Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 200 of 204
Found at i:59012149 original size:41 final size:40
Alignment explanation
Indices: 59012081--59012167 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 40
59012071 AGAAGAAGAG
59012081 AAAAAAAGAAAAAAGAAAAAGAGAAAG-AAAATAGAAAAAT
1 AAAAAAAGAAAAAAGAAAAAGAGAAAGAAAAATA-AAAAAT
* *
59012121 AAAAAGAGAAAAAATAGAAAAATA-AAAGAAAAATAAAAAAT
1 AAAAAAAG-AAAAA-AGAAAAAGAGAAAGAAAAATAAAAAAT
59012162 AAAAAA
1 AAAAAA
59012168 CAAAAGTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
40 7 0.17
41 20 0.49
42 14 0.34
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (40 bp):
AAAAAAAGAAAAAAGAAAAAGAGAAAGAAAAATAAAAAAT
Found at i:59012152 original size:11 final size:11
Alignment explanation
Indices: 59012113--59012158 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
59012103 GAAAGAAAAT
59012113 AGAAAAATAAAA
1 AGAAAAAT-AAA
*
59012125 AGAGAAAA-AAT
1 AGA-AAAATAAA
59012136 AGAAAAATAAA
1 AGAAAAATAAA
59012147 AGAAAAATAAA
1 AGAAAAATAAA
59012158 A
1 A
59012159 AATAAAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 4 0.13
11 19 0.63
12 3 0.10
13 4 0.13
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (11 bp):
AGAAAAATAAA
Found at i:59012383 original size:21 final size:22
Alignment explanation
Indices: 59012358--59012405 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
59012348 GGCCTGCACT
59012358 CAGCAGGC-CAGCCAGCAGGCC-
1 CAGCAGGCGCAG-CAGCAGGCCA
59012379 CAGCA-GCGCAGCAGCAGGCCA
1 CAGCAGGCGCAGCAGCAGGCCA
59012400 CAGCAG
1 CAGCAG
59012406 AGCCCAGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.27, C:0.40, G:0.33, T:0.00
Consensus pattern (22 bp):
CAGCAGGCGCAGCAGCAGGCCA
Found at i:59013005 original size:17 final size:17
Alignment explanation
Indices: 59012983--59013086 Score: 76
Period size: 17 Copynumber: 6.3 Consensus size: 17
59012973 CCTTTTTAAA
59012983 AAAAATTTCCGTGTTTC
1 AAAAATTTCCGTGTTTC
** *
59013000 AAAAA-TTCTCGTGAATA
1 AAAAATTTC-CGTGTTTC
*
59013017 AAAAATTTTCGTGTTTTC
1 AAAAATTTCCGTG-TTTC
*
59013035 AAAAATTCCCGTGTTT-
1 AAAAATTTCCGTGTTTC
*
59013051 AAAAA-AT--GT-TTTC
1 AAAAATTTCCGTGTTTC
*
59013064 AAAAAATTCTCGTGTTTC
1 AAAAATTTC-CGTGTTTC
59013082 AAAAA
1 AAAAA
59013087 AACTCTCGTG
Statistics
Matches: 66, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
12 3 0.05
13 7 0.11
14 1 0.02
16 8 0.12
17 24 0.36
18 23 0.35
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (17 bp):
AAAAATTTCCGTGTTTC
Found at i:59013035 original size:35 final size:34
Alignment explanation
Indices: 59012982--59013057 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 34
59012972 TCCTTTTTAA
*
59012982 AAAAAATTTCCGTGTTTCAAAAATTCTCGTGAAT
1 AAAAAATTTCCGTGTTTCAAAAATTCCCGTGAAT
* **
59013016 AAAAAATTTTCGTGTTTTCAAAAATTCCCGTGTTT
1 AAAAAATTTCCGTG-TTTCAAAAATTCCCGTGAAT
59013051 AAAAAAT
1 AAAAAAT
59013058 GTTTTCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 13 0.35
35 24 0.65
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (34 bp):
AAAAAATTTCCGTGTTTCAAAAATTCCCGTGAAT
Found at i:59013071 original size:30 final size:30
Alignment explanation
Indices: 59013028--59013087 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
59013018 AAAATTTTCG
59013028 TGTTTTCAAAAATTCCCGTGTTT-AAAAAA
1 TGTTTTCAAAAATTCCCGTGTTTCAAAAAA
*
59013057 TGTTTTCAAAAAATTCTCGTGTTTCAAAAAA
1 TGTTTTC-AAAAATTCCCGTGTTTCAAAAAA
59013088 ACTCTCGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 7 0.25
30 15 0.54
31 6 0.21
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (30 bp):
TGTTTTCAAAAATTCCCGTGTTTCAAAAAA
Found at i:59013137 original size:18 final size:18
Alignment explanation
Indices: 59013116--59013159 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
59013106 TTCATGTTAT
59013116 CGTGTTTTCAAAAATTTC
1 CGTGTTTTCAAAAATTTC
* * *
59013134 CGTG-TTTGAAAATTTTT
1 CGTGTTTTCAAAAATTTC
59013151 CGTGTTTTC
1 CGTGTTTTC
59013160 GTGTTTTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (18 bp):
CGTGTTTTCAAAAATTTC
Found at i:59013150 original size:45 final size:45
Alignment explanation
Indices: 59013103--59013190 Score: 126
Period size: 43 Copynumber: 2.0 Consensus size: 45
59013093 CGTGAATATT
*
59013103 TTTTTCATGTTATCGTGTTTTC-AAAAATTTC-CGTGTTTGAAAA
1 TTTTTCATGTTATCGTGTTTTCAAAAAAATTCTCGTGTTTGAAAA
* * *
59013146 TTTTTCGTGTTTTCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAA
1 TTTTTCATGTTATCGTGTTTTCAAAAAAATTCTCGTGTTTGAAAA
59013191 AATCTCTCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 20 0.51
44 8 0.21
45 11 0.28
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (45 bp):
TTTTTCATGTTATCGTGTTTTCAAAAAAATTCTCGTGTTTGAAAA
Found at i:59013188 original size:19 final size:20
Alignment explanation
Indices: 59013158--59013201 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
59013148 TTTCGTGTTT
59013158 TCGTGTTTTCAAAAAAAT-TC
1 TCGTGTTTTC-AAAAAATCTC
59013178 TCGTG-TTTCAAAAAATCTC
1 TCGTGTTTTCAAAAAATCTC
59013197 TCGTG
1 TCGTG
59013202 AATATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
19 11 0.48
20 5 0.22
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
TCGTGTTTTCAAAAAATCTC
Found at i:59013189 original size:105 final size:106
Alignment explanation
Indices: 59013057--59013404 Score: 589
Period size: 105 Copynumber: 3.3 Consensus size: 106
59013047 GTTTAAAAAA
59013057 TGTTTTC--AAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTG
1 TGTTTTCAAAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTG
59013120 TTTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
66 TTTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
*
59013161 TGTTTTC-AAAAAAATTCTCGTGTTTCAAAAAATCTCTCGTGAATATTTTTTTCATGTTATCGTG
1 TGTTTTCAAAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTG
59013225 TTTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
66 TTTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
*
59013266 TGTTTTCAAAAAAAATTCTCGTGTTTC-AAAAAACTCTCGTGAATATTTTTTTGATGTTATCGTG
1 TGTTTTCAAAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTG
* * *
59013330 TTTTCAAAAAATTCCCGTGTTTGACAAA-TTTTCATGTTTTCA
66 TTTTC-AAAAATTTCCGTGTTTGA-AAATTTTTCGTGTTTTCG
59013372 TGTTTTCAAAAAAAAATTCTCGTGTTTCAAAAA
1 TGTTTTC-AAAAAAAATTCTCGTGTTTCAAAAA
59013405 TTTTCGTGTT
Statistics
Matches: 232, Mismatches: 6, Indels: 8
0.94 0.02 0.03
Matches are distributed among these distances:
104 7 0.03
105 143 0.62
106 55 0.24
107 23 0.10
108 4 0.02
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (106 bp):
TGTTTTCAAAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTG
TTTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
Found at i:59013242 original size:18 final size:18
Alignment explanation
Indices: 59013221--59013264 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
59013211 TTCATGTTAT
59013221 CGTGTTTTCAAAAATTTC
1 CGTGTTTTCAAAAATTTC
* * *
59013239 CGTG-TTTGAAAATTTTT
1 CGTGTTTTCAAAAATTTC
59013256 CGTGTTTTC
1 CGTGTTTTC
59013265 GTGTTTTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (18 bp):
CGTGTTTTCAAAAATTTC
Found at i:59013417 original size:18 final size:18
Alignment explanation
Indices: 59013383--59013435 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 18
59013373 GTTTTCAAAA
*
59013383 AAAAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
59013400 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
59013418 -AAAATTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
59013435 A
1 A
59013436 TGTTTTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 28 0.88
18 4 0.12
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.47
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:59013480 original size:63 final size:64
Alignment explanation
Indices: 59013355--59013484 Score: 208
Period size: 63 Copynumber: 2.0 Consensus size: 64
59013345 CGTGTTTGAC
* * *
59013355 AAATTTTCATGTTTTCATGTTTTCAAAAAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCA
1 AAATTTTCATGTTTTCATGTTTTCAAAAAAAAATTCCCGTATTTCAAAAATTTTCGTATTTTCA
* *
59013419 AAATTTTCATGTTTTCATGTTTTC-AAAAAAAATTCCCGTATTTCGAAAATTTTCTTATTTTCA
1 AAATTTTCATGTTTTCATGTTTTCAAAAAAAAATTCCCGTATTTCAAAAATTTTCGTATTTTCA
59013482 AAA
1 AAA
59013485 AAAAATTCCG
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
63 37 0.61
64 24 0.39
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (64 bp):
AAATTTTCATGTTTTCATGTTTTCAAAAAAAAATTCCCGTATTTCAAAAATTTTCGTATTTTCA
Found at i:59013507 original size:18 final size:18
Alignment explanation
Indices: 59013484--59013627 Score: 77
Period size: 20 Copynumber: 7.9 Consensus size: 18
59013474 TATTTTCAAA
59013484 AAAAAATTCCGTGTTTTC
1 AAAAAATTCCGTGTTTTC
* *
59013502 AAAAAAAATCTCGTCTTTT-
1 -AAAAAATTC-CGTGTTTTC
* *
59013521 -AAAATTTTCGTGTTTTC
1 AAAAAATTCCGTGTTTTC
59013538 AAAAAAAATTGACCGTG-TTTC
1 --AAAAAATT--CCGTGTTTTC
* *
59013559 ATAAATTTCCGTGTTTTC
1 AAAAAATTCCGTGTTTTC
*
59013577 AAAAAA-TCTCGT-CTTTC
1 AAAAAATTC-CGTGTTTTC
* *
59013594 --AAATTTTCGTGTTTTC
1 AAAAAATTCCGTGTTTTC
59013610 AAAAAATTGACCGTGTTT
1 AAAAAATT--CCGTGTTT
59013628 CATAAATTCT
Statistics
Matches: 92, Mismatches: 18, Indels: 29
0.66 0.13 0.21
Matches are distributed among these distances:
15 6 0.07
16 12 0.13
17 16 0.17
18 16 0.17
19 14 0.15
20 20 0.22
21 4 0.04
22 4 0.04
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (18 bp):
AAAAAATTCCGTGTTTTC
Found at i:59013541 original size:17 final size:17
Alignment explanation
Indices: 59013512--59013613 Score: 50
Period size: 18 Copynumber: 5.8 Consensus size: 17
59013502 AAAAAAAATC
*
59013512 TCGTCTTTT-AAAATTT
1 TCGTGTTTTCAAAATTT
*
59013528 TCGTGTTTTCAAAAAAAATTG
1 TCGTGTTTTC----AAAATTT
*
59013549 ACCGTGT-TTCATAAATTT
1 TC-GTGTTTTCA-AAATTT
* * *
59013567 CCGTGTTTTCAAAAAATC
1 TCGTGTTTTC-AAAATTT
*
59013585 TCGT-CTTTC-AAATTT
1 TCGTGTTTTCAAAATTT
59013600 TCGTGTTTTCAAAA
1 TCGTGTTTTCAAAA
59013614 AATTGACCGT
Statistics
Matches: 63, Mismatches: 12, Indels: 21
0.66 0.12 0.22
Matches are distributed among these distances:
15 8 0.13
16 12 0.19
17 12 0.19
18 16 0.25
19 1 0.02
21 10 0.16
22 4 0.06
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (17 bp):
TCGTGTTTTCAAAATTT
Found at i:59013545 original size:21 final size:21
Alignment explanation
Indices: 59013464--59013547 Score: 72
Period size: 21 Copynumber: 4.3 Consensus size: 21
59013454 CCGTATTTCG
* *
59013464 AAAATTTTCTTATTTTCAAAA
1 AAAATTTTCGTGTTTTCAAAA
* *
59013485 AAAAATTCCGTGTTTTCAAAA
1 AAAATTTTCGTGTTTTCAAAA
* *
59013506 AAAA-TCTCGTCTTTT-----
1 AAAATTTTCGTGTTTTCAAAA
59013521 AAAATTTTCGTGTTTTCAAAA
1 AAAATTTTCGTGTTTTCAAAA
59013542 AAAATT
1 AAAATT
59013548 GACCGTGTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
15 4 0.08
16 9 0.19
20 8 0.17
21 27 0.56
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (21 bp):
AAAATTTTCGTGTTTTCAAAA
Found at i:59013559 original size:57 final size:59
Alignment explanation
Indices: 59013436--59013545 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 59
59013426 CATGTTTTCA
*
59013436 TGTTTTCAAAAAAAATTCCCGTATTTCGAAAATTTTCTTATTTTCAAAAAAAAATTCCG
1 TGTTTTCAAAAAAAATTCCCGTATTTCGAAAATTTTCGTATTTTCAAAAAAAAATTCCG
* * * *
59013495 TGTTTTCAAAAAAAA-TCTCGTCTTT-TAAAATTTTCGTGTTTTCAAAAAAAA
1 TGTTTTCAAAAAAAATTCCCGTATTTCGAAAATTTTCGTATTTTCAAAAAAAA
59013546 TTGACCGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 23 0.50
58 8 0.17
59 15 0.33
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (59 bp):
TGTTTTCAAAAAAAATTCCCGTATTTCGAAAATTTTCGTATTTTCAAAAAAAAATTCCG
Found at i:59013642 original size:70 final size:72
Alignment explanation
Indices: 59013487--59013651 Score: 241
Period size: 70 Copynumber: 2.3 Consensus size: 72
59013477 TTTCAAAAAA
59013487 AAATTC-CGTGTTTTCAAAAAAAATCTCGTCTTTTAAAATTTTCGTGTTTTCAAAAAAAATTGAC
1 AAATTCTCGTGTTTTC--AAAAAATCTCGTCTTTTAAAATTTTCGTGTTTTC-AAAAAAATTGAC
59013551 CGTGTTTCAT
63 CGTGTTTCAT
*
59013561 AAATT-TCCGTGTTTTCAAAAAATCTCGTC-TTTCAAATTTTCGTGTTTTC-AAAAAATTGACCG
1 AAATTCT-CGTGTTTTCAAAAAATCTCGTCTTTTAAAATTTTCGTGTTTTCAAAAAAATTGACCG
59013623 TGTTTCAT
65 TGTTTCAT
*
59013631 AAATTCTCGTG-TCTCAAAAAA
1 AAATTCTCGTGTTTTCAAAAAA
59013652 AATCCTCGTG
Statistics
Matches: 86, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
69 9 0.10
70 30 0.35
71 1 0.01
72 19 0.22
73 13 0.15
74 5 0.06
75 9 0.10
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (72 bp):
AAATTCTCGTGTTTTCAAAAAATCTCGTCTTTTAAAATTTTCGTGTTTTCAAAAAAATTGACCGT
GTTTCAT
Found at i:59013650 original size:35 final size:35
Alignment explanation
Indices: 59013526--59013650 Score: 123
Period size: 35 Copynumber: 3.5 Consensus size: 35
59013516 CTTTTAAAAT
59013526 TTTCGTGTTTTCAAAAAAAATTGACCGTGTTTCATAAA
1 TTTCGTGTTTTC---AAAAATTGACCGTGTTTCATAAA
* * *
59013564 TTTCCGTGTTTTCAAAAAAT--CTCGTCTTTCA-AAT
1 TTT-CGTGTTTTCAAAAATTGAC-CGTGTTTCATAAA
59013598 TTTCGTGTTTTCAAAAAATTGACCGTGTTTCATAAA
1 TTTCGTGTTTTC-AAAAATTGACCGTGTTTCATAAA
*
59013634 TTCTCGTG-TCTCAAAAA
1 TT-TCGTGTTTTCAAAAA
59013651 AAATCCTCGT
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
33 9 0.12
34 12 0.16
35 21 0.29
36 14 0.19
37 5 0.07
38 3 0.04
39 9 0.12
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (35 bp):
TTTCGTGTTTTCAAAAATTGACCGTGTTTCATAAA
Found at i:59013662 original size:37 final size:36
Alignment explanation
Indices: 59013486--59013665 Score: 153
Period size: 37 Copynumber: 5.0 Consensus size: 36
59013476 TTTTCAAAAA
* *
59013486 AAAATTC-CGTGTTTTCAAAAAAAATCTCGTCTTTT
1 AAAATTCTCGTGTTTTCAAAAAAAATCTCGTGTTTC
*
59013521 AAAATTTTCGTGTTTTCAAAAAAAAT-TGACCGTGTTTC
1 AAAATTCTCGTGTTTTCAAAAAAAATCT---CGTGTTTC
*
59013559 ATAAATT-TCCGTGTTTTC--AAAAAATCTCGTCTTTC
1 A-AAATTCT-CGTGTTTTCAAAAAAAATCTCGTGTTTC
* *
59013594 -AAATTTTCGTGTTTTC-AAAAAATTGAC-CGTGTTTC
1 AAAATTCTCGTGTTTTCAAAAAAAAT--CTCGTGTTTC
*
59013629 ATAAATTCTCGTG-TCTCAAAAAAAATCCTCGTGTTTC
1 A-AAATTCTCGTGTTTTCAAAAAAAAT-CTCGTGTTTC
59013666 GTATTTTATC
Statistics
Matches: 120, Mismatches: 10, Indels: 28
0.76 0.06 0.18
Matches are distributed among these distances:
33 14 0.12
34 7 0.06
35 21 0.17
36 23 0.19
37 32 0.27
38 9 0.08
39 14 0.12
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (36 bp):
AAAATTCTCGTGTTTTCAAAAAAAATCTCGTGTTTC
Found at i:59024567 original size:1 final size:1
Alignment explanation
Indices: 59024563--59024619 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
59024553 AAAAGTAGAC
* * * * * * *
59024563 AAAAAACAAAAAAACAACAAAAAAAACAAAAAAAAAACAAAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
59024620 TCAAGATGAA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.09, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:59024576 original size:8 final size:8
Alignment explanation
Indices: 59024563--59024613 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
59024553 AAAAGTAGAC
59024563 AAAAAACA
1 AAAAAACA
59024571 AAAAAACA
1 AAAAAACA
59024579 ACAAAAA-A
1 A-AAAAACA
*
59024587 AACAAA-A
1 AAAAAACA
59024594 AAAAAACA
1 AAAAAACA
*
59024602 AAAAAAGA
1 AAAAAACA
59024610 AAAA
1 AAAA
59024614 GAAAAATCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
7 10 0.26
8 23 0.61
9 5 0.13
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:59024581 original size:11 final size:10
Alignment explanation
Indices: 59024563--59024607 Score: 65
Period size: 10 Copynumber: 4.4 Consensus size: 10
59024553 AAAAGTAGAC
59024563 AAAAAACAAA
1 AAAAAACAAA
59024573 AAAACAAC-AA
1 AAAA-AACAAA
59024583 AAAAAACAAAA
1 AAAAAAC-AAA
59024594 AAAAAACAAA
1 AAAAAACAAA
59024604 AAAA
1 AAAA
59024608 GAAAAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 3 0.09
10 17 0.53
11 12 0.38
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:59024585 original size:12 final size:11
Alignment explanation
Indices: 59024570--59024607 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
59024560 GACAAAAAAC
59024570 AAAAAAACAACA
1 AAAAAAACAA-A
59024582 AAAAAAACAAA
1 AAAAAAACAAA
59024593 AAAAAAACAAA
1 AAAAAAACAAA
59024604 AAAA
1 AAAA
59024608 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:59024613 original size:20 final size:20
Alignment explanation
Indices: 59024563--59024607 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
59024553 AAAAGTAGAC
*
59024563 AAAAAACAAAAAAACAACAA
1 AAAAAACAAAAAAAAAACAA
59024583 AAAAAACAAAAAAAAAACAA
1 AAAAAACAAAAAAAAAACAA
59024603 AAAAA
1 AAAAA
59024608 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAACAAAAAAAAAACAA
Found at i:59024618 original size:20 final size:18
Alignment explanation
Indices: 59024563--59024619 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 18
59024553 AAAAGTAGAC
59024563 AAAAAACAAAAAAACAACAA
1 AAAAAACAAAAAAA-AA-AA
59024583 AAAAAACAAAAAAAAAACA
1 AAAAAACAAAAAAAAAA-A
*
59024602 AAAAAAGAAAAAGAAAAA
1 AAAAAACAAAAA-AAAAA
59024620 TCAAGATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 1 0.03
19 14 0.41
20 19 0.56
ACGTcount: A:0.88, C:0.09, G:0.04, T:0.00
Consensus pattern (18 bp):
AAAAAACAAAAAAAAAAA
Found at i:59025599 original size:76 final size:75
Alignment explanation
Indices: 59025476--59026223 Score: 918
Period size: 76 Copynumber: 9.8 Consensus size: 75
59025466 TCAAGAAATA
* * *
59025476 TTTTTAAAATTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCACAGGTCA
1 TTTTTAAATTTCTG-TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
* *
59025541 CGCTGAGGTA-T
64 TGCCGAGGTATT
59025552 TTTTT-AATTTCTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTTAAATTTCTG--TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
* *
59025616 ACGCTGAGGTATTT
63 ATGCCGAGGTA-TT
59025630 TTTTTAAATTTCTGCTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTTAAATTTCTG--TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
59025695 TGCCGAGGTATT
64 TGCCGAGGTATT
* *
59025707 TCTTTTAAATTGCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAT
1 T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAT
59025772 GCCGAGGTATT
65 GCCGAGGTATT
*
59025783 TCTTTTAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAT
1 T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAT
59025848 GCCGAGGTATT
65 GCCGAGGTATT
* *
59025859 TCTTTTAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGAGTCAT
1 T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAT
*
59025924 GCTGAGGTATT
65 GCCGAGGTATT
* * * * ** **
59025935 TCTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGACCAT
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCAT
59026000 GCCGAGGTATT
65 GCCGAGGTATT
* * *
59026011 TCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGATGAGTTGAGCCTAGGGTCA
1 T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCA
* *
59026076 CGTCGAGGTA--
64 TGCCGAGGTATT
* * ** *
59026086 TTTTTCAA-TTCATGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCA
1 TTTTTAAATTTC-TGTTTTTCAAAAATCAACTCATAAT-ACAGAGGTGAGTTGAGCCTC-GGG-T
*
59026150 CATGTCGAGGTA--
62 CATGCCGAGGTATT
** * * * * *
59026162 -TTTTCGATTTTTGTTTTTCGAAGATCAACTCATAATCCACGAGGTGAGTTGAGTCTCGGGTC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATACA-GAGGTGAGTTGAGCCTCGGGTC
59026224 GCACGCCGAG
Statistics
Matches: 610, Mismatches: 49, Indels: 29
0.89 0.07 0.04
Matches are distributed among these distances:
73 4 0.01
74 50 0.08
75 89 0.15
76 318 0.52
77 66 0.11
78 68 0.11
79 15 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (75 bp):
TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
CCGAGGTATT
Found at i:59026460 original size:30 final size:29
Alignment explanation
Indices: 59026419--59026549 Score: 97
Period size: 30 Copynumber: 4.4 Consensus size: 29
59026409 AATTTTTTTG
*
59026419 CATTTTAACCCCTATACTTATCAAAATTTA
1 CATTTTAACCCCTAAACTT-TCAAAATTTA
*
59026449 CATTTTGACCCC-AAACTTTTCTAAAA-TTA
1 CATTTTAACCCCTAAAC-TTTC-AAAATTTA
* * *
59026478 CATTTCAACCCTTAGACTTTCTCAAAATTT-
1 CATTTTAACCCCTAAAC-TT-TCAAAATTTA
* * * *
59026508 CACTTTGACCCCTAAACTCTTAAAAAATTA
1 CATTTTAACCCCTAAACT-TTCAAAATTTA
*
59026538 CATTTTAGCCCC
1 CATTTTAACCCC
59026550 ATATTTTCCT
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
29 25 0.32
30 49 0.63
31 4 0.05
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
CATTTTAACCCCTAAACTTTCAAAATTTA
Found at i:59026479 original size:29 final size:29
Alignment explanation
Indices: 59026419--59026581 Score: 93
Period size: 30 Copynumber: 5.5 Consensus size: 29
59026409 AATTTTTTTG
* * *
59026419 CATTTTAACCCCTATACTTATC-AAAATTTA
1 CATTTTGACCCC-AAACTTTTCTAAAA-TTA
59026449 CATTTTGACCCCAAACTTTTCTAAAATTA
1 CATTTTGACCCCAAACTTTTCTAAAATTA
** * * *
59026478 CATTTCAACCCTTAGAC-TTTCTCAAAATTT
1 CATTTTGACCC-CAAACTTTTCT-AAAATTA
* * **
59026508 CACTTTGACCCCTAAACTCTTAAAAAATTA
1 CATTTTGACCCC-AAACTTTTCTAAAATTA
*
59026538 CATTTT-AGCCCCATA-TTTTCCTAAAATTA
1 CATTTTGA-CCCCAAACTTTT-CTAAAATTA
*
59026567 CGTTTTTG-CCCCAAA
1 C-ATTTTGACCCCAAA
59026582 AACTTTGCAC
Statistics
Matches: 100, Mismatches: 24, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
28 3 0.03
29 41 0.41
30 54 0.54
31 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (29 bp):
CATTTTGACCCCAAACTTTTCTAAAATTA
Found at i:59027123 original size:6 final size:6
Alignment explanation
Indices: 59027114--59027185 Score: 67
Period size: 6 Copynumber: 11.8 Consensus size: 6
59027104 GAAGAAGAGA
* *
59027114 AAAAAG AAAAAAG AAAAAG AAAAAG AAAAAAAG AAAAAG AGAAA- AAATAG
1 AAAAAG -AAAAAG AAAAAG AAAAAG --AAAAAG AAAAAG AAAAAG AAAAAG
* *
59027164 AAAAA- TAAAAG AAAAAT AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAA
59027186 ACAAAAGTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
5 7 0.13
6 35 0.65
7 6 0.11
8 6 0.11
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:59027144 original size:28 final size:28
Alignment explanation
Indices: 59027101--59027159 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
59027091 GGGTTCGCCC
*
59027101 AAAGAAGAAGAGAAAAAAGAAAAA-AGAA
1 AAAGAAAAAGA-AAAAAAGAAAAAGAGAA
59027129 AAAGAAAAAGAAAAAAAGAAAAAGAGAA
1 AAAGAAAAAGAAAAAAAGAAAAAGAGAA
59027157 AAA
1 AAA
59027160 ATAGAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (28 bp):
AAAGAAAAAGAAAAAAAGAAAAAGAGAA
Found at i:59027160 original size:42 final size:42
Alignment explanation
Indices: 59027101--59027186 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
59027091 GGGTTCGCCC
*
59027101 AAAGAAGAAGAGAAAAAAGA-AAAAAGAAAAAGAAAAAGAAAA
1 AAAGAAAAAGAGAAAAAAGAGAAAAA-AAAAAGAAAAAGAAAA
* * *
59027143 AAAGAAAAAGAGAAAAAATAGAAAAATAAAAGAAAAATAAAA
1 AAAGAAAAAGAGAAAAAAGAGAAAAAAAAAAGAAAAAGAAAA
59027185 AA
1 AA
59027187 CAAAAGTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 34 0.87
43 5 0.13
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.03
Consensus pattern (42 bp):
AAAGAAAAAGAGAAAAAAGAGAAAAAAAAAAGAAAAAGAAAA
Found at i:59027404 original size:21 final size:22
Alignment explanation
Indices: 59027379--59027426 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
59027369 GGCCTGCACT
59027379 CAGCAGGC-CAGCCAGCAGGCC-
1 CAGCAGGCGCAG-CAGCAGGCCA
59027400 CAGCA-GCGCAGCAGCAGGCCA
1 CAGCAGGCGCAGCAGCAGGCCA
59027421 CAGCAG
1 CAGCAG
59027427 AGCCCAGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.27, C:0.40, G:0.33, T:0.00
Consensus pattern (22 bp):
CAGCAGGCGCAGCAGCAGGCCA
Found at i:59027984 original size:17 final size:17
Alignment explanation
Indices: 59027941--59028097 Score: 65
Period size: 17 Copynumber: 8.8 Consensus size: 17
59027931 TTTTTAAAAA
59027941 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*
59027958 TCATGTTTTC-AAAATTT
1 TCGTG-TTTCAAAAATTT
*
59027975 CTCGTGTTTCCTTTTTAAAAAAAATT
1 -TCGTGTTT-C------AA-AAATTT
*
59028001 TCCGTGTTTCAAAAATTC
1 TC-GTGTTTCAAAAATTT
** *
59028019 TCGTGAATAAAAAATTT
1 TCGTGTTTCAAAAATTT
*
59028036 TCGTGTTTTCAAAAATTC
1 TCGTG-TTTCAAAAATTT
* *
59028054 CCGTGTTTGAAAAA---
1 TCGTGTTTCAAAAATTT
*
59028068 T-GT-TTTCAAAAAATTC
1 TCGTGTTTC-AAAAATTT
59028084 TCGTGTTTCAAAAA
1 TCGTGTTTCAAAAA
59028098 AACTCTCGTG
Statistics
Matches: 104, Mismatches: 17, Indels: 38
0.65 0.11 0.24
Matches are distributed among these distances:
12 3 0.03
13 7 0.07
16 1 0.01
17 45 0.43
18 31 0.30
19 2 0.02
25 4 0.04
26 11 0.11
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:59028014 original size:18 final size:17
Alignment explanation
Indices: 59027993--59028098 Score: 66
Period size: 17 Copynumber: 6.4 Consensus size: 17
59027983 TCCTTTTTAA
59027993 AAAAAATTTCCGTGTTTC
1 AAAAAA-TTCCGTGTTTC
**
59028011 -AAAAATTCTCGTGAAT-
1 AAAAAATTC-CGTGTTTC
*
59028027 AAAAAATTTTCGTGTTTTC
1 AAAAAA-TTCCGTG-TTTC
59028046 -AAAAATTCCCGTGTTT-
1 AAAAAATT-CCGTGTTTC
*
59028062 GAAAAA-T--GT-TTTC
1 AAAAAATTCCGTGTTTC
59028075 AAAAAATTCTCGTGTTTC
1 AAAAAATTC-CGTGTTTC
59028093 AAAAAA
1 AAAAAA
59028099 ACTCTCGTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 26
0.67 0.07 0.26
Matches are distributed among these distances:
12 3 0.04
13 7 0.10
14 1 0.01
16 4 0.06
17 31 0.46
18 22 0.32
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (17 bp):
AAAAAATTCCGTGTTTC
Found at i:59028035 original size:34 final size:35
Alignment explanation
Indices: 59027993--59028058 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
59027983 TCCTTTTTAA
*
59027993 AAAAAATTTCCGTG-TTTCAAAAATTCTCGTGAAT
1 AAAAAATTTCCGTGTTTTCAAAAATTCCCGTGAAT
*
59028027 AAAAAATTTTCGTGTTTTCAAAAATTCCCGTG
1 AAAAAATTTCCGTGTTTTCAAAAATTCCCGTG
59028059 TTTGAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (35 bp):
AAAAAATTTCCGTGTTTTCAAAAATTCCCGTGAAT
Found at i:59028096 original size:29 final size:29
Alignment explanation
Indices: 59028039--59028097 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
59028029 AAAATTTTCG
59028039 TGTTTTCAAAAATTCCCGTGTTTGAAAAA
1 TGTTTTCAAAAATTCCCGTGTTTGAAAAA
* *
59028068 TGTTTTCAAAAAATTCTCGTGTTTCAAAAA
1 TGTTTTC-AAAAATTCCCGTGTTTGAAAAA
59028098 AACTCTCGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (29 bp):
TGTTTTCAAAAATTCCCGTGTTTGAAAAA
Found at i:59028097 original size:19 final size:18
Alignment explanation
Indices: 59028071--59028107 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
59028061 TGAAAAATGT
*
59028071 TTTCAAAAAATTCTCGTG
1 TTTCAAAAAACTCTCGTG
59028089 TTTCAAAAAAACTCTCGTG
1 TTTC-AAAAAACTCTCGTG
59028108 AATATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (18 bp):
TTTCAAAAAACTCTCGTG
Found at i:59028147 original size:18 final size:18
Alignment explanation
Indices: 59028126--59028169 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
59028116 TTCATGTTAT
59028126 CGTGTTTTCAAAAATTTC
1 CGTGTTTTCAAAAATTTC
* * *
59028144 CGTG-TTTGAAAATTTTT
1 CGTGTTTTCAAAAATTTC
59028161 CGTGTTTTC
1 CGTGTTTTC
59028170 GTGTTTTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (18 bp):
CGTGTTTTCAAAAATTTC
Found at i:59028173 original size:43 final size:45
Alignment explanation
Indices: 59028113--59028200 Score: 126
Period size: 43 Copynumber: 2.0 Consensus size: 45
59028103 TCGTGAATAT
* *
59028113 TTTTTCATGTTATCGTGTTTTC-AAAAATTTC-CGTGTTTGAAAA
1 TTTTTCATGTTATCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAA
* *
59028156 TTTTTCGTGTTTTCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAA
1 TTTTTCATGTTATCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAA
59028201 AAACTCTCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 20 0.51
44 8 0.21
45 11 0.28
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (45 bp):
TTTTTCATGTTATCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAA
Found at i:59028198 original size:19 final size:20
Alignment explanation
Indices: 59028168--59028211 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
59028158 TTTCGTGTTT
*
59028168 TCGTGTTTTCAAAAAAATTC
1 TCGTGTTTTCAAAAAAACTC
59028188 TCGTG-TTTCAAAAAAACTC
1 TCGTGTTTTCAAAAAAACTC
59028207 TCGTG
1 TCGTG
59028212 AATATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (20 bp):
TCGTGTTTTCAAAAAAACTC
Found at i:59028252 original size:18 final size:18
Alignment explanation
Indices: 59028231--59028274 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
59028221 TTCATGTTAT
59028231 CGTGTTTTCAAAATTTTC
1 CGTGTTTTCAAAATTTTC
* *
59028249 CGTG-TTTGAAAATTTTT
1 CGTGTTTTCAAAATTTTC
59028266 CGTGTTTTC
1 CGTGTTTTC
59028275 GTGTTTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.52
Consensus pattern (18 bp):
CGTGTTTTCAAAATTTTC
Found at i:59028396 original size:106 final size:105
Alignment explanation
Indices: 59028068--59028395 Score: 565
Period size: 105 Copynumber: 3.1 Consensus size: 105
59028058 GTTTGAAAAA
59028068 TGTTTTC-AAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATA-TTTTTTCATGTTATCGTGT
1 TGTTTTCAAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTGT
59028131 TTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
66 TTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
59028171 TGTTTTCAAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTGT
1 TGTTTTCAAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTGT
*
59028236 TTTCAAAATTTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
66 TTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
*
59028276 TGTTTTCAAAAAAAATTCTCGTGTTTC-AAAAAACTCTCGTGAATATTTTTTTGATGTTATCGTG
1 TGTTTTC-AAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTG
* *
59028340 TTTTCAAAAAATTCCCGTGTTTGACAAA-TTTTCATGTTTTCG
65 TTTTC-AAAAATTTCCGTGTTTGA-AAATTTTTCGTGTTTTCG
59028382 TGTTTTCAAAAAAA
1 TGTTTTCAAAAAAA
59028396 AAAAATTTCT
Statistics
Matches: 215, Mismatches: 5, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
103 7 0.03
104 37 0.17
105 113 0.53
106 55 0.26
107 3 0.01
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (105 bp):
TGTTTTCAAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTGT
TTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
Found at i:59028428 original size:68 final size:70
Alignment explanation
Indices: 59028335--59028464 Score: 194
Period size: 68 Copynumber: 1.9 Consensus size: 70
59028325 TTTGATGTTA
*
59028335 TCGTGTTTTCAAAAAATTCCCGTGTTTGAC-AAATTTTCATGTTTTCGTGTTTTCAAAAAAAAAA
1 TCGTGTTTTCAAAAAATTCCCGTGTTT-ACAAAATTTTCATGTTTTCATGTTTTCAAAAAAAAAA
59028399 AATTTC
65 AATTTC
** *
59028405 TCGTG-TTTC-AAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTCATGTTTTCAAAAAAAA
1 TCGTGTTTTCAAAAAATTCCCGTGTTTACAAAATTTTCATGTTTTCATGTTTTCAAAAAAAA
59028465 TTCCCGTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
67 1 0.02
68 45 0.82
69 4 0.07
70 5 0.09
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (70 bp):
TCGTGTTTTCAAAAAATTCCCGTGTTTACAAAATTTTCATGTTTTCATGTTTTCAAAAAAAAAAA
ATTTC
Found at i:59028447 original size:17 final size:17
Alignment explanation
Indices: 59028397--59028449 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
59028387 TCAAAAAAAA
59028397 AAAATTTCTCGTG-TTTC
1 AAAATTT-TCGTGTTTTC
59028414 AAAAATTTTCGTGTTTTC
1 -AAAATTTTCGTGTTTTC
*
59028432 AAAATTTTCATGTTTTC
1 AAAATTTTCGTGTTTTC
59028449 A
1 A
59028450 TGTTTTCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.49
Consensus pattern (17 bp):
AAAATTTTCGTGTTTTC
Found at i:59028486 original size:38 final size:38
Alignment explanation
Indices: 59028444--59028661 Score: 213
Period size: 38 Copynumber: 5.9 Consensus size: 38
59028434 AATTTTCATG
* *
59028444 TTTTCATGTTTTCAAAAAAAATTCCCGTATTTCGA-AAA
1 TTTTCGTGTTTTCAAAAAAAATTCCCGTGTTTC-ATAAA
* * * *
59028482 TTTTCTTATTTTCAAAAAAAAAAT-CTGTGTTTCATAAA
1 TTTTCGTGTTTTC-AAAAAAAATTCCCGTGTTTCATAAA
*
59028520 TTTTCGTGTTTTCAAAAAAAATTGACCGTGTTTCATAAA
1 TTTTCGTGTTTTCAAAAAAAATT-CCCGTGTTTCATAAA
* *
59028559 TTTCCGTGTTTTC--AAAAAA-TCCCGTCTTTCA-AAA
1 TTTTCGTGTTTTCAAAAAAAATTCCCGTGTTTCATAAA
*
59028593 TTTTCGTGTTTTC--AAAAAATTGACCGTGTTTCATAAA
1 TTTTCGTGTTTTCAAAAAAAATT-CCCGTGTTTCATAAA
* *
59028630 TTCTCGTG-TCTCAAAAAAAA-TCCTCGTGTTTC
1 TTTTCGTGTTTTCAAAAAAAATTCC-CGTGTTTC
59028662 GTATTTTATC
Statistics
Matches: 152, Mismatches: 18, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
34 21 0.14
35 10 0.07
36 14 0.09
37 35 0.23
38 38 0.25
39 34 0.22
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (38 bp):
TTTTCGTGTTTTCAAAAAAAATTCCCGTGTTTCATAAA
Found at i:59028530 original size:17 final size:17
Alignment explanation
Indices: 59028508--59028646 Score: 75
Period size: 17 Copynumber: 7.7 Consensus size: 17
59028498 AAAAAAATCT
* *
59028508 GTGTTTCATAAATTTTC
1 GTGTTTCAAAAATTTCC
*
59028525 GTGTTTTCAAAAAAAATTGACC
1 GTG-TTTC---AAAAATT-TCC
*
59028547 GTGTTTCATAAATTTCC
1 GTGTTTCAAAAATTTCC
* *
59028564 GTGTTTTCAAAAAATCCC
1 GTG-TTTCAAAAATTTCC
* *
59028582 GTCTTTC-AAAATTTTC
1 GTGTTTCAAAAATTTCC
*
59028598 GTGTTTTCAAAAAATTGACC
1 GTG-TTTC-AAAAATT-TCC
*
59028618 GTGTTTCATAAA-TTCTC
1 GTGTTTCAAAAATTTC-C
*
59028635 GTGTCTCAAAAA
1 GTGTTTCAAAAA
59028647 AAATCCTCGT
Statistics
Matches: 92, Mismatches: 19, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
16 9 0.10
17 28 0.30
18 27 0.29
19 10 0.11
20 4 0.04
21 10 0.11
22 4 0.04
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (17 bp):
GTGTTTCAAAAATTTCC
Found at i:59028571 original size:18 final size:18
Alignment explanation
Indices: 59028511--59028610 Score: 71
Period size: 18 Copynumber: 5.5 Consensus size: 18
59028501 AAAATCTGTG
* *
59028511 TTTCATAAATTTTCGTGT
1 TTTCAAAAATTTCCGTGT
*
59028529 TTTCAAAAAAAATTGACCGTG-
1 TTTC---AAAAATT-TCCGTGT
*
59028550 TTTCATAAATTTCCGTGT
1 TTTCAAAAATTTCCGTGT
* * *
59028568 TTTCAAAAAATCCCGT-C
1 TTTCAAAAATTTCCGTGT
*
59028585 TTTC-AAAATTTTCGTGT
1 TTTCAAAAATTTCCGTGT
59028602 TTTCAAAAA
1 TTTCAAAAA
59028611 ATTGACCGTG
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
16 8 0.13
17 13 0.21
18 27 0.44
21 10 0.16
22 4 0.06
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (18 bp):
TTTCAAAAATTTCCGTGT
Found at i:59028638 original size:71 final size:72
Alignment explanation
Indices: 59028511--59028647 Score: 217
Period size: 71 Copynumber: 1.9 Consensus size: 72
59028501 AAAATCTGTG
*
59028511 TTTCATAAATTTTCGTGTTTTCAAAAAAAATTGACCGTGTTTCATAAATTTCCGTGTTTTCAAAA
1 TTTCATAAATTTTCGTGTTTTC-AAAAAAATTGACCGTGTTTCATAAATTTCCGTG-TCTCAAAA
59028576 AATCCCGTC
64 AATCCCGTC
59028585 TTTCA-AAATTTTCGTGTTTTC-AAAAAATTGACCGTGTTTCATAAA-TTCTCGTGTCTCAAAAA
1 TTTCATAAATTTTCGTGTTTTCAAAAAAATTGACCGTGTTTCATAAATTTC-CGTGTCTCAAAAA
59028647 A
65 A
59028648 AATCCTCGTG
Statistics
Matches: 61, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
70 12 0.20
71 28 0.46
73 16 0.26
74 5 0.08
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (72 bp):
TTTCATAAATTTTCGTGTTTTCAAAAAAATTGACCGTGTTTCATAAATTTCCGTGTCTCAAAAAA
TCCCGTC
Found at i:59030806 original size:129 final size:129
Alignment explanation
Indices: 59030574--59030811 Score: 370
Period size: 129 Copynumber: 1.8 Consensus size: 129
59030564 CTAATTTGAC
* *
59030574 CTACTGCAACTTCAGAGATATATGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAAGGAAAT
1 CTACTGCAACTTCAGAGAGATAAGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAAGGAAAT
* *
59030639 AGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATGAGACTAGATACGATCTGCT
66 AGGATTGGTTTCTTCTGTCTGCTCCACTACAACCTCAGGGAGATGAGACTAGATACGATCTGCT
* * * *
59030703 CTACTGCAACTTCAGAGAGATAAGA-TCTGTGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGA
1 CTACTGCAACTTCAGAGAGATAAGATTC-ATCGTTTTAATCCGCTCCACTGCAACTTCAAGGAAA
* *
59030767 TAGGATTGGTTTCTTTTGTCTGCTTCACTACAACCTCAGGGAGAT
65 TAGGATTGGTTTCTTCTGTCTGCTCCACTACAACCTCAGGGAGAT
59030812 AAGATCTGAG
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
128 2 0.02
129 96 0.98
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (129 bp):
CTACTGCAACTTCAGAGAGATAAGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAAGGAAAT
AGGATTGGTTTCTTCTGTCTGCTCCACTACAACCTCAGGGAGATGAGACTAGATACGATCTGCT
Found at i:59030967 original size:44 final size:44
Alignment explanation
Indices: 59030914--59031154 Score: 140
Period size: 44 Copynumber: 5.5 Consensus size: 44
59030904 CCTTTATTTT
* *
59030914 AATCCGCTCCACTGTAATCTCAGTGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
* * * * *
59030958 AATCTGCTCCGCTGTAATCTCAGGAAGATAAGATCTGA-AATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-T-ACTA-GCTTC
** * * * * *
59031004 GGTCTGTTCCATTGTAATCTCAGGGAGAT-GAGA--CCT-GATGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAG-GATTACTAGCTTC
* * * * * * * *
59031045 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAGGAT--TACTAGCTTC
59031089 AAT-TCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCT-GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
*
59031133 AATCTGCTCCGCTGTAATCTCA
1 AATCTGCTCCACTGTAATCTCA
59031155 AGGATATAAG
Statistics
Matches: 141, Mismatches: 39, Indels: 34
0.66 0.18 0.16
Matches are distributed among these distances:
40 1 0.01
41 25 0.18
42 1 0.01
43 3 0.02
44 77 0.55
45 4 0.03
46 30 0.21
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
Found at i:59030992 original size:175 final size:173
Alignment explanation
Indices: 59030673--59031188 Score: 687
Period size: 175 Copynumber: 2.9 Consensus size: 173
59030663 CACTGCAACT
* * * * **
59030673 TCAGGGAGATGAGA-CTAGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT-CTGTGGT
1 TCAGGGAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTAT
** ** *** * * **
59030736 TTTAATCCGCTCCACTGTAA-CTTCAAGGAGATAGGATTGGTTTCTTTTGTCTGCTTCACTACAA
64 TTTAATCCGCTCCACTGTAATC-TC-AGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA
* * *
59030800 CCTCAGGGAGATAAGATCTGAGATTCTTCGATCTATTCCACTATAATC
127 TCTCA-GGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTATAATC
*
59030848 TCAGGGCGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
59030913 TAATCCGCTCCACTGTAATCTCAGTGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCT
66 TAATCCGCTCCACTGTAATCTCAG-GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCT
* * *
59030978 CAGGAAGATAAGATCTGAAATTCTTCGGTCTGTTCCATTGTAATC
130 CAGG-AGATAAGATCTGAAATTCTTCGGTCTATTCCACTATAATC
*
59031023 TCAGGGAGATGAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
*
59031088 TAATTCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCT
66 TAATCCGCTCCACTGTAATCTCA-GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCT
*
59031153 CAAGGATATAAGATCTGAAATTCTTCGGTCTATTCC
130 C-AGGAGATAAGATCTGAAATTCTTCGGTCTATTCC
59031189 CTGAGGAACA
Statistics
Matches: 305, Mismatches: 29, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
174 4 0.01
175 292 0.96
176 9 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (173 bp):
TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
TAATCCGCTCCACTGTAATCTCAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTC
AGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTATAATC
Found at i:59034196 original size:16 final size:16
Alignment explanation
Indices: 59034175--59034206 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59034165 TTCTCTTAAA
59034175 AGCAAAGAAGAACGGC
1 AGCAAAGAAGAACGGC
59034191 AGCAAAGAAGAACGGC
1 AGCAAAGAAGAACGGC
59034207 CATCGTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.31, T:0.00
Consensus pattern (16 bp):
AGCAAAGAAGAACGGC
Found at i:59037196 original size:19 final size:19
Alignment explanation
Indices: 59037172--59037211 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
59037162 CAAATTGGGA
59037172 AAAAGACCAAGGGATTAAC
1 AAAAGACCAAGGGATTAAC
59037191 AAAAGACCAAGGGATTAAC
1 AAAAGACCAAGGGATTAAC
59037210 AA
1 AA
59037212 TCATGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.15, G:0.20, T:0.10
Consensus pattern (19 bp):
AAAAGACCAAGGGATTAAC
Found at i:59038014 original size:13 final size:13
Alignment explanation
Indices: 59037996--59038072 Score: 127
Period size: 13 Copynumber: 5.9 Consensus size: 13
59037986 ACACTCAAAT
*
59037996 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
59038009 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
59038022 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
*
59038035 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
59038048 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
59038061 TTCTCAAAAGCA
1 TTCTCAAAAGCA
59038073 ATAAAGAACT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 59 1.00
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:59047234 original size:22 final size:22
Alignment explanation
Indices: 59047196--59047237 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
59047186 CAATTGCAAC
59047196 AAAAATAAGATAAATACAAAGT
1 AAAAATAAGATAAATACAAAGT
*
59047218 AAAAATCA-ATAACATACAAA
1 AAAAATAAGATAA-ATACAAA
59047238 ATAGCAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.10, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAAATAAGATAAATACAAAGT
Found at i:59048522 original size:3 final size:3
Alignment explanation
Indices: 59048504--59048549 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
59048494 GTATACTAAA
* *
59048504 AAT ATAT AAT -AT AAT AAT AAT -AT TAT TAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59048548 AA
1 AA
59048550 CAACTATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:59048559 original size:29 final size:29
Alignment explanation
Indices: 59048504--59048569 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
59048494 GTATACTAAA
*
59048504 AATATATAATATAATAATAATATTATT-AT
1 AATA-ATAATATAATAACAATATTATTAAT
59048533 AATAATAATAATAATAACAACTA-TATTAAT
1 AATAATAAT-ATAATAACAA-TATTATTAAT
59048563 AA-AATAA
1 AATAATAA
59048570 ACTAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 5 0.15
29 22 0.67
30 6 0.18
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (29 bp):
AATAATAATATAATAACAATATTATTAAT
Found at i:59050136 original size:100 final size:100
Alignment explanation
Indices: 59049951--59050710 Score: 1099
Period size: 100 Copynumber: 7.6 Consensus size: 100
59049941 ACAATGTCAA
* * * * * * * *
59049951 GGAAACAAGATCCGCCGTCGT-AGCTTCAATCTGTTCAACTGCACAGCTAAGGAGGTAAGATCCG
1 GGAAACCAGATCCGCCGTTGTGA-CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCG
* * *
59050015 TCGTTGTGGCCTCTATCTTTTTAATTGCGCTGTCGG
65 CCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* * **
59050051 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTTCACTACACCGCCAGGGAAGTAAGATCCAT
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
* * *
59050116 CGTTATGGCTTCAATATTTTTAATTGCGCTGTTGG
66 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* *
59050151 GGAAACCAGATCCACCGTTGTGACTTCAATCTGCTCTACTGCACCGCCAGGGAAGTAAGATCCGC
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
* *
59050216 CGTTGTGGCTTCAATCTTTTTAATTACGCTGTCGA
66 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* * *
59050251 GGAAACCAGATCTGCTGTTGTGACTTCAATCTGCTCCATTGCACCGCCAGGGAAGTAAGATCCGC
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
* * *
59050316 CATTGTGACTTCAATCTTTTTAATTGCGCTGTCGA
66 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* * *
59050351 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCATCGCCAGGGAAGTAAGATCTGC
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
* *
59050416 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGCCGA
66 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* * * *
59050451 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCACCAAGGAAGTAAGATTCGC
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
* * *
59050516 TGTTGTGGCTTCAATCTTTTTAATTGCGCTATTGG
66 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* * *
59050551 GGAAACCAGATTCGCCGTTGTGACTTCAATCTGCTCCACTGCACCACCAGGGAAGTAAGATCCAC
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
59050616 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
66 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* *
59050651 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAATAAGA
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGA
59050711 ATCTGCTATT
Statistics
Matches: 595, Mismatches: 64, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
100 594 1.00
101 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (100 bp):
GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
Found at i:59052040 original size:6 final size:7
Alignment explanation
Indices: 59052013--59052076 Score: 78
Period size: 7 Copynumber: 9.0 Consensus size: 7
59052003 TTAGCCTCTC
59052013 CATTTTT
1 CATTTTT
59052020 -ACTTTTT
1 CA-TTTTT
59052027 CCATTTTT
1 -CATTTTT
59052035 CATTTTT
1 CATTTTT
59052042 CATTTTT
1 CATTTTT
59052049 CATTTTT
1 CATTTTT
*
59052056 TATTTTT
1 CATTTTT
59052063 CTATTTTT
1 C-ATTTTT
59052071 -ATTTTT
1 CATTTTT
59052077 TCACATCCCT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
6 7 0.14
7 32 0.63
8 11 0.22
9 1 0.02
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.73
Consensus pattern (7 bp):
CATTTTT
Found at i:59056972 original size:23 final size:23
Alignment explanation
Indices: 59056946--59056995 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
59056936 ATATGTAGGT
59056946 ATAATAAAAATAT-ATAATATATA
1 ATAATAAAAATATAATAATA-ATA
*
59056969 ATAATAATAATATAATAATAATA
1 ATAATAAAAATATAATAATAATA
59056992 ATAA
1 ATAA
59056996 CAACTATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATAAAAATATAATAATAATA
Found at i:59056974 original size:3 final size:3
Alignment explanation
Indices: 59056946--59056995 Score: 66
Period size: 3 Copynumber: 16.3 Consensus size: 3
59056936 ATATGTAGGT
*
59056946 ATA ATA AAA ATA TATA ATA TATA ATA ATA ATA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
59056992 ATA A
1 ATA A
59056996 CAACTATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 34 0.81
4 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:59056974 original size:17 final size:17
Alignment explanation
Indices: 59056945--59056995 Score: 77
Period size: 17 Copynumber: 3.0 Consensus size: 17
59056935 TATATGTAGG
*
59056945 TATAATAAAAATATATAA
1 TATAATAATAATA-ATAA
59056963 TAT-ATAATAATAATAA
1 TATAATAATAATAATAA
59056979 TATAATAATAATAATAA
1 TATAATAATAATAATAA
59056996 CAACTATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 7 0.23
17 21 0.68
18 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TATAATAATAATAATAA
Found at i:59056981 original size:14 final size:14
Alignment explanation
Indices: 59056946--59056994 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
59056936 ATATGTAGGT
59056946 ATAATAA-A-AATA
1 ATAATAATATAATA
59056958 TATAAT-ATATAATA
1 -ATAATAATATAATA
59056972 ATAATAATATAATA
1 ATAATAATATAATA
59056986 ATAATAATA
1 ATAATAATA
59056995 ACAACTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.03
13 11 0.33
14 21 0.64
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATAATATAATA
Found at i:59056985 original size:11 final size:11
Alignment explanation
Indices: 59056945--59056991 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
59056935 TATATGTAGG
*
59056945 TATAATAAAAA
1 TATAATAATAA
59056956 TAT-ATAATATA
1 TATAATAATA-A
59056967 TAATAATAATAA
1 T-ATAATAATAA
59056979 TATAATAATAA
1 TATAATAATAA
59056990 TA
1 TA
59056992 ATAACAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 5 0.16
11 17 0.53
12 4 0.12
13 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TATAATAATAA
Found at i:59056993 original size:20 final size:20
Alignment explanation
Indices: 59056946--59057015 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
59056936 ATATGTAGGT
*
59056946 ATAATAAAAAT-ATATAATA
1 ATAATAATAATAATATAATA
59056965 TATAATAATAATAATATAATA
1 -ATAATAATAATAATATAATA
* *
59056986 ATAATAATAACAACTATATTA
1 ATAATAATAATAA-TATAATA
59057007 ATAA-AATAA
1 ATAATAATAA
59057016 ACTAAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
20 27 0.60
21 18 0.40
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAATAATAATAATATAATA
Found at i:59057004 original size:23 final size:20
Alignment explanation
Indices: 59056946--59057015 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 20
59056936 ATATGTAGGT
*
59056946 ATAATAAAAATATATAAT-AT
1 ATAAT-AAAATATATAATAAA
59056966 ATAATAATAATAATATAATAATA
1 ATAATAA-AAT-ATATAATAA-A
59056989 ATAATAACAACTATATTAATAAA
1 ATAATAA-AA-TATA-TAATAAA
59057012 ATAA
1 ATAA
59057016 ACTAAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 2 0.05
20 8 0.19
21 7 0.17
22 1 0.02
23 17 0.40
24 7 0.17
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAATAAAATATATAATAAA
Found at i:59058208 original size:26 final size:26
Alignment explanation
Indices: 59058153--59058209 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
59058143 GCATTATAAA
*
59058153 ATATATAAAAATATATGTATACAAGG
1 ATATATAAAAATATAAGTATACAAGG
*
59058179 ATATATAAATAA-ATAAGATATA-AAGT
1 ATATATAAA-AATATAAG-TATACAAGG
59058205 ATATA
1 ATATA
59058210 GATATGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (26 bp):
ATATATAAAAATATAAGTATACAAGG
Found at i:59061425 original size:21 final size:21
Alignment explanation
Indices: 59061382--59061425 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
59061372 TATTTACATG
**
59061382 TTTTTATAAATATTTAAATAA
1 TTTTTATAAATAAATAAATAA
59061403 TTTTTATCAAATAAATAAA-AA
1 TTTTTAT-AAATAAATAAATAA
59061424 TT
1 TT
59061426 CAATGCTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTATAAATAAATAAATAA
Found at i:59066773 original size:33 final size:33
Alignment explanation
Indices: 59066736--59066840 Score: 117
Period size: 33 Copynumber: 3.3 Consensus size: 33
59066726 CAGTTAGTAC
*
59066736 GGATGATGCTCCTTTAAGCGGGACAAATAGCAG
1 GGATGATGCTCCTTTAAGCGGGCCAAATAGCAG
* * * *
59066769 GGATG-TG-T-CTATAAGCCGGCCAACTAGTAG
1 GGATGATGCTCCTTTAAGCGGGCCAAATAGCAG
* * *
59066799 GGATGATGCCCCTTCAAGCGGGCCAAGTAGCAG
1 GGATGATGCTCCTTTAAGCGGGCCAAATAGCAG
59066832 GGATGATGC
1 GGATGATGC
59066841 CCCTATAATC
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
30 22 0.38
31 3 0.05
32 2 0.03
33 31 0.53
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (33 bp):
GGATGATGCTCCTTTAAGCGGGCCAAATAGCAG
Found at i:59069919 original size:145 final size:142
Alignment explanation
Indices: 59069674--59069940 Score: 374
Period size: 145 Copynumber: 1.9 Consensus size: 142
59069664 TGGTGTCATA
*
59069674 CATACATGCTCTGAGTACTCTGAGGGTCTACTATGGGTGCTTTTATACTATCTCTGGTGTACCAT
1 CATACATGCTCTGAGTACTCTGAGGGTCTACTATGGGTGCTTTTATACTATCCCTGGTGTACCAT
* *
59069739 CCTAGTCCCTGTTCGCCATCTGAATTTTCCTTTCTAGTGGAATTCAATACATACATATATGGTGT
66 CCTAGTCCCTGTTAGCCATCTGAATTTTCCATTCTAGTGGAATTCAATACATACATATATGGTGT
59069804 CATACATAGATT
131 CATACATAGATT
* * *
59069816 CATACATGCTCTGAGTACTCTTAGGTTCTAACTATGGGTGCTTTTATACTATTTCCCTGGTGTGC
1 CATACATGCTCTGAGTACTCTGAGGGTCT-ACTATGGGTGCTTTTATACTA--TCCCTGGTGTAC
* * * * * **
59069881 CATTCTGGT-CTTGGTTAGCTATCTGAATTTTCCATTCTAGTGGCATTCGTTACATACATA
63 CATCCTAGTCCCT-GTTAGCCATCTGAATTTTCCATTCTAGTGGAATTCAATACATACATA
59069941 CATACATGCT
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
142 27 0.25
143 21 0.19
144 2 0.02
145 58 0.54
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (142 bp):
CATACATGCTCTGAGTACTCTGAGGGTCTACTATGGGTGCTTTTATACTATCCCTGGTGTACCAT
CCTAGTCCCTGTTAGCCATCTGAATTTTCCATTCTAGTGGAATTCAATACATACATATATGGTGT
CATACATAGATT
Found at i:59078392 original size:111 final size:111
Alignment explanation
Indices: 59078276--59078632 Score: 562
Period size: 112 Copynumber: 3.2 Consensus size: 111
59078266 CCTAGTACAA
*
59078276 AAAAAAGT-AAAAAAAATATTTTTTTGGGAGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
1 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGT--
* *
59078340 AAAAAATCTTTTTATTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
64 AAAAATTTTTTTTATTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
* *
59078388 AAAAAAGT-AAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATATAGTAA
1 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
* *
59078452 AATTTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
66 AAATTTTTTTTATTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
**
59078498 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATTTCCGGCACCCAATACAGT--
1 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
*
59078561 -AATTTTTTTTACTTTTTTTCGTGTCAGTATAAGGTATCAGTATACG
66 AAATTTTTTTTA-TTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
59078607 AAAAAAGTAAAAAAAAATATTTTTTT
1 AAAAAAGTAAAAAAAAATATTTTTTT
59078633 TGGTACCGGC
Statistics
Matches: 230, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
108 10 0.04
109 58 0.25
110 52 0.23
111 51 0.22
112 59 0.26
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (111 bp):
AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
AAATTTTTTTTATTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
Found at i:59078491 original size:110 final size:110
Alignment explanation
Indices: 59078276--59078632 Score: 560
Period size: 109 Copynumber: 3.2 Consensus size: 110
59078266 CCTAGTACAA
*
59078276 AAAAAAGT-AAAAAAAATATTTTTTTGGGAGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
1 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGT--
* * *
59078340 AAAAAATCTTTTTATTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
64 -AAAATTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
* *
59078388 AAAAAAGT-AAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATATAGTAA
1 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
59078452 AATTTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
66 AA-TTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
**
59078498 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATTTCCGGCACCCAATACAGT--
1 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
*
59078561 AATTTTTTTTACTTTTTTTCGTGTCAGTATAAGGTATCAGTATACG
66 AATTTTTTTTAC-TTTTTTCGTGTCAGTATCAGGTATCAGTATACG
59078607 AAAAAAGTAAAAAAAAATATTTTTTT
1 AAAAAAGTAAAAAAAAATATTTTTTT
59078633 TGGTACCGGC
Statistics
Matches: 232, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
108 10 0.04
109 64 0.28
110 48 0.21
111 51 0.22
112 59 0.25
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (110 bp):
AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
AATTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
Found at i:59089964 original size:110 final size:110
Alignment explanation
Indices: 59089812--59090152 Score: 469
Period size: 110 Copynumber: 3.1 Consensus size: 110
59089802 CCAAAATTTT
*
59089812 TTTTTTTTACTTTTTTCATATATTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAATTTA
1 TTTTTTTTACTTTTTTCATATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAATTTA
* *
59089877 CTGTACTGGGTGCCGACCATTGATAGGCTAGCACCCAAAAAAATA
66 CTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAAAATA
* * * * **
59089922 TTTTTTTTACTTTTTTCATATACTAATTCCTGAAACTAACACGAAAAAAAGT-AAAAAATTTTTA
1 TTTTTTTTACTTTTTTCATATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAATTTA
* *
59089986 CTGTACTGGGTGCCGGCCATTGACAGGCCAACACCC----AAAT-
66 CTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAAAATA
* * * *
59090026 TTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGATATGAAAAAAAGTAAAAGAAAATTGT
1 TTTTTTTTACTTTTTTCATATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAATT-T
* * *
59090091 ACTGTATTGGGTGCCGGCCATTAATAGGCCAGCACCAAAAAAAATA
65 ACTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAAAATA
59090137 TTTTTTTTACTTTTTT
1 TTTTTTTTACTTTTTT
59090153 TCGTATTGGG
Statistics
Matches: 198, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
104 45 0.23
105 11 0.06
106 33 0.17
109 42 0.21
110 51 0.26
111 16 0.08
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (110 bp):
TTTTTTTTACTTTTTTCATATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAATTTA
CTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAAAATA
Found at i:59090227 original size:57 final size:59
Alignment explanation
Indices: 59090092--59090248 Score: 210
Period size: 57 Copynumber: 2.7 Consensus size: 59
59090082 GAAAATTGTA
* * * ** *
59090092 CTGTATTGGGTGCCGGCCATTAATAGGCCAGCACCAAAAAAAATATTTTTTTTACTTTTT
1 CTGTATTGGGTGCCGGCCATTGACAGGCCAGCACC-CAAAAAATATTTTTTTTACTCCTG
*
59090152 TTCGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA-ATTTTTTTTAC-CCTG
1 CT-GTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATATTTTTTTTACTCCTG
*
59090210 CTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
1 CTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
59090249 TTTTTTTTTT
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
57 36 0.41
58 2 0.02
59 11 0.13
60 7 0.08
61 31 0.36
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (59 bp):
CTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATATTTTTTTTACTCCTG
Found at i:59092772 original size:110 final size:109
Alignment explanation
Indices: 59092533--59092932 Score: 599
Period size: 109 Copynumber: 3.7 Consensus size: 109
59092523 ATATTTGGCA
* * *
59092533 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACGTTCCTCAAATTTCCAAACGC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGC
* *
59092596 AAAACATTGCCTTATTTTGAATTTTTTG-AAAGGATATTTAGCT
66 AAAACATTGCCTTATTTTGAAATTTTTGAAAAGGATATTAAGCT
* * * *
59092639 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGTATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
* * *
59092704 CAAAACATTGTCATATTTTGAAATTTTTGAAAATGATATTAAGCT
65 CAAAACATTGCCTTATTTTGAAATTTTTGAAAAGGATATTAAGCT
59092749 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGC
*
59092814 AAAATATTGCCTTATTTTGAAATTTTTGAAAAGGATATTAAGCT
66 AAAACATTGCCTTATTTTGAAATTTTTGAAAAGGATATTAAGCT
* * *
59092858 ATTTGGTTGAACGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
* *
59092923 CTAAATATTG
65 CAAAACATTG
59092933 TCTCAATTAG
Statistics
Matches: 265, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
106 13 0.05
108 25 0.09
109 145 0.55
110 82 0.31
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (109 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGC
AAAACATTGCCTTATTTTGAAATTTTTGAAAAGGATATTAAGCT
Found at i:59093597 original size:14 final size:13
Alignment explanation
Indices: 59093572--59093608 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
59093562 TTAAATAAGT
59093572 AAATATAAAATAA
1 AAATATAAAATAA
59093585 AAATATAACAATAA
1 AAATATAA-AATAA
*
59093599 TAATATAAAA
1 AAATATAAAA
59093609 CTTATGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATATAAAATAA
Found at i:59093672 original size:15 final size:16
Alignment explanation
Indices: 59093645--59093688 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
59093635 AAAATATACA
59093645 TATATATAA-AATAA-G
1 TATA-ATAATAATAACG
59093660 TATAATAATAATAACG
1 TATAATAATAATAACG
59093676 -ATAATAATAATAA
1 TATAATAATAATAA
59093689 TAATAGGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.15
15 22 0.81
16 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (16 bp):
TATAATAATAATAACG
Found at i:59094338 original size:22 final size:21
Alignment explanation
Indices: 59094290--59094339 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
59094280 ATTTTCGTTT
* *
59094290 AAGAAATAAAAAAAAAGGAAA
1 AAGAAACAAAAAAAAAAGAAA
59094311 ATAGAAACAACAAAAAAAAGAAA
1 A-AGAAACAA-AAAAAAAAGAAA
59094334 AAGAAA
1 AAGAAA
59094340 ATGGATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 12 0.48
23 12 0.48
ACGTcount: A:0.80, C:0.04, G:0.12, T:0.04
Consensus pattern (21 bp):
AAGAAACAAAAAAAAAAGAAA
Found at i:59094582 original size:20 final size:20
Alignment explanation
Indices: 59094552--59094598 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
59094542 CGCAAGTGGT
*
59094552 GTGGTCGACGTGATGTTGGCG
1 GTGG-CGACGTGACGTTGGCG
59094573 GTGGCGACGTGACGTTGGCG
1 GTGGCGACGTGACGTTGGCG
*
59094593 GCGGCG
1 GTGGCG
59094599 GCGGCAGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.09, C:0.19, G:0.51, T:0.21
Consensus pattern (20 bp):
GTGGCGACGTGACGTTGGCG
Found at i:59098753 original size:85 final size:85
Alignment explanation
Indices: 59098650--59098821 Score: 335
Period size: 85 Copynumber: 2.0 Consensus size: 85
59098640 ATATAATTAA
59098650 AACTTTTGAATTTGTTATTATTTTGCATGTGTTACCATGTGAATTTTTTAGAACATCTATATAAT
1 AACTTTTGAATTTGTTATTATTTTGCATGTGTTACCATGTGAATTTTTTAGAACATCTATATAAT
59098715 TAAAATGTAAAATTTCCACT
66 TAAAATGTAAAATTTCCACT
*
59098735 AACTTTTGAATTTGTTATTATTTTGCATGTGTTACGATGTGAATTTTTTAGAACATCTATATAAT
1 AACTTTTGAATTTGTTATTATTTTGCATGTGTTACCATGTGAATTTTTTAGAACATCTATATAAT
59098800 TAAAATGTAAAATTTCCACT
66 TAAAATGTAAAATTTCCACT
59098820 AA
1 AA
59098822 ATACAATATT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (85 bp):
AACTTTTGAATTTGTTATTATTTTGCATGTGTTACCATGTGAATTTTTTAGAACATCTATATAAT
TAAAATGTAAAATTTCCACT
Found at i:59103015 original size:6 final size:6
Alignment explanation
Indices: 59103004--59103035 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
59102994 AGTCATCTTC
59103004 TTTTCT TTTTCT TTTTCT TTTT-T TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
59103036 CTATTTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:59103017 original size:11 final size:11
Alignment explanation
Indices: 59103001--59103035 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
59102991 TGTAGTCATC
59103001 TTCTTTTCTTT
1 TTCTTTTCTTT
59103012 TTCTTTTTCTTT
1 TTC-TTTTCTTT
*
59103024 TTTTTTTCTTT
1 TTCTTTTCTTT
59103035 T
1 T
59103036 CTATTTACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTCTTTTCTTT
Found at i:59103023 original size:17 final size:17
Alignment explanation
Indices: 59103001--59103035 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
59102991 TGTAGTCATC
59103001 TTCTTTTCTTTTTCTTT
1 TTCTTTTCTTTTTCTTT
*
59103018 TTCTTTTTTTTTTCTTT
1 TTCTTTTCTTTTTCTTT
59103035 T
1 T
59103036 CTATTTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTCTTTTCTTTTTCTTT
Found at i:59103572 original size:6 final size:6
Alignment explanation
Indices: 59103558--59103621 Score: 101
Period size: 6 Copynumber: 10.5 Consensus size: 6
59103548 TGAATGCAAC
* *
59103558 AAGGGAG AAGGAG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGTGG
1 AAGGG-G AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG
59103607 AAGGGG AAGGGG AAG
1 AAGGGG AAGGGG AAG
59103622 ATAAGGAACT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
6 49 0.92
7 4 0.08
ACGTcount: A:0.38, C:0.00, G:0.61, T:0.02
Consensus pattern (6 bp):
AAGGGG
Found at i:59103678 original size:11 final size:11
Alignment explanation
Indices: 59103662--59103691 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
59103652 TGTAGTCATC
59103662 TTCTTTTCTTT
1 TTCTTTTCTTT
*
59103673 TTCTTTTTTTT
1 TTCTTTTCTTT
59103684 TTCTTTTC
1 TTCTTTTC
59103692 CATTTACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTCTTTTCTTT
Found at i:59106472 original size:13 final size:14
Alignment explanation
Indices: 59106446--59106474 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59106436 CTACTAAAAA
59106446 AATATTTTTATATT
1 AATATTTTTATATT
59106460 AATATTTTT-TATT
1 AATATTTTTATATT
59106473 AA
1 AA
59106475 AATTGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
AATATTTTTATATT
Found at i:59110045 original size:24 final size:24
Alignment explanation
Indices: 59110010--59110067 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
59110000 GTGGAATTCG
*
59110010 ATACATACATATGTA-ATCGGTGTC
1 ATACATACATATATAGAT-GGTGTC
*
59110034 ATTCATACATATATAGATGGTGTC
1 ATACATACATATATAGATGGTGTC
59110058 ATACATACAT
1 ATACATACAT
59110068 GCTCTGAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (24 bp):
ATACATACATATATAGATGGTGTC
Found at i:59110198 original size:20 final size:20
Alignment explanation
Indices: 59110173--59110240 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
59110163 GTGGAATTCA
59110173 ATACATACATAGATGGTGTC
1 ATACATACATAGATGGTGTC
* *
59110193 ATACATACGTAGA-GAGTTTC
1 ATACATACATAGATG-GTGTC
* *
59110213 ATACATACATATATGTTGTC
1 ATACATACATAGATGGTGTC
59110233 ATACATAC
1 ATACATAC
59110241 GTTCATACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (20 bp):
ATACATACATAGATGGTGTC
Found at i:59110563 original size:4 final size:4
Alignment explanation
Indices: 59110554--59110583 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
59110544 CGGAATTCAT
59110554 TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TA
59110584 TGTTCTAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:59115969 original size:20 final size:21
Alignment explanation
Indices: 59115940--59115982 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
59115930 TTTTTTGGTT
*
59115940 AAAAATTACCTGAATTAACCG
1 AAAAATTACCCGAATTAACCG
*
59115961 AAAAA-TACCCGAATTACCCG
1 AAAAATTACCCGAATTAACCG
59115981 AA
1 AA
59115983 TTTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.19
Consensus pattern (21 bp):
AAAAATTACCCGAATTAACCG
Found at i:59116133 original size:13 final size:13
Alignment explanation
Indices: 59116115--59116148 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
59116105 TTTTAGTTTT
59116115 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
59116128 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
59116141 ATTGGGTT
1 ATTGGGTT
59116149 TGGGCTAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:59119452 original size:610 final size:612
Alignment explanation
Indices: 59118307--59120151 Score: 2674
Period size: 610 Copynumber: 3.0 Consensus size: 612
59118297 TAATAGAGGA
* * *
59118307 TTTCTAATAAATTTAATTTCAAATCATCTGGTTTGGATTTTGGAGGACTGATAGGAAGGTAAAC-
1 TTTCTAATAAATTTAATTTCAAATCATCTAGTTTGGATTTTGGAGGACTGATCGGAATGTAAACT
* * *
59118371 TCCC--CA-A-AAGTTTTGAATTATCATATTA--TTTATC--TA--T-TTCCATCGCCTTAGGTT
66 TCCCAAAATAGAAGTTTTGAATTATCATTTTATTTTTTTCTGTATTTATTCCATCGCCTTAGGTT
* * *
59118425 TATTATTTTCTTCACTTGATTGAATATTTTCACATATGAAATGCGATTGAGACAGACTCCAGCTT
131 T-TTATTTTCTTCAATTGATTGAATATTTTCACATATGAAATGCAATTGAAACAGACTCCAGCTT
* *
59118490 AATGAAGCAACCTGAATGCAA-AA---TG--GGGGAAGGGGAAGATAAGGAACTCAAAGGTATTT
195 GATGAAGCAACCTGAATGCAACAAGGGAGAAGGGGAAGGGGAAGATAAGGAACTCAAAGGTATTT
* * *
59118549 CTTGAATTCTGTAGTGATCTTC--------TTTTGTTT-TTTTTTTC-TTTCTATTTACTAAGAA
260 CTTGAATTCTGTAGTCATCTTCTTTTTTTTTTTTTTTTCTTTTTTTCTTTTCTATTTACTAAGGA
* *
59118604 AAGATAAGATGGTCCAAAAAGAAAAAGGGGGACTCGTTTGGATTCAGTGTTTAGCTTTTTCTTTT
325 AAGATAAGATGGTCCAAAAAGAAAAAGGGGGACGCATTTGGATTCAGTGTTTAGCTTTTTCTTTT
* *
59118669 GGTTTGGCGCGAGTTTTATTTGGCTTTTGCCTTTACCCGTACTTTGGCTCAGGTGTGAGTGTCTG
390 GGTTT-G-GC-----TTATTTGGC---T-CCTTTACCCTTACTTTGACTCAGGTGTGAGTGTCTG
* * *
59118734 AGATGGATTGATATGGGTATTTTCAATTTTCTTCTAGGCTTTTTCATGTATTTGTTGGATTTTTA
444 AGATGGATCGAAATGGGTATTTTCAATTTTCTTCTAGGCATTTTCATGTATTTGTTGGATTTTTA
59118799 GAGGGTCATATCTACATATACATATATGCATTGAATGTGGATGTAAGGGATACTTTAAGAAATAT
509 GAGGGTCATATCTACATATACATATATGCATTGAATGTGGATGTAAGGGATACTTTAAGAAATAT
*
59118864 GAAGAGTTAGAACAACATAACCTTTTCCCCCTGGCCATG
574 GAAGAGTTAGAACAACATAACCTTTTACCCCTGGCCATG
*
59118903 TTTCTAATAAATTTAATTTCAAATCATCTAGTTTGGATTTTGGAGGACTGGTCGGAATGTAAACT
1 TTTCTAATAAATTTAATTTCAAATCATCTAGTTTGGATTTTGGAGGACTGATCGGAATGTAAACT
59118968 TCCCAAAATAGAAGTTTTGAATTATCATTTTATTTTTTTCTGTATTTATTCCCATCGCCTTAGGC
66 TCCCAAAATAGAAGTTTTGAATTATCATTTTATTTTTTTCTGTATTTATT-CCATCGCCTTAGG-
*
59119033 TTTTCATTTTCTTCAATTGATTGAATATTTTCACATATGAAATGCAATTGAAACAGACTCCAGCT
129 TTTTTATTTTCTTCAATTGATTGAATATTTTCACATATGAAATGCAATTGAAACAGACTCCAGCT
59119098 TGATGAAGCAACCTGAATGCAACAAGGGAGAAGGGGAAGGGGAAGATAAGGAACTCAAAGGTATT
194 TGATGAAGCAACCTGAATGCAACAAGGGAGAAGGGGAAGGGGAAGATAAGGAACTCAAAGGTATT
59119163 TCTTGAATTCTGTAGTCATCTTCTTTTTTTTTTTTTTTTCTTTTTTTCTTTTCTATTTACTAAGG
259 TCTTGAATTCTGTAGTCATCTTCTTTTTTTTTTTTTTTTCTTTTTTTCTTTTCTATTTACTAAGG
59119228 AAAGATAAGATGGTCCAAAAAGAAAAAGGGGGACGCATTTGGATTCAGTGTTTAGCTTTTTCTTT
324 AAAGATAAGATGGTCCAAAAAGAAAAAGGGGGACGCATTTGGATTCAGTGTTTAGCTTTTTCTTT
* *
59119293 TGATTTGGC-T-TTT-GC-CCTTTACCCTTACTTTGACTCAGGTGGGAGTGTCTGAGATGGATCG
389 TGGTTTGGCTTATTTGGCTCCTTTACCCTTACTTTGACTCAGGTGTGAGTGTCTGAGATGGATCG
*
59119354 ACATGGGTATTTTCAATTTTCTTCTAGGCATTTTCATGTATTTGTTGGATTTTTAGAGGGTCATA
454 AAATGGGTATTTTCAATTTTCTTCTAGGCATTTTCATGTATTTGTTGGATTTTTAGAGGGTCATA
* * * * *
59119419 TCTAGATATACATATATGCATTGGATGTGGATGTAAGGGATACTTTAAGAAATATGGACAATTAG
519 TCTACATATACATATATGCATTGAATGTGGATGTAAGGGATACTTTAAGAAATATGAAGAGTTAG
* * *
59119484 AACAACAGAACCTTTTACCTCTGACCATG
584 AACAACATAACCTTTTACCCCTGGCCATG
*
59119513 TTTCTAATAAATTTAATTTCAAATAATCTAGTTTGGATTTTGGAGGACTGATCGGAATGTAAACT
1 TTTCTAATAAATTTAATTTCAAATCATCTAGTTTGGATTTTGGAGGACTGATCGGAATGTAAACT
* * *
59119578 CCCCAAAATAGAAGTTTTGAATTATCATTTTATTTATTTATGTATTTAGTTCCATCGCCTTAGGT
66 TCCCAAAATAGAAGTTTTGAATTATCATTTTATTTTTTTCTGTATTTA-TTCCATCGCCTTAGG-
* *
59119643 TTTTTATTTTCTTCAATTGATTGAATATTTTCACATATGATATGCAATTGAAACAGATTCCAGCT
129 TTTTTATTTTCTTCAATTGATTGAATATTTTCACATATGAAATGCAATTGAAACAGACTCCAGCT
59119708 TGATGAAGCAACCTGAATGCAACAAGGGAGAAGGGGAAGGAGAAGGGGAAGATAAGGAACTCAAA
194 TGATGAAGCAACCTGAATGCAACAAGGGAGAA---G--GG-GAAGGGGAAGATAAGGAACTCAAA
*
59119773 GGTATTTCTTGAATTTTGTAGTCATCTTCTTTTCTTTTTCTTTTTTTTTTTCTTTTTTTCTTTTC
253 GGTATTTCTTGAATTCTGTAGTCA---TC--TTCTTTTT-TTTTTTTTTTTCTTTTTTTCTTTTC
* * *
59119838 TATTTACTGAGGAATGATAAGATGGTCCAGAAAGAAAAAGGGGGACGCATTTGGATTCAGTGTTT
312 TATTTACTAAGGAAAGATAAGATGGTCCAAAAAGAAAAAGGGGGACGCATTTGGATTCAGTGTTT
59119903 AGCTTTTTCTTTTGGTTTGGCACGAATTTTATTTGGCTTTTGCCTTTACCCTTACTTTGACTCAG
377 AGCTTTTTCTTTTGGTTTGG--C-----TTATTTGGC---T-CCTTTACCCTTACTTTGACTCAG
59119968 GTGTGAGTGTCTGAGATGGATCGAAATGGGTATTTTCAATTTTCTTCTAGGCATTTTCATGTATT
431 GTGTGAGTGTCTGAGATGGATCGAAATGGGTATTTTCAATTTTCTTCTAGGCATTTTCATGTATT
*
59120033 TGTTGGATTTTTAGAGGGTCATATCTACATATCCATATATGCATTGAATGTGGATGTAAGGGATA
496 TGTTGGATTTTTAGAGGGTCATATCTACATATACATATATGCATTGAATGTGGATGTAAGGGATA
* * *
59120098 CTTTAAGAAATATGAAGGGTTAGAACAACATACCCTTTTACCCTTGGCCATG
561 CTTTAAGAAATATGAAGAGTTAGAACAACATAACCTTTTACCCCTGGCCATG
59120150 TT
1 TT
59120152 AAGTATCTTG
Statistics
Matches: 1129, Mismatches: 62, Indels: 75
0.89 0.05 0.06
Matches are distributed among these distances:
596 60 0.05
597 4 0.00
599 1 0.00
600 1 0.00
601 20 0.02
603 5 0.00
605 2 0.00
607 1 0.00
608 2 0.00
609 92 0.08
610 410 0.36
611 2 0.00
613 2 0.00
615 59 0.05
616 50 0.04
617 1 0.00
619 2 0.00
621 8 0.01
622 106 0.09
623 9 0.01
624 10 0.01
625 83 0.07
630 1 0.00
631 3 0.00
632 2 0.00
637 193 0.17
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.39
Consensus pattern (612 bp):
TTTCTAATAAATTTAATTTCAAATCATCTAGTTTGGATTTTGGAGGACTGATCGGAATGTAAACT
TCCCAAAATAGAAGTTTTGAATTATCATTTTATTTTTTTCTGTATTTATTCCATCGCCTTAGGTT
TTTATTTTCTTCAATTGATTGAATATTTTCACATATGAAATGCAATTGAAACAGACTCCAGCTTG
ATGAAGCAACCTGAATGCAACAAGGGAGAAGGGGAAGGGGAAGATAAGGAACTCAAAGGTATTTC
TTGAATTCTGTAGTCATCTTCTTTTTTTTTTTTTTTTCTTTTTTTCTTTTCTATTTACTAAGGAA
AGATAAGATGGTCCAAAAAGAAAAAGGGGGACGCATTTGGATTCAGTGTTTAGCTTTTTCTTTTG
GTTTGGCTTATTTGGCTCCTTTACCCTTACTTTGACTCAGGTGTGAGTGTCTGAGATGGATCGAA
ATGGGTATTTTCAATTTTCTTCTAGGCATTTTCATGTATTTGTTGGATTTTTAGAGGGTCATATC
TACATATACATATATGCATTGAATGTGGATGTAAGGGATACTTTAAGAAATATGAAGAGTTAGAA
CAACATAACCTTTTACCCCTGGCCATG
Found at i:59119751 original size:12 final size:12
Alignment explanation
Indices: 59119734--59119758 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59119724 ATGCAACAAG
59119734 GGAGAAGGGGAA
1 GGAGAAGGGGAA
59119746 GGAGAAGGGGAA
1 GGAGAAGGGGAA
59119758 G
1 G
59119759 ATAAGGAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (12 bp):
GGAGAAGGGGAA
Found at i:59126340 original size:27 final size:26
Alignment explanation
Indices: 59126307--59126372 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 26
59126297 TCTCGATATA
59126307 GTTCTTTGTGAACTTCTCGTTAAAAA-G
1 GTTCTTTGTGAACTTCTCG--AAAAATG
59126334 GTTCTTTGTGAACTTCTCGAAAAATG
1 GTTCTTTGTGAACTTCTCGAAAAATG
*
59126360 GCT-TTTGTGAACT
1 GTTCTTTGTGAACT
59126373 ACCCGTTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
25 15 0.41
26 3 0.08
27 19 0.51
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (26 bp):
GTTCTTTGTGAACTTCTCGAAAAATG
Found at i:59131452 original size:26 final size:27
Alignment explanation
Indices: 59131423--59131477 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
59131413 CTTTAACATG
*
59131423 ATTTTTGGT-TGTTTA-ATTAAAGGTTA
1 ATTTTTGGTAT-TTTATAATAAAGGTTA
59131449 A-TTTTGGTATTTTATAATAAAGGTTA
1 ATTTTTGGTATTTTATAATAAAGGTTA
59131475 ATT
1 ATT
59131478 AATTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 11 0.44
26 13 0.52
27 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (27 bp):
ATTTTTGGTATTTTATAATAAAGGTTA
Found at i:59132440 original size:23 final size:25
Alignment explanation
Indices: 59132381--59132472 Score: 104
Period size: 26 Copynumber: 3.7 Consensus size: 25
59132371 CTTAACACAA
59132381 CTCG-TATGAGCTTACCGATATATCAG
1 CTCGATATGAGCTTACCG-T-TATCAG
*
59132407 CTC-TTATGAGCTTACCGTT-TCAG
1 CTCGATATGAGCTTACCGTTATCAG
59132430 CTCGATA-GAGCTTACCGTTCATCAG
1 CTCGATATGAGCTTACCGTT-ATCAG
59132455 CTCGGA-ATGAGCTTACCG
1 CTC-GATATGAGCTTACCG
59132473 ATCATGGCTC
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
23 19 0.32
24 3 0.05
25 9 0.15
26 28 0.47
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (25 bp):
CTCGATATGAGCTTACCGTTATCAG
Found at i:59132670 original size:20 final size:20
Alignment explanation
Indices: 59132632--59132670 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59132622 TATGGATGAA
* *
59132632 TTACTATTGATATGTATAAG
1 TTACTATTGATACGGATAAG
*
59132652 TTACTGTTGATACGGATAA
1 TTACTATTGATACGGATAA
59132671 ATTTCTGTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (20 bp):
TTACTATTGATACGGATAAG
Found at i:59133059 original size:48 final size:48
Alignment explanation
Indices: 59132988--59133107 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
59132978 GATGGTTTTA
*
59132988 TTAACACAAATCGTATCTCAATCTCAGCAGGCAGCAACCGATTTTCAC
1 TTAACACAAATCGTATCTCAATCTCAGCAGGCAGCAACCGACTTTCAC
59133036 TTAACACAAATCGTATCTCAATCTCAGCAGGCAGCAACCGACTTTCAC
1 TTAACACAAATCGTATCTCAATCTCAGCAGGCAGCAACCGACTTTCAC
59133084 TTAACACAAATCGTATCTCAATCT
1 TTAACACAAATCGTATCTCAATCT
59133108 TAGTCGAATC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (48 bp):
TTAACACAAATCGTATCTCAATCTCAGCAGGCAGCAACCGACTTTCAC
Found at i:59136512 original size:13 final size:13
Alignment explanation
Indices: 59136494--59136518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59136484 TAAGATGAAT
59136494 TTGCTTATGTTTG
1 TTGCTTATGTTTG
59136507 TTGCTTATGTTT
1 TTGCTTATGTTT
59136519 TAGATCCTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (13 bp):
TTGCTTATGTTTG
Found at i:59140087 original size:23 final size:23
Alignment explanation
Indices: 59140061--59140136 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
59140051 ATAAGTGCCA
59140061 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
59140084 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
59140107 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
59140130 CACTGAT
1 CACTGAT
59140137 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:59140236 original size:8 final size:8
Alignment explanation
Indices: 59140223--59140251 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
59140213 ACCCGGGACT
59140223 CACTGTAA
1 CACTGTAA
59140231 CACTGTAA
1 CACTGTAA
59140239 CACTGTAA
1 CACTGTAA
59140247 CACTG
1 CACTG
59140252 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:59147440 original size:23 final size:23
Alignment explanation
Indices: 59147414--59147489 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
59147404 ATAAGTGCCA
59147414 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
59147437 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
59147460 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
59147483 CACTGAT
1 CACTGAT
59147490 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:59147589 original size:8 final size:8
Alignment explanation
Indices: 59147576--59147604 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
59147566 ACCCGGGACT
59147576 CACTGTAA
1 CACTGTAA
59147584 CACTGTAA
1 CACTGTAA
59147592 CACTGTAA
1 CACTGTAA
59147600 CACTG
1 CACTG
59147605 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:59160432 original size:5 final size:5
Alignment explanation
Indices: 59160424--59160460 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
59160414 ATTTTACATA
59160424 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
59160461 TTAAAACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:59161415 original size:22 final size:20
Alignment explanation
Indices: 59161387--59161476 Score: 81
Period size: 22 Copynumber: 4.1 Consensus size: 20
59161377 AGAACAGTAG
59161387 GCACCGAAGTGCAAATCACTAA
1 GCACCGAAGTGCAAA-CA-TAA
*
59161409 GCACCGAAGTGCAAAACAGTAG
1 GCACCGAAGTGC-AAACA-TAA
*
59161431 GCACTGAAGTGCAGAACGATAA
1 GCACCGAAGTGCA-AAC-ATAA
*
59161453 GCACCAAAGTGCGAAACAGTAA
1 GCACCGAAGTGC-AAACA-TAA
59161475 GC
1 GC
59161477 GCCAAAGCGC
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.04
22 50 0.88
23 5 0.09
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.11
Consensus pattern (20 bp):
GCACCGAAGTGCAAACATAA
Found at i:59161428 original size:44 final size:44
Alignment explanation
Indices: 59161379--59161473 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
59161369 GCACTAATAG
*
59161379 AACAGTAGGCACCGAAGTGCA-AATC-ACTAAGCACCGAAGTGCAA
1 AACAGTAGGCACCGAAGTGCAGAA-CGA-TAAGCACCAAAGTGCAA
* *
59161423 AACAGTAGGCACTGAAGTGCAGAACGATAAGCACCAAAGTGCGA
1 AACAGTAGGCACCGAAGTGCAGAACGATAAGCACCAAAGTGCAA
59161467 AACAGTA
1 AACAGTA
59161474 AGCGCCAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
44 43 0.93
45 3 0.07
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (44 bp):
AACAGTAGGCACCGAAGTGCAGAACGATAAGCACCAAAGTGCAA
Found at i:59163671 original size:42 final size:42
Alignment explanation
Indices: 59163581--59163678 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
59163571 ACACGGCCTA
**
59163581 GCACACGGCCGTGCGTGGCAACTCAAAAAGTTACAAGGTCTG
1 GCACACGGCCGTGTATGGCAACTCAAAAAGTTACAAGGTCTG
* * *
59163623 GCACACGGTCGTGTATGGCAACTCAAAGAGTTACACA-GTGT-
1 GCACACGGCCGTGTATGGCAACTCAAAAAGTTACA-AGGTCTG
59163664 GCAACACGGCCGTGT
1 GC-ACACGGCCGTGT
59163679 GTCCCTTTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.04
42 45 0.94
43 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.29, T:0.18
Consensus pattern (42 bp):
GCACACGGCCGTGTATGGCAACTCAAAAAGTTACAAGGTCTG
Found at i:59164309 original size:11 final size:13
Alignment explanation
Indices: 59164285--59164316 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
59164275 TAGTTTATTA
59164285 ATATTTTAATATG
1 ATATTTTAATATG
59164298 AT-TTTTAA-ATG
1 ATATTTTAATATG
59164309 ATATTTTA
1 ATATTTTA
59164317 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:59168644 original size:19 final size:19
Alignment explanation
Indices: 59168607--59168645 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59168597 AATACAATAT
59168607 ACATATATGACATGCTGTA
1 ACATATATGACATGCTGTA
*
59168626 ACATA-ATGTCATGCATGTA
1 ACATATATGACATGC-TGTA
59168645 A
1 A
59168646 ACAGGGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (19 bp):
ACATATATGACATGCTGTA
Found at i:59172734 original size:47 final size:47
Alignment explanation
Indices: 59172678--59172831 Score: 204
Period size: 47 Copynumber: 3.3 Consensus size: 47
59172668 CCGTGGAAAT
*
59172678 ATGTGATATGTGCTTCCATATAAGACAATAGTTGGGCTATGGCATCG
1 ATGTGATATGTGCTTCCATATAAGACCATAGTTGGGCTATGGCATCG
* * *
59172725 ATGTGATATGTGCTTCCATATAAGACCATAGCTGGACTATAGCATC-
1 ATGTGATATGTGCTTCCATATAAGACCATAGTTGGGCTATGGCATCG
* *
59172771 AGTGTGATATGTGCTTCCGTATAAGACCATA-TTCGGGATATGGCATCG
1 A-TGTGATATGTGCTTCCATATAAGACCATAGTT-GGGCTATGGCATCG
*
59172819 GTGTGAATATGTG
1 ATGTG-ATATGTG
59172832 ATCTGTGTAA
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
46 2 0.02
47 84 0.90
48 7 0.08
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (47 bp):
ATGTGATATGTGCTTCCATATAAGACCATAGTTGGGCTATGGCATCG
Found at i:59172785 original size:94 final size:94
Alignment explanation
Indices: 59172679--59172853 Score: 246
Period size: 94 Copynumber: 1.9 Consensus size: 94
59172669 CGTGGAAATA
* *
59172679 TGTGATATGTGCTTCCATATAAGACAATAGTT-GGGCTATGGCATCGATGTG-ATATGTGCTTCC
1 TGTGATATGTGCTTCCATATAAGACAATA-TTCGGGATATGGCATCGATGTGAATATGTG-ATCC
59172742 ATATAAGACCATAGCTGGACTATAGCATCAG
64 ATATAAGACCATAGCTGGACTATAGCATCAG
* * * **
59172773 TGTGATATGTGCTTCCGTATAAGACCATATTCGGGATATGGCATCGGTGTGAATATGTGATCTGT
1 TGTGATATGTGCTTCCATATAAGACAATATTCGGGATATGGCATCGATGTGAATATGTGATCCAT
*
59172838 GTAAGACCATAGCTGG
66 ATAAGACCATAGCTGG
59172854 GTTATGGCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
93 2 0.03
94 62 0.87
95 7 0.10
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (94 bp):
TGTGATATGTGCTTCCATATAAGACAATATTCGGGATATGGCATCGATGTGAATATGTGATCCAT
ATAAGACCATAGCTGGACTATAGCATCAG
Found at i:59172843 original size:47 final size:46
Alignment explanation
Indices: 59172679--59172881 Score: 176
Period size: 47 Copynumber: 4.3 Consensus size: 46
59172669 CGTGGAAATA
* * * * * *
59172679 TGTGATATGTGCTTCCATATAAGACAATAGTTGGGCTATGGCATCGA
1 TGTGATATGTG-ATCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * * *
59172726 TGTGATATGTGCTTCCATATAAGACCATAGCT-GGACTATAGCATCAG
1 TGTGATATGTG-ATCCGTATAAGACCATAGCTGGGA-TATGGCATCGG
* *
59172773 TGTGATATGTGCTTCCGTATAAGACCATA-TTCGGGATATGGCATCGG
1 TGTGATATGTG-ATCCGTATAAGACCATAGCT-GGGATATGGCATCGG
* * * *
59172820 TGTGAATATGTGATCTGTGTAAGACCATAGCTGGGTTATGGCTTCGGTG
1 TGTG-ATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATC-G-G
59172869 TGTGATATGTGAT
1 TGTGATATGTGAT
59172882 TATGTGCAAG
Statistics
Matches: 133, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
46 3 0.02
47 104 0.78
48 21 0.16
49 5 0.04
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (46 bp):
TGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGG
Found at i:59172870 original size:94 final size:96
Alignment explanation
Indices: 59172679--59172879 Score: 239
Period size: 94 Copynumber: 2.1 Consensus size: 96
59172669 CGTGGAAATA
* *
59172679 TGTGATATGTGCTTCCATATAAGACAATAGTTGGGCTATGGCATCGATGTGATATGTGCTTCCAT
1 TGTGATATGTGCTTCCATATAAGACAATAGTTGGGATATGGCATCGATGTGATATGTGCATCCAT
59172744 ATAAGACCATAGCTGGACTATAGCATC-A-G
66 ATAAGACCATAGCTGGACTATAGCATCGATG
* * * *
59172773 TGTGATATGTGCTTCCGTATAAGACCATA-TTCGGGATATGGCATCGGTGTGAATATGTG-ATCT
1 TGTGATATGTGCTTCCATATAAGACAATAGTT-GGGATATGGCATCGATGTG-ATATGTGCATCC
* * ** * * *
59172836 GTGTAAGACCATAGCTGGGTTATGGCTTCGGTG
64 ATATAAGACCATAGCTGGACTATAGCATCGATG
59172869 TGTGATATGTG
1 TGTGATATGTG
59172880 ATTATGTGCA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
93 2 0.02
94 69 0.77
95 7 0.08
96 12 0.13
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (96 bp):
TGTGATATGTGCTTCCATATAAGACAATAGTTGGGATATGGCATCGATGTGATATGTGCATCCAT
ATAAGACCATAGCTGGACTATAGCATCGATG
Found at i:59174614 original size:445 final size:445
Alignment explanation
Indices: 59173785--59174675 Score: 1665
Period size: 445 Copynumber: 2.0 Consensus size: 445
59173775 TTAGAAAGTT
*
59173785 ATACGAGTAGGGACACGAGTGTGTGAACCCACACGGCCTGACCACACGAGCATGTCCCATACCAC
1 ATACGAGTAGGGACACGAGCGTGTGAACCCACACGGCCTGACCACACGAGCATGTCCCATACCAC
59173850 ACGGGCGTGTGACTCTCAATTGTGAGAAAAATTTTAAGATTTTACGAAAAATTCCCAATGAGATT
66 ACGGGCGTGTGACTCTCAATTGTGAGAAAAATTTTAAGATTTTACGAAAAATTCCCAATGAGATT
*
59173915 TAGTCCCGATTTATTTCTAAAGCATGTTTTGGGTTGTGAGGGCCCATATAAAGGACATTATCACT
131 TAGTCCCGATTTATTTCTAAAGCATGTTTTGGGTTGTGAGGGCCCATATAAAGGACATTATCAAT
*
59173980 AGTTTTGAAAAATAAATAGTAATTAACTTGACTTATCTGAAAATGTTTTGTAAATCTTTGGTAAT
196 AGTTTTGAAAAATAAATAGTAATTAACTTGACTTATCTGAAAATGTTCTGTAAATCTTTGGTAAT
59174045 GCATCGTAACCCTGTTTCGACGATGAATACGGGTTAAGAGTGTTACATTTAGTGGTATCAGAGAT
261 GCATCGTAACCCTGTTTCGACGATGAATACGGGTTAAGAGTGTTACATTTAGTGGTATCAGAGAT
* *
59174110 TCGGTTTAGCCGATTCTCGGAACGAATGATATGTGTAAAGTGTATAGAAATACATGCCATACATT
326 TCAGTTTAGCCGATTCTCGGAACGAATGAGATGTGTAAAGTGTATAGAAATACATGCCATACATT
59174175 TATGTTAATGATGAATACTATGTTATGTGTATATTTATGTGAGAGTCAAATTTTG
391 TATGTTAATGATGAATACTATGTTATGTGTATATTTATGTGAGAGTCAAATTTTG
* *
59174230 ATACGAGTAGGGACACGAGCGTGTGAACTCACACGGCCTGACCACACGGGCATGTCCCATACCAC
1 ATACGAGTAGGGACACGAGCGTGTGAACCCACACGGCCTGACCACACGAGCATGTCCCATACCAC
*
59174295 ACGGGCGTGTGACTCTCAATTGTGAGAAAAATTTTGAGATTTTACGAAAAATTCCCAATGAGATT
66 ACGGGCGTGTGACTCTCAATTGTGAGAAAAATTTTAAGATTTTACGAAAAATTCCCAATGAGATT
59174360 TAGTCCCGATTTATTTCTAAAGCATGTTTTGGGTTGTGAGGGCCCATATAAAGGACATTATCAAT
131 TAGTCCCGATTTATTTCTAAAGCATGTTTTGGGTTGTGAGGGCCCATATAAAGGACATTATCAAT
59174425 AGTTTTGAAAAATAAATAGTAATTAACTTGACTTATCTGAAAATGTTCTGTAAATCTTTGGTAAT
196 AGTTTTGAAAAATAAATAGTAATTAACTTGACTTATCTGAAAATGTTCTGTAAATCTTTGGTAAT
* *
59174490 GCATCGTAATCCTGTTTTGACGATGAATACGGGTTAAGAGTGTTACATTTAGTGGTATCAGAGAT
261 GCATCGTAACCCTGTTTCGACGATGAATACGGGTTAAGAGTGTTACATTTAGTGGTATCAGAGAT
* *
59174555 TCAGTTTAGTCGATTCTCGGAATGAATGAGATGTGTAAAGTGTATAGAAATACATGCCATACATT
326 TCAGTTTAGCCGATTCTCGGAACGAATGAGATGTGTAAAGTGTATAGAAATACATGCCATACATT
*
59174620 TATGTTAATGATGAATACTATGTTATGTGTATATTTATGTGAGAGTCAACTTTTG
391 TATGTTAATGATGAATACTATGTTATGTGTATATTTATGTGAGAGTCAAATTTTG
59174675 A
1 A
59174676 AGCTTTACAA
Statistics
Matches: 433, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
445 433 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (445 bp):
ATACGAGTAGGGACACGAGCGTGTGAACCCACACGGCCTGACCACACGAGCATGTCCCATACCAC
ACGGGCGTGTGACTCTCAATTGTGAGAAAAATTTTAAGATTTTACGAAAAATTCCCAATGAGATT
TAGTCCCGATTTATTTCTAAAGCATGTTTTGGGTTGTGAGGGCCCATATAAAGGACATTATCAAT
AGTTTTGAAAAATAAATAGTAATTAACTTGACTTATCTGAAAATGTTCTGTAAATCTTTGGTAAT
GCATCGTAACCCTGTTTCGACGATGAATACGGGTTAAGAGTGTTACATTTAGTGGTATCAGAGAT
TCAGTTTAGCCGATTCTCGGAACGAATGAGATGTGTAAAGTGTATAGAAATACATGCCATACATT
TATGTTAATGATGAATACTATGTTATGTGTATATTTATGTGAGAGTCAAATTTTG
Found at i:59177864 original size:17 final size:18
Alignment explanation
Indices: 59177840--59177989 Score: 139
Period size: 18 Copynumber: 8.3 Consensus size: 18
59177830 ACGATAATAA
59177840 TTTTTGAAAACACGAAA-
1 TTTTTGAAAACACGAAAT
* *
59177857 TTTATG-AAACATGAGAAT
1 TTTTTGAAAACACGA-AAT
59177875 TTTTTGAAAACACGAAAAT
1 TTTTTGAAAACACG-AAAT
* * *
59177894 TTTTTGAAAACGCTAAAA
1 TTTTTGAAAACACGAAAT
59177912 TTTTTG-AAACACGAAAAT
1 TTTTTGAAAACACG-AAAT
* *
59177930 TTTTTGAAAACGCGAAAA
1 TTTTTGAAAACACGAAAT
59177948 TTTTT--AAACACGAGAATTT
1 TTTTTGAAAACACGA-AA--T
*
59177967 TTTTTGAAAACATGAAAT
1 TTTTTGAAAACACGAAAT
59177985 TTTTT
1 TTTTT
59177990 TGACACGAGA
Statistics
Matches: 107, Mismatches: 15, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
16 14 0.13
17 14 0.13
18 37 0.35
19 32 0.30
20 3 0.03
21 7 0.07
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAT
Found at i:59177894 original size:19 final size:19
Alignment explanation
Indices: 59177840--59177992 Score: 151
Period size: 19 Copynumber: 8.4 Consensus size: 19
59177830 ACGATAATAA
59177840 TTTTTGAAAACACG-AAA-
1 TTTTTGAAAACACGAAAAT
* * *
59177857 TTTATG-AAACATGAGAAT
1 TTTTTGAAAACACGAAAAT
59177875 TTTTTGAAAACACGAAAAT
1 TTTTTGAAAACACGAAAAT
* *
59177894 TTTTTGAAAACGCTAAAA-
1 TTTTTGAAAACACGAAAAT
59177912 TTTTTG-AAACACGAAAAT
1 TTTTTGAAAACACGAAAAT
*
59177930 TTTTTGAAAACGCGAAAA-
1 TTTTTGAAAACACGAAAAT
*
59177948 TTTTT--AAACACGAGAATTT
1 TTTTTGAAAACACGA-AA-AT
* *
59177967 TTTTTGAAAACATGAAATT
1 TTTTTGAAAACACGAAAAT
59177986 TTTTTGA
1 TTTTTGA
59177993 CACGAGAAAG
Statistics
Matches: 112, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
16 13 0.12
17 18 0.16
18 22 0.20
19 50 0.45
20 2 0.02
21 7 0.06
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (19 bp):
TTTTTGAAAACACGAAAAT
Found at i:59177920 original size:55 final size:54
Alignment explanation
Indices: 59177840--59177952 Score: 163
Period size: 55 Copynumber: 2.1 Consensus size: 54
59177830 ACGATAATAA
* * *
59177840 TTTTTGAAAACACGAAATTTATGAAACATGAGAATTTTTTGAAAACACGAAAAT
1 TTTTTGAAAACACAAAATTTATGAAACACGAAAATTTTTTGAAAACACGAAAAT
* * *
59177894 TTTTTGAAAACGCTAAAATTTTTGAAACACGAAAATTTTTTGAAAACGCGAAAAT
1 TTTTTGAAAACAC-AAAATTTATGAAACACGAAAATTTTTTGAAAACACGAAAAT
59177949 TTTT
1 TTTT
59177953 AAACACGAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 12 0.23
55 40 0.77
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (54 bp):
TTTTTGAAAACACAAAATTTATGAAACACGAAAATTTTTTGAAAACACGAAAAT
Found at i:59177922 original size:36 final size:36
Alignment explanation
Indices: 59177875--59177969 Score: 156
Period size: 36 Copynumber: 2.6 Consensus size: 36
59177865 ACATGAGAAT
*
59177875 TTTTTGAAAACACGAAAATTTTTTGAAAACGCTAAAA
1 TTTTTG-AAACACGAAAATTTTTTGAAAACGCGAAAA
59177912 TTTTTGAAACACGAAAATTTTTTGAAAACGCGAAAA
1 TTTTTGAAACACGAAAATTTTTTGAAAACGCGAAAA
*
59177948 TTTTT-AAACACGAGAATTTTTT
1 TTTTTGAAACACGAAAATTTTTT
59177970 TTGAAAACAT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
35 16 0.29
36 34 0.61
37 6 0.11
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.36
Consensus pattern (36 bp):
TTTTTGAAACACGAAAATTTTTTGAAAACGCGAAAA
Found at i:59177970 original size:37 final size:36
Alignment explanation
Indices: 59177882--59178014 Score: 135
Period size: 36 Copynumber: 3.6 Consensus size: 36
59177872 AATTTTTTGA
* *
59177882 AAACACGA-AAATTTTTTGAAAACGCTAAAATTTTT
1 AAACACGAGAATTTTTTTGAAAACGCGAAAATTTTT
*
59177917 GAAACACGA-AAATTTTTTGAAAACGCGAAAATTTTT
1 -AAACACGAGAATTTTTTTGAAAACGCGAAAATTTTT
** *
59177953 AAACACGAGAATTTTTTTTGAAAACATGAAATTTTTT
1 AAACACGAGAA-TTTTTTTGAAAACGCGAAAATTTTT
** *
59177990 TGACACGAGAAAGTTTTTTTAAAAA
1 AAACACGAG-AA-TTTTTTTGAAAA
59178015 AACTCAAAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
35 8 0.09
36 36 0.42
37 28 0.33
38 13 0.15
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.35
Consensus pattern (36 bp):
AAACACGAGAATTTTTTTGAAAACGCGAAAATTTTT
Done.