1 GAAAATCGCAACGCGAATAC
*
1413668 GTAAATCGCAACGCGA
1 GAAAATCGCAACGCGA
1413684 TTTTTAAAGC
Statistics
Matches: 178, Mismatches: 28, Indels: 24
0.77 0.12 0.10
Matches are distributed among these distances:
19 5 0.03
20 133 0.75
21 39 0.22
22 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (20 bp):
GAAAATCGCAACGCGAATAC
Found at i:1413560 original size:41 final size:40
Alignment explanation
Indices: 1413448--1413680 Score: 195
Period size: 40 Copynumber: 5.8 Consensus size: 40
1413438 CGATTTTGGA
* * * * **
1413448 AAATCGCAACGCGAATATGAAAATCGCAACGCG-AACATAT
1 AAATCGCAACGCGAATACGTAAATCGCAACGAGTATC-CGT
* * *
1413488 AAATCGCAACGCG-ATTC-TGACTATCGTAACGAGTATCCGT
1 AAATCGCAACGCGAATACGT-A-AATCGCAACGAGTATCCGT
* * * ** *
1413528 AAAATCGCAACGCGTATCCATAAATCGCAACGACAATACGT
1 -AAATCGCAACGCGAATACGTAAATCGCAACGAGTATCCGT
* *
1413569 AAAATCGCAACGAC-AATACGTAAATCGCAACGCGTATCTGT
1 -AAATCGCAACG-CGAATACGTAAATCGCAACGAGTATCCGT
* * *
1413610 AAATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATACGTAAATCGCAACGAGTATCCGT
*
1413650 AAATCGCAATGCGAATACGTAAATCGCAACG
1 AAATCGCAACGCGAATACGTAAATCGCAACG
1413681 CGATTTTTAA
Statistics
Matches: 156, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
39 3 0.02
40 87 0.56
41 60 0.38
42 5 0.03
43 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (40 bp):
AAATCGCAACGCGAATACGTAAATCGCAACGAGTATCCGT
Found at i:1413594 original size:61 final size:60
Alignment explanation
Indices: 1413529--1413680 Score: 198
Period size: 60 Copynumber: 2.5 Consensus size: 60
1413519 AGTATCCGTA
*
1413529 AAATCGCAACGCGTATCCATAAATCGCAACGACAATACGTAAAATCGCAACGAC-AATACGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT-AAATCGCAACG-CGAATACGT
* * * * *
1413590 AAATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAATCGCAACGCGAATACGT
* * *
1413650 AAATCGCAATGCGAATACGTAAATCGCAACG
1 AAATCGCAACGCGTATCCGTAAATCGCAACG
1413681 CGATTTTTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
59 1 0.01
60 42 0.52
61 37 0.46
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAATCGCAACGCGAATACGT
Found at i:1414246 original size:20 final size:19
Alignment explanation
Indices: 1414221--1414292 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
1414211 TTCTAAACTT
*
1414221 AAAATCGTAACATGAAAATG
1 AAAATCGCAACA-GAAAATG
1414241 AAAATCGCAACACGAAAATG
1 AAAATCGCAACA-GAAAATG
**
1414261 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC-AGA-AAATG
1414282 AAAATCGCAAC
1 AAAATCGCAAC
1414293 GAGAGAATCG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 29 0.66
21 15 0.34
ACGTcount: A:0.51, C:0.18, G:0.17, T:0.14
Consensus pattern (19 bp):
AAAATCGCAACAGAAAATG
Found at i:1414282 original size:21 final size:21
Alignment explanation
Indices: 1414236--1414299 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
1414226 CGTAACATGA
1414236 AAATGAAAATCGCAAC-ACGA-
1 AAATGAAAATCGCAACGA-GAG
**
1414256 AAATGACTATCGCAACGAGAG
1 AAATGAAAATCGCAACGAGAG
1414277 AAATGAAAATCGCAACGAGAG
1 AAATGAAAATCGCAACGAGAG
1414298 AA
1 AA
1414300 TCGCAACGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.52, C:0.17, G:0.20, T:0.11
Consensus pattern (21 bp):
AAATGAAAATCGCAACGAGAG
Found at i:1414317 original size:33 final size:33
Alignment explanation
Indices: 1414276--1414356 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
1414266 CGCAACGAGA
*
1414276 GAAATGAAAATCGCAACGAGAGAATCGCAACGT
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
1414309 GAAATGAAAATCACAACGAGATAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
1414342 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
1414357 TTGCGATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.48, C:0.21, G:0.20, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1414374 original size:19 final size:19
Alignment explanation
Indices: 1414352--1414469 Score: 137
Period size: 19 Copynumber: 6.1 Consensus size: 19
1414342 GAAACCAAAA
* *
1414352 TCGCATTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
*
1414371 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
**
1414390 TCTTGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1414409 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
1414428 TCCGCGTTGCGATTTTTATT
1 T-CGCGTTGCGATTTTCATT
*
1414448 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1414468 TC
1 TC
1414470 AACCAAAAGA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
19 52 0.62
20 31 0.37
21 1 0.01
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.48
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1416320 original size:94 final size:94
Alignment explanation
Indices: 1416157--1416536 Score: 622
Period size: 94 Copynumber: 4.1 Consensus size: 94
1416147 TAGATTGCTT
* *
1416157 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1416222 ATTTGTCTTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
* *
1416252 A-TAAATTTATTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAACACTATGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
1416316 ATTTGTCTTTGTTTTGTCTTTTTTGTTGAA
66 ATTTGTCTTTGTTTTGTC-TTTTGGTTGAA
*
1416346 AGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1416410 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * * *
1416439 AGTAAATTTGTTCGATAGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1416504 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1416532 AGTAA
1 AGTAA
1416537 TGCAATCCAT
Statistics
Matches: 269, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
93 30 0.11
94 237 0.88
95 2 0.01
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1416666 original size:33 final size:33
Alignment explanation
Indices: 1416624--1416717 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
1416614 AAAAATGACT
*
1416624 ATCGCAACGCGAAATGAAATTCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
1416657 ATCGCAACGCGAAATGAAAATCGCAATGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
1416690 ATCGTAACGCGAAATGAAAATCGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
1416718 CGAAACTATA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:1416732 original size:19 final size:19
Alignment explanation
Indices: 1416584--1416722 Score: 91
Period size: 19 Copynumber: 7.7 Consensus size: 19
1416574 TAGTTGACTT
* *
1416584 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
1416604 TCGCAACGTGAAAAATGACTA
1 TCGCAACGCG--AAATGAAAA
*
1416625 TCGCAACGCGAAATGAAAT
1 TCGCAACGCGAAATGAAAA
*
1416644 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
1416658 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
1416677 TCGCAA--TG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
*
1416691 TCGTAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1416710 TCGCAACGCGAAA
1 TCGCAACGCGAAA
1416723 CTATAATCGC
Statistics
Matches: 89, Mismatches: 18, Indels: 25
0.67 0.14 0.19
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 3 0.03
17 3 0.03
18 2 0.02
19 38 0.43
20 8 0.09
21 12 0.13
22 3 0.03
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1418140 original size:21 final size:20
Alignment explanation
Indices: 1418081--1418141 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
1418071 CTCGAGAGTC
*
1418081 CCCTCCCACCGTTCAAGAGG
1 CCCTCTCACCGTTCAAGAGG
* * *
1418101 CCACTGTCATCGTTGAAGAGG
1 CC-CTCTCACCGTTCAAGAGG
*
1418122 TCCCTCTCACCATTCAAGAG
1 -CCCTCTCACCGTTCAAGAG
1418142 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.21
Consensus pattern (20 bp):
CCCTCTCACCGTTCAAGAGG
Found at i:1418378 original size:36 final size:36
Alignment explanation
Indices: 1418331--1418402 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
1418321 ATTTTTATCT
1418331 ACATGAGCGGAGCCAGAGGTGTTTCACTGACATATG
1 ACATGAGCGGAGCCAGAGGTGTTTCACTGACATATG
1418367 ACATGAGCGGAGCCAGAGGTGTTTCACTGACATATG
1 ACATGAGCGGAGCCAGAGGTGTTTCACTGACATATG
1418403 CAAGCTCAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (36 bp):
ACATGAGCGGAGCCAGAGGTGTTTCACTGACATATG
Found at i:1419546 original size:14 final size:14
Alignment explanation
Indices: 1419527--1419562 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1419517 ATTGTTTAAT
1419527 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1419541 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1419555 TGATTTGT
1 TGATTTGT
1419563 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1419691 original size:19 final size:19
Alignment explanation
Indices: 1419669--1419734 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
1419659 AAAAATGACT
*
1419669 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
1419688 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
1419702 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
1419721 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1419735 CTAAATTCGC
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 23 0.59
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:1419735 original size:19 final size:19
Alignment explanation
Indices: 1419701--1419744 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
1419691 GCAACGAGAG
1419701 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
1419720 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
1419739 ATTCGC
1 AATCGC
1419745 GTTGTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.43, C:0.27, G:0.16, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:1419787 original size:33 final size:33
Alignment explanation
Indices: 1419744--1419837 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
1419734 ACTAAATTCG
*
1419744 CGTTGTGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
1419777 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
1419810 CGTTGCGATTTTCATTTTGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1419838 AGTCATTTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:1419853 original size:39 final size:34
Alignment explanation
Indices: 1419742--1419862 Score: 147
Period size: 33 Copynumber: 3.5 Consensus size: 34
1419732 AAACTAAATT
*
1419742 CGCGTTGTGATTTTCATTTCGCATTGCGATTC-C
1 CGCGTTGCGATTTTCATTTCGCATTGCGATTCTC
*
1419775 CTCGTTGCGATTTTCATTTCGCATTGCGATTCT-
1 CGCGTTGCGATTTTCATTTCGCATTGCGATTCTC
* *
1419808 CTCGTTGCGATTTTCATTTTGCATTGCGATAGTCATTTC
1 CGCGTTGCGATTTTCATTTCGCATTGCGAT--TC---TC
1419847 CGCGTTGCGATTTTCA
1 CGCGTTGCGATTTTCA
1419863 CGTTGCGATT
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
33 59 0.77
35 2 0.03
38 1 0.01
39 15 0.19
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (34 bp):
CGCGTTGCGATTTTCATTTCGCATTGCGATTCTC
Found at i:1419868 original size:53 final size:52
Alignment explanation
Indices: 1419779--1419890 Score: 170
Period size: 53 Copynumber: 2.1 Consensus size: 52
1419769 GATTCCCTCG
** *
1419779 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTTGCA
1 TTGCGATAGTCATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTTGCA
* *
1419831 TTGCGATAGTCATTTCCGCGTTGCGATTTTCACGTTGCGATTTTCATTTTGCA
1 TTGCGATAGTCATTT-CGCATTGCGATTCTCACGTTGCGATTTTCATTTTGCA
1419884 TTGCGAT
1 TTGCGAT
1419891 TCTCTCGTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 13 0.24
53 41 0.76
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.46
Consensus pattern (52 bp):
TTGCGATAGTCATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTTGCA
Found at i:1419882 original size:14 final size:14
Alignment explanation
Indices: 1419849--1419876 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1419839 GTCATTTCCG
1419849 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
1419863 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
1419877 TTTTGCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:1419970 original size:20 final size:20
Alignment explanation
Indices: 1419897--1419970 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
1419887 CGATTCTCTC
* *
1419897 GTTGCGATAGTAATTTCCGC
1 GTTGCGATAGTCATTTCCGT
* **
1419917 GTTGCGATAGACA-TTAAGAT
1 GTTGCGATAGTCATTTCCG-T
1419937 GATTGCGA-ACGTCATTTCCGT
1 G-TTGCGATA-GTCATTTCCGT
1419958 GTTGCGATAGTCA
1 GTTGCGATAGTCA
1419971 AATGAATGCC
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.07
20 23 0.56
21 12 0.29
22 3 0.07
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:1422442 original size:24 final size:24
Alignment explanation
Indices: 1422408--1422461 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1422398 CTGAAAAATC
1422408 ATCAAAATCCGAGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* * *
1422432 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
1422456 ATCAAA
1 ATCAAA
1422462 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:1423345 original size:20 final size:20
Alignment explanation
Indices: 1423322--1423478 Score: 163
Period size: 20 Copynumber: 7.8 Consensus size: 20
1423312 CAGAATCTCG
*
1423322 TTGCGATTTACAG-ATTTGCA
1 TTGCGATTTAC-GTATTCGCA
1423342 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* * *
1423362 TTGCGATTTATGGATACGCA
1 TTGCGATTTACGTATTCGCA
* *
1423382 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTCGCA
* *
1423402 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTCGCA
* * *
1423422 TTGCGATTTACATATACGCG
1 TTGCGATTTACGTATTCGCA
* * *
1423442 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGTATTCGCA
1423462 TTGCGATTTTACGTATT
1 TTGCGA-TTTACGTATT
1423479 GTTGTTGCGA
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
19 1 0.01
20 110 0.92
21 8 0.07
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:1423383 original size:40 final size:40
Alignment explanation
Indices: 1423320--1423509 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
1423310 GTCAGAATCT
* ** *
1423320 CGTTGCGATTTACAGATTTGCATTGCGATTTACGTATTCG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCG
* * * *
1423360 CATTGCGATTTATGGATACGCATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCG
* * * * *
1423400 CGTTGCGATTTACGTATTCTCGTTGCGATTTACATATACG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCG
1423440 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATT-G
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCG
* *
1423480 TTGTTGCGATTTACGGATACTCGTTGCGAT
1 -CGTTGCGATTTACGGATACGCGTTGCGAT
1423510 AGTCAGAATC
Statistics
Matches: 126, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 92 0.73
41 34 0.27
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.39
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCG
Found at i:1423389 original size:60 final size:59
Alignment explanation
Indices: 1423320--1423509 Score: 213
Period size: 60 Copynumber: 3.2 Consensus size: 59
1423310 GTCAGAATCT
* * *
1423320 CGTTGCGATTTACAGATTTGCATTGCGATTTACGTATTCGCATTGCGATTTATGGATACG
1 CGTTGCGATTTAC-GATTTGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGGATACG
* * **
1423380 CATTGCGATTTACGTATTCT-CGTTGCGATTTACGTATTCTCGTTGCGATTTACATATACG
1 CGTTGCGATTTACG-ATT-TGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGGATACG
** * *
1423440 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATT-GTTGTTGCGATTTACGGATACT
1 CGTTGCGATTTAC-GATTTGCGTTGCGA-TTTACGTATTCG-CGTTGCGATTTACGGATACG
1423501 CGTTGCGAT
1 CGTTGCGAT
1423510 AGTCAGAATC
Statistics
Matches: 109, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
59 1 0.01
60 71 0.65
61 37 0.34
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.39
Consensus pattern (59 bp):
CGTTGCGATTTACGATTTGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGGATACG
Found at i:1423494 original size:20 final size:20
Alignment explanation
Indices: 1423319--1423509 Score: 133
Period size: 20 Copynumber: 9.5 Consensus size: 20
1423309 AGTCAGAATC
1423319 TCGTTGCGATTTACAG-ATT-
1 TCGTTGCGATTTAC-GTATTG
*
1423338 TGCATTGCGATTTACGTATTCG
1 T-CGTTGCGATTTACGTATT-G
* * * *
1423360 -CATTGCGATTTATGGATACG
1 TCGTTGCGATTTACGTAT-TG
* *
1423380 -CATTGCGATTTACGTATTC
1 TCGTTGCGATTTACGTATTG
*
1423399 TCGTTGCGATTTACGTATTC
1 TCGTTGCGATTTACGTATTG
* *
1423419 TCGTTGCGATTTACATATACG
1 TCGTTGCGATTTACGTAT-TG
* *
1423440 -CGTTGCGATTTACGGATACG
1 TCGTTGCGATTTACGTAT-TG
1423460 -CGTTGCGATTTTACGTATTG
1 TCGTTGCGA-TTTACGTATTG
* * **
1423480 TTGTTGCGATTTACGGATAC
1 TCGTTGCGATTTACGTATTG
1423500 TCGTTGCGAT
1 TCGTTGCGAT
1423510 AGTCAGAATC
Statistics
Matches: 142, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.01
20 125 0.88
21 15 0.11
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (20 bp):
TCGTTGCGATTTACGTATTG
Found at i:1423523 original size:61 final size:61
Alignment explanation
Indices: 1423342--1423531 Score: 190
Period size: 60 Copynumber: 3.1 Consensus size: 61
1423332 CAGATTTGCA
* * ** * * * * *
1423342 TTGCGA-TTTACGTATTCGCATTGCGATTTATGGATACGCATTGCGATTTACGTATTCTCG
1 TTGCGATTTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTCACGAATACGCG
* * *
1423402 TTGCGA-TTTACGTATTCTCGTTGCGATTTACATATACGCGTTGCGATTTACGGATACGCG
1 TTGCGATTTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTCACGAATACGCG
* * * *
1423462 TTGCGATTTTACGTATTGTTGTTGCGATTTACGGATACTCGTTGCGATAGTCA-GAAT-CGCG
1 TTGCGATTTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGAT--TCACGAATACGCG
1423523 TTGCGATTT
1 TTGCGATTT
1423532 ATATGTTCGC
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
60 57 0.51
61 49 0.44
62 3 0.03
63 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (61 bp):
TTGCGATTTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTCACGAATACGCG
Found at i:1423523 original size:81 final size:79
Alignment explanation
Indices: 1423317--1423532 Score: 229
Period size: 80 Copynumber: 2.7 Consensus size: 79
1423307 ATAGTCAGAA
* * * * * * * *
1423317 TCTCGTTGCGATTTACAGAT-TTGCATTGCGATTTACGTATTCGCATTGCGATTTATGGATACGC
1 TCTCGTTGCGATTTACGGATACT-CGTTGCGATGTAC-AAATCGCGTTGCGATTTACGGATACGC
1423381 ATTGCGATTTACGTAT
64 ATTGCGATTTACGTAT
* * * * *
1423397 TCTCGTTGCGATTTACGTATTCTCGTTGCGATTTACATATACGCGTTGCGATTTACGGATACGCG
1 TCTCGTTGCGATTTACGGATACTCGTTGCGATGTACAAAT-CGCGTTGCGATTTACGGATACGCA
1423462 TTGCGATTTTACGTAT
65 TTGCGA-TTTACGTAT
* *
1423478 TGTTGTTGCGATTTACGGATACTCGTTGCGATAGT-CAGAATCGCGTTGCGATTTA
1 TCTCGTTGCGATTTACGGATACTCGTTGCGAT-GTACA-AATCGCGTTGCGATTTA
1423533 TATGTTCGCG
Statistics
Matches: 115, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
79 1 0.01
80 57 0.50
81 54 0.47
82 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (79 bp):
TCTCGTTGCGATTTACGGATACTCGTTGCGATGTACAAATCGCGTTGCGATTTACGGATACGCAT
TGCGATTTACGTAT
Found at i:1423541 original size:20 final size:20
Alignment explanation
Indices: 1423518--1423570 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1423508 ATAGTCAGAA
*
1423518 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
1423538 TCGCGTTGCAATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
1423558 TCGCATTGCGATT
1 TCGCGTTGCGATT
1423571 CTGGAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:1423552 original size:81 final size:81
Alignment explanation
Indices: 1423317--1423570 Score: 214
Period size: 80 Copynumber: 3.2 Consensus size: 81
1423307 ATAGTCAGAA
* * * * ** * * *
1423317 TCTCGTTGCGATTTACAGAT-TTGCATTGCGATTTACGTATTCGCATTGCGATTTATGGATACGC
1 TCTCGTTGCGATTTACGGATACT-CGTTGCGATGTACAAATACGCGTTGCGATTTAAGGATACGC
* *
1423381 ATTGCGA-TTTACGTAT
65 GTTGCAATTTTACGTAT
* * * * *
1423397 TCTCGTTGCGATTTACGTATTCTCGTTGCGATTTACATATACGCGTTGCGATTTACGGATACGCG
1 TCTCGTTGCGATTTACGGATACTCGTTGCGATGTACAAATACGCGTTGCGATTTAAGGATACGCG
*
1423462 TTGCGATTTTACGTAT
66 TTGCAATTTTACGTAT
* * * *
1423478 TGTTGTTGCGATTTACGGATACTCGTTGCGATAGT-CAGAAT-CGCGTTGCGATTTATATG-TTC
1 TCTCGTTGCGATTTACGGATACTCGTTGCGAT-GTACA-AATACGCGTTGCGATTTA-AGGATAC
*
1423540 GCGTTGCAATTTT-CATAT
63 GCGTTGCAATTTTACGTAT
* *
1423558 TCGCATTGCGATT
1 TCTCGTTGCGATT
1423571 CTGGAAAATC
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
80 73 0.50
81 68 0.47
82 4 0.03
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (81 bp):
TCTCGTTGCGATTTACGGATACTCGTTGCGATGTACAAATACGCGTTGCGATTTAAGGATACGCG
TTGCAATTTTACGTAT
Found at i:1423582 original size:21 final size:21
Alignment explanation
Indices: 1423558--1423673 Score: 60
Period size: 21 Copynumber: 5.6 Consensus size: 21
1423548 ATTTTCATAT
1423558 TCGCATTGCGATTCTGGAAAA
1 TCGCATTGCGATTCTGGAAAA
* ** * **
1423579 TCGCAATAAGAATT-TGTACTA
1 TCGCATTGCG-ATTCTGGAAAA
** *
1423600 TCGCATTGCGATTCTTCATAA
1 TCGCATTGCGATTCTGGAAAA
* *
1423621 TCGCGTTGCGATTCTGG-GAA
1 TCGCATTGCGATTCTGGAAAA
* *
1423641 TTG-ATTTGCGATTCTGG-AGA
1 TCGCA-TTGCGATTCTGGAAAA
*
1423661 TCGCGTTGCGATT
1 TCGCATTGCGATT
1423674 TTTATTTCGC
Statistics
Matches: 68, Mismatches: 23, Indels: 9
0.68 0.23 0.09
Matches are distributed among these distances:
20 30 0.44
21 35 0.51
22 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTCTGGAAAA
Found at i:1423669 original size:20 final size:20
Alignment explanation
Indices: 1423619--1423673 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1423609 GATTCTTCAT
1423619 AATCGCGTTGCGATTCTGGG
1 AATCGCGTTGCGATTCTGGG
* **
1423639 AATTGATTTGCGATTCT-GG
1 AATCGCGTTGCGATTCTGGG
1423658 AGATCGCGTTGCGATT
1 A-ATCGCGTTGCGATT
1423674 TTTATTTCGC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.35
Consensus pattern (20 bp):
AATCGCGTTGCGATTCTGGG
Found at i:1431710 original size:12 final size:12
Alignment explanation
Indices: 1431693--1431728 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
1431683 TATAAAAAAC
1431693 AGAAAAAGAGAA
1 AGAAAAAGAGAA
1431705 AGAAAAA-AGAA
1 AGAAAAAGAGAA
*
1431716 AGAAAACGAGAA
1 AGAAAAAGAGAA
1431728 A
1 A
1431729 AAATAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:1431740 original size:19 final size:20
Alignment explanation
Indices: 1431686--1431755 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 20
1431676 GAAGAGATAT
*
1431686 AAAAAACAGAA-AAAGAGAAAG
1 AAAAAATAGAAGAAA-AG-AAG
*
1431707 AAAAAAGA-AAGAAAACG-AG
1 AAAAAATAGAAGAAAA-GAAG
1431726 AAAAAATAGAA-AAAAGAAG
1 AAAAAATAGAAGAAAAGAAG
1431745 AAGAAAATAGA
1 AA-AAAATAGA
1431756 CAAATCCAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
18 1 0.02
19 17 0.40
20 13 0.31
21 11 0.26
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.03
Consensus pattern (20 bp):
AAAAAATAGAAGAAAAGAAG
Found at i:1431746 original size:31 final size:29
Alignment explanation
Indices: 1431688--1431751 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
1431678 AGAGATATAA
1431688 AAAACAGAAAAAGAGAAAGAAAAAAGAAAG
1 AAAACAGAAAAAGAGAAAGAAAAAAG-AAG
* *
1431718 AAAACGAGAAAAAATAGAAA-AAAGAAGAAG
1 AAAAC-AG-AAAAAGAGAAAGAAAAAAGAAG
1431748 AAAA
1 AAAA
1431752 TAGACAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 12 0.40
31 8 0.27
32 10 0.33
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.02
Consensus pattern (29 bp):
AAAACAGAAAAAGAGAAAGAAAAAAGAAG
Found at i:1433002 original size:84 final size:84
Alignment explanation
Indices: 1432903--1433069 Score: 334
Period size: 84 Copynumber: 2.0 Consensus size: 84
1432893 TGGCATCATG
1432903 AAGAGAAGCCTTCAAGCTATTCGTTAACATTATTGGTTAGCGATACAAGAGTAAGACCCTTCAAG
1 AAGAGAAGCCTTCAAGCTATTCGTTAACATTATTGGTTAGCGATACAAGAGTAAGACCCTTCAAG
1432968 ATGGAGATTTTGGCACAAA
66 ATGGAGATTTTGGCACAAA
1432987 AAGAGAAGCCTTCAAGCTATTCGTTAACATTATTGGTTAGCGATACAAGAGTAAGACCCTTCAAG
1 AAGAGAAGCCTTCAAGCTATTCGTTAACATTATTGGTTAGCGATACAAGAGTAAGACCCTTCAAG
1433052 ATGGAGATTTTGGCACAA
66 ATGGAGATTTTGGCACAA
1433070 TAGAGCCATG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (84 bp):
AAGAGAAGCCTTCAAGCTATTCGTTAACATTATTGGTTAGCGATACAAGAGTAAGACCCTTCAAG
ATGGAGATTTTGGCACAAA
Found at i:1434024 original size:36 final size:36
Alignment explanation
Indices: 1433956--1434032 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
1433946 TGTTTTTCTC
* **
1433956 AAAACATGTTTTGTCTCTCTTAAGACTGTTTCTCTT
1 AAAACATGTTTTATCTCTCTTAAGACAATTTCTCTT
* * *
1433992 GAAACATGTTTTATCTCTTTTGAGACAATTTCTCTT
1 AAAACATGTTTTATCTCTCTTAAGACAATTTCTCTT
1434028 AAAAC
1 AAAAC
1434033 GCCAACCTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.44
Consensus pattern (36 bp):
AAAACATGTTTTATCTCTCTTAAGACAATTTCTCTT
Found at i:1434112 original size:18 final size:17
Alignment explanation
Indices: 1434087--1434139 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
1434077 CTTAAGACAG
1434087 TTTCCCTTGAAACAATT
1 TTTCCCTTGAAACAATT
* *
1434104 TTCTCCCTTGAGAC-A-G
1 TT-TCCCTTGAAACAATT
1434120 TTTCCCTTGAAACGAATT
1 TTTCCCTTGAAAC-AATT
1434138 TT
1 TT
1434140 GTCTCTTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
15 10 0.36
16 2 0.07
17 4 0.14
18 12 0.43
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.40
Consensus pattern (17 bp):
TTTCCCTTGAAACAATT
Found at i:1434127 original size:15 final size:15
Alignment explanation
Indices: 1434081--1434129 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
1434071 GTCTCTCTTA
1434081 AGACAGTTTCCCTTG
1 AGACAGTTTCCCTTG
* *
1434096 AAACAATTTTCTCCCTTG
1 AGAC-A-GTT-TCCCTTG
1434114 AGACAGTTTCCCTTG
1 AGACAGTTTCCCTTG
1434129 A
1 A
1434130 AACGAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 11 0.41
16 3 0.11
17 3 0.11
18 10 0.37
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (15 bp):
AGACAGTTTCCCTTG
Found at i:1434143 original size:69 final size:73
Alignment explanation
Indices: 1434049--1434194 Score: 210
Period size: 69 Copynumber: 2.1 Consensus size: 73
1434039 CTTTGATATT
*
1434049 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGACAGTTTCCCTTGAAAC-AA-TTT-TCTCCC
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGACAGTTTCACTTGAAACAAATTTTGTCTCCC
1434111 TTGAGACA
66 TTGAGACA
* * * *
1434119 GTTTCCCTTGAAACGAA-TTTTGTCTCTTTTGAGACAGTTTCACTTGAAACAAATTTTGTCTCGC
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGACAGTTTCACTTGAAACAAATTTTGTCTCCC
*
1434183 TTGAGATA
66 TTGAGACA
1434191 GTTT
1 GTTT
1434195 TTTTAAACAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
69 30 0.45
70 18 0.27
71 3 0.04
72 16 0.24
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (73 bp):
GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGACAGTTTCACTTGAAACAAATTTTGTCTCCC
TTGAGACA
Found at i:1434158 original size:36 final size:36
Alignment explanation
Indices: 1434049--1434194 Score: 199
Period size: 36 Copynumber: 4.1 Consensus size: 36
1434039 CTTTGATATT
*
1434049 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGACA
1 GTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACA
*
1434086 GTTTCCCTTGAAAC-AA-TTT-TCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
1434119 GTTTCCCTTGAAACGAATTTTGTCTCTTTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * *
1434155 GTTTCACTTGAAACAAATTTTGTCTCGCTTGAGATA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1434191 GTTT
1 GTTT
1434195 TTTTAAACAA
Statistics
Matches: 97, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
33 26 0.27
34 5 0.05
35 3 0.03
36 49 0.51
37 14 0.14
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:1434255 original size:46 final size:45
Alignment explanation
Indices: 1434170--1434261 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 45
1434160 ACTTGAAACA
* * * *
1434170 AATTTTGTCTCGCTTGAGATAGTTTTTTTAAACAAAAAAATCTTTG
1 AATTTTGTCTCCCTTGAGACAATTTTTTGAAAC-AAAAAATCTTTG
1434216 AATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACAAAAAATCTTT
1 AATTTTGTCTCCCTTGAGACAATTT-T-TTGAAACAAAAAATCTTT
1434262 AAGGTCGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 22 0.55
47 12 0.30
48 6 0.15
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (45 bp):
AATTTTGTCTCCCTTGAGACAATTTTTTGAAACAAAAAATCTTTG
Found at i:1434417 original size:36 final size:36
Alignment explanation
Indices: 1434334--1434423 Score: 117
Period size: 36 Copynumber: 2.5 Consensus size: 36
1434324 CTTTGATATT
** *
1434334 GTTTCTCTTGAAACAAGGTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACA
* *
1434370 GTTTCACTTGAAACAAATTTTGTCTCGCTTGAGATA
1 GTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACA
* *
1434406 GTTTCTTTTGAAAAAAAT
1 GTTTCTCTTGAAACAAAT
1434424 CTTGAATATA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (36 bp):
GTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACA
Found at i:1434445 original size:63 final size:64
Alignment explanation
Indices: 1434371--1434490 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 64
1434361 CTTGAGACAG
* * * *
1434371 TTTCACTTGAAACAAATTTTGTCTCGCTTGAGATAGTTTCTTTTG-AA-AAAAATCTTGAATATA
1 TTTCACTTGAAACAAATTTTGTCTCCCTTAAGACA-TTTCTCTTGAAACAAAAATCTTGAATATA
*
1434434 TTTCTCTTGAAACAAATTTTGTCTCCCTTAAGACATTTCTCTTGAAACAAAAATCTT
1 TTTCACTTGAAACAAATTTTGTCTCCCTTAAGACATTTCTCTTGAAACAAAAATCTT
1434491 TGAGGTCGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
62 8 0.16
63 33 0.66
64 9 0.18
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (64 bp):
TTTCACTTGAAACAAATTTTGTCTCCCTTAAGACATTTCTCTTGAAACAAAAATCTTGAATATA
Found at i:1435130 original size:86 final size:90
Alignment explanation
Indices: 1434981--1435330 Score: 429
Period size: 86 Copynumber: 4.0 Consensus size: 90
1434971 TATAAATCGA
* * * * *
1434981 TCAACATTGCTGTGGAGAGTTCATAATGAGAAAAACTCATCCAATGA-GGAGAAGAAGGT--TAA
1 TCAACATTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAA
1435043 TGAGAAGAACTTGTTC-ACCTTGGC
66 TGAGAAGAACTTGTTCAACCTTGGC
*
1435067 TCAACATTCCAGTGGAGAGTTCAT-ATGAGAAGAACTCATCCAATGA-GG-GAAGAAGTTCATAA
1 TCAACATTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAA
* *
1435129 TGAGAAGAAATTGTTCAACCTTAGC
66 TGAGAAGAACTTGTTCAACCTTGGC
** * *
1435154 TCAACATT-CAACGAAGAGTTC---AT-A-AAGAACTCGTCCAACGAGGGAGAAGAAGTTCATAA
1 TCAACATTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAA
* *
1435213 TGAGAAGAACTTGTTCAACTTTGGT
66 TGAGAAGAACTTGTTCAACCTTGGC
* * * *
1435238 TCAAGATTTCCAGTGGAGAGTTTATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTTATA
1 TCAACA-TTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
*
1435303 ATGAGAAGAACTTGTTCAACCTTTGC
65 ATGAGAAGAACTTGTTCAACCTTGGC
1435329 TC
1 TC
1435331 GATTCATCAC
Statistics
Matches: 226, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
82 15 0.07
83 3 0.01
84 50 0.22
85 25 0.11
86 59 0.26
87 15 0.07
89 2 0.01
90 1 0.00
91 56 0.25
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (90 bp):
TCAACATTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTGGC
Found at i:1435227 original size:84 final size:86
Alignment explanation
Indices: 1434981--1435330 Score: 381
Period size: 91 Copynumber: 4.0 Consensus size: 86
1434971 TATAAATCGA
* * * * *
1434981 TCAACATTGCTGTGGAGAGTTCATAATGAGAAAAACTCATCCAATGAGGAGAAGAAGGT--TAAT
1 TCAACATTCCAGTGGAGAGTTC---ATGAGAAGAACTCATCCAACGAGGAGAAGAAGTTCATAAT
1435044 GAGAAGAACTTGTTC-ACCTTGGC
63 GAGAAGAACTTGTTCAACCTTGGC
*
1435067 TCAACATTCCAGTGGAGAGTTCATATGAGAAGAACTCATCCAATGAGG-GAAGAAGTTCATAATG
1 TCAACATTCCAGTGGAGAGTTC--ATGAGAAGAACTCATCCAACGAGGAGAAGAAGTTCATAATG
* *
1435131 AGAAGAAATTGTTCAACCTTAGC
64 AGAAGAACTTGTTCAACCTTGGC
** * *
1435154 TCAACATT-CAACGAAGAGTTCAT-A-AAGAACTCGTCCAACGAGGGAGAAGAAGTTCATAATGA
1 TCAACATTCCAGTGGAGAGTTCATGAGAAGAACTCATCCAACGA-GGAGAAGAAGTTCATAATGA
* *
1435216 GAAGAACTTGTTCAACTTTGGT
65 GAAGAACTTGTTCAACCTTGGC
* * * *
1435238 TCAAGATTTCCAGTGGAGAGTTTATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTTATA
1 TCAACA-TTCCAGTGGAGAG--T-TCATGAGAAGAACTCATCCAACGA-GGAGAAGAAGTTCATA
*
1435303 ATGAGAAGAACTTGTTCAACCTTTGC
61 ATGAGAAGAACTTGTTCAACCTTGGC
1435329 TC
1 TC
1435331 GATTCATCAC
Statistics
Matches: 224, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
82 15 0.07
83 3 0.01
84 50 0.22
85 25 0.11
86 55 0.25
87 15 0.07
88 1 0.00
89 3 0.01
90 1 0.00
91 56 0.25
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (86 bp):
TCAACATTCCAGTGGAGAGTTCATGAGAAGAACTCATCCAACGAGGAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACCTTGGC
Found at i:1435760 original size:51 final size:54
Alignment explanation
Indices: 1435705--1435809 Score: 189
Period size: 52 Copynumber: 2.0 Consensus size: 54
1435695 GTTCAACCTT
1435705 GGATCAACATTT-TAGAAGAACCCGCGACTGAAAGAG-A-AGACCAAGATTAAA
1 GGATCAACATTTCTAGAAGAACCCGCGACTGAAAGAGAAGAGACCAAGATTAAA
1435756 GGATCAACATTTCTAGAAGAACCCGCGACTGAAAGAGAAGAGACCAAGATTAAA
1 GGATCAACATTTCTAGAAGAACCCGCGACTGAAAGAGAAGAGACCAAGATTAAA
1435810 AATGGTACTT
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
51 12 0.24
52 24 0.47
53 1 0.02
54 14 0.27
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (54 bp):
GGATCAACATTTCTAGAAGAACCCGCGACTGAAAGAGAAGAGACCAAGATTAAA
Found at i:1436768 original size:24 final size:24
Alignment explanation
Indices: 1436746--1436790 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
1436736 AATTAATTTG
1436746 TTAT-TTTTTATGT-A-TGTATAT
1 TTATATTTTTATGTAAGTGTATAT
1436767 TTATATTTTTATGTAAGTGTATAT
1 TTATATTTTTATGTAAGTGTATAT
1436791 AGATTAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 9 0.43
23 1 0.05
24 7 0.33
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (24 bp):
TTATATTTTTATGTAAGTGTATAT
Found at i:1438120 original size:20 final size:20
Alignment explanation
Indices: 1438095--1438187 Score: 159
Period size: 20 Copynumber: 4.7 Consensus size: 20
1438085 TTTTCCTAAT
1438095 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1438115 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1438135 TCTCAATACGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1438155 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1438175 TCGCAACGCGAAT
1 TCGCAATGCGAAT
1438188 CTGACTATCG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1438197 original size:20 final size:20
Alignment explanation
Indices: 1438174--1438280 Score: 178
Period size: 20 Copynumber: 5.3 Consensus size: 20
1438164 GAATACGTAA
* *
1438174 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
1438194 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
1438214 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
1438234 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
* *
1438254 ATTGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACT
1438274 ATCGCAA
1 ATCGCAA
1438281 TACTGAATTT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:1439140 original size:24 final size:24
Alignment explanation
Indices: 1439113--1439166 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1439103 GTATTCGAAA
*
1439113 TTTGATATTGGTCAATACCCGGAC
1 TTTGATATTAGTCAATACCCGGAC
* * * *
1439137 TTTGATCTTAGTTAATACTCGGAT
1 TTTGATATTAGTCAATACCCGGAC
1439161 TTTGAT
1 TTTGAT
1439167 GATTTTTCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATATTAGTCAATACCCGGAC
Found at i:1441632 original size:14 final size:14
Alignment explanation
Indices: 1441613--1441665 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
1441603 GGAATTGACT
1441613 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
1441627 ATCGCAATGCGAAATGAA
1 ATCGCAA--CGAGA-G-A
1441645 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
1441659 ATCGCAA
1 ATCGCAA
1441666 TGCGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 15 0.45
15 1 0.03
16 8 0.24
17 1 0.03
18 8 0.24
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:1441654 original size:32 final size:33
Alignment explanation
Indices: 1441613--1441686 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 33
1441603 GGAATTGACT
1441613 ATCGCAACGAGAGAATCGCAATGCG-AAATGAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAA
1441645 ATCGCAACGAGAGAATCGCAATGCGAAAATGAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAA
1441678 ATCGCAACG
1 ATCGCAACG
1441687 CGAATTAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 25 0.61
33 16 0.39
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAAATGAA
Found at i:1441737 original size:33 final size:33
Alignment explanation
Indices: 1441700--1441794 Score: 113
Period size: 34 Copynumber: 2.8 Consensus size: 33
1441690 ATTAGTTTCG
1441700 CGTTGCAATTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCAATTTCATTTTCGCATTGCGATTCTCT
*
1441733 CGTTGCGATTTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGC-A-ATTTCATTTTCGCATTGCGATTCTCT
* * *
1441767 CGTTGCGATAGTCATTTCCGC-TTGCGAT
1 CGTTGCAAT-TTCATTTTCGCATTGCGAT
1441795 AGTCTGTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
32 1 0.02
33 16 0.30
34 31 0.58
35 5 0.09
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (33 bp):
CGTTGCAATTTCATTTTCGCATTGCGATTCTCT
Found at i:1441755 original size:34 final size:35
Alignment explanation
Indices: 1441708--1441775 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 35
1441698 CGCGTTGCAA
1441708 TTTCATTTTCGCATTGCGATTCTCTCGTTGCGATT
1 TTTCATTTTCGCATTGCGATTCTCTCGTTGCGATT
1441743 TTTCA-TTTCGCATTGCGATTCTCTCGTTGCGAT
1 TTTCATTTTCGCATTGCGATTCTCTCGTTGCGAT
1441776 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 28 0.85
35 5 0.15
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.47
Consensus pattern (35 bp):
TTTCATTTTCGCATTGCGATTCTCTCGTTGCGATT
Found at i:1441912 original size:14 final size:14
Alignment explanation
Indices: 1441893--1441929 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1441883 CATCAATTAA
1441893 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1441907 ACAAATCATCTTTT
1 ACAAATCAACATTT
1441921 ACAAATCAA
1 ACAAATCAA
1441930 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1443195 original size:42 final size:42
Alignment explanation
Indices: 1443116--1443208 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
1443106 ACCTCTTCAC
* * *
1443116 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
1443158 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
1443200 GATGACAGG
1 GATGACAGG
1443209 TGATCGGGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:1443701 original size:20 final size:20
Alignment explanation
Indices: 1443678--1443723 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1443668 ACTTAAAATT
1443678 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
* **
1443698 GCAATGCGAATTTGACTATC
1 GCAACGCGAAAATGACTATC
*
1443718 GTAACG
1 GCAACG
1443724 AGATAATCGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:1443792 original size:20 final size:20
Alignment explanation
Indices: 1443767--1443857 Score: 146
Period size: 20 Copynumber: 4.5 Consensus size: 20
1443757 GATTCTTTCG
**
1443767 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
1443787 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1443807 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
1443827 TTGCGATAGTCATTTTTCGCA
1 TTGCGATAGTCA-TTTTCGCA
1443848 TTGCGATAGT
1 TTGCGATAGT
1443858 AAACTATTCT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
20 49 0.74
21 17 0.26
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:1444245 original size:6 final size:6
Alignment explanation
Indices: 1444234--1444263 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
1444224 AACTCATCCC
1444234 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG
1 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG
1444264 AATAGGGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.67, T:0.17
Consensus pattern (6 bp):
GTGGAG
Found at i:1445792 original size:19 final size:20
Alignment explanation
Indices: 1445726--1445797 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
1445716 TCTGAAACTT
* *
1445726 AAAATCGCAACACAAAAAATG
1 AAAATCGCAACGC-GAAAATG
*
1445747 AAAATCGCAACACGAAAAT-
1 AAAATCGCAACGCGAAAATG
*
1445766 AACTATCGCAACGCG-AAATG
1 AA-AATCGCAACGCGAAAATG
1445786 AAAATCGCAACG
1 AAAATCGCAACG
1445798 ACAAAATCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.33
20 17 0.38
21 13 0.29
ACGTcount: A:0.53, C:0.22, G:0.14, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:1446194 original size:22 final size:22
Alignment explanation
Indices: 1446132--1446197 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
1446122 TGACCGTGAA
* *
1446132 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
1446154 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1446176 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1446198 GGATGTCGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:1446417 original size:20 final size:20
Alignment explanation
Indices: 1446394--1446486 Score: 168
Period size: 20 Copynumber: 4.7 Consensus size: 20
1446384 CGATAGTCAG
*
1446394 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
1446414 ATTCGCATTGCGATATACGT
1 ATTCGCATTGCGATTTACGT
1446434 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1446454 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1446474 ATTCGCATTGCGA
1 ATTCGCATTGCGA
1446487 ATTAGGAAAG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:1446438 original size:40 final size:40
Alignment explanation
Indices: 1446376--1446486 Score: 172
Period size: 40 Copynumber: 2.8 Consensus size: 40
1446366 GCTATGTAAA
*
1446376 TCGCATTGCGATAGT-CAG-ATTCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATA-TAC-GTATTCGCATTGCGATTTACGTAT
1446416 TCGCATTGCGATATACGTATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGATATACGTATTCGCATTGCGATTTACGTAT
*
1446456 TCGCATTGCGATTTACGTATTCGCATTGCGA
1 TCGCATTGCGATATACGTATTCGCATTGCGA
1446487 ATTAGGAAAG
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
39 2 0.03
40 65 0.97
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (40 bp):
TCGCATTGCGATATACGTATTCGCATTGCGATTTACGTAT
Found at i:1446522 original size:20 final size:21
Alignment explanation
Indices: 1446483--1446527 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1446473 TATTCGCATT
1446483 GCGAATTAGGAAAGTCGCAAC
1 GCGAATTAGGAAAGTCGCAAC
* *
1446504 GCGAATTTGGAAA-TCGCAAT
1 GCGAATTAGGAAAGTCGCAAC
1446524 GCGA
1 GCGA
1446528 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.18
Consensus pattern (21 bp):
GCGAATTAGGAAAGTCGCAAC
Found at i:1455411 original size:38 final size:38
Alignment explanation
Indices: 1455369--1455470 Score: 105
Period size: 41 Copynumber: 2.6 Consensus size: 38
1455359 TTCTTAAAAC
* *
1455369 TTTCGATTAAACCGAAAATGTTACATTCTTCGTAACAT
1 TTTCGATTAAACAGAAAATGTTACATTCTTCATAACAT
* * **
1455407 TTTCGATTAACAACAAAAAAATATTATTTTCTTCATAACAT
1 TTTCGATT-A-AAC-AGAAAATGTTACATTCTTCATAACAT
* *
1455448 TTTCGATTCAACTGAAAATGTTA
1 TTTCGATTAAACAGAAAATGTTA
1455471 GAAAAAGTAA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
38 16 0.31
39 4 0.08
40 3 0.06
41 28 0.55
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (38 bp):
TTTCGATTAAACAGAAAATGTTACATTCTTCATAACAT
Found at i:1455782 original size:2 final size:2
Alignment explanation
Indices: 1455775--1455799 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1455765 TATCTGACAT
1455775 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 T
1455800 TTTGTTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1469321 original size:2 final size:2
Alignment explanation
Indices: 1469314--1469430 Score: 172
Period size: 2 Copynumber: 61.0 Consensus size: 2
1469304 CAGCTGAACC
1469314 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
1469355 AG AG AG AG AG AG AG AG AG AG GG AG AG AG -G AG AG AG AG AG -G
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
1469395 GG AG AG AG AG AG -G AG AG AG AG AG GG AG AG -G AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1469431 GGGAGGGGGA
Statistics
Matches: 105, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
1 5 0.05
2 100 0.95
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1469436 original size:5 final size:5
Alignment explanation
Indices: 1469428--1469485 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
1469418 GGAGAGGAGA
* *
1469428 GAGGG GAGGGG GAGGG GAGGGG GAGGGG GAGGG G-GGG GGGGG GGGGG
1 GAGGG GA-GGG GAGGG GA-GGG GA-GGG GAGGG GAGGG GAGGG GAGGG
1469475 GAGGG AGAGGG
1 GAGGG -GAGGG
1469486 AGAGAGAGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
4 4 0.08
5 23 0.48
6 21 0.44
ACGTcount: A:0.16, C:0.00, G:0.84, T:0.00
Consensus pattern (5 bp):
GAGGG
Found at i:1469486 original size:6 final size:6
Alignment explanation
Indices: 1469315--1469528 Score: 144
Period size: 6 Copynumber: 36.8 Consensus size: 6
1469305 AGCTGAACCA
* * * * * * *
1469315 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGAG GAGAGA GAGAGA
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAG-G GAGAGG GAGAGG
* * * *
1469364 GAGAGA GAGAGG GAGAGAG GAGAGA GAGAGG G-GAGA GAGAGAG GAGAGA
1 GAGAGG GAGAGG GAGAG-G GAGAGG GAGAGG GAGAGG GAGAG-G GAGAGG
* * *
1469413 GAGAGG GAGAGG AGAGAGG G-GAGG GGGAGG G-GAGG GGGAGG GGGAGG
1 GAGAGG GAGAGG -GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG
* *
1469460 G-G-GG G-G-GG G-GGGG GGGAGG GAGAGG GAGA-- GAGAGG GAGA-G
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG
* * *
1469500 GAGAGG GAGAGA GAGAGA GAGAGA GAGAG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
1469529 ATCTTAAAAA
Statistics
Matches: 184, Mismatches: 12, Indels: 24
0.84 0.05 0.11
Matches are distributed among these distances:
4 12 0.07
5 23 0.12
6 127 0.69
7 22 0.12
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:1469490 original size:2 final size:2
Alignment explanation
Indices: 1469479--1469529 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
1469469 GGGGGGGAGG
* * *
1469479 GA GA GG GA GA GA GA GG GA GA G- GA GA GG GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1469520 GA GA GA GA GA
1 GA GA GA GA GA
1469530 TCTTAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1486038 original size:18 final size:18
Alignment explanation
Indices: 1486011--1486048 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1486001 CTTGGGCCCA
1486011 ATTTTCCATAA-AGAGAAG
1 ATTTTCCATAATAG-GAAG
*
1486029 ATTTTTCATAATAGGAAG
1 ATTTTCCATAATAGGAAG
1486047 AT
1 AT
1486049 GATGAGGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (18 bp):
ATTTTCCATAATAGGAAG
Found at i:1486905 original size:4 final size:4
Alignment explanation
Indices: 1486896--1487045 Score: 106
Period size: 4 Copynumber: 35.8 Consensus size: 4
1486886 GTAATTTTTG
* ** *
1486896 TTTA TTTA TTCA TTTTA GGTTTA TTTA TTTA TTTA TTT- TGAA TTTA TTTT
1 TTTA TTTA TTTA -TTTA --TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
1486946 TTGTA TTTA TTTA TTTA TTTGGA TTTA TTTA TTTA TTTA GTTA TTTCAAA
1 TT-TA TTTA TTTA TTTA TTT--A TTTA TTTA TTTA TTTA TTTA TTT---A
* * ** * *
1486996 TTTA TTTA TTTT TTTA TTTA GTTA TTT- TGAA TTTA TTTG TTTG TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1487043 TTT
1 TTT
1487046 TTTGCTTCGA
Statistics
Matches: 115, Mismatches: 21, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
3 2 0.02
4 95 0.83
5 6 0.05
6 8 0.07
7 4 0.03
ACGTcount: A:0.22, C:0.01, G:0.07, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:1486930 original size:18 final size:18
Alignment explanation
Indices: 1486895--1486985 Score: 82
Period size: 18 Copynumber: 5.0 Consensus size: 18
1486885 GGTAATTTTT
*
1486895 GTTTATTTATTCATTTTAG
1 GTTTATTTATTTA-TTTAG
1486914 GTTTATTTATTTATTTA-
1 GTTTATTTATTTATTTAG
*
1486931 TTTTGAATTTATTT-TTT-G
1 GTTT--ATTTATTTATTTAG
*
1486949 TATTTATTTATTTATTT-G
1 -GTTTATTTATTTATTTAG
1486967 GATTTATTTATTTATTTAG
1 G-TTTATTTATTTATTTAG
1486986 TTATTTCAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
17 11 0.18
18 26 0.43
19 24 0.39
ACGTcount: A:0.22, C:0.01, G:0.09, T:0.68
Consensus pattern (18 bp):
GTTTATTTATTTATTTAG
Found at i:1486941 original size:23 final size:21
Alignment explanation
Indices: 1486896--1487080 Score: 115
Period size: 23 Copynumber: 8.1 Consensus size: 21
1486886 GTAATTTTTG
*
1486896 TTTATTTATTCATTTTAGGTTTA
1 TTTATTTATTTATTTTA--TTTA
1486919 TTTATTTATTTATTTTGAATTTA
1 TTTATTTATTTATTTT--ATTTA
*
1486942 TTTTTTGTATTTA-TTTATTTA
1 TTTATT-TATTTATTTTATTTA
1486963 TTTGGATTTATTTA-TTTATTTA
1 TTT--ATTTATTTATTTTATTTA
* *
1486985 GTTATTTCAAATTTA-TTTATTTT
1 TTTATTT---ATTTATTTTATTTA
*
1487008 TTTATTTAGTTATTTTGAATTTA
1 TTTATTTATTTATTTT--ATTTA
* * *
1487031 TTTGTTTGTTTATTTTTTGCTTCGAA
1 TTTATTTATTTATTTTAT--TT---A
*
1487057 ATTATTTATTTATTTTATTTA
1 TTTATTTATTTATTTTATTTA
1487078 TTT
1 TTT
1487081 GAAGGGATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
20 8 0.06
21 15 0.12
22 16 0.12
23 66 0.51
24 8 0.06
25 1 0.01
26 15 0.12
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (21 bp):
TTTATTTATTTATTTTATTTA
Found at i:1486990 original size:58 final size:57
Alignment explanation
Indices: 1486915--1487077 Score: 159
Period size: 58 Copynumber: 2.7 Consensus size: 57
1486905 TCATTTTAGG
* *
1486915 TTTATTTATTTATTTATTTTGAATTTATTT-TTTGTATTTATTTATTTA-TTTGGATTTA
1 TTTATTTATTTA-TTATTTTGAATTTATTTATTT-T-TTTATTTAGTTATTTTGAATTTA
**
1486973 TTTATTTATTTAGTTATTTCAAATTTATTTATTTTTTTATTTAGTTATTTTGAATTTA
1 TTTATTTATTTA-TTATTTTGAATTTATTTATTTTTTTATTTAGTTATTTTGAATTTA
* * * *
1487031 TTTGTTTGTTTATTTTTTGCTTCGAAATTATTTATTTATTTTATTTA
1 TTTATTTATTTA-TTATT--TT-GAATTTATTTATTT-TTTTATTTA
1487078 TTTGAAGGGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
57 11 0.13
58 51 0.59
59 3 0.03
60 1 0.01
61 12 0.14
62 9 0.10
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.69
Consensus pattern (57 bp):
TTTATTTATTTATTATTTTGAATTTATTTATTTTTTTATTTAGTTATTTTGAATTTA
Found at i:1487029 original size:31 final size:31
Alignment explanation
Indices: 1486919--1487080 Score: 149
Period size: 31 Copynumber: 5.4 Consensus size: 31
1486909 TTTAGGTTTA
1486919 TTTATTTATTTATTTTGAATTTATTT-TTTGT
1 TTTATTTATTTATTTTGAATTTATTTATTT-T
*
1486950 ATTTATTTATTTA-TTTGGATTTATTTA----
1 -TTTATTTATTTATTTTGAATTTATTTATTTT
* **
1486977 TTTATTTAGTTATTTCAAATTTATTTATTTT
1 TTTATTTATTTATTTTGAATTTATTTATTTT
* * *
1487008 TTTATTTAGTTATTTTGAATTTATTTGTTTG
1 TTTATTTATTTATTTTGAATTTATTTATTTT
** * *
1487039 TTTATTT-TTTGCTTCGAAATTATTTATTTAT
1 TTTATTTATTTATTTTGAATTTATTTATTT-T
1487070 TTTATTTATTT
1 TTTATTTATTT
1487081 GAAGGGATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
26 11 0.10
27 11 0.10
30 16 0.15
31 53 0.50
32 15 0.14
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (31 bp):
TTTATTTATTTATTTTGAATTTATTTATTTT
Found at i:1490569 original size:2 final size:2
Alignment explanation
Indices: 1490509--1490551 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
1490499 CCATTATACT
1490509 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1490550 TA
1 TA
1490552 AAGTAATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1495086 original size:467 final size:467
Alignment explanation
Indices: 1494178--1495282 Score: 1678
Period size: 467 Copynumber: 2.4 Consensus size: 467
1494168 ATTTATTCGA
* * *
1494178 TTAAAAATATTTGTGATAACTGTAAATTTAAAGAAAAATGAAATTAATATGTAACAAAAAATAAA
1 TTAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAATAAA
*
1494243 ATAAAATAAAATTGAAATTGATATAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTAATGAC
66 AT----T-AAATTGAAATTGATATAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGAC
* *
1494308 GTTAAACAAAGTGCTTTATGGGGGCAACCCATTTTATTTTACGATTTGCTTAAATTATTTAAATT
126 GTTAAACAAAGTGCTTTATGGAGGCAACCCATTTTATTTTCCGATTTGCTTAAATTATTTAAATT
* * *
1494373 TTAATTTAATTTAATTTTTTGTTACATATTAATTTTTTTCTTTGAATTTTTAGTTATCACAAATA
191 TCAATTTAATTTAATTTTTTATTACATATTAATTTTTTTCTTTGAATTTTCAGTTATCACAAATA
* * *
1494438 TTTTTAATCAAACAAATTTGTAGTAGATCTGAGACTTTTGATCGATTCCAGCCGTGCGGCACACA
256 TTTTTAATCAAACAAATTTGTAGCAGATCTGAGACTTTTGATCAATTCCAGCCGTGCGACACACA
* *
1494503 ATAACAAAGCTCCCCCAACCCGACGAAAGTTAGCATAACCCATTTGCCTATTTTTATTTCTTTGC
321 ATAACAAAGCTCCCCCAACCCGACGAAAGTTAGCATAACACATTTGCCCATTTTTATTTCTTTGC
* * *
1494568 TGCCCATACACCCTACACCTTTATTAAAAAAACCATAAAGTTTGTATGTTTAGTAAATTGTTTAA
386 TACCCATACACCCTACACCTTTATTAAAAAAACAAAAAAGTTTGTATGTTTAGTAAATTGTTTAA
1494633 TATATTTAGACTCACCC
451 TATATTTAGACTCACCC
1494650 TTAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAATAAA
1 TTAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAATAAA
* * * * **
1494715 ATTAAATTGAAATTAATATAATTTAAACAAATCGAAAAATAAATTGGATTGTATAACGACGTTAA
66 ATTAAATTGAAATTGATATAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGACGTTAA
* * * * * *
1494780 ACAAAGTGCTCTATAAGATGCAACCCATTTTATTTTCCGTTTTGTTTAAATTATTTCAATTTCAA
131 ACAAAGTGCTTTAT-GGAGGCAACCCATTTTATTTTCCGATTTGCTTAAATTATTTAAATTTCAA
* *
1494845 TTTCATTTTATTTTTTATTACATATTAA-TTTTTT-TTTGAATTTTCAGTTATCACAAATATTTT
195 TTTAATTTAATTTTTTATTACATATTAATTTTTTTCTTTGAATTTTCAGTTATCACAAATATTTT
* * *
1494908 TAATCGAACAAATTTGTAGCAGATCTGAGACTTTTGATCAATTCCAGCCGTGCGATACACATTAA
260 TAATCAAACAAATTTGTAGCAGATCTGAGACTTTTGATCAATTCCAGCCGTGCGACACACAATAA
* * *
1494973 CAAAGCTCCCCCAACCCGGCGCAAGTTAGCATAACACATTTGCCCATTTTTTATTTTTTTG-TCA
325 CAAAGCTCCCCCAACCCGACGAAAGTTAGCATAACACATTTGCCCA-TTTTTATTTCTTTGCT-A
* **
1495037 CCCATACACCTTACACCTTTATTAAAAAAACAAAAAAGTTTGTATGTTTAGTAAATTGTTTGGTA
388 CCCATACACCCTACACCTTTATTAAAAAAACAAAAAAGTTTGTATGTTTAGTAAATTGTTTAATA
1495102 TATTTAGACTCACCC
453 TATTTAGACTCACCC
** *
1495117 GAAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAAGAAAAAATAAA
1 TTAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAATAAA
* *
1495182 ATAAAATT-AAATTGATATAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGATGTTAA
66 ATTAAATTGAAATTGATATAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGACGTTAA
* *
1495246 ACAAAATGTTTTATGGGAGGCAACCCATTTTATTTTC
131 ACAAAGTGCTTTAT-GGAGGCAACCCATTTTATTTTC
1495283 TTTGTCACCC
Statistics
Matches: 573, Mismatches: 57, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
466 210 0.37
467 231 0.40
468 68 0.12
472 64 0.11
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (467 bp):
TTAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAATAAA
ATTAAATTGAAATTGATATAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGACGTTAA
ACAAAGTGCTTTATGGAGGCAACCCATTTTATTTTCCGATTTGCTTAAATTATTTAAATTTCAAT
TTAATTTAATTTTTTATTACATATTAATTTTTTTCTTTGAATTTTCAGTTATCACAAATATTTTT
AATCAAACAAATTTGTAGCAGATCTGAGACTTTTGATCAATTCCAGCCGTGCGACACACAATAAC
AAAGCTCCCCCAACCCGACGAAAGTTAGCATAACACATTTGCCCATTTTTATTTCTTTGCTACCC
ATACACCCTACACCTTTATTAAAAAAACAAAAAAGTTTGTATGTTTAGTAAATTGTTTAATATAT
TTAGACTCACCC
Found at i:1495459 original size:161 final size:163
Alignment explanation
Indices: 1495273--1495577 Score: 569
Period size: 162 Copynumber: 1.9 Consensus size: 163
1495263 AGGCAACCCA
*
1495273 TTTTATTTTCTTTGTCACCCATACACCTTACACCTTTATT-AAAAAAATAAAAAAGTTTGTATGT
1 TTTTATTTTCTTTGTCACCCATACACCTTACACCTTTATTAAAAAAAACAAAAAAGTTTGTATGT
1495337 TTAGTAAATTGTTTGGTATATTTAGACTCACCCGAAAAAATATTTGTGATAACTAAAAATTCAAA
66 TTAGTAAATTGTTTGGTATATTTAGACTCACCCGAAAAAATATTTGTGATAACTAAAAATTCAAA
1495402 GAAAAATAAAATTACATAACTCATTTGCCAATT
131 GAAAAATAAAATTACATAACTCATTTGCCAATT
*
1495435 TTTTA-TTTCTTTGTCACTCATACACCTTACACCTTTATTAAAAAAAACAAAAAAGTTTGTATGT
1 TTTTATTTTCTTTGTCACCCATACACCTTACACCTTTATTAAAAAAAACAAAAAAGTTTGTATGT
*
1495499 TTAGTAAATTGTTTGGTATATTTAGACTCACCCGAAAAAATATTTGTGATAACTGAAAATTCAAA
66 TTAGTAAATTGTTTGGTATATTTAGACTCACCCGAAAAAATATTTGTGATAACTAAAAATTCAAA
1495564 GAAAAATAAAATTA
131 GAAAAATAAAATTA
1495578 ATATGTAAGA
Statistics
Matches: 139, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
161 33 0.24
162 106 0.76
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (163 bp):
TTTTATTTTCTTTGTCACCCATACACCTTACACCTTTATTAAAAAAAACAAAAAAGTTTGTATGT
TTAGTAAATTGTTTGGTATATTTAGACTCACCCGAAAAAATATTTGTGATAACTAAAAATTCAAA
GAAAAATAAAATTACATAACTCATTTGCCAATT
Found at i:1497048 original size:469 final size:473
Alignment explanation
Indices: 1495416--1497407 Score: 3026
Period size: 471 Copynumber: 4.2 Consensus size: 473
1495406 AATAAAATTA
* * * *
1495416 CATAACTCATTTGCCAATTTTTTATTTCTTTGTCACTCATACACCTTACACCTTTATTAAAAAAA
1 CATAACTCATTTGCCCATTTTTTATTTCTTTGTCGCCCATACACCCTACACCTTTATT--AAAAA
* * **
1495481 ACAAAAAAGTTTGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCCGAAAAAATATTTGT
64 ACCAAAAAGTTAGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCCTTAAAAATATTTGT
*
1495546 GATAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAA-GAAAAAATAAAATAAAATTGAAAT
129 GATAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAAATAAAATAAAATTGAAAT
* *
1495610 TGATATAATTTAAATAAATCGAAAAATAAAATGGGTTGCCTAACGATGTTAAACAAAGTGCTTTA
194 TGATATAATTTAAACAAATCGAAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGCTTTA
* * *
1495675 TGGGAAGCAACCCATTTGATTTTTCGATTTGTTTAAATTATTTCAATTTCAATTTCA-TTTTATT
259 TGGGAGGCAACCCATTTTATTTTTCGATTTGTTTAAATTATTTCAATTTCAATTTAATTTTTATT
* *
1495739 TTTTGTTACATATTAATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAAT
324 TTGTGTTACATATTAATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAAC
* * *
1495804 AAATTTGTAGCAGATCTGAGACTTTTGATCGATTTCAGCCATGCGGCACACATTAACAAAGCTCC
389 AAATTTGTAACAGATCTGAGACTTTTGATCGATTCCAGCCGTGCGGCACACATTAACAAAGCTCC
1495869 CCCAACCCGGCGCAAGTTAG
454 CCCAACCCGGCGCAAGTTAG
* * *
1495889 CATAACACATTTGCTCATTTTTTATTTCTTTGCCGCCCATACACCCTACACCTTTATT----AA-
1 CATAACTCATTTGCCCATTTTTTATTTCTTTGTCGCCCATACACCCTACACCTTTATTAAAAAAC
* * * *
1495949 -AAAAA-TTGGTATGTTTAATAAATTGTTTGGTATATTTAGAATCACCTTTAAAAATATTTGTGA
66 CAAAAAGTTAGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCCTTAAAAATATTTGTGA
* *
1496012 TAACTGAAAATTTAAAGAAAAATAAAATTAATATGTAAC-AAAAAATAAAATTAAATTGAAATTG
131 TAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAAATAAAATAAAATTGAAATTG
* * *
1496076 ATGTAATTTAAACAAATCGAAAAATAAAATGGATTGCCTAACGACGTTAAATAAAGTGCTTTATG
196 ATATAATTTAAACAAATCGAAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGCTTTATG
* *
1496141 GGAGGCAACCCATTTTATTTTTCGATTTGTTTAAATTATTTCTATTTCAATTTTA-TTTTATTTT
261 GGAGGCAACCCATTTTATTTTTCGATTTGTTTAAATTATTTCAATTTCAATTTAATTTTTATTTT
*
1496205 TTGTTACATATTAA--TT-TTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAACAA
326 GTGTTACATATTAATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAACAA
* * *
1496267 ATTTGTAGCAGATCTGAGACTTTTGATCGATTCCAGCCGTGCGGTACACATTAACAAAGTTCCCC
391 ATTTGTAACAGATCTGAGACTTTTGATCGATTCCAGCCGTGCGGCACACATTAACAAAGCTCCCC
1496332 CAACCCGGCGCAAGTTAG
456 CAACCCGGCGCAAGTTAG
* *
1496350 CATAAC-CTATTTGCCTATTTTTTATTTCTTTGCCGCCCATACACCCTACACCTTTATTAAAAAA
1 CATAACTC-ATTTGCCCATTTTTTATTTCTTTGTCGCCCATACACCCTACACCTTTATT--AAAA
* *
1496414 AATCAAAAAGTTTGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCCTTAAAAATATTTG
63 AACCAAAAAGTTAGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCCTTAAAAATATTTG
*
1496479 TAATAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAAATAAAATAAAATTGAAA
128 TGATAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAAATAAAATAAAATTGAAA
* * *
1496544 TTGATATAATTTAAACAAATCGGAAAATAAAATGGGTTGTCTAACAACGTTAAACAAAGTGCTTT
193 TTGATATAATTTAAACAAATCGAAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGCTTT
1496609 ATGGGAGGCAACCCATTTTA-TTTTCTGATTTGTTTAAATTATTTCAATTTCAATTT-ATTTTTA
258 ATGGGAGGCAACCCATTTTATTTTTC-GATTTGTTTAAATTATTTCAATTTCAATTTAATTTTTA
* *
1496672 -TTTGT-TTACATATTAATTTTATTTTTCTTTGAATTTTCAATTATCAAAAATATTTTTAATCGA
322 TTTTGTGTTACATATTAATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGA
*
1496735 ACAAATTTGTAACAGATCTGAGACTTTTGATCGATTCCAGCCGTGCGGCACACATTAACAAATCT
387 ACAAATTTGTAACAGATCTGAGACTTTTGATCGATTCCAGCCGTGCGGCACACATTAACAAAGCT
*
1496800 -CCCCAACCCGGCGCAAGTTAA
452 CCCCCAACCCGGCGCAAGTTAG
* *
1496821 CATAACTCATTTGCCCATTTTTTATTTCTTTGTCGCTCATACACCTTACACCTTTATTAAAAAAC
1 CATAACTCATTTGCCCATTTTTTATTTCTTTGTCGCCCATACACCCTACACCTTTATTAAAAAAC
* *
1496886 CAAAAAGTTAGTATGCTTAGTAAATTGTTTGGTATATTTAGACTTACCCTTAAAAATATTTGTGA
66 CAAAAAGTTAGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCCTTAAAAATATTTGTGA
* *
1496951 TAATTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAAATAAAAGT-AAATTGATATT
131 TAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAAATAAAA-TAAAATTGAAATT
*
1497015 GATATAATTTAAACAAATCTG-AAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGTTTTA
195 GATATAATTTAAACAAATC-GAAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGCTTTA
* * * * *
1497079 TGCGAGGCAACTCATTTTATTTTTCAATTTGTTTAAATTATTTCAATTTTAATTTAA-TTTAATT
259 TGGGAGGCAACCCATTTTATTTTTCGATTTGTTTAAATTATTTCAATTTCAATTTAATTTTTATT
* * *
1497143 TTTTGTTACATATTAATTTTATTTTTCTTTGAATTTTCAGTTATCATAAATGTTTTTAATCGAAC
324 TTGTGTTACATATTAATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAAC
* * *
1497208 AAAATTGTAGA-AGATATGAGACTTTTGATCGATTCCAACCGTGCGGCACACATTAACAAAGCTC
389 AAATTTGTA-ACAGATCTGAGACTTTTGATCGATTCCAGCCGTGCGGCACACATTAACAAAGCTC
1497272 CCCCAACCCGGCGCAAGTTAG
453 CCCCAACCCGGCGCAAGTTAG
* * *
1497293 CATAACCCATTTGCCCATTTTTTATTT-TTTTTCCGCCCATACACCCTACTCCTTTATTAAAATA
1 CATAACTCATTTGCCCATTTTTTATTTCTTTGT-CGCCCATACACCCTACACCTTTATTAAAA-A
** * * * *
1497357 ACCAAAAAAATAGTATATTTAGTAAATTATTTTGAATATTTAGACTCACCC
64 ACCAAAAAGTTAGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCC
1497408 ATTATTATTA
Statistics
Matches: 1397, Mismatches: 94, Indels: 56
0.90 0.06 0.04
Matches are distributed among these distances:
460 1 0.00
461 178 0.13
462 2 0.00
464 247 0.18
465 5 0.00
467 4 0.00
469 251 0.18
470 113 0.08
471 326 0.23
472 175 0.13
473 95 0.07
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (473 bp):
CATAACTCATTTGCCCATTTTTTATTTCTTTGTCGCCCATACACCCTACACCTTTATTAAAAAAC
CAAAAAGTTAGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCCTTAAAAATATTTGTGA
TAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAAATAAAATAAAATTGAAATTG
ATATAATTTAAACAAATCGAAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGCTTTATG
GGAGGCAACCCATTTTATTTTTCGATTTGTTTAAATTATTTCAATTTCAATTTAATTTTTATTTT
GTGTTACATATTAATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAACAA
ATTTGTAACAGATCTGAGACTTTTGATCGATTCCAGCCGTGCGGCACACATTAACAAAGCTCCCC
CAACCCGGCGCAAGTTAG
Found at i:1501091 original size:29 final size:29
Alignment explanation
Indices: 1501059--1501116 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
1501049 TATTTTATTG
*
1501059 TTAT-AATTATATTATT-ATAATATGTAATA
1 TTATAAATT-TATT-TTAATAATATATAATA
1501088 TTATAAATTTATTTTAATAATATATAATA
1 TTATAAATTTATTTTAATAATATATAATA
1501117 AATTATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 2 0.08
29 20 0.77
30 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TTATAAATTTATTTTAATAATATATAATA
Found at i:1501240 original size:7 final size:8
Alignment explanation
Indices: 1501218--1501250 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
1501208 TATAATATCT
1501218 TATTTTAA
1 TATTTTAA
1501226 TATTTTAA
1 TATTTTAA
1501234 T-TTTTAA
1 TATTTTAA
1501241 TATTTTAA
1 TATTTTAA
1501249 TA
1 TA
1501251 ATAATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTTTAA
Found at i:1501240 original size:15 final size:15
Alignment explanation
Indices: 1501220--1501249 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1501210 TAATATCTTA
1501220 TTTTAATATTTTAAT
1 TTTTAATATTTTAAT
1501235 TTTTAATATTTTAAT
1 TTTTAATATTTTAAT
1501250 AATAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAATATTTTAAT
Found at i:1501291 original size:16 final size:16
Alignment explanation
Indices: 1501245--1501294 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
1501235 TTTTAATATT
1501245 TTAATAATAATATTAT-
1 TTAATAAT-ATATTATA
*
1501261 TTAATAA-ATAATATA
1 TTAATAATATATTATA
1501276 TTAATAATATATTATA
1 TTAATAATATATTATA
1501292 TTA
1 TTA
1501295 TTCCTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 6 0.20
15 7 0.23
16 17 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATAATATATTATA
Done.