Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000074.1 Hibiscus syriacus cultivar Beakdansim tig00000136_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: 1055225
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:1837 original size:8 final size:8
Alignment explanation
Indices: 1824--1852 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1814 GCTACTTTTA
1824 AAAAAAAC
1 AAAAAAAC
1832 AAAAAAA-
1 AAAAAAAC
1839 AAAAAAAC
1 AAAAAAAC
1847 AAAAAA
1 AAAAAA
1853 GCCAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:1859 original size:15 final size:15
Alignment explanation
Indices: 1823--1852 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1813 TGCTACTTTT
1823 AAAAAAAACAAAAAA
1 AAAAAAAACAAAAAA
1838 AAAAAAAACAAAAAA
1 AAAAAAAACAAAAAA
1853 GCCAAAATTT
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:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAAAAAA
Found at i:6086 original size:11 final size:11
Alignment explanation
Indices: 6072--6116 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
6062 TTGCAATTCA
6072 TTTATCTT-TT
1 TTTATCTTATT
*
6082 CTTTATCTTGTT
1 -TTTATCTTATT
*
6094 TTAATCTTATT
1 TTTATCTTATT
6105 TTTATCTTATT
1 TTTATCTTATT
6116 T
1 T
6117 CCAGCACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 28 0.93
12 2 0.07
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (11 bp):
TTTATCTTATT
Found at i:10176 original size:14 final size:15
Alignment explanation
Indices: 10152--10201 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
10142 CCTAAAAAAG
10152 AATAAAAAATA-AAA
1 AATAAAAAATACAAA
* *
10166 AGTAAACAATACAAA
1 AATAAAAAATACAAA
* *
10181 AATAAAGAA-CCAAA
1 AATAAAAAATACAAA
10195 AATAAAA
1 AATAAAA
10202 TGCTTTGGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (15 bp):
AATAAAAAATACAAA
Found at i:10198 original size:22 final size:21
Alignment explanation
Indices: 10152--10201 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
10142 CCTAAAAAAG
**
10152 AATAAAAAATAAAAAGTAAAC
1 AATAAAAAATAAAAACCAAAC
10173 AATACAAAAATAAAGAACCAAA-
1 AATA-AAAAATAAA-AACCAAAC
10195 AATAAAA
1 AATAAAA
10202 TGCTTTGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 7 0.28
22 13 0.52
23 5 0.20
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (21 bp):
AATAAAAAATAAAAACCAAAC
Found at i:13607 original size:15 final size:14
Alignment explanation
Indices: 13586--13641 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
13576 ATTGGTTTTA
*
13586 TGGAAATTGAATTC
1 TGGAAAATGAATTC
13600 TGGAAAATGAATTAC
1 TGGAAAATGAATT-C
**
13615 TGGAATTTGAATTC
1 TGGAAAATGAATTC
*
13629 TAGAAAATGAATT
1 TGGAAAATGAATT
13642 ACATTTCTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 23 0.66
15 12 0.34
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (14 bp):
TGGAAAATGAATTC
Found at i:13628 original size:29 final size:29
Alignment explanation
Indices: 13586--13643 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
13576 ATTGGTTTTA
*
13586 TGGAAATTGAATTCTGGAAAATGAATTAC
1 TGGAAATTGAATTCTAGAAAATGAATTAC
*
13615 TGGAATTTGAATTCTAGAAAATGAATTAC
1 TGGAAATTGAATTCTAGAAAATGAATTAC
13644 ATTTCTGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (29 bp):
TGGAAATTGAATTCTAGAAAATGAATTAC
Found at i:13912 original size:23 final size:22
Alignment explanation
Indices: 13869--13914 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13859 TAAAATTTAA
**
13869 TATTAAAAATATAATTTTATAT
1 TATTAAAAATATAATAATATAT
*
13891 TATTAGAAATATTAATAATATAT
1 TATTAAAAATA-TAATAATATAT
13914 T
1 T
13915 TAAATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TATTAAAAATATAATAATATAT
Found at i:13979 original size:24 final size:25
Alignment explanation
Indices: 13932--13980 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
13922 TTTAATAATT
*
13932 AATATTTTGATTAAAATGATATTAA
1 AATATTTTGATTAAAATGAAATTAA
* *
13957 AATATTTT-ATTAATATTAAATTAA
1 AATATTTTGATTAAAATGAAATTAA
13981 TAAAATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (25 bp):
AATATTTTGATTAAAATGAAATTAA
Found at i:14195 original size:42 final size:42
Alignment explanation
Indices: 14135--14225 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
14125 TTCTCCAACC
*
14135 AAACACTGGAAAACATTTTCCGTA-AAAA-AAATTACGTGAAAA
1 AAACACGGGAAAACATTTT-C-TAGAAAATAAATTACGTGAAAA
* * *
14177 AAACACGGGAAAATATTTTCTAGAAAATGAATTACGTGAAAT
1 AAACACGGGAAAACATTTTCTAGAAAATAAATTACGTGAAAA
14219 AAACACG
1 AAACACG
14226 ATATTTCGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 2 0.05
41 5 0.12
42 36 0.84
ACGTcount: A:0.51, C:0.13, G:0.14, T:0.22
Consensus pattern (42 bp):
AAACACGGGAAAACATTTTCTAGAAAATAAATTACGTGAAAA
Found at i:15584 original size:36 final size:34
Alignment explanation
Indices: 15525--15603 Score: 95
Period size: 36 Copynumber: 2.3 Consensus size: 34
15515 AGCTCGTCCT
* * *
15525 CATCCCCGTCCCTATTTAGCATAAACGGTTTTTTCC
1 CATCCCCGTCCCCATTTAACATAAAC--ATTTTTCC
* *
15561 CGTCCCCGTCCCCGTTTAACATAAACATTTTTCC
1 CATCCCCGTCCCCATTTAACATAAACATTTTTCC
15595 CATCCCCGT
1 CATCCCCGT
15604 TTAATTTGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 15 0.41
36 22 0.59
ACGTcount: A:0.19, C:0.38, G:0.10, T:0.33
Consensus pattern (34 bp):
CATCCCCGTCCCCATTTAACATAAACATTTTTCC
Found at i:17312 original size:138 final size:138
Alignment explanation
Indices: 16811--17352 Score: 560
Period size: 138 Copynumber: 3.9 Consensus size: 138
16801 CTATTTATAA
* * * *
16811 TTAGT-CTTTAATTTA-GGGATTTTTTAACTTGGTTCTCGCTTTTGCTAGAGGTTCCATTTTAAT
1 TTAGTCCTTTAATTTAGGGGAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAAT
* * * * * * * *
16874 TA-CTCAATAAAAAAATTGGTTAAAATTAACTAGATTAATAATTAGAGTCTCCATTTTAGGCTTA
66 TATTTGAAT-CAATAATTGATTAAAATTAACTAGGTTAATAATTAGAGCCTCCATTTTAGGTTTA
*
16938 ATTTCAAAA
130 ATTTCAAAC
* * *
16947 TTAGTCTTTTAATTTAGGGGAATTTTTAATTTGG-CCATCGCTTCTGCTCGAGGTTCTATTTTTT
1 TTAGTCCTTTAATTTAGGGGAATTTTTAATTTGGTCC-TCGCTTTTGCTCGAGGTTCCA---TTT
* * * * *** *
17011 TAATTATTAGATTCAATAATAGATTAAAA-TAACTACGTTAATAA-TAGATAATCCATTTTAGGA
62 TAATTATTTGAATCAATAATTGATTAAAATTAACTAGGTTAATAATTAGAGCCTCCATTTTAGGT
*
17074 TTAATTTCATAC
127 TTAATTTCAAAC
* * * * *
17086 TTAATCCTTAAATTAAGGGGAATTTTTAATTTGGTCCTCGTTTTTGCTCGAGGTTCTATTTTAAT
1 TTAGTCCTTTAATTTAGGGGAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAAT
* * *
17151 TATTCGAATCAATAACT-AGTTAAAATTGACTAGGTTAATAATTAGAGCCTCCATTTTAGGTTTA
66 TATTTGAATCAATAATTGA-TTAAAATTAACTAGGTTAATAATTAGAGCCTCCATTTTAGGTTTA
*
17215 ATTTTAAAC
130 ATTTCAAAC
* * *
17224 TTAGTCCTTTAATTTAGGGGAATTCTTAATTTGGTCCTCGCTTTTGCTCGAGGATCCATTATAAT
1 TTAGTCCTTTAATTTAGGGGAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAAT
* * * ** * * *
17289 TATTTGACTCAATAATTTATTAAAAATGGCTTGGATTAAT-ATTAGAGCCTACATTTTAAGTTTA
66 TATTTGAATCAATAATTGATTAAAATTAACTAGG-TTAATAATTAGAGCCTCCATTTTAGGTTTA
17353 TACCCTGTGT
Statistics
Matches: 336, Mismatches: 57, Indels: 24
0.81 0.14 0.06
Matches are distributed among these distances:
135 1 0.00
136 31 0.09
137 23 0.07
138 163 0.49
139 80 0.24
140 15 0.04
141 21 0.06
142 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (138 bp):
TTAGTCCTTTAATTTAGGGGAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAAT
TATTTGAATCAATAATTGATTAAAATTAACTAGGTTAATAATTAGAGCCTCCATTTTAGGTTTAA
TTTCAAAC
Found at i:32494 original size:6 final size:6
Alignment explanation
Indices: 32483--32618 Score: 56
Period size: 6 Copynumber: 23.0 Consensus size: 6
32473 ACTACACTTG
32483 AGAAAA AGAAAA AG--AA AG-AAA AGAAAA AG--AA AGAAAA TGAGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA --AGAAAA
* * * * *
32528 A-AAGAA AGAAAA AGAAATA A-AAAA TGAGAA A-AAAT GGAAAA TGGAAAAA
1 AGAA-AA AGAAAA AGAAA-A AGAAAA AGAAAA AGAAAA AGAAAA -AG-AAAA
* * * * *
32577 AGAAGA AGAAGA AGAAGA A-TAAA AGAGAA AGAAAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AG-AAAA AGAAAA
32619 TAAGAGGGTT
Statistics
Matches: 101, Mismatches: 14, Indels: 30
0.70 0.10 0.21
Matches are distributed among these distances:
4 8 0.08
5 12 0.12
6 59 0.58
7 12 0.12
8 10 0.10
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (6 bp):
AGAAAA
Found at i:32502 original size:10 final size:10
Alignment explanation
Indices: 32483--32550 Score: 77
Period size: 10 Copynumber: 6.7 Consensus size: 10
32473 ACTACACTTG
32483 AGAAAAAGAA
1 AGAAAAAGAA
32493 A-AAGAAAGAAA
1 AGAA-AAAG-AA
32504 AGAAAAAGAA
1 AGAAAAAGAA
*
32514 AGAAAATGAGA
1 AGAAAAAGA-A
32525 A-AAAAAGAA
1 AGAAAAAGAA
32534 AGAAAAAGAA
1 AGAAAAAGAA
*
32544 ATAAAAA
1 AGAAAAA
32551 ATGAGAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 4 0.08
10 35 0.70
11 9 0.18
12 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:32506 original size:15 final size:15
Alignment explanation
Indices: 32486--32549 Score: 87
Period size: 15 Copynumber: 4.3 Consensus size: 15
32476 ACACTTGAGA
32486 AAAAGAAAAAGAAAG
1 AAAAGAAAAAGAAAG
32501 AAAAGAAAAAGAAAG
1 AAAAGAAAAAGAAAG
32516 AAAATGAGAAAA-AAAG
1 AAAA-GA-AAAAGAAAG
*
32532 -AAAGAAAAAGAAAT
1 AAAAGAAAAAGAAAG
32546 AAAA
1 AAAA
32550 AATGAGAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
13 4 0.09
14 5 0.11
15 25 0.57
16 6 0.14
17 4 0.09
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAAGAAAG
Found at i:32608 original size:23 final size:21
Alignment explanation
Indices: 32571--32624 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
32561 ATGGAAAATG
32571 GAAAAAAGA-AGAAGAAGAAGAA
1 GAAAAAAGAGAGAAGAA-AA-AA
32593 GAATAAAAGAGA-AAGAAAAAA
1 GAA-AAAAGAGAGAAGAAAAAA
32614 GAAAATAAGAG
1 GAAAA-AAGAG
32625 GGTTCAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 2 0.07
21 10 0.34
22 5 0.17
23 11 0.38
24 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (21 bp):
GAAAAAAGAGAGAAGAAAAAA
Found at i:38704 original size:34 final size:34
Alignment explanation
Indices: 38657--38740 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 34
38647 TATACATCAT
38657 ACTATA-TATTATATATTTTCAAAAACATTTT-AAA
1 ACTATATTA-TATATATTTTC-AAAACATTTTCAAA
* **
38691 ATTATATTATATATATTTTCAAAATGTTTTCAAA
1 ACTATATTATATATATTTTCAAAACATTTTCAAA
38725 ACTATATTATATATAT
1 ACTATATTATATATAT
38741 ATATATTCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
33 8 0.18
34 34 0.77
35 2 0.05
ACGTcount: A:0.44, C:0.07, G:0.01, T:0.48
Consensus pattern (34 bp):
ACTATATTATATATATTTTCAAAACATTTTCAAA
Found at i:38750 original size:38 final size:40
Alignment explanation
Indices: 38691--38770 Score: 119
Period size: 38 Copynumber: 2.0 Consensus size: 40
38681 ACATTTTAAA
* * *
38691 ATTATATTATATATATTTTCAAAATGTTT-TCAAAACTAT
1 ATTATATTATATATATATTCAAAATCTTTCTAAAAACTAT
38730 ATTATA-TATATATATATTCAAAATCTTTCTAAAAACTAT
1 ATTATATTATATATATATTCAAAATCTTTCTAAAAACTAT
38769 AT
1 AT
38771 ACAACAACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 20 0.54
39 17 0.46
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (40 bp):
ATTATATTATATATATATTCAAAATCTTTCTAAAAACTAT
Found at i:38770 original size:34 final size:34
Alignment explanation
Indices: 38657--38771 Score: 101
Period size: 34 Copynumber: 3.2 Consensus size: 34
38647 TATACATCAT
*
38657 ACTATATATTATATATTTTCAAAAACATTT-T-AAA
1 ACTATATA-TATATATTTTCAAAATC-TTTCTAAAA
* * *
38691 ATTATATTATATATATTTTCAAAATGTTT-TCAAA
1 ACTATA-TATATATATTTTCAAAATCTTTCTAAAA
38725 ACTATATTATATATATATATATTCAAAATCTTTCTAAAA
1 AC--TA-TATATATATAT-T-TTCAAAATCTTTCTAAAA
38764 ACTATATA
1 ACTATATA
38772 CAACAACAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
33 4 0.06
34 24 0.36
35 2 0.03
36 15 0.22
37 5 0.07
38 11 0.16
39 6 0.09
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.45
Consensus pattern (34 bp):
ACTATATATATATATTTTCAAAATCTTTCTAAAA
Found at i:38980 original size:13 final size:13
Alignment explanation
Indices: 38962--38987 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38952 ATAGTTGAAC
38962 AGTCTTCATATGT
1 AGTCTTCATATGT
38975 AGTCTTCATATGT
1 AGTCTTCATATGT
38988 GCGTCTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
AGTCTTCATATGT
Found at i:43302 original size:37 final size:37
Alignment explanation
Indices: 43255--43389 Score: 166
Period size: 35 Copynumber: 3.9 Consensus size: 37
43245 CAAAAGCACA
43255 TTTCTAAAAACTATATATTATATATATTTTCAAAATGT
1 TTTC-AAAAACTATATATTATATATATTTTCAAAATGT
43293 TTTCAAAAACTATATATTATATATA---T----A--T
1 TTTCAAAAACTATATATTATATATATTTTCAAAATGT
*
43321 ATTCAAAAACTATATATTATATATATTTTCAAAATGT
1 TTTCAAAAACTATATATTATATATATTTTCAAAATGT
*
43358 TTT--AAAACTATATACTATATATATTTTCAAAA
1 TTTCAAAAACTATATATTATATATATTTTCAAAA
43390 AAAATATAAT
Statistics
Matches: 85, Mismatches: 3, Indels: 21
0.78 0.03 0.19
Matches are distributed among these distances:
28 25 0.29
30 1 0.01
31 1 0.01
34 1 0.01
35 29 0.34
37 24 0.28
38 4 0.05
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.45
Consensus pattern (37 bp):
TTTCAAAAACTATATATTATATATATTTTCAAAATGT
Found at i:43334 original size:15 final size:15
Alignment explanation
Indices: 43294--43338 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
43284 TCAAAATGTT
43294 TTCAAAAACTATATA
1 TTCAAAAACTATATA
* *
43309 TT-ATATA-TATATA
1 TTCAAAAACTATATA
43322 TTCAAAAACTATATA
1 TTCAAAAACTATATA
43337 TT
1 TT
43339 ATATATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 8 0.33
14 6 0.25
15 10 0.42
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (15 bp):
TTCAAAAACTATATA
Found at i:43341 original size:26 final size:28
Alignment explanation
Indices: 43294--43354 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
43284 TCAAAATGTT
43294 TTCAAAAACTATATATTATATATATATA
1 TTCAAAAACTATATATTATATATATATA
43322 TTCAAAAACTATATATTATATATAT-T-
1 TTCAAAAACTATATATTATATATATATA
43348 TTCAAAA
1 TTCAAAA
43355 TGTTTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 7 0.21
27 1 0.03
28 25 0.76
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (28 bp):
TTCAAAAACTATATATTATATATATATA
Found at i:43379 original size:65 final size:64
Alignment explanation
Indices: 43260--43390 Score: 223
Period size: 65 Copynumber: 2.1 Consensus size: 64
43250 GCACATTTCT
43260 AAAAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATATTATATATATATATTC
1 AAAAACTATATATTATATATATTTTCAAAATGTTTT-AAAAACTATATATTATATATATATATTC
*
43325 AAAAACTATATATTATATATATTTTCAAAATGTTTT-AAAACTATATACTATATATAT-T-TTC
1 AAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTATATATTATATATATATATTC
43386 AAAAA
1 AAAAA
43391 AAATATAATA
Statistics
Matches: 65, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
61 8 0.12
62 1 0.02
63 20 0.31
65 36 0.55
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.44
Consensus pattern (64 bp):
AAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTATATATTATATATATATATTC
Found at i:45926 original size:15 final size:15
Alignment explanation
Indices: 45906--45943 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
45896 ATCCGCATCT
45906 CATAATATTATTTGA
1 CATAATATTATTTGA
*
45921 CATAATATTCTTTGA
1 CATAATATTATTTGA
45936 CATAATAT
1 CATAATAT
45944 GTCCATTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (15 bp):
CATAATATTATTTGA
Found at i:58897 original size:4 final size:4
Alignment explanation
Indices: 58888--58927 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
58878 TAAAAATAGA
* *
58888 AAAT AAAT AAAT AAAT AAAT AAAAT GAAT AATT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAA
58928 AATATACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:58911 original size:21 final size:21
Alignment explanation
Indices: 58887--58927 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58877 CTAAAAATAG
58887 AAAATAAATAAATAAATAAAT
1 AAAATAAATAAATAAATAAAT
* *
58908 AAAATGAATAATTAAATAAA
1 AAAATAAATAAATAAATAAA
58928 AATATACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAATAAATAAATAAATAAAT
Found at i:58912 original size:17 final size:17
Alignment explanation
Indices: 58888--58928 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
58878 TAAAAATAGA
58888 AAAT-AAATAAATAAAT
1 AAATAAAATAAATAAAT
* *
58904 AAATAAAATGAATAATT
1 AAATAAAATAAATAAAT
58921 AAATAAAA
1 AAATAAAA
58929 ATATACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAATAAAT
Found at i:59156 original size:110 final size:109
Alignment explanation
Indices: 58977--59223 Score: 392
Period size: 110 Copynumber: 2.3 Consensus size: 109
58967 CCTATACATC
*
58977 AAACTATATATTATATATATTTTCAAAATCATTTTAAAATTATATTATATATATTTTCAAAATGT
1 AAACTATATATTATATATATTTTCAAAATCATTTTAAAACTATATTATATATATTTTCAAAATGT
* *
59042 TTTC-AAAATTATATATTATATATATATTTTCAAAATGTTTTCAA
66 TTTCAAAAACTATATATTATATACATATTTTCAAAATGTTTTC-A
*
59086 AAACTATATATTATATATATTTTCAAAAT-GTTTTCAAAAACTATA-TATTATATATTTTCAAAA
1 AAACTATATATTATATATATTTTCAAAATCATTTT--AAAACTATATTA-TATATATTTTCAAAA
*
59149 TGTTTTCAAAAACTATATATTATATACATGTTTTCAAAATGTTTTCA
63 TGTTTTCAAAAACTATATATTATATACATATTTTCAAAATGTTTTCA
59196 AAACTATATATTATATATATTTTCAAAA
1 AAACTATATATTATATATATTTTCAAAA
59224 AAAATATTGT
Statistics
Matches: 129, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
108 4 0.03
109 31 0.24
110 59 0.46
111 35 0.27
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (109 bp):
AAACTATATATTATATATATTTTCAAAATCATTTTAAAACTATATTATATATATTTTCAAAATGT
TTTCAAAAACTATATATTATATACATATTTTCAAAATGTTTTCA
Found at i:59718 original size:83 final size:83
Alignment explanation
Indices: 59550--59924 Score: 440
Period size: 83 Copynumber: 4.6 Consensus size: 83
59540 TTATACGAAA
* * * * * * *
59550 CTATGGCGGCGTTTGTA-AAAAAAGCCACTAAAGTACTTCTCTATTGCTGCATTTGTTG-AAAAA
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGATGCGTTTGTTGAAAAAA
*
59613 CGCCATTATAGATGAACT
66 CGCCACTATAGATGAACT
*
59631 CTATTGCGGTGTTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTG-TGGCGTTTGTTGAAAAA
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGAT-GCGTTTGTTGAAAAA
* *
59695 ATGCCACTATAGATGAAGT
65 ACGCCACTATAGATGAACT
* * * *
59714 CTATTGTGGCGTTTGTATAAAAACCCCACTAAAGTACTACTTTGTTGCGAT--GTTTGTTGAAAA
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTGTT--GATGCGTTTGTTGAAAA
*
59777 AATGCCACTATAGATGAACT
64 AACGCCACTATAGATGAACT
* * * * *
59797 TTATTGAGGCGTTTGTATAAAAATGTCGCTAAAGTACTACTTTGTTGATGCGTTTGTTGAAAAAA
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGATGCGTTTGTTGAAAAAA
*
59862 CGCCACTAT-GTATG-AGT
66 CGCCACTATAG-ATGAACT
* * *
59879 CTATCGCGGTGTTTGTATAAAAACGCAGCTAAAGTACTACTCTGTT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTGTT
59925 ACGACTTTCG
Statistics
Matches: 253, Mismatches: 32, Indels: 17
0.84 0.11 0.06
Matches are distributed among these distances:
81 19 0.08
82 75 0.30
83 157 0.62
85 1 0.00
86 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (83 bp):
CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGATGCGTTTGTTGAAAAAA
CGCCACTATAGATGAACT
Found at i:59819 original size:42 final size:42
Alignment explanation
Indices: 59550--59819 Score: 161
Period size: 41 Copynumber: 6.5 Consensus size: 42
59540 TTATACGAAA
* * *
59550 CTATGGCGGCGTTTGTA-AAAAAA-GCCACTAAAG-T-ACTTCT
1 CTATTGCGGCGTTTGTATAAAAAACGCCACTATAGATGA--ACT
* * * *
59590 CTATTGCTGCATTTGT-TGAAAAACGCCATTATAGATGAACT
1 CTATTGCGGCGTTTGTATAAAAAACGCCACTATAGATGAACT
* * *
59631 CTATTGCGGTGTTTGTAT-AAAAACGCCGCTAAAG-T-ACTACT
1 CTATTGCGGCGTTTGTATAAAAAACGCCACTATAGATGA--ACT
* * * *
59672 CTGTTGTGGCGTTTGT-TGAAAAAATGCCACTATAGATGAAGT
1 CTATTGCGGCGTTTGTAT-AAAAAACGCCACTATAGATGAACT
* * *
59714 CTATTGTGGCGTTTGTAT-AAAAACCCCACTAAAG-T-ACTACT
1 CTATTGCGGCGTTTGTATAAAAAACGCCACTATAGATGA--ACT
* * ** *
59755 TTGTTGCGATGTTTGT-TGAAAAAATGCCACTATAGATGAACT
1 CTATTGCGGCGTTTGTAT-AAAAAACGCCACTATAGATGAACT
* *
59797 TTATTGAGGCGTTTGTATAAAAA
1 CTATTGCGGCGTTTGTATAAAAA
59820 TGTCGCTAAA
Statistics
Matches: 174, Mismatches: 37, Indels: 36
0.70 0.15 0.15
Matches are distributed among these distances:
39 2 0.01
40 22 0.13
41 78 0.45
42 65 0.37
43 5 0.03
44 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (42 bp):
CTATTGCGGCGTTTGTATAAAAAACGCCACTATAGATGAACT
Found at i:59860 original size:41 final size:41
Alignment explanation
Indices: 59641--59869 Score: 122
Period size: 42 Copynumber: 5.5 Consensus size: 41
59631 CTATTGCGGT
* * *
59641 GTTTGTAT-AAAAACGCCGCTAAAGTACTACTCTGTTG-TGGC
1 GTTTGT-TGAAAAATGCCACTAAAGTACTACTTTGTTGAT-GC
* *
59682 GTTTGTTGAAAAAATGCCACTATAGATGAAGT-CTATTG-TG--GC
1 GTTTGTTG-AAAAATGCCACTA-A-A-GTACTACT-TTGTTGATGC
**
59724 GTTTGTAT-AAAAACCCCACTAAAGTACTACTTTGTTGCGAT--
1 GTTTGT-TGAAAAATGCCACTAAAGTACTACTTTGTT--GATGC
* * *
59765 GTTTGTTGAAAAAATGCCACTATAG-A-TGAACTTTATTGAGGC
1 GTTTGTTG-AAAAATGCCACTAAAGTACT--ACTTTGTTGATGC
* *
59807 GTTTGTAT-AAAAATGTCGCTAAAGTACTACTTTGTTGATGC
1 GTTTGT-TGAAAAATGCCACTAAAGTACTACTTTGTTGATGC
*
59848 GTTTGTTGAAAAAACGCCACTA
1 GTTTGTTG-AAAAATGCCACTA
59870 TGTATGAGTC
Statistics
Matches: 142, Mismatches: 22, Indels: 47
0.67 0.10 0.22
Matches are distributed among these distances:
38 6 0.04
39 4 0.03
40 7 0.05
41 55 0.39
42 56 0.39
43 4 0.03
44 5 0.04
45 5 0.04
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (41 bp):
GTTTGTTGAAAAATGCCACTAAAGTACTACTTTGTTGATGC
Found at i:63167 original size:16 final size:16
Alignment explanation
Indices: 63139--63172 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
63129 AAATATTAAT
63139 AATATTAATAATAAAA
1 AATATTAATAATAAAA
63155 AATA-TAATCAATAAAA
1 AATATTAAT-AATAAAA
63171 AA
1 AA
63173 AATCAACACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AATATTAATAATAAAA
Found at i:63820 original size:15 final size:15
Alignment explanation
Indices: 63781--63838 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
63771 ATCTTAATTC
63781 ATTTAAATAATTTAT
1 ATTTAAATAATTTAT
** *
63796 GGTTATATAATTTAT
1 ATTTAAATAATTTAT
*
63811 ATTTAAATAATTGAT
1 ATTTAAATAATTTAT
*
63826 AACTTAAATAATT
1 -ATTTAAATAATT
63839 AGTGATTGTT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
15 23 0.68
16 11 0.32
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (15 bp):
ATTTAAATAATTTAT
Found at i:65617 original size:14 final size:14
Alignment explanation
Indices: 65598--65651 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
65588 ATTATATATA
65598 TATATATAATATTT
1 TATATATAATATTT
*
65612 TATATATTTTATATTAAT
1 TATATA--TAATATT--T
65630 TATATTATAATATTT
1 TATA-TATAATATTT
65645 TATATAT
1 TATATAT
65652 TTTATATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 9 0.27
15 5 0.15
16 6 0.18
17 6 0.18
18 5 0.15
19 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATATAATATTT
Found at i:65618 original size:9 final size:9
Alignment explanation
Indices: 65592--65658 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 9
65582 GCCCCGATTA
*
65592 TATATATATA
1 TATATAT-TT
65602 TATAATATTT
1 TAT-ATATTT
65612 TATATATTT
1 TATATATTT
**
65621 TATAT-TAA
1 TATATATTT
*
65629 T-TATATTA
1 TATATATTT
65637 TA-ATATTT
1 TATATATTT
65645 TATATATTT
1 TATATATTT
65654 TATAT
1 TATAT
65659 TAATTATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
7 3 0.06
8 12 0.25
9 22 0.46
10 7 0.15
11 4 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TATATATTT
Found at i:65640 original size:33 final size:34
Alignment explanation
Indices: 65596--65679 Score: 161
Period size: 33 Copynumber: 2.5 Consensus size: 34
65586 CGATTATATA
65596 TATATATATAATATTTTATATATTTTATATTAAT
1 TATATATATAATATTTTATATATTTTATATTAAT
65630 TATAT-TATAATATTTTATATATTTTATATTAAT
1 TATATATATAATATTTTATATATTTTATATTAAT
65663 TATATATATAATATTTT
1 TATATATATAATATTTT
65680 TGGGTTCGGG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
33 33 0.67
34 16 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (34 bp):
TATATATATAATATTTTATATATTTTATATTAAT
Found at i:68068 original size:25 final size:24
Alignment explanation
Indices: 68032--68174 Score: 169
Period size: 25 Copynumber: 5.8 Consensus size: 24
68022 GAGTATTATT
*
68032 TGTGCAATTCTATGAGGCACTTTG
1 TGTGCAATTCTACGAGGCACTTTG
*
68056 TGTGCATATTCTACGAGGCACTCTG
1 TGTGCA-ATTCTACGAGGCACTTTG
* * * *
68081 AGTGTAATTCTACGAGGGACTTTT
1 TGTGCAATTCTACGAGGCACTTTG
*
68105 TGTACAATTCTACGAGGCACTTTG
1 TGTGCAATTCTACGAGGCACTTTG
*
68129 TGTGCATATTCTACTAGGCACTTTG
1 TGTGCA-ATTCTACGAGGCACTTTG
* *
68154 TGTGCTTATTCTACGTGGCAC
1 TGTGC-AATTCTACGAGGCAC
68175 ATTGATGATG
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
24 45 0.45
25 54 0.55
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (24 bp):
TGTGCAATTCTACGAGGCACTTTG
Found at i:68140 original size:49 final size:49
Alignment explanation
Indices: 68032--68174 Score: 171
Period size: 49 Copynumber: 2.9 Consensus size: 49
68022 GAGTATTATT
* *
68032 TGTGCAATTCTATGAGGCACTTTGTGTGCATATTCTACGAGGCACTCTG
1 TGTGCAATTCTACGAGGCACTTTGTGTACATATTCTACGAGGCACTCTG
* * * * *
68081 AGTGTAATTCTACGAGGGACTTTTTGTACA-ATTCTACGAGGCACTTTG
1 TGTGCAATTCTACGAGGCACTTTGTGTACATATTCTACGAGGCACTCTG
* * * *
68129 TGTGCATATTCTACTAGGCACTTTGTGTGCTTATTCTACGTGGCAC
1 TGTGCA-ATTCTACGAGGCACTTTGTGTACATATTCTACGAGGCAC
68175 ATTGATGATG
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
48 21 0.27
49 43 0.56
50 13 0.17
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (49 bp):
TGTGCAATTCTACGAGGCACTTTGTGTACATATTCTACGAGGCACTCTG
Found at i:68149 original size:73 final size:74
Alignment explanation
Indices: 68030--68168 Score: 217
Period size: 73 Copynumber: 1.9 Consensus size: 74
68020 TAGAGTATTA
* *
68030 TTTGTGCAATTCTATGAGGCACTTTGTGTGCATATTCTACGAGGCACTCTGAGTG-TAATTCTAC
1 TTTGTACAATTCTACGAGGCACTTTGTGTGCATATTCTACGAGGCACTCTGAGTGCTAATTCTAC
68094 GAGGGACTT
66 GAGGGACTT
* * * *
68103 TTTGTACAATTCTACGAGGCACTTTGTGTGCATATTCTACTAGGCACTTTGTGTGCTTATTCTAC
1 TTTGTACAATTCTACGAGGCACTTTGTGTGCATATTCTACGAGGCACTCTGAGTGCTAATTCTAC
68168 G
66 G
68169 TGGCACATTG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
73 50 0.85
74 9 0.15
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (74 bp):
TTTGTACAATTCTACGAGGCACTTTGTGTGCATATTCTACGAGGCACTCTGAGTGCTAATTCTAC
GAGGGACTT
Found at i:68565 original size:6 final size:6
Alignment explanation
Indices: 68552--68591 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
68542 ATTGCTATTA
68552 ATTT-T ATTTAT ATTTAT ATTTAT A-TTATT ATTT-T ATTTAT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTA-T ATTTAT ATTTAT
68592 GTTATTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
5 12 0.39
6 17 0.55
7 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTAT
Found at i:68597 original size:17 final size:17
Alignment explanation
Indices: 68554--68598 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
68544 TGCTATTAAT
68554 TTTATTTA-TATTTATA
1 TTTATTTATTATTTATA
68570 TTTATATTATTATTT-TA
1 TTTAT-TTATTATTTATA
68587 TTTATGTTATTA
1 TTTAT-TTATTA
68599 ATAATAGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 5 0.19
17 16 0.62
18 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTATTTATTATTTATA
Found at i:74027 original size:59 final size:58
Alignment explanation
Indices: 73929--74091 Score: 195
Period size: 59 Copynumber: 2.8 Consensus size: 58
73919 CCAAGATAGT
* * *
73929 TTCATGTAATAACCATTCATG-TGTCTTTTGTAGTCTGAACACAAGCAAGCATGTCACAC
1 TTCATGTAATAA-TATTCATGTTG-CTTTTTTAGTCTGAACACAAGCAAACATGTCACAC
* * *
73988 TTCATGTAATAATAGTTCATGTTGCTTTTTTAGTTTGAACATAAGCAAACATGTCACAT
1 TTCATGTAATAATA-TTCATGTTGCTTTTTTAGTCTGAACACAAGCAAACATGTCACAC
* *
74047 TTCATGTAATAGTCATTCATGTTG-TTCTTTTAGTGTGAACACAAG
1 TTCATGTAATAAT-ATTCATGTTGCTT-TTTTAGTCTGAACACAAG
74092 TAACAACATC
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
58 3 0.03
59 85 0.93
60 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (58 bp):
TTCATGTAATAATATTCATGTTGCTTTTTTAGTCTGAACACAAGCAAACATGTCACAC
Found at i:89903 original size:18 final size:18
Alignment explanation
Indices: 89880--89947 Score: 127
Period size: 18 Copynumber: 3.8 Consensus size: 18
89870 TCCTTTATAT
*
89880 TTAGAATAGGCACAAGTC
1 TTAGAATAGTCACAAGTC
89898 TTAGAATAGTCACAAGTC
1 TTAGAATAGTCACAAGTC
89916 TTAGAATAGTCACAAGTC
1 TTAGAATAGTCACAAGTC
89934 TTAGAATAGTCACA
1 TTAGAATAGTCACA
89948 CTTGTATAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (18 bp):
TTAGAATAGTCACAAGTC
Found at i:91380 original size:81 final size:80
Alignment explanation
Indices: 91277--91716 Score: 594
Period size: 81 Copynumber: 5.4 Consensus size: 80
91267 CTAACCAGTC
* * * * * * * * ***
91277 TAATTGACACCTATATGTCAATTACACAATTAGGTTGTTATCTTTTTACTCGATAATATTTATCC
1 TAATTGACACCTTTCTGCCAATTGCACAGTTAGGCT-TTATCCTTTTACTCAACGGTATTTATCC
* * * *
91342 ATTCATCTAATTAGAA
65 GTTCATCTAACTGGCA
*
91358 TAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCATTATCCTTTTACTCAACGGTATTTATCC
1 TAATTGACACCTTTCTGCCAATTGCACAGTTAGG-CTTTATCCTTTTACTCAACGGTATTTATCC
*
91423 GTTCATCGAACTGGCA
65 GTTCATCTAACTGGCA
* * *
91439 TAATTGACACATTTCTTCCAATTGCACAATTAGGCCATTT-TCCTTTTACTCAACGGTATTTATC
1 TAATTGACACCTTTCTGCCAATTGCACAGTTAGG-C-TTTATCCTTTTACTCAACGGTATTTATC
*
91503 CGTTCATATAACTGGCA
64 CGTTCATCTAACTGGCA
*
91520 TAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCTTTATCCTTTTACTCAACGGTATTTATCT
1 TAATTGACACCTTTCTGCCAATTGCACAGTTAGG-CTTTATCCTTTTACTCAACGGTATTTATCC
91585 GTTCATCTAACTGGCA
65 GTTCATCTAACTGGCA
*
91601 TAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCTTTATCCTTTTACTCAACGGTATTTAACC
1 TAATTGACACCTTTCTGCCAATTGCACAGTTAGG-CTTTATCCTTTTACTCAACGGTATTTATCC
91666 GTTCATCTAACTGGCA
65 GTTCATCTAACTGGCA
* *
91682 TAATTGACACTTTTCTGCCAATTGCATAGTTAGGC
1 TAATTGACACCTTTCTGCCAATTGCACAGTTAGGC
91717 CTCAAAGGCC
Statistics
Matches: 324, Mismatches: 32, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
80 4 0.01
81 318 0.98
82 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.38
Consensus pattern (80 bp):
TAATTGACACCTTTCTGCCAATTGCACAGTTAGGCTTTATCCTTTTACTCAACGGTATTTATCCG
TTCATCTAACTGGCA
Found at i:91717 original size:81 final size:81
Alignment explanation
Indices: 91333--91718 Score: 630
Period size: 81 Copynumber: 4.8 Consensus size: 81
91323 TACTCGATAA
* * * * *
91333 TATTTATCCATTCATCTAATTAGAATAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCATTA
1 TATTTATCCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCTTTA
91398 TCCTTTTACTCAACGG
66 TCCTTTTACTCAACGG
* * * *
91414 TATTTATCCGTTCATCGAACTGGCATAATTGACACATTTCTTCCAATTGCACAATTAGGCCATTT
1 TATTTATCCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGCC-TTT
91479 -TCCTTTTACTCAACGG
65 ATCCTTTTACTCAACGG
*
91495 TATTTATCCGTTCATATAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCTTTA
1 TATTTATCCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCTTTA
91560 TCCTTTTACTCAACGG
66 TCCTTTTACTCAACGG
*
91576 TATTTATCTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCTTTA
1 TATTTATCCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCTTTA
91641 TCCTTTTACTCAACGG
66 TCCTTTTACTCAACGG
* * *
91657 TATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAATTGCATAGTTAGGCCT
1 TATTTATCCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCT
91719 CAAAGGCCCT
Statistics
Matches: 283, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
80 3 0.01
81 278 0.98
82 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (81 bp):
TATTTATCCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCTTTA
TCCTTTTACTCAACGG
Found at i:91855 original size:68 final size:68
Alignment explanation
Indices: 91667--91920 Score: 348
Period size: 68 Copynumber: 3.8 Consensus size: 68
91657 TATTTAACCG
* * * * *
91667 TTCATCTAACTGGCATAATTGACACTTTTCTGCCAATTGCATAGTTAGGCCTCAAAGGCCCTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGCCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
91732 CCT
66 CCT
* * * * * *
91735 TTCATCTAACTGGCATAAATG-CACCTTTATGTCAAATGCAAAGTTAGGCCTCAATGGAATTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGCCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
91799 TCT
66 CCT
* *
91802 TTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGCCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
91867 CCT
66 CCT
* * *
91870 TTCATCTAACTGGCATAATTGACACCTATCTGCCAATTGCACAGTTAGGCC
1 TTCATCTAACTGGCATAAATGACACCTTTCTGCCAAATGCACAGTTAGGCC
91921 ATTTAATCTT
Statistics
Matches: 162, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
67 57 0.35
68 105 0.65
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGCCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:92272 original size:59 final size:59
Alignment explanation
Indices: 92136--92585 Score: 654
Period size: 59 Copynumber: 7.7 Consensus size: 59
92126 CACATTTCTC
* * * * * * *
92136 ATATGGAATTTCATACACTTAGTATGAA-TCTCTTAGC-GGTTTGCACACAAAGTG-CCA
1 ATATGGAAATCCATACACTTAGTATGAATTC-CTTATCATGTTAGCACACGAAGTGCCCT
* * * * *
92193 ATATGAAAATTCATACACTTAGTCTGAATTACTTATCATATTAGCACACGAAGTGCCCT
1 ATATGGAAATCCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
** * *
92252 ATATGGAAATATATACACTTAGTATGAATTCCTCATCATGTTAGCACATGAAGTGCCCT
1 ATATGGAAATCCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
* *
92311 ATATGGAAATCCATACACTTAGTAGGAATTCCTTATCATGTTACCACACGAAGTGCCCT
1 ATATGGAAATCCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
* *
92370 ATATGGAAATCCATACACTTAGTATGAATTCTTTATTATGTTAGCACACGAAGTGCCCT
1 ATATGGAAATCCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
* *
92429 ATATGGAAATCCATACACTTAGTATTAATTCCTTATCATGTTAGCACACAAAGTGCCCT
1 ATATGGAAATCCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
*
92488 ATATGGAAATCCATCCACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
1 ATATGGAAATCCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
*
92547 ATATGGAAATCCATACACTTAGTATGAATTCATTATCAT
1 ATATGGAAATCCATACACTTAGTATGAATTCCTTATCAT
92586 TTGGTAATCA
Statistics
Matches: 353, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
57 30 0.08
58 14 0.04
59 309 0.88
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.32
Consensus pattern (59 bp):
ATATGGAAATCCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCT
Found at i:94174 original size:2 final size:2
Alignment explanation
Indices: 94167--94257 Score: 182
Period size: 2 Copynumber: 45.5 Consensus size: 2
94157 CACGTACTTC
94167 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94209 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94251 AT AT AT A
1 AT AT AT A
94258 AAGATGTACT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 89 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:94682 original size:19 final size:19
Alignment explanation
Indices: 94654--94703 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
94644 TCTATGCTAG
94654 GGTACCGATACCCTACCCC
1 GGTACCGATACCCTACCCC
*
94673 GGTACTGATACCCTACCCC
1 GGTACCGATACCCTACCCC
*
94692 GGTATCGATACC
1 GGTACCGATACC
94704 AATATTAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.22, C:0.40, G:0.18, T:0.20
Consensus pattern (19 bp):
GGTACCGATACCCTACCCC
Found at i:94839 original size:20 final size:20
Alignment explanation
Indices: 94811--94878 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
94801 TTCCTTATGG
*
94811 TATCGATATTGTTCATGTGA
1 TATCGATATTGTTCATGCGA
* *
94831 TATCAATATTGTTCATGCGG
1 TATCGATATTGTTCATGCGA
94851 TATCGATATTGTTCATGC-A
1 TATCGATATTGTTCATGCGA
94870 GTATCGATA
1 -TATCGATA
94879 CTTCATGCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (20 bp):
TATCGATATTGTTCATGCGA
Found at i:94885 original size:18 final size:19
Alignment explanation
Indices: 94842--94887 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
94832 ATCAATATTG
* *
94842 TTCATGCGGTATCGATATTG
1 TTCATGCAGTATCGATA-TC
94862 TTCATGCAGTATCGATA-C
1 TTCATGCAGTATCGATATC
94880 TTCATGCA
1 TTCATGCA
94888 TAAATTTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
20 16 0.67
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (19 bp):
TTCATGCAGTATCGATATC
Found at i:101952 original size:17 final size:17
Alignment explanation
Indices: 101923--101972 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
101913 TAAGAGTTAA
*
101923 TTTAATAAATGAACTAG
1 TTTAATGAATGAACTAG
*
101940 TTTGATGAATGAACTAG
1 TTTAATGAATGAACTAG
*
101957 TTTAATTAATGAACTA
1 TTTAATGAATGAACTA
101973 CTTCCCTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (17 bp):
TTTAATGAATGAACTAG
Found at i:107171 original size:29 final size:30
Alignment explanation
Indices: 107090--107178 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 30
107080 TAAAAGCTGG
* * *
107090 AATTTAAAGGACTGAAATATAACTGC-TAA
1 AATTTAAAGGATTGAAATATAAATACATAA
* * * *
107119 AATTTAAAGGCTGGAATTAGAAATACATAA
1 AATTTAAAGGATTGAAATATAAATACATAA
*
107149 AA-TTAAAGGGTTGAAATATAAATA-ATAA
1 AATTTAAAGGATTGAAATATAAATACATAA
107177 AA
1 AA
107179 ATTAGTCAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
28 6 0.12
29 37 0.77
30 5 0.10
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.27
Consensus pattern (30 bp):
AATTTAAAGGATTGAAATATAAATACATAA
Found at i:108990 original size:11 final size:12
Alignment explanation
Indices: 108975--109003 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
108965 ATATTATTTT
108975 TTATTAATATAA
1 TTATTAATATAA
108987 -TATTAATATAA
1 TTATTAATATAA
108998 TTATTA
1 TTATTA
109004 TTTATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTATTAATATAA
Found at i:108995 original size:27 final size:27
Alignment explanation
Indices: 108942--109004 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
108932 ATAGTTTTTA
* *
108942 TATTTTATAGTAATATAATTTTTATAT
1 TATTTTATAGTAATATAATATTAATAT
* *
108969 TATTTTTTATTAATATAATATTAATAT
1 TATTTTATAGTAATATAATATTAATAT
*
108996 AATTATTAT
1 TATT-TTAT
109005 TTATTTAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (27 bp):
TATTTTATAGTAATATAATATTAATAT
Found at i:109039 original size:20 final size:20
Alignment explanation
Indices: 109016--109056 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
109006 TATTTAAATT
109016 TATTAATTA-ATTATTTTTTG
1 TATTAATTATATT-TTTTTTG
109036 TATTAATTATATTTTTTTTG
1 TATTAATTATATTTTTTTTG
109056 T
1 T
109057 CTACAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TATTAATTATATTTTTTTTG
Found at i:109044 original size:24 final size:24
Alignment explanation
Indices: 108986--109044 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
108976 TATTAATATA
108986 ATATTAATATAATTATTATTTATTT
1 ATATTAAT-TAATTATTATTTATTT
* *
109011 AAATTTATTAATTAATTATTT-TTT
1 ATATTAATTAATT-ATTATTTATTT
*
109035 GTATTAATTA
1 ATATTAATTA
109045 TATTTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
ATATTAATTAATTATTATTTATTT
Found at i:111428 original size:34 final size:34
Alignment explanation
Indices: 111384--111456 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
111374 TTAAATGTTT
* *
111384 TTAATATACAAATTATAGTATTTAAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
* * *
111418 TTAAAATACAAATTATGGTATTCGAAATTTAACA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
111452 TTAAA
1 TTAAA
111457 TTCAACTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCAAAATTTAAAA
Found at i:111584 original size:14 final size:14
Alignment explanation
Indices: 111565--111609 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
111555 TTTTATCCTT
111565 AACATATACATTAA
1 AACATATACATTAA
*
111579 AACATACACATTAA
1 AACATATACATTAA
111593 AACATATACATTAA
1 AACATATACATTAA
111607 AAC
1 AAC
111610 CAACTTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (14 bp):
AACATATACATTAA
Found at i:112886 original size:12 final size:11
Alignment explanation
Indices: 112871--112898 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
112861 TTTTCTTTTC
112871 TTTTTCCTCCA
1 TTTTTCCTCCA
112882 TTTTTCCTCCA
1 TTTTTCCTCCA
112893 TTTTTC
1 TTTTTC
112899 TTTTTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.32, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTTCCTCCA
Found at i:113561 original size:118 final size:119
Alignment explanation
Indices: 113126--113625 Score: 630
Period size: 119 Copynumber: 4.2 Consensus size: 119
113116 TCGATCGTGC
* * * * * *
113126 TGATCCACCTCCTTCTATGATTGAATCGAGCAAAAGGATGAACAAGTTCTTTTCATTATTAACTT
1 TGATCCACCTCCTTCTGTGATGGAATCGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
* * * * * *
113191 ATTCTCCCTCTTCGGATGAGTTTTTTTTATTATGAACTCTTCTATTGGAAATGT
66 CTTCTCCCTCTTCGGACGAGTTCTTCTCATTATGAACCCTTCTATTGGAAATGT
*
113245 TGATCCACCTCCTTCTGTGATGGAATCGAACAAAAGGTTGAACAAGTTCTTTTCATTATGAACTT
1 TGATCCACCTCCTTCTGTGATGGAATCGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
* *
113310 CTTCTCCATCTTCGGACGAGTTCTTCTTATTATGAACCCTTCTATTGGAAATGT
66 CTTCTCCCTCTTCGGACGAGTTCTTCTCATTATGAACCCTTCTATTGGAAATGT
* * *
113364 TGATCCACCTCATTCGGTGATGGAATCGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAATTT
1 TGATCCACCTCCTTCTGTGATGGAATCGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
* *
113429 CTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACCCTT-TCATTGGAAATGT
66 CTTCTCCCTCTTCGGACGAGTTCTTCTCATTATGAACCCTTCT-ATTGGAAATGT
** * * ** * *
113483 AAATCCAACTCCTTCTGTGATAG-ATTTAAGC-AAAGGCTGAACAAGTTCTTCTCATTATGAGCT
1 TGATCCACCTCCTTCTGTGATGGAATCGAA-CAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
* * * *
113546 TCTTCTCCCTTTTTGGACGAGTTCTTCTCATTATGAACCCTTCCAGTGGAAATGT
65 TCTTCTCCCTCTTCGGACGAGTTCTTCTCATTATGAACCCTTCTATTGGAAATGT
* * * *
113601 CGGTCCACCTTCTTGT-TGATGGAAT
1 TGATCCACCTCCTTCTGTGATGGAAT
113626 TGAATTTTTC
Statistics
Matches: 336, Mismatches: 41, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
117 5 0.01
118 96 0.29
119 235 0.70
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (119 bp):
TGATCCACCTCCTTCTGTGATGGAATCGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
CTTCTCCCTCTTCGGACGAGTTCTTCTCATTATGAACCCTTCTATTGGAAATGT
Found at i:114186 original size:103 final size:103
Alignment explanation
Indices: 113997--114185 Score: 247
Period size: 103 Copynumber: 1.8 Consensus size: 103
113987 AAATCAATTT
* * * * *
113997 TTTCAAAATTTGTGTTTCAAGAGAAATTGTCTTAAGCGAGACGAAATAGGTTTTTAAGAAAAACA
1 TTTCAAAATTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACGAAATAGGATTTAAAGAAAAACA
*
114062 ATCTCGAGTGAAATCAATTTTTATTTCGAGTGAAAGAA
66 ATCTCAAGTGAAATCAATTTTTATTTCGAGTGAAAGAA
* * * * *
114100 TTTCAAAATTTATGTTTCATGGGAAAACTGTCTCAAGCGCGACGAAGT-TGATTTAAAGAAAAAC
1 TTTCAAAATTTATGTTTCAAGAG-AAACTGTCTCAAGCGAGACGAAATAGGATTTAAAGAAAAAC
*
114164 AATCTCAAGTGAGAT-AATTTTT
65 AATCTCAAGTGAAATCAATTTTT
114186 TTTATCTTTG
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
102 7 0.10
103 46 0.63
104 20 0.27
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (103 bp):
TTTCAAAATTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACGAAATAGGATTTAAAGAAAAACA
ATCTCAAGTGAAATCAATTTTTATTTCGAGTGAAAGAA
Found at i:118860 original size:19 final size:21
Alignment explanation
Indices: 118836--118878 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
118826 CGGCCAAGAG
118836 CATGTATCTTCA-TTAAAA-T
1 CATGTATCTTCATTTAAAAGT
*
118855 CATGTATTTTCATTTAAAAGT
1 CATGTATCTTCATTTAAAAGT
118876 CAT
1 CAT
118879 ATATTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 6 0.29
21 4 0.19
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (21 bp):
CATGTATCTTCATTTAAAAGT
Found at i:118883 original size:21 final size:19
Alignment explanation
Indices: 118844--118885 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
118834 AGCATGTATC
*
118844 TTCATTAAAATCATGTATT
1 TTCATTAAAATCATATATT
118863 TTCATTTAAAAGTCATATATT
1 TTCA-TTAAAA-TCATATATT
118884 TT
1 TT
118886 TCAAAGGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 6 0.30
21 10 0.50
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (19 bp):
TTCATTAAAATCATATATT
Found at i:119623 original size:17 final size:16
Alignment explanation
Indices: 119600--119662 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 16
119590 ATTGGAGTGC
119600 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
119616 ACAAAAAGAAAAAAAATCAG
1 A-AAAAAG-AAAAAAA--AG
*
119636 AATAGAAGAAAAGAAAAG
1 AA-AAAAGAAAA-AAAAG
119654 AAAAAAGAA
1 AAAAAAGAA
119663 TTTCAAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
16 1 0.03
17 12 0.31
18 11 0.28
19 5 0.13
20 10 0.26
ACGTcount: A:0.79, C:0.03, G:0.14, T:0.03
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:125384 original size:20 final size:20
Alignment explanation
Indices: 125343--125391 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
125333 AAGCTATGTA
*
125343 TAATAATAATCCTAAAATAC
1 TAATAATAATCATAAAATAC
*
125363 TAATAATAAT-ATATAATAAC
1 TAATAATAATCATAAAAT-AC
*
125383 TAATGATAA
1 TAATAATAA
125392 AGAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (20 bp):
TAATAATAATCATAAAATAC
Found at i:126662 original size:10 final size:10
Alignment explanation
Indices: 126647--126673 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
126637 ATTCATTGAA
126647 ATAATAATAT
1 ATAATAATAT
126657 ATAATAATAT
1 ATAATAATAT
126667 ATAATAA
1 ATAATAA
126674 CATAACACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATAATAATAT
Found at i:127195 original size:90 final size:91
Alignment explanation
Indices: 127069--127257 Score: 246
Period size: 91 Copynumber: 2.1 Consensus size: 91
127059 ACTGAGAATG
* * *
127069 ATTGAC-TTGATAAGAATCTAATTTCACTACTCTTCCGT-GAG-GCTAGATTC-ACAGTTGGA-T
1 ATTGACTTTGAGAAGAATCTAATTCCACTACTCTTCCGTGGAGATC-AGATTCGA-AGTT-GATT
* * *
127129 TGCTTCCACTACTCTTCTGTGGAGTTTG-
63 TGATTCCACTACTCTTCCGTGGAGGTTGT
127157 ATTTGACTTTGAGAAGAATCTAATTCCACTACTCTTCCGTGGAGATCAGATTCGAAGTTGATTTG
1 A-TTGACTTTGAGAAGAATCTAATTCCACTACTCTTCCGTGGAGATCAGATTCGAAGTTGATTTG
127222 ATTCCACTACTCTTCCGTGGAGGTTGT
65 ATTCCACTACTCTTCCGTGGAGGTTGT
127249 ATTGACTTT
1 ATTGACTTT
127258 AAGGATTCAT
Statistics
Matches: 88, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
88 1 0.01
89 5 0.06
90 32 0.36
91 47 0.53
92 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (91 bp):
ATTGACTTTGAGAAGAATCTAATTCCACTACTCTTCCGTGGAGATCAGATTCGAAGTTGATTTGA
TTCCACTACTCTTCCGTGGAGGTTGT
Found at i:127336 original size:20 final size:20
Alignment explanation
Indices: 127291--127374 Score: 123
Period size: 20 Copynumber: 4.1 Consensus size: 20
127281 AGACTGAAAG
*
127291 ATGACCCGAAGGATTTTACAAA
1 ATGACCCGAAGG-CTTTAC-AA
*
127313 ATGACCCAAAGGCTTTACAA
1 ATGACCCGAAGGCTTTACAA
*
127333 ATGACCCTAAGGCTTTACAA
1 ATGACCCGAAGGCTTTACAA
127353 ATGACCCGAAGGCTTTACAA
1 ATGACCCGAAGGCTTTACAA
127373 AT
1 AT
127375 TCGTGAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 42 0.72
21 5 0.09
22 11 0.19
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (20 bp):
ATGACCCGAAGGCTTTACAA
Found at i:128229 original size:22 final size:22
Alignment explanation
Indices: 128179--128230 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
128169 GATAAAACTT
*
128179 TCATCTCTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
128201 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
128223 TCATCTTT
1 TCATCTTT
128231 ATTAAAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:128631 original size:9 final size:9
Alignment explanation
Indices: 128619--128643 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
128609 TCAATATTTC
128619 CAATTTATT
1 CAATTTATT
128628 CAATTTATT
1 CAATTTATT
128637 CAATTTA
1 CAATTTA
128644 GTCACTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (9 bp):
CAATTTATT
Found at i:134653 original size:15 final size:15
Alignment explanation
Indices: 134620--134657 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
134610 CACTTTTCTT
134620 TTTCTTTTGATTTTC
1 TTTCTTTTGATTTTC
**
134635 -TTCTTTTTCTTTTC
1 TTTCTTTTGATTTTC
134649 TTTCTTTTG
1 TTTCTTTTG
134658 CACTCCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.03, C:0.16, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTCTTTTGATTTTC
Found at i:135148 original size:35 final size:36
Alignment explanation
Indices: 135108--135190 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
135098 ATTTATAAGT
* *
135108 TGGTGATAATATAGGCGTG-ATATGGTAATGGAATA
1 TGGTGATAATATAGGCGTGAAAATGGTAATGGAAGA
** * *
135143 TGGTGATGTTATAGGCGTGAAAATGGTGATGGAAGG
1 TGGTGATAATATAGGCGTGAAAATGGTAATGGAAGA
135179 TGGTGATGAATA
1 TGGTGAT-AATA
135191 GATAGTATCT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
35 17 0.45
36 19 0.50
37 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.36, T:0.30
Consensus pattern (36 bp):
TGGTGATAATATAGGCGTGAAAATGGTAATGGAAGA
Found at i:135176 original size:36 final size:35
Alignment explanation
Indices: 135108--135191 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
135098 ATTTATAAGT
* * *
135108 TGGTGATAATATAGGCGTGATATGGTAATGGAATA
1 TGGTGATGATATAGGCGTGAAATGGTAATGGAAGA
* * *
135143 TGGTGATGTTATAGGCGTGAAAATGGTGATGGAAGG
1 TGGTGATGATATAGGCGTG-AAATGGTAATGGAAGA
135179 TGGTGATGA-ATAG
1 TGGTGATGATATAG
135192 ATAGTATCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 21 0.51
36 20 0.49
ACGTcount: A:0.31, C:0.02, G:0.37, T:0.30
Consensus pattern (35 bp):
TGGTGATGATATAGGCGTGAAATGGTAATGGAAGA
Found at i:136595 original size:36 final size:36
Alignment explanation
Indices: 136515--136610 Score: 88
Period size: 36 Copynumber: 2.7 Consensus size: 36
136505 ATATATACGC
* *
136515 TTGCTAATGACGATGATATGGATGATATACACGCTA
1 TTGCTAATGACGATGATATGCATAATATACACGCTA
* * *
136551 TTGTTAATGATGAAT-ATATGCATAATATACATGC-A
1 TTGCTAATGACG-ATGATATGCATAATATACACGCTA
** *
136586 TTTGCTAATGAAAATGATATACATA
1 -TTGCTAATGACGATGATATGCATA
136611 TGTTCAATAC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
35 3 0.06
36 43 0.90
37 2 0.04
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (36 bp):
TTGCTAATGACGATGATATGCATAATATACACGCTA
Found at i:136676 original size:36 final size:36
Alignment explanation
Indices: 136599--136746 Score: 156
Period size: 36 Copynumber: 4.1 Consensus size: 36
136589 GCTAATGAAA
* * * * *
136599 ATGATATACATATGTTCAATACTGATGATTAAAAGC
1 ATGATATACATGTGTTTACTACTGATGATTATATGC
* * *
136635 GTGATATACCTGTGTTTACTATTGATGATTATATGC
1 ATGATATACATGTGTTTACTACTGATGATTATATGC
* * * *
136671 ATGATACT-CATGTGTGTAATGCTGACGATTAT-TGC
1 ATGATA-TACATGTGTTTACTACTGATGATTATATGC
*
136706 ATGATATACATGTGCTTACTACTGATGATTATATGC
1 ATGATATACATGTGTTTACTACTGATGATTATATGC
136742 ATGAT
1 ATGAT
136747 GTTTCACCCA
Statistics
Matches: 89, Mismatches: 20, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
34 1 0.01
35 28 0.31
36 59 0.66
37 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (36 bp):
ATGATATACATGTGTTTACTACTGATGATTATATGC
Found at i:136718 original size:35 final size:36
Alignment explanation
Indices: 136661--136746 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
136651 TACTATTGAT
*
136661 GATTATATGCATGATACTCATGTG-TGTAATGCTGAC
1 GATTATATGCATGATACTCATGTGCT-TAATACTGAC
* *
136697 GATTAT-TGCATGATA-TACATGTGCTTACTACTGAT
1 GATTATATGCATGATACT-CATGTGCTTAATACTGAC
136732 GATTATATGCATGAT
1 GATTATATGCATGAT
136747 GTTTCACCCA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.02
35 28 0.64
36 15 0.34
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (36 bp):
GATTATATGCATGATACTCATGTGCTTAATACTGAC
Found at i:145309 original size:23 final size:21
Alignment explanation
Indices: 145281--145325 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
145271 ATAAAAAAAA
145281 TAAATTAAACATGTAATAATAGC
1 TAAATTAAA-ATGTAATAA-AGC
*
145304 TAAATTAAAATGTATTAAAGC
1 TAAATTAAAATGTAATAAAGC
145325 T
1 T
145326 TAATGGCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 9 0.43
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (21 bp):
TAAATTAAAATGTAATAAAGC
Found at i:150187 original size:46 final size:46
Alignment explanation
Indices: 150111--150248 Score: 197
Period size: 46 Copynumber: 3.0 Consensus size: 46
150101 ATATTCGTTA
* *
150111 ATTTCAGTTATGGCATCCTTTCATGTCTTAATGCATCTTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGC
*
150157 ATTTTAGTTATGGCACCCTTTCATGCCTTAATGCAT-TCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCT-TTTCATGC
* * * *
150203 ATTTTAGTTATGGCATCCTTTAATGCCTTTATGAATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGC
150249 CTTAATGCAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
45 1 0.01
46 81 0.99
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (46 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGC
Found at i:150228 original size:26 final size:26
Alignment explanation
Indices: 150111--150509 Score: 145
Period size: 20 Copynumber: 17.5 Consensus size: 26
150101 ATATTCGTTA
*
150111 ATTTCAGTTATGGCATCCTTTCATG-
1 ATTTTAGTTATGGCATCCTTTCATGC
* *
150136 -TCTTA---AT-GCATCTTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
*
150157 ATTTTAGTTATGGCACCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
* *
150183 --CTTA---AT-GCATTCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
*
150203 ATTTTAGTTATGGCATCCTTTAATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
* *
150229 ---CT--TTAT-GAATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
*
150249 --CTTA---AT-GCATCCATTT-ATGC
1 ATTTTAGTTATGGCATCC-TTTCATGC
* *
150269 ATTCTAGTTATGGAATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
* *
150295 --CTTA---AT-GCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
150315 ATTTTAGTTATGGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
* *
150341 --CTTA---AT-GCATCCATTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
*
150361 ATTTTAGTTATGACATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
* *
150387 --CTTA---AT-GCATCC-ATCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
* *
150406 ATTTTAGTTATCGCATCCTTTGATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
* * * * *
150432 ---GTA--AAT-GCATACGTTCGTGC
1 ATTTTAGTTATGGCATCCTTTCATGC
150452 ATTTTAGTTATGGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
* *
150478 --CTTA---AT-GCATCATTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
150498 ATTTTAGTTATG
1 ATTTTAGTTATG
150510 AATTCGTTTT
Statistics
Matches: 270, Mismatches: 51, Indels: 105
0.63 0.12 0.25
Matches are distributed among these distances:
19 6 0.02
20 100 0.37
21 25 0.09
22 18 0.07
23 5 0.02
24 19 0.07
25 23 0.09
26 74 0.27
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.43
Consensus pattern (26 bp):
ATTTTAGTTATGGCATCCTTTCATGC
Found at i:150247 original size:66 final size:66
Alignment explanation
Indices: 150173--150314 Score: 205
Period size: 66 Copynumber: 2.2 Consensus size: 66
150163 GTTATGGCAC
* * * *
150173 CCTTTCATGCCTTAATGCATTC-TTTCATGCATTTTAGTTATGGCATCCTTTAATGCCTTTATGA
1 CCTTTCATGCCTTAATGCATCCATTT-ATGCATTCTAGTTATGGAATCCTTTAATGCCTTAATGA
150237 AT
65 AT
* *
150239 CCTTTCATGCCTTAATGCATCCATTTATGCATTCTAGTTATGGAATCCTTTCATGCCTTAATGCA
1 CCTTTCATGCCTTAATGCATCCATTTATGCATTCTAGTTATGGAATCCTTTAATGCCTTAATGAA
150304 T
66 T
*
150305 CCGTTCATGC
1 CCTTTCATGC
150315 ATTTTAGTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 65 0.96
67 3 0.04
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (66 bp):
CCTTTCATGCCTTAATGCATCCATTTATGCATTCTAGTTATGGAATCCTTTAATGCCTTAATGAA
T
Found at i:150285 original size:46 final size:46
Alignment explanation
Indices: 150231--150509 Score: 395
Period size: 46 Copynumber: 6.1 Consensus size: 46
150221 TTTAATGCCT
* *
150231 TTAT-GAATCCTTTCATGCCTTAATGCATCCATTTATGCATTCTAG
1 TTATGGAATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAG
*
150276 TTATGGAATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAG
1 TTATGGAATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAG
*
150322 TTATGGCATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAG
1 TTATGGAATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAG
150368 TTAT-GACATCCTTTCATGCCTTAATGCATCCA-TCATGCATTTTAG
1 TTATGGA-ATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAG
* * * * * * * *
150413 TTATCGCATCCTTTGATGCGTAAATGCATACGTTCGTGCATTTTAG
1 TTATGGAATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAG
*
150459 TTATGGCATCCTTTCATGCCTTAATGCAT-CATTTCATGCATTTTAG
1 TTATGGAATCCTTTCATGCCTTAATGCATCCA-TTCATGCATTTTAG
150505 TTATG
1 TTATG
150510 AATTCGTTTT
Statistics
Matches: 210, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
45 43 0.20
46 167 0.80
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (46 bp):
TTATGGAATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAG
Found at i:150290 original size:112 final size:112
Alignment explanation
Indices: 150125--150360 Score: 357
Period size: 112 Copynumber: 2.1 Consensus size: 112
150115 CAGTTATGGC
* * * *
150125 ATCCTTTCATGTCTTAATGCATCTTTTCATGCATTTTAGTTATGGCACCCTTTCATGCCTTAATG
1 ATCCTTTCATGCCTTAATGCATCATTTCATGCATTCTAGTTATGGAACCCTTTCATGCCTTAATG
* * *
150190 CATTCTTTCATGCATTTTAGTTATGGCATCCTTTAATGCCTTTATGA
66 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTAATGCCTTAATGA
*
150237 ATCCTTTCATGCCTTAATGCATCCATTT-ATGCATTCTAGTTATGGAATCCTTTCATGCCTTAAT
1 ATCCTTTCATGCCTTAATGCAT-CATTTCATGCATTCTAGTTATGGAACCCTTTCATGCCTTAAT
* *
150301 GCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGC
65 GCATCCGTTCATGCATTTTAGTTATGGCATCCTTTAATGCCTTAATGA
*
150349 ATCCATTCATGC
1 ATCCTTTCATGC
150361 ATTTTAGTTA
Statistics
Matches: 112, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
112 108 0.96
113 4 0.04
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (112 bp):
ATCCTTTCATGCCTTAATGCATCATTTCATGCATTCTAGTTATGGAACCCTTTCATGCCTTAATG
CATCCGTTCATGCATTTTAGTTATGGCATCCTTTAATGCCTTAATGA
Found at i:150447 original size:137 final size:137
Alignment explanation
Indices: 150231--150512 Score: 451
Period size: 137 Copynumber: 2.1 Consensus size: 137
150221 TTTAATGCCT
* *
150231 TTATGAATCCTTTCATGCCTTAATGCATCCATTTATGCATTCTAGTTATGGAATCCTTTCATGCC
1 TTATGAATCCTTTCATGCCTTAATGCATCCATTCATGCATTCTAGTTATCGAATCCTTTCATGCC
* *
150296 TTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCA-TTCATG
66 TAAATGCATACGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCAT-CATTTCATG
150360 CATTTTAG
130 CATTTTAG
* * *
150368 TTATGACATCCTTTCATGCCTTAATGCATCCA-TCATGCATTTTAGTTATCGCATCCTTTGATGC
1 TTATGA-ATCCTTTCATGCCTTAATGCATCCATTCATGCATTCTAGTTATCGAATCCTTTCATGC
* *
150432 GTAAATGCATACGTTCGTGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
65 CTAAATGCATACGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
150497 CATTTTAG
130 CATTTTAG
150505 TTATGAAT
1 TTATGAAT
150513 TCGTTTTAGA
Statistics
Matches: 134, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
136 4 0.03
137 105 0.78
138 25 0.19
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (137 bp):
TTATGAATCCTTTCATGCCTTAATGCATCCATTCATGCATTCTAGTTATCGAATCCTTTCATGCC
TAAATGCATACGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGC
ATTTTAG
Found at i:150454 original size:91 final size:91
Alignment explanation
Indices: 150237--150508 Score: 377
Period size: 91 Copynumber: 3.0 Consensus size: 91
150227 GCCTTTATGA
* * * *
150237 ATCCTTTCATGCCTTAATGCATCCATTTATGCATTCTAGTTATGGA-ATCCTTTCATGCCTTAAT
1 ATCCTTTCATGCCTAAATGCATACATTCATGCATTTTAGTTAT-GACATCCTTTCATGCCTTAAT
* *
150301 GCATCCGTTCATGCATTTTAGTTATGGC
65 GCATCC-ATCATGCATTTTAGTTATCGC
* *
150329 ATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATG
1 ATCCTTTCATGCCTAAATGCATACATTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATG
150394 CATCCATCATGCATTTTAGTTATCGC
66 CATCCATCATGCATTTTAGTTATCGC
* * * * *
150420 ATCCTTTGATGCGTAAATGCATACGTTCGTGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
1 ATCCTTTCATGCCTAAATGCATACATTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATG
150485 CAT-CATTTCATGCATTTTAGTTAT
66 CATCCA--TCATGCATTTTAGTTAT
150509 GAATTCGTTT
Statistics
Matches: 166, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
90 2 0.01
91 82 0.49
92 82 0.49
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (91 bp):
ATCCTTTCATGCCTAAATGCATACATTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATG
CATCCATCATGCATTTTAGTTATCGC
Found at i:165138 original size:20 final size:20
Alignment explanation
Indices: 165113--165160 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
165103 AGATCTACCC
* *
165113 TTTCATGCCTTAATGCATCA
1 TTTCATGCCTTAAAGCATAA
165133 TTTCATGCCTTAAAGCATAA
1 TTTCATGCCTTAAAGCATAA
165153 TTTCATGC
1 TTTCATGC
165161 ATTTTAGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTCATGCCTTAAAGCATAA
Found at i:165182 original size:26 final size:26
Alignment explanation
Indices: 165153--165232 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
165143 TAAAGCATAA
165153 TTTCATGCATTTTAGTTATGGCATCC
1 TTTCATGCATTTTAGTTATGGCATCC
*
165179 TTTCATGC--CTTAG---T-GCATCC
1 TTTCATGCATTTTAGTTATGGCATCC
* *
165199 GTTCATGCATTTTAGTTATGGTATCC
1 TTTCATGCATTTTAGTTATGGCATCC
*
165225 TTTTATGC
1 TTTCATGC
165233 CTTAATGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
20 13 0.31
21 1 0.02
22 4 0.10
24 4 0.10
25 1 0.02
26 19 0.45
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.46
Consensus pattern (26 bp):
TTTCATGCATTTTAGTTATGGCATCC
Found at i:165198 original size:20 final size:20
Alignment explanation
Indices: 165111--165206 Score: 75
Period size: 20 Copynumber: 4.5 Consensus size: 20
165101 CTAGATCTAC
165111 CCTTTCATGCCTTAATGCAT
1 CCTTTCATGCCTTAATGCAT
* *
165131 CATTTCATGCCTTAAAGCAT
1 CCTTTCATGCCTTAATGCAT
** *
165151 AATTTCATGCATTTTAGTTATGGCAT
1 CCTTTCATGC--CTTA---AT-GCAT
*
165177 CCTTTCATGCCTTAGTGCAT
1 CCTTTCATGCCTTAATGCAT
*
165197 CCGTTCATGC
1 CCTTTCATGC
165207 ATTTTAGTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
20 40 0.67
21 1 0.02
22 3 0.05
24 3 0.05
25 1 0.02
26 12 0.20
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (20 bp):
CCTTTCATGCCTTAATGCAT
Found at i:165204 original size:46 final size:46
Alignment explanation
Indices: 165127--165264 Score: 195
Period size: 46 Copynumber: 3.0 Consensus size: 46
165117 ATGCCTTAAT
* * *
165127 GCATCATTTCATGCCTTAAAGCATAATTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
* **
165173 GCATCCTTTCATGCCTTAGTGCATCCGTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
* * *
165219 GTATCCTTTTATGCCTTAATGTATCATTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
165265 AATTCGTTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
Found at i:170736 original size:30 final size:29
Alignment explanation
Indices: 170701--170774 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 29
170691 AAATGGATTT
*
170701 ATTTAGTGACCAAATTATAAA-TTTGGTAAA
1 ATTTAGTGACCAAAGTATAAACTTT-G-AAA
170731 ATTTAGTGACCAAAGTATAAACTTTGAAA
1 ATTTAGTGACCAAAGTATAAACTTTGAAA
*
170760 AGTTTAGGGACCAAA
1 A-TTTAGTGACCAAA
170775 ATGTAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 33 0.82
31 3 0.08
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.31
Consensus pattern (29 bp):
ATTTAGTGACCAAAGTATAAACTTTGAAA
Found at i:173924 original size:18 final size:18
Alignment explanation
Indices: 173903--173973 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
173893 CATAAGAGCT
173903 AAAAAAAGAGAAAGAAGA
1 AAAAAAAGAGAAAGAAGA
* *
173921 AAAATAAAAAG-AATAAGA
1 AAAA-AAAGAGAAAGAAGA
* *
173939 AAAAAATATAGAAA-AATA
1 AAAAAA-AGAGAAAGAAGA
173957 AAAGAAAAGA-AAAGAAG
1 AAA-AAAAGAGAAAGAAG
173974 GGAAAAAATG
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
17 5 0.12
18 27 0.64
19 10 0.24
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.07
Consensus pattern (18 bp):
AAAAAAAGAGAAAGAAGA
Found at i:173931 original size:15 final size:15
Alignment explanation
Indices: 173913--173969 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
173903 AAAAAAAGAG
173913 AAAGAAGAAAAATAA
1 AAAGAAGAAAAATAA
* *
173928 AAAGAATAAGAA-AA
1 AAAGAAGAAAAATAA
*
173942 AAATATAGAAAAATAA
1 AAAGA-AGAAAAATAA
*
173958 AAGAAAAGAAAA
1 AA-AGAAGAAAA
173970 GAAGGGAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
14 6 0.18
15 15 0.45
16 10 0.30
17 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (15 bp):
AAAGAAGAAAAATAA
Found at i:173956 original size:21 final size:21
Alignment explanation
Indices: 173905--173964 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
173895 TAAGAGCTAA
173905 AAAAAGAGA-AAGAAGAAAAAT
1 AAAAAGA-ATAAGAAGAAAAAT
173926 AAAAAGAATAAGAA-AAAAAT
1 AAAAAGAATAAGAAGAAAAAT
173946 ATAGAAA-AATAA-AAGAAAA
1 A-A-AAAGAATAAGAAGAAAA
173965 GAAAAGAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
20 10 0.29
21 22 0.63
22 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.08
Consensus pattern (21 bp):
AAAAAGAATAAGAAGAAAAAT
Found at i:173972 original size:21 final size:20
Alignment explanation
Indices: 173905--173972 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 20
173895 TAAGAGCTAA
* *
173905 AAAAAGAGAAAGAAGAAAAAT
1 AAAAAGA-AAAGAAAAAAAAG
173926 AAAAAGAATAAGAAAAAAATATAG
1 AAAAAGAA-AAG-AAAAAA-A-AG
*
173950 AAAAATAAAAGAAAAGAAAAG
1 AAAAAGAAAAGAAAA-AAAAG
173971 AA
1 AA
173973 GGGAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
20 1 0.03
21 14 0.36
22 10 0.26
23 6 0.15
24 8 0.21
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (20 bp):
AAAAAGAAAAGAAAAAAAAG
Found at i:175847 original size:30 final size:29
Alignment explanation
Indices: 175807--175893 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 29
175797 AATGGATTTA
* *
175807 TTTA-GTGACCAAATTATATATTTGGTAAAG
1 TTTAGGTGACCAAAATATA-ATTT-GAAAAG
*
175837 TTT-GGTGACCAAAGTATAAACTTTGAAAAG
1 TTTAGGTGACCAAAATAT-AA-TTTGAAAAG
*
175867 TTTAGG-GACCAAAATATAATTTTAAAA
1 TTTAGGTGACCAAAATATAATTTGAAAA
175894 AGTTACATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
28 7 0.14
29 2 0.04
30 34 0.69
31 6 0.12
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.34
Consensus pattern (29 bp):
TTTAGGTGACCAAAATATAATTTGAAAAG
Found at i:181140 original size:21 final size:21
Alignment explanation
Indices: 181114--181168 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
181104 TCGAAATTCA
181114 AGGGTATCGGTACATCCGATG
1 AGGGTATCGGTACATCCGATG
181135 AGGGTATCGGTACATCCGATG
1 AGGGTATCGGTACATCCGATG
*
181156 AGTGTATCGGTAC
1 AGGGTATCGGTAC
181169 GCCCCTACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (21 bp):
AGGGTATCGGTACATCCGATG
Found at i:183316 original size:19 final size:18
Alignment explanation
Indices: 183290--183329 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
183280 CAAAAACAAC
183290 ATAATT-AAATCAAAAGCA
1 ATAATTAAAATCAAAA-CA
183308 ATAATTTAAAATCAAAACA
1 ATAA-TTAAAATCAAAACA
183327 ATA
1 ATA
183330 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 7 0.35
20 9 0.45
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (18 bp):
ATAATTAAAATCAAAACA
Found at i:187868 original size:117 final size:117
Alignment explanation
Indices: 187649--187868 Score: 334
Period size: 117 Copynumber: 1.9 Consensus size: 117
187639 TTTTAAATCA
*
187649 AAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAATATTTC
1 AAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAACATTTC
* * * *
187714 ATTTTGATTCTCAAAATCTATTTTAGTTTTTAGAAGAAGATTATTTAATTTG
66 ATTTTGATTCTCAAAATCCATTTTAGCTTTCAAAAGAAGATTATTTAATTTG
* * * *
187766 AAAATTTCTTTTTCAA-AGTTTTCAGATTTCATTTTTGAAAGCTCTAACTCATTTTTCAACATTT
1 AAAATTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAACATTT
*
187830 CATTTTGATTTTCAAAATCCATTTTAGCTTTCAAAAGAA
65 CATTTTGATTCTCAAAATCCATTTTAGCTTTCAAAAGAA
187869 TATCATTTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
116 1 0.01
117 91 0.99
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (117 bp):
AAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAACATTTC
ATTTTGATTCTCAAAATCCATTTTAGCTTTCAAAAGAAGATTATTTAATTTG
Found at i:189421 original size:13 final size:13
Alignment explanation
Indices: 189397--189438 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
189387 GTTTTTATTC
189397 TATTTT-TCTTTT
1 TATTTTATCTTTT
*
189409 TCTTTTATCTTTT
1 TATTTTATCTTTT
*
189422 TATTTTATCTTAT
1 TATTTTATCTTTT
189435 TATT
1 TATT
189439 ATTCCTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 5 0.19
13 21 0.81
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTTATCTTTT
Found at i:192305 original size:17 final size:17
Alignment explanation
Indices: 192283--192322 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
192273 GTTGTGCCAA
192283 TCTTCGATTCTCTTTTT
1 TCTTCGATTCTCTTTTT
192300 TCTTCGATTCTCTTTTT
1 TCTTCGATTCTCTTTTT
192317 TCTTCG
1 TCTTCG
192323 TTAAACCCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.05, C:0.25, G:0.07, T:0.62
Consensus pattern (17 bp):
TCTTCGATTCTCTTTTT
Found at i:207804 original size:29 final size:29
Alignment explanation
Indices: 207762--207817 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
207752 AATTAGAGCC
207762 AATCTTCTACGATGGGAACTAGGTCATGT
1 AATCTTCTACGATGGGAACTAGGTCATGT
207791 AATCTTCTACGATGGGAACTAGGTCAT
1 AATCTTCTACGATGGGAACTAGGTCAT
207818 CTCGGTTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (29 bp):
AATCTTCTACGATGGGAACTAGGTCATGT
Found at i:223125 original size:18 final size:18
Alignment explanation
Indices: 223104--223164 Score: 113
Period size: 18 Copynumber: 3.4 Consensus size: 18
223094 ATCAGTACTT
*
223104 TGTGTGCTTTCAGCACTA
1 TGTGTGCTTTCGGCACTA
223122 TGTGTGCTTTCGGCACTA
1 TGTGTGCTTTCGGCACTA
223140 TGTGTGCTTTCGGCACTA
1 TGTGTGCTTTCGGCACTA
223158 TGTGTGC
1 TGTGTGC
223165 ATCCATGGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.11, C:0.21, G:0.28, T:0.39
Consensus pattern (18 bp):
TGTGTGCTTTCGGCACTA
Found at i:227362 original size:24 final size:23
Alignment explanation
Indices: 227317--227364 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
227307 AATTCAAGGG
*
227317 ATCATTAAAAAACATTTTCCTTT
1 ATCATTAAAAAACATTTGCCTTT
227340 ATCATTAGAAAAGAC-TTTGCCTTT
1 ATCATTA-AAAA-ACATTTGCCTTT
227364 A
1 A
227365 CCATAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 13 0.59
25 2 0.09
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (23 bp):
ATCATTAAAAAACATTTGCCTTT
Found at i:234200 original size:39 final size:38
Alignment explanation
Indices: 234114--234228 Score: 126
Period size: 39 Copynumber: 2.9 Consensus size: 38
234104 TATACTAAAA
* *
234114 AATAAAAAACTCTCCAACTTCCAAAAACTCTTAAATTCAC
1 AATAAAACACTCT--AACTCCCAAAAACTCTTAAATTCAC
*
234154 AGTAAAACACTCTAACTCCCAAAAGACTCCTT-AATTCAC
1 AATAAAACACTCTAACTCCCAAAA-ACT-CTTAAATTCAC
*
234193 AATAAAACACTCGAACT-CCAAAGATACTCTTAAATT
1 AATAAAACACTCTAACTCCCAAA-A-ACTCTTAAATT
234229 TCCCCTTAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
38 18 0.28
39 33 0.51
40 14 0.22
ACGTcount: A:0.45, C:0.27, G:0.03, T:0.24
Consensus pattern (38 bp):
AATAAAACACTCTAACTCCCAAAAACTCTTAAATTCAC
Found at i:235883 original size:17 final size:19
Alignment explanation
Indices: 235841--235891 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
235831 CCATGAGTGG
235841 TACATTTTATACCTAAATGCA
1 TACATTTTATACCTAAA--CA
235862 TACATTTTATACCT-AA-A
1 TACATTTTATACCTAAACA
235879 TACATTGTTATAC
1 TACATT-TTATAC
235892 ATTTAACTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.24
18 6 0.21
20 2 0.07
21 14 0.48
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.41
Consensus pattern (19 bp):
TACATTTTATACCTAAACA
Found at i:235995 original size:49 final size:49
Alignment explanation
Indices: 235886--236199 Score: 393
Period size: 49 Copynumber: 6.4 Consensus size: 49
235876 AAATACATTG
* * *
235886 TTATACATTTAAC-TGTCATTAGTGGCACCTTTATGCC-AAAATGCACCG
1 TTATGCATTTAACTTG-CATTAGTGGCACCTTTCTGCCAAAAATGCACCA
* *
235934 TTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCTAAAAATGCACCA
1 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
* * * ***
235983 TTTTCCATTTAACTTGCATTAGTCGCACCTTTCTGCCAAAAATGCAATG
1 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
*
236032 TTATGCATTTAACTTGCATTAGTTGCACCTTTCTGCCAAAAATGCACCA
1 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
* *
236081 TTATGCATTTAACTTGC-TCTAGTGGCACTTTTCTGCCAAAAAATACACCA
1 TTATGCATTTAACTTGCAT-TAGTGGCACCTTTCTGCC-AAAAATGCACCA
* * *
236131 TTATGCATTTAACTTGCATTAGTTGCACCTTTCTGCCAAAAATACACAA
1 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
* * *
236180 TTTTTCATTTAA-TTTCATTA
1 TTATGCATTTAACTTGCATTA
236200 TAGAGCAGTT
Statistics
Matches: 233, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
48 38 0.16
49 150 0.64
50 44 0.19
51 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (49 bp):
TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
Found at i:244405 original size:48 final size:49
Alignment explanation
Indices: 244245--244511 Score: 211
Period size: 49 Copynumber: 5.5 Consensus size: 49
244235 CACTGTCATA
* * *
244245 CATTTAAC-TGTCATTAGTGGCACTTTTTTACC-AAAATGCACCGTTAG-G
1 CATTTAACTTG-CATTAGTGACACCTTTTTGCCAAAAATGCACCGTT-GTG
* * ** * * * *
244293 CATTTAACTTTCATTAGTGGCACAATTCTGCTAAAAATGCACCATTTTG
1 CATTTAACTTGCATTAGTGACACCTTTTTGCCAAAAATGCACCGTTGTG
*
244342 CATTTAACTTGCATTATTGACACCTTTTTGCCAAAAATGCA-CGTTGTG
1 CATTTAACTTGCATTAGTGACACCTTTTTGCCAAAAATGCACCGTTGTG
* * * ** *
244390 AATTTAACTTGCATTAGTGACACCTTTATGCCAAAAATGTATTGTTATG
1 CATTTAACTTGCATTAGTGACACCTTTTTGCCAAAAATGCACCGTTGTG
* ** * * * * *
244439 CATTTTACTT-CTATTAGTGGGACCTTTATGCCAAAAACGCAACATTTTG
1 CATTTAACTTGC-ATTAGTGACACCTTTTTGCCAAAAATGCACCGTTGTG
* * *
244488 TATTTAAGTTGCATTAGTGGCACC
1 CATTTAACTTGCATTAGTGACACC
244512 CAAAAAATGC
Statistics
Matches: 176, Mismatches: 37, Indels: 11
0.79 0.17 0.05
Matches are distributed among these distances:
48 67 0.38
49 108 0.61
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (49 bp):
CATTTAACTTGCATTAGTGACACCTTTTTGCCAAAAATGCACCGTTGTG
Found at i:244426 original size:97 final size:97
Alignment explanation
Indices: 244245--244428 Score: 221
Period size: 97 Copynumber: 1.9 Consensus size: 97
244235 CACTGTCATA
* * * *
244245 CATTTAACTGTCATTAGTGGCACTTTTTTACCAAAATGCACCGTTAGGCATTTAACTTTCATTAG
1 CATTTAACTGTCATTAGTGACACCTTTTTACCAAAATGCACCGTTAGGAATTTAACTTGCATTAG
* * *
244310 TGGCACAATTCTGCTAAAAATGCACCATTTTG
66 TGACACAATTATGCCAAAAATGCACCATTTTG
* *
244342 CATTTAACT-TGCATTATTGACACCTTTTTGCCAAAAATGCA-CGTT-GTGAATTTAACTTGCAT
1 CATTTAACTGT-CATTAGTGACACCTTTTTACC-AAAATGCACCGTTAG-GAATTTAACTTGCAT
**
244404 TAGTGACACCTTTATGCCAAAAATG
63 TAGTGACACAATTATGCCAAAAATG
244429 TATTGTTATG
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
96 2 0.03
97 63 0.86
98 8 0.11
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (97 bp):
CATTTAACTGTCATTAGTGACACCTTTTTACCAAAATGCACCGTTAGGAATTTAACTTGCATTAG
TGACACAATTATGCCAAAAATGCACCATTTTG
Found at i:251830 original size:39 final size:39
Alignment explanation
Indices: 251738--251830 Score: 114
Period size: 39 Copynumber: 2.4 Consensus size: 39
251728 CCAACTTCCA
* * ** *
251738 AGAACTCTTAAATTCACAATAAAACTCTCTAATTTTCAGG
1 AGAA-TCTTAAATTCACAATAAAACACTCTAAATCCCAAG
* *
251778 AGACTCTTTAATTCACAATAAAACACTCTAAATCCCAAG
1 AGAATCTTAAATTCACAATAAAACACTCTAAATCCCAAG
251817 AGAATCTTAAATTC
1 AGAATCTTAAATTC
251831 CTCCTTAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 41 0.93
40 3 0.07
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.30
Consensus pattern (39 bp):
AGAATCTTAAATTCACAATAAAACACTCTAAATCCCAAG
Found at i:253054 original size:13 final size:13
Alignment explanation
Indices: 253036--253061 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
253026 CCTTTGGTGC
253036 TAACATTGAGCAT
1 TAACATTGAGCAT
253049 TAACATTGAGCAT
1 TAACATTGAGCAT
253062 CTAAGAGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TAACATTGAGCAT
Found at i:262983 original size:727 final size:727
Alignment explanation
Indices: 261581--263039 Score: 2792
Period size: 727 Copynumber: 2.0 Consensus size: 727
261571 ATGATGGGTG
261581 ATTTGTAGATCCCAACAGTGAGCAATGAGACATCAGCAAGAGTAACAACTTAACTTGATTCAGCG
1 ATTTGTAGATCCCAACAGTGAGCAATGAGACATCAGCAAGAGTAACAACTTAACTTGATTCAGCG
*
261646 ACGATCCGACGATGGAAAAGTTAGATCGTCGAGGTGAATAGTTAAAAGGTCTTTGGCCTTTTTTG
66 ACGATCCGACGATGGAAAAGTTAGATCGTCGAGGTGAAGAGTTAAAAGGTCTTTGGCCTTTTTTG
* *
261711 TGGAGCTAGGGGCCATTTCTCGCAAAAGTAAGACAACATCCAAGTTTCCGACATTGAGACGGACA
131 TGGAGCTAGGGGACATTTCTCGCAAAAGTAAGACAACATACAAGTTTCCGACATTGAGACGGACA
261776 TATTGTTTGAACTTTTTTATTTCTTTCTTCCTCTGTTTAAGGTTATGTTATTCACTTGATATTCG
196 TATTGTTTGAACTTTTTTATTTCTTTCTTCCTCTGTTTAAGGTTATGTTATTCACTTGATATTCG
*
261841 AACATATTAAATAAAATACAATATTCTAAGGTTATTGGTACAGTTTGAGGCATGCGTCTATTAAC
261 AACATATTAAATAAAATACAATATTCTAAGGTTATTGGTACAGTTTGAGGCATGCCTCTATTAAC
261906 TTAGAGAATGGAGACAAATTGATTATAGCACCTATAAATGAAGTAAGCACCTGTAGCAAGTGAAG
326 TTAGAGAATGGAGACAAATTGATTATAGCACCTATAAATGAAGTAAGCACCTGTAGCAAGTGAAG
*
261971 GCAACAAAAATAATGGTTAAAGGTAGTAAATGTAAGGGTTTAAAGGTTTCCTAGAAATAAAATTA
391 GCAACAAAAAGAATGGTTAAAGGTAGTAAATGTAAGGGTTTAAAGGTTTCCTAGAAATAAAATTA
262036 GATAAACAGAAGAATGGTTGAGTAATTTGGATAGTGATGGATTATAGAAAGAAATGAATATGGTG
456 GATAAACAGAAGAATGGTTGAGTAATTTGGATAGTGATGGATTATAGAAAGAAATGAATATGGTG
262101 GTGAAGAGAGAATCTTTAAAAAGGCTCAAAGGAGAACCAATGCTAAAGAGCAAAGATCCGTCCTT
521 GTGAAGAGAGAATCTTTAAAAAGGCTCAAAGGAGAACCAATGCTAAAGAGCAAAGATCCGTCCTT
262166 CAAATGTTTTCAAAAGGAATGGTAGCAAGGAGTTGGGCCCACTATCTATAATAAGATAGAAACCT
586 CAAATGTTTTCAAAAGGAATGGTAGCAAGGAGTTGGGCCCACTATCTATAATAAGATAGAAACCT
*
262231 CAAGTATCAAGATGATTTAGAGAAAGGTTGACGCCACAAGTGTTTCCACTTTATACTTCGATAGA
651 CAAGTATCAAGATGATTTAGAGAAAGGTTGACGCCACAAGTGTTTCCACTTTATACTTCGATAAA
262296 TCTCACTCGTAT
716 TCTCACTCGTAT
*
262308 ATTTGTAGATCCCAACAGTGAGCAATGAGACATCGGCAAGAGTAACAACTTAACTTGATTCAGCG
1 ATTTGTAGATCCCAACAGTGAGCAATGAGACATCAGCAAGAGTAACAACTTAACTTGATTCAGCG
262373 ACGATCCGACGATGGAAAAGTTAGATCGTCGAGGTGAAGAGTTAAAAGGTCTTTGGCCTTTTTTG
66 ACGATCCGACGATGGAAAAGTTAGATCGTCGAGGTGAAGAGTTAAAAGGTCTTTGGCCTTTTTTG
* *
262438 TGGAGCTAGGGGACATTTCTCGCAAAAGTAGGACAACATACAAGTTTTCGACATTGAGACGGACA
131 TGGAGCTAGGGGACATTTCTCGCAAAAGTAAGACAACATACAAGTTTCCGACATTGAGACGGACA
262503 TATTGTTTGAACTTTTTTATTTCTTTCTTCCTCTGTTTAAGGTTATGTTATTCACTTGATATTCG
196 TATTGTTTGAACTTTTTTATTTCTTTCTTCCTCTGTTTAAGGTTATGTTATTCACTTGATATTCG
* *
262568 AACATATTAAATAGAATACAATATTCTAAGGTTATTGGTACAGTTTGAGGCATGCCTCTTTTAAC
261 AACATATTAAATAAAATACAATATTCTAAGGTTATTGGTACAGTTTGAGGCATGCCTCTATTAAC
262633 TTAGAGAATGGAGACAAATTGATTATAGCACCTATAAATGAAGTAAGCACCTGTAGCAAGTGAAG
326 TTAGAGAATGGAGACAAATTGATTATAGCACCTATAAATGAAGTAAGCACCTGTAGCAAGTGAAG
*
262698 GCTACAAAAAGAATGGTTAAAGGTAGTAAATGTAAGGGTTTAAAGGTTTCCTAGAAATAAAATTA
391 GCAACAAAAAGAATGGTTAAAGGTAGTAAATGTAAGGGTTTAAAGGTTTCCTAGAAATAAAATTA
262763 GATAAACAGAAGAATGGTTGAGTAATTTGGATAGTGATGGATTATAGAAAGAAATGAATATGGTG
456 GATAAACAGAAGAATGGTTGAGTAATTTGGATAGTGATGGATTATAGAAAGAAATGAATATGGTG
262828 GTGAAGAGAGAATCTTTAAAAAGGCTCAAAGGAGAACCAATGCTAAAGAGCAAAGATCCGTCCTT
521 GTGAAGAGAGAATCTTTAAAAAGGCTCAAAGGAGAACCAATGCTAAAGAGCAAAGATCCGTCCTT
262893 CAAATGTTTTCAAAAGGAATGGTAGCAAGGAGTTGGGCCCACTATCTATAATAAGATAGAAACCT
586 CAAATGTTTTCAAAAGGAATGGTAGCAAGGAGTTGGGCCCACTATCTATAATAAGATAGAAACCT
*
262958 CAAGTATCAAGATGATTTCGAGAAAGGTTGACGCCACAAGTGTTTCCACTTTATACTTCGATAAA
651 CAAGTATCAAGATGATTTAGAGAAAGGTTGACGCCACAAGTGTTTCCACTTTATACTTCGATAAA
263023 TCTCACTCGTAT
716 TCTCACTCGTAT
*
263035 TTTTG
1 ATTTG
263040 GTGAACAAAG
Statistics
Matches: 718, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
727 718 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (727 bp):
ATTTGTAGATCCCAACAGTGAGCAATGAGACATCAGCAAGAGTAACAACTTAACTTGATTCAGCG
ACGATCCGACGATGGAAAAGTTAGATCGTCGAGGTGAAGAGTTAAAAGGTCTTTGGCCTTTTTTG
TGGAGCTAGGGGACATTTCTCGCAAAAGTAAGACAACATACAAGTTTCCGACATTGAGACGGACA
TATTGTTTGAACTTTTTTATTTCTTTCTTCCTCTGTTTAAGGTTATGTTATTCACTTGATATTCG
AACATATTAAATAAAATACAATATTCTAAGGTTATTGGTACAGTTTGAGGCATGCCTCTATTAAC
TTAGAGAATGGAGACAAATTGATTATAGCACCTATAAATGAAGTAAGCACCTGTAGCAAGTGAAG
GCAACAAAAAGAATGGTTAAAGGTAGTAAATGTAAGGGTTTAAAGGTTTCCTAGAAATAAAATTA
GATAAACAGAAGAATGGTTGAGTAATTTGGATAGTGATGGATTATAGAAAGAAATGAATATGGTG
GTGAAGAGAGAATCTTTAAAAAGGCTCAAAGGAGAACCAATGCTAAAGAGCAAAGATCCGTCCTT
CAAATGTTTTCAAAAGGAATGGTAGCAAGGAGTTGGGCCCACTATCTATAATAAGATAGAAACCT
CAAGTATCAAGATGATTTAGAGAAAGGTTGACGCCACAAGTGTTTCCACTTTATACTTCGATAAA
TCTCACTCGTAT
Found at i:263680 original size:19 final size:20
Alignment explanation
Indices: 263641--263682 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
263631 ATAATGTAAC
*
263641 CTTCCATTTCAGTGCTATGAG
1 CTTCCATTTAAGT-CTATGAG
263662 CTTCCATTTAAGT-TATGAG
1 CTTCCATTTAAGTCTATGAG
263681 CT
1 CT
263683 AATTATGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
21 12 0.60
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (20 bp):
CTTCCATTTAAGTCTATGAG
Found at i:267828 original size:18 final size:18
Alignment explanation
Indices: 267804--267851 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
267794 TACAACATTC
*
267804 CCAGTAATCTTATTTCCG
1 CCAGTAATCTTATTCCCG
*
267822 GCAGTAAT-TCTATTCCCG
1 CCAGTAATCT-TATTCCCG
*
267840 CCGGTAATCTTA
1 CCAGTAATCTTA
267852 CATTTCATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (18 bp):
CCAGTAATCTTATTCCCG
Found at i:268318 original size:15 final size:16
Alignment explanation
Indices: 268298--268356 Score: 61
Period size: 15 Copynumber: 3.8 Consensus size: 16
268288 TTCGGGTATC
268298 ATTTTATTTAATT-TT
1 ATTTTATTTAATTATT
* *
268313 ATTTTAATCAATTATT
1 ATTTTATTTAATTATT
*
268329 ATTATATTT-ATTATT
1 ATTTTATTTAATTATT
268344 ATTATTA-TTAATT
1 ATT-TTATTTAATT
268357 TTGTTTACAC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
15 22 0.63
16 13 0.37
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTATTTAATTATT
Found at i:268337 original size:21 final size:20
Alignment explanation
Indices: 268312--268358 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
268302 TATTTAATTT
268312 TATTTTAATCAATTATTATTA
1 TATTTTAAT-AATTATTATTA
* *
268333 TATTTATTATTATTATTATTA
1 TATTT-TAATAATTATTATTA
268354 -ATTTT
1 TATTTT
268359 GTTTACACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 15 0.65
22 3 0.13
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTAATAATTATTATTA
Found at i:270148 original size:7 final size:7
Alignment explanation
Indices: 270138--270171 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
270128 TAATTTTAAC
270138 CAATTTT
1 CAATTTT
270145 CAATTTT
1 CAATTTT
270152 CAATTTT
1 CAATTTT
270159 CAATTTT
1 CAATTTT
270166 CAATTT
1 CAATTT
270172 ATATTCGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (7 bp):
CAATTTT
Found at i:271587 original size:29 final size:29
Alignment explanation
Indices: 271548--271605 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
271538 ATCTTGGTTG
*
271548 TACTAATTCATTTTTCTCTTTGTTTGTGT
1 TACTAACTCATTTTTCTCTTTGTTTGTGT
*
271577 TACTAACTCATTTTTCTCTTTTTTTGTGT
1 TACTAACTCATTTTTCTCTTTGTTTGTGT
271606 GTTATTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.62
Consensus pattern (29 bp):
TACTAACTCATTTTTCTCTTTGTTTGTGT
Found at i:272141 original size:14 final size:15
Alignment explanation
Indices: 272115--272151 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
272105 GGATCAATAT
272115 TTTTGCATC--TACA
1 TTTTGCATCTTTACA
272128 TTTT-CATCTTTACA
1 TTTTGCATCTTTACA
272142 TTTTGCATCT
1 TTTTGCATCT
272152 AAGTTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.19
13 4 0.19
14 8 0.38
15 5 0.24
ACGTcount: A:0.19, C:0.22, G:0.05, T:0.54
Consensus pattern (15 bp):
TTTTGCATCTTTACA
Found at i:272165 original size:26 final size:27
Alignment explanation
Indices: 272115--272165 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
272105 GGATCAATAT
*
272115 TTTTGCATCTACATTTTCATCTTTACA
1 TTTTGCATCTACAGTTTCATCTTTACA
*
272142 TTTTGCATCTA-AGTTTCATTTTTA
1 TTTTGCATCTACAGTTTCATCTTTA
272166 AGCATTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.22, C:0.18, G:0.06, T:0.55
Consensus pattern (27 bp):
TTTTGCATCTACAGTTTCATCTTTACA
Done.