Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 114 of 325
Found at i:36078177 original size:26 final size:26
Alignment explanation
Indices: 36078146--36078253 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
36078136 TGAAATTCCC
*
36078146 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
36078172 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
36078198 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
36078224 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
36078250 ATCA
1 ATCA
36078254 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:36085134 original size:26 final size:26
Alignment explanation
Indices: 36085103--36085210 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
36085093 TGAAATTCCC
* * *
36085103 ATCATGTAACATTTACTTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
36085129 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
36085155 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
36085181 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
36085207 ATCA
1 ATCA
36085211 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.35
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:36091355 original size:26 final size:26
Alignment explanation
Indices: 36091326--36091433 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
36091316 TGATACAAAT
*
36091326 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
36091352 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36091378 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
36091404 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36091430 TGAT
1 TGAT
36091434 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:36094647 original size:12 final size:12
Alignment explanation
Indices: 36094626--36094656 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36094616 ACTCGGGGAA
36094626 GAGGCCGTGGTC
1 GAGGCCGTGGTC
*
36094638 GAGGCTGTGGTC
1 GAGGCCGTGGTC
36094650 GAGGCCG
1 GAGGCCG
36094657 AGGTAGTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.23, G:0.52, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:36099563 original size:26 final size:26
Alignment explanation
Indices: 36099534--36099615 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
36099524 TGATACAAAT
*
36099534 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36099560 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
36099586 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36099612 TGAT
1 TGAT
36099616 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:36101133 original size:24 final size:25
Alignment explanation
Indices: 36101097--36101144 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
36101087 ACAGTTTTAC
36101097 CCCTAGAGATAAATT-ACCGAAATA
1 CCCTAGAGATAAATTGACCGAAATA
* * *
36101121 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGAGATAAATTGACCGAAAT
36101145 GCATGTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (25 bp):
CCCTAGAGATAAATTGACCGAAATA
Found at i:36102998 original size:20 final size:20
Alignment explanation
Indices: 36102956--36102998 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
36102946 TTTATATTAA
* *
36102956 ATTATTATTATTTAATAGGT
1 ATTATTATTAGTTAATAGAT
36102976 ATTATTATTAAGTTAA-AGAT
1 ATTATTATT-AGTTAATAGAT
36102996 ATT
1 ATT
36102999 TACTAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (20 bp):
ATTATTATTAGTTAATAGAT
Found at i:36103407 original size:11 final size:12
Alignment explanation
Indices: 36103377--36103410 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
36103367 GTATGTTTAC
36103377 TTATTATATAAG
1 TTATTATATAAG
36103389 TATATTAT-TAAG
1 T-TATTATATAAG
36103401 TTATTATATA
1 TTATTATATA
36103411 TATATATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:36104489 original size:16 final size:16
Alignment explanation
Indices: 36104468--36104501 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
36104458 ATATATAGTT
36104468 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
36104484 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
36104500 AA
1 AA
36104502 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:36104914 original size:18 final size:19
Alignment explanation
Indices: 36104872--36104923 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
36104862 AAAGATCGAC
36104872 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* *
36104891 TGTTACTGTAT-ATTTGAT
1 TGTTACTGAATAATTTAAT
* *
36104909 TTTTACTTAATAATT
1 TGTTACTGAATAATT
36104924 GACTATTACT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.54
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:36104949 original size:26 final size:26
Alignment explanation
Indices: 36104920--36104970 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
36104910 TTTACTTAAT
*
36104920 AATTGACT-ATTACTGGATAACTGATC
1 AATTGACTGA-TACTGAATAACTGATC
*
36104946 AATTGATTGATACTGAATAACTGAT
1 AATTGACTGATACTGAATAACTGAT
36104971 TATTATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (26 bp):
AATTGACTGATACTGAATAACTGATC
Found at i:36104970 original size:18 final size:18
Alignment explanation
Indices: 36104956--36105019 Score: 92
Period size: 18 Copynumber: 3.6 Consensus size: 18
36104946 AATTGATTGA
36104956 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* * *
36104974 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
*
36104992 TACTGAATAACTGACTAT
1 TACTGAATAACTGATTAT
36105010 TACTGAATAA
1 TACTGAATAA
36105020 ATAATTGTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:36104996 original size:36 final size:36
Alignment explanation
Indices: 36104946--36105032 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
36104936 ATAACTGATC
* * *
36104946 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGTTACTGAATAACTGACTATTACTGAAT
36104982 AATTGATTGTTACTGAATAACTGACTATTACTGAAT
1 AATTGATTGTTACTGAATAACTGACTATTACTGAAT
* *
36105018 AAATAATTGTT-CTGA
1 AATTGATTGTTACTGA
36105033 TTGACTAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 4 0.09
36 42 0.91
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (36 bp):
AATTGATTGTTACTGAATAACTGACTATTACTGAAT
Found at i:36105610 original size:13 final size:13
Alignment explanation
Indices: 36105592--36105630 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
36105582 ATATTATAAT
*
36105592 TATTTTGTGTTAA
1 TATTTTATGTTAA
*
36105605 TATTTTATGCTAA
1 TATTTTATGTTAA
36105618 TAATTTTATGTTA
1 T-ATTTTATGTTA
36105631 CAAAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:36107103 original size:40 final size:40
Alignment explanation
Indices: 36107048--36107269 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
36107038 TATTCGAATG
36107048 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
36107088 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
36107128 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
36107168 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
36107208 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
36107248 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
36107270 TACTTGGGTT
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.08
40 155 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:36113448 original size:38 final size:37
Alignment explanation
Indices: 36113410--36113482 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
36113400 GATTGGAACA
* *
36113410 AAAAACACAATTGACTCCAATGGCAATAGGTCAAAAC
1 AAAAACACAAATCACTCCAATGGCAATAGGTCAAAAC
* * * *
36113447 AAGACCATAAATCACTCCATTGGCAATAGGTCAAAA
1 AAAAACACAAATCACTCCAATGGCAATAGGTCAAAA
36113483 ACCACTATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.18
Consensus pattern (37 bp):
AAAAACACAAATCACTCCAATGGCAATAGGTCAAAAC
Found at i:36116579 original size:21 final size:18
Alignment explanation
Indices: 36116535--36116578 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
36116525 TTCCAACTCT
36116535 TCTCCTCCAGACACCAGG
1 TCTCCTCCAGACACCAGG
36116553 TCTCCTCCAGACACCAGG
1 TCTCCTCCAGACACCAGG
36116571 TCTCCTCC
1 TCTCCTCC
36116579 TTCAACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.18, C:0.48, G:0.14, T:0.20
Consensus pattern (18 bp):
TCTCCTCCAGACACCAGG
Found at i:36119627 original size:47 final size:46
Alignment explanation
Indices: 36119506--36119683 Score: 198
Period size: 47 Copynumber: 3.8 Consensus size: 46
36119496 ATAATCTCAC
* * * *
36119506 CCATAATGAGCTCGGAACACAACTCAACGAGCTCGGGTGTTTGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
*
36119552 CCATAATGAACTCAGAACACAACTCAACGAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
** *
36119598 CCATAAGTGAACTCGGAATGCAACTCAACGAGTTCGGATGCCT-CAT
1 CCATAA-TGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
* * * *
36119644 -AATTCTCACGAACTCGGAACACAACTCAACAAGTTCGGAT
1 CCA---TAATGAACTCGGAACACAACTCAACGAGTTCGGAT
36119684 CTCAATTTCC
Statistics
Matches: 113, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
45 1 0.01
46 50 0.44
47 60 0.53
48 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
Found at i:36124225 original size:67 final size:67
Alignment explanation
Indices: 36124146--36124280 Score: 234
Period size: 67 Copynumber: 2.0 Consensus size: 67
36124136 AATCCTTTTC
* *
36124146 AGAGAGCACACTCCCGCAAACCTCATTGCTTACAGTGGGATTACCAGTCTAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCAAACCTCATTGCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
36124211 TA
66 TA
* *
36124213 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCAAACCTCATTGCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
36124278 TA
66 TA
36124280 A
1 A
36124281 CATATACTCA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCAAACCTCATTGCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
TA
Found at i:36124385 original size:58 final size:54
Alignment explanation
Indices: 36124248--36124385 Score: 161
Period size: 58 Copynumber: 2.5 Consensus size: 54
36124238 TTTCTTACAG
* *
36124248 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAACATATACTCAAAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAACAAATACTCAAAGAGTATTAT
* **
36124302 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATGACAAATACTCTATGGAGCT-TTAT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTG---TAACAAATACTC-AAAGAG-TATTAT
* *
36124360 CTGGATTACCAGTCCAGGTTAAATCC
1 CGGGATTACCAGTCCAGGCTAAATCC
36124386 ACACTCACAC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
54 30 0.42
57 10 0.14
58 31 0.43
59 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGTAACAAATACTCAAAGAGTATTAT
Found at i:36127462 original size:28 final size:28
Alignment explanation
Indices: 36127392--36127493 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
36127382 TGGCCCCTTT
*
36127392 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
36127420 -GGCCTAATCACATTCATATGGCCTATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
36127447 AGGCCCAATCATATTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
*
36127475 AGGTCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
36127494 GTCATGAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 24 0.38
28 40 0.62
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.26
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:36129144 original size:19 final size:18
Alignment explanation
Indices: 36129086--36129144 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 18
36129076 TATATATACT
* *
36129086 AAATAAAATAATAATAAA
1 AAATAAAATAATATTATA
*
36129104 ATAATAAAAT-ATCTTAT-
1 A-AATAAAATAATATTATA
*
36129121 TAATAAAATAATAGTTATA
1 AAATAAAATAATA-TTATA
36129140 AAATA
1 AAATA
36129145 TCATCAACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
16 8 0.26
17 2 0.06
18 9 0.29
19 12 0.39
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AAATAAAATAATATTATA
Found at i:36133425 original size:20 final size:20
Alignment explanation
Indices: 36133387--36133424 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36133377 GGACTAAACC
* *
36133387 GGAAACTTTGGAAACTTTTG
1 GGAAACTTAGAAAACTTTTG
36133407 GGAAACTTAGAAAA-TTTT
1 GGAAACTTAGAAAACTTTT
36133425 TCATGAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (20 bp):
GGAAACTTAGAAAACTTTTG
Found at i:36136055 original size:22 final size:23
Alignment explanation
Indices: 36136007--36136055 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
36135997 AACTCACCAT
* *
36136007 AGCTTGTATGAGCTTACTGATTC
1 AGCTTGAAAGAGCTTACTGATTC
36136030 AGCTTGAAAGAGCTTACTG-TTC
1 AGCTTGAAAGAGCTTACTGATTC
36136052 AGCT
1 AGCT
36136056 CAATAAAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (23 bp):
AGCTTGAAAGAGCTTACTGATTC
Found at i:36136105 original size:24 final size:22
Alignment explanation
Indices: 36136016--36136118 Score: 66
Period size: 24 Copynumber: 4.4 Consensus size: 22
36136006 TAGCTTGTAT
* *
36136016 GAGCTTACTGATTCAGCTTGAA-A
1 GAGCTTACT-TTTCAGC-TCAATA
*
36136039 GAGCTTACTGTTCAGCTCAATA
1 GAGCTTACTTTTCAGCTCAATA
* * *
36136061 AAGCTTCCCGTTTTCAACTCAATA
1 GAGCTT-AC-TTTTCAGCTCAATA
36136085 GAGCTTACTATTATCAGCTC-ATGAA
1 GAGCTTACT-TT-TCAGCTCAAT--A
36136110 GAGCTTACT
1 GAGCTTACT
36136119 GGCCATATCT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
21 3 0.05
22 13 0.20
23 15 0.23
24 23 0.36
25 10 0.16
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (22 bp):
GAGCTTACTTTTCAGCTCAATA
Found at i:36138449 original size:30 final size:30
Alignment explanation
Indices: 36138405--36138461 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
36138395 ACGGCCATGA
* *
36138405 CACACAGGCGTGTGGACTACCCGTGTGTCT
1 CACACAGGCATGTGGACTACCCATGTGTCT
* *
36138435 CACACGGGCATGTGGATTACCCATGTG
1 CACACAGGCATGTGGACTACCCATGTG
36138462 GGAGTGTCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.19, C:0.28, G:0.30, T:0.23
Consensus pattern (30 bp):
CACACAGGCATGTGGACTACCCATGTGTCT
Found at i:36141677 original size:10 final size:11
Alignment explanation
Indices: 36141662--36141709 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
36141652 ATTTTGATGT
*
36141662 ACATGATTTG-
1 ACATGATATGC
36141672 ACATGATATGC
1 ACATGATATGC
36141683 ACATGATATG-
1 ACATGATATGC
*
36141693 -TATGATATGC
1 ACATGATATGC
36141703 ACATGAT
1 ACATGAT
36141710 GTATTCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:36141824 original size:26 final size:26
Alignment explanation
Indices: 36141756--36141851 Score: 119
Period size: 26 Copynumber: 3.8 Consensus size: 26
36141746 GAGGAAGTGC
* *
36141756 AAAAGGG-TTATGCCCCAG-TTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACAG
*
36141780 AAAAGAGC-TTTGCCCCAGTTTACAG
1 AAAAGGGCTTTTGCCCCAGTTTACAG
36141805 AAAAGGGCTTTTGCCCCAGTTTATCA-
1 AAAAGGGCTTTTGCCCCAGTTTA-CAG
*
36141831 AAAAGGGCTTTTTCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
36141852 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
24 15 0.24
25 12 0.19
26 34 0.54
27 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACAG
Found at i:36141864 original size:25 final size:26
Alignment explanation
Indices: 36141766--36141864 Score: 86
Period size: 26 Copynumber: 3.9 Consensus size: 26
36141756 AAAAGGGTTA
*
36141766 TGCCCCAG-TTACCGAAAAGA-GC-TT
1 TGCCCCAGTTTATC-AAAAGAGGCTTT
36141790 TGCCCCAGTTTA-CAGAAA-AGGGCTTT
1 TGCCCCAGTTTATCA-AAAGA-GGCTTT
36141816 TGCCCCAGTTTATCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTTT
* *
36141842 TTCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGAGGCT
36141865 AGGCCTCCAG
Statistics
Matches: 66, Mismatches: 2, Indels: 13
0.81 0.02 0.16
Matches are distributed among these distances:
23 2 0.03
24 12 0.18
25 17 0.26
26 33 0.50
27 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCTTT
Found at i:36142109 original size:31 final size:31
Alignment explanation
Indices: 36142071--36142147 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
36142061 TCGTTACAGT
*
36142071 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGACATGAATAATGA
*
36142102 AAAGGCTTCGGCCCAGTGACATGAATAATGT
1 AAAGGCTTCGGCCCAGTGACATGAATAATGA
*
36142133 GAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
36142148 TTATATGCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGACATGAATAATGA
Found at i:36143687 original size:54 final size:54
Alignment explanation
Indices: 36143559--36143771 Score: 237
Period size: 54 Copynumber: 3.9 Consensus size: 54
36143549 ATTACCAAAG
* * **
36143559 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC--AAAATTACTGTTT
* * *
36143615 TACCCTTGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTT
* * * * *
36143669 TACCCTCGGTTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTT
* * *** * *
36143723 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC
36143772 CAAAATACCC
Statistics
Matches: 134, Mismatches: 23, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
54 98 0.73
56 36 0.27
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTT
Found at i:36143723 original size:81 final size:83
Alignment explanation
Indices: 36143559--36143746 Score: 263
Period size: 81 Copynumber: 2.3 Consensus size: 83
36143549 ATTACCAAAG
* * *
36143559 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAAAATTACCATTTTACCCTTGA
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGACTTACAAAAAATTACCATTTTACCCTTGA
36143624 CTTACAGAATTACCGTTT
66 CTTACAGAATTACCGTTT
* * * * * *
36143642 TACCCTCGATTTACAAAATTACTGTTTTACCCTCG-GTT-TATAGAATTACTATTTTACCCTTGA
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGACTTACAAAAAATTACCATTTTACCCTTGA
* *
36143705 TTTACAGAATTACTGTTT
66 CTTACAGAATTACCGTTT
36143723 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTACAAAATTACTA
36143747 AAATACCCTT
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 60 0.65
82 2 0.02
83 31 0.33
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (83 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTCGACTTACAAAAAATTACCATTTTACCCTTGA
CTTACAGAATTACCGTTT
Found at i:36143745 original size:27 final size:27
Alignment explanation
Indices: 36143559--36143746 Score: 214
Period size: 27 Copynumber: 6.9 Consensus size: 27
36143549 ATTACCAAAG
* *
36143559 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
36143586 TACCCTCGACTTACAAAAAATTACCATTT
1 TACCCTCGATTTAC--AGAATTACTATTT
* * **
36143615 TACCCTTGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
36143642 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
36143669 TACCCTCGGTTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
36143696 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
36143723 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
36143747 AAATACCCTT
Statistics
Matches: 138, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
27 113 0.82
29 25 0.18
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:36143753 original size:27 final size:27
Alignment explanation
Indices: 36143642--36144051 Score: 158
Period size: 27 Copynumber: 15.1 Consensus size: 27
36143632 ATTACCGTTT
****
36143642 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * * ***
36143669 TACCCTCGGTTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
36143696 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
36143723 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *
36143750 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *
36143777 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACTAAAA
* * ** **
36143804 TACCCTAG-TCTGTAAAATTGTTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
** *
36143830 TACCCAT-GATTTGTAAAATTACCAAAA
1 TACCC-TCGATTTACAAAATTACTAAAA
* ** *
36143857 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* *** **
36143884 TACCACTAG-TTTGTGAAATTACCGAAA
1 TACC-CTCGATTTACAAAATTACTAAAA
* ** *
36143911 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
36143938 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
36143965 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * *
36143994 TACCATTGGTTTACAAAATTA-TAGAAA
1 TACCCTCGATTTACAAAATTACTA-AAA
* * *
36144021 TACCATTGGTTTACAAAATTA-TAGAAA
1 TACCCTCGATTTACAAAATTACTA-AAA
36144048 TACC
1 TACC
36144052 ATCGGTTTGA
Statistics
Matches: 317, Mismatches: 49, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
26 24 0.08
27 267 0.84
28 7 0.02
29 19 0.06
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:36143754 original size:81 final size:81
Alignment explanation
Indices: 36143602--36143773 Score: 254
Period size: 81 Copynumber: 2.1 Consensus size: 81
36143592 CGACTTACAA
**
36143602 AAAATTACCATTTTACCCTTGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGT
1 AAAATTACCATTTTACCCTTGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAA
** *
36143667 TTTACCCTCGGTTTAT
66 AATACCCTCGGTTTAC
* * * *
36143683 AGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAA
1 AAAATTACCATTTTACCCTTGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAA
*
36143748 AATACCCTTGGTTTAC
66 AATACCCTCGGTTTAC
36143764 AAAATTACCA
1 AAAATTACCA
36143774 AAATACCCTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
AAAATTACCATTTTACCCTTGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAA
AATACCCTCGGTTTAC
Found at i:36143781 original size:54 final size:54
Alignment explanation
Indices: 36143723--36143971 Score: 204
Period size: 54 Copynumber: 4.6 Consensus size: 54
36143713 ATTACTGTTT
* * *
36143723 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTAGTTTGCAAAATTACCAAAA
* * * * ***
36143777 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TAGTCTGTAAAATTGTTAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAATACCCTTAGTTTGCAAAATTACCAAAA
** * *
36143830 TACCCAT-GATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCC-TCGATTTACAAAATTACCAAAATACCCTTAGTTTGCAAAATTACCAAAA
* *** * * * *
36143884 TACCACTAG-TTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTCGATTTACAAAATTACCAAAATACCCTTAGTTTGCAAAATTACCAAAA
*
36143938 TACCC-CTGATTTACAAAGTTA-CAGAAATACCCTT
1 TACCCTC-GATTTACAAAATTACCA-AAATACCCTT
36143972 GACTTTCTAA
Statistics
Matches: 158, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
53 45 0.28
54 111 0.70
55 2 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTTAGTTTGCAAAATTACCAAAA
Found at i:36143851 original size:80 final size:80
Alignment explanation
Indices: 36143737--36143943 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
36143727 CTCGATTTAC
* **
36143737 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCC-TGATTTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
36143801 AAATACC-CTAGTCTGT
64 AAATACCACTAGTCTGT
** * **
36143817 AAAATTGTTAAAATACCCATGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGATTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
*
36143882 AATACCACTAGTTTGT
65 AATACCACTAGTCTGT
* ** *
36143898 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCT-GATTTGTAAAATTACCAAAATACCCC
36143944 TGATTTACAA
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.02
80 60 0.56
81 46 0.43
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGATTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAAA
ATACCACTAGTCTGT
Found at i:36143995 original size:56 final size:54
Alignment explanation
Indices: 36143935--36144052 Score: 139
Period size: 56 Copynumber: 2.1 Consensus size: 54
36143925 AAAATTACCA
* * * *
36143935 AAATACCCCTGATTTACAAAGTTACAGAAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCACTGATTTACAAAATTACAGAAATACCATTG-GTTTAC--AAAATTATAG
* * *
36143991 AAATACCATTGGTTTACAAAATTATAGAAATACCATTGGTTTACAAAATTATAG
1 AAATACCACTGATTTACAAAATTACAGAAATACCATTGGTTTACAAAATTATAG
36144045 AAATACCA
1 AAATACCA
36144053 TCGGTTTGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 18 0.33
55 3 0.06
56 33 0.61
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATACCACTGATTTACAAAATTACAGAAATACCATTGGTTTACAAAATTATAG
Found at i:36144052 original size:27 final size:27
Alignment explanation
Indices: 36143981--36144059 Score: 149
Period size: 27 Copynumber: 2.9 Consensus size: 27
36143971 TGACTTTCTA
36143981 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
36144008 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
36144035 AAAATTATAGAAATACCATCGGTTT
1 AAAATTATAGAAATACCATTGGTTT
36144060 GATGGCGAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:36158418 original size:21 final size:21
Alignment explanation
Indices: 36158394--36158439 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
36158384 TTGAAGTTTA
36158394 ATGATAGATTATGGAAGCTAG
1 ATGATAGATTATGGAAGCTAG
36158415 ATGATAGATTATGGAAGCTAG
1 ATGATAGATTATGGAAGCTAG
36158436 ATGA
1 ATGA
36158440 CAGCTATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.28
Consensus pattern (21 bp):
ATGATAGATTATGGAAGCTAG
Found at i:36158901 original size:16 final size:17
Alignment explanation
Indices: 36158877--36158909 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
36158867 GTATATAATA
*
36158877 GAATTATTTGAT-ATAT
1 GAATGATTTGATGATAT
36158893 GAATGATTTGATGATAT
1 GAATGATTTGATGATAT
36158910 ATCGAATCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (17 bp):
GAATGATTTGATGATAT
Found at i:36159071 original size:22 final size:23
Alignment explanation
Indices: 36159037--36159135 Score: 87
Period size: 24 Copynumber: 4.2 Consensus size: 23
36159027 CGTATGAGAA
36159037 TACTGATTCAGCTCGAA-AGAGCT
1 TACTGATTCAGCTC-AATAGAGCT
36159060 TACTG-TTCAGCTCAATAGAGCT
1 TACTGATTCAGCTCAATAGAGCT
* * * *
36159082 TCCCGTTTTCAGCTCAATAGAGTT
1 TACTG-ATTCAGCTCAATAGAGCT
*
36159106 TACTGTTATCAGCTC-ATGAAGAGCT
1 TACTGAT-TCAGCTCAAT--AGAGCT
36159131 TACTG
1 TACTG
36159136 GCCATGTCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
21 2 0.03
22 17 0.27
23 9 0.14
24 26 0.41
25 10 0.16
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (23 bp):
TACTGATTCAGCTCAATAGAGCT
Found at i:36160501 original size:15 final size:15
Alignment explanation
Indices: 36160481--36160517 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
36160471 ATTTAGCTAT
*
36160481 TATATTTTGTATTTG
1 TATATTTTGTATTTC
36160496 TATATTTT-TATTTC
1 TATATTTTGTATTTC
36160510 TAT-TTTTG
1 TATATTTTG
36160518 GTTTGGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 8 0.40
15 8 0.40
ACGTcount: A:0.19, C:0.03, G:0.08, T:0.70
Consensus pattern (15 bp):
TATATTTTGTATTTC
Found at i:36161204 original size:59 final size:59
Alignment explanation
Indices: 36161103--36161215 Score: 181
Period size: 59 Copynumber: 1.9 Consensus size: 59
36161093 CCACACGGCC
* * *
36161103 GTGTGGCTAATGGGGAATTTAGGGATTCCACATGGGCGTGTGTTTTGGGACACATGACG
1 GTGTGGCTAATGGGGAATTTAGGGATTCCACACGGGCATGTGTTTTGAGACACATGACG
* *
36161162 GTGTGGCTAATTGGGAATTTAGGGATTCCACACGGGTATGTGTTTTGAGACACA
1 GTGTGGCTAATGGGGAATTTAGGGATTCCACACGGGCATGTGTTTTGAGACACA
36161216 CGGTCATGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.30
Consensus pattern (59 bp):
GTGTGGCTAATGGGGAATTTAGGGATTCCACACGGGCATGTGTTTTGAGACACATGACG
Found at i:36169005 original size:24 final size:24
Alignment explanation
Indices: 36168952--36169005 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
36168942 TTATTAGATG
36168952 TTTTGA-ATGTATTTGAGATTCAA
1 TTTTGATATGTATTTGAGATTCAA
* * *
36168975 TTATGATATG-ATTTGTGATTATAA
1 TTTTGATATGTATTTGAGATT-CAA
36168999 TTTTGAT
1 TTTTGAT
36169006 TCGATAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.52
Consensus pattern (24 bp):
TTTTGATATGTATTTGAGATTCAA
Found at i:36171846 original size:69 final size:69
Alignment explanation
Indices: 36171742--36171964 Score: 261
Period size: 69 Copynumber: 3.2 Consensus size: 69
36171732 TGCACAAACG
* * * *
36171742 AGAAAGAGAGGGAGGGAGCATGCTTGGCGGAATGGATTGGAGCTTGGGACAATTACAGATATACA
1 AGAAAGAGAGTGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTACAGATAAACA
36171807 AATA
66 AATA
* * * * **
36171811 CA-AAAGAGAGTGCGGAAGCATGTTTGGGGGCATGGATTGGAGATTGGGACAATTGTAGATAAAC
1 -AGAAAGAGAGTGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTACAGATAAAC
36171875 AAATA
65 AAATA
* * * * *
36171880 AGAAAGAGAGTGTGGGAGCATGTTTGGCGGCATGGATTGGAGCTTTGTACAA-TAGTAGATACAC
1 AGAAAGAGAGTGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTA-CAGATAAAC
*
36171944 AAATG
65 AAATA
36171949 AGAAAGAGAGGTGAGG
1 AGAAAGAGA-GTGAGG
36171965 TGTTGAAACC
Statistics
Matches: 130, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
68 2 0.02
69 122 0.94
70 6 0.05
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (69 bp):
AGAAAGAGAGTGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTACAGATAAACA
AATA
Found at i:36178581 original size:17 final size:18
Alignment explanation
Indices: 36178540--36178581 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
36178530 AATTATAGTT
*
36178540 TTTAGGATTTTAAATAAA
1 TTTAGGGTTTTAAATAAA
36178558 TTTAGGGTTTTAAATAAA
1 TTTAGGGTTTTAAATAAA
36178576 -TTAGGG
1 TTTAGGG
36178582 CTTAGGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (18 bp):
TTTAGGGTTTTAAATAAA
Found at i:36178635 original size:82 final size:87
Alignment explanation
Indices: 36178502--36178664 Score: 219
Period size: 82 Copynumber: 1.9 Consensus size: 87
36178492 TTTAAATTAT
* *
36178502 GGTTAATGGTTTTCAAATAAATTAAGTAAATTATAGTTTTTAGGATTTTAAATAAA-T-TTAGGG
1 GGTTAATGGTTTTCAAATAAATTAAGTAAATTATAGGTTCTAGGATTTTAAATAAATTATTAGGG
*
36178565 TTTTAAATAAATTAGGGCTTAG
66 TTTAAAATAAATTAGGGCTTAG
* * *
36178587 GGTTTATGGTTTT-AAATAGATTAA-TAAATTA-GGGTTCTAGGATTTTAAATAAATTAAGTTAG
1 GGTTAATGGTTTTCAAATAAATTAAGTAAATTATAGGTTCTAGGATTTTAAATAAATT-A-TTAG
36178649 GGTTTAAAATAAATTA
64 GGTTTAAAATAAATTA
36178665 AATTAGGGTT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
82 19 0.28
83 8 0.12
84 10 0.15
85 12 0.18
86 19 0.28
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.42
Consensus pattern (87 bp):
GGTTAATGGTTTTCAAATAAATTAAGTAAATTATAGGTTCTAGGATTTTAAATAAATTATTAGGG
TTTAAAATAAATTAGGGCTTAG
Found at i:36178672 original size:22 final size:22
Alignment explanation
Indices: 36178624--36178675 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
36178614 ATTAGGGTTC
* * *
36178624 TAGGATTTTAAATAAATTAAGT
1 TAGGGTTTAAAATAAATTAAAT
36178646 TAGGGTTTAAAATAAATTAAAT
1 TAGGGTTTAAAATAAATTAAAT
36178668 TAGGGTTT
1 TAGGGTTT
36178676 GGGTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (22 bp):
TAGGGTTTAAAATAAATTAAAT
Found at i:36178687 original size:21 final size:21
Alignment explanation
Indices: 36178661--36178709 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
36178651 TTTAAAATAA
*
36178661 ATTAAATTAGGGTTTGGGTTT
1 ATTAAATTAAGGTTTGGGTTT
36178682 ATTAAATTAAGGTTTGGGTTT
1 ATTAAATTAAGGTTTGGGTTT
*
36178703 TTTAAAT
1 ATTAAAT
36178710 AGATTAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (21 bp):
ATTAAATTAAGGTTTGGGTTT
Found at i:36178722 original size:34 final size:34
Alignment explanation
Indices: 36178684--36178752 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
36178674 TTGGGTTTAT
* * *
36178684 TAAATTAAGGTT-TGGGTTTTTTAAATAGATTAAG
1 TAAATTAAGGTTCTAGG-ATTTTAAATAAATTAAG
*
36178718 TAAATTAGGGTTCTAGGATTTTAAATAAATTAAG
1 TAAATTAAGGTTCTAGGATTTTAAATAAATTAAG
36178752 T
1 T
36178753 TAGGGTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 27 0.90
35 3 0.10
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (34 bp):
TAAATTAAGGTTCTAGGATTTTAAATAAATTAAG
Found at i:36178765 original size:22 final size:22
Alignment explanation
Indices: 36178731--36178782 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
36178721 ATTAGGGTTC
* * *
36178731 TAGGATTTTAAATAAATTAAGT
1 TAGGGTTTAAAATAAATTAAAT
36178753 TAGGGTTTAAAATAAATTAAAT
1 TAGGGTTTAAAATAAATTAAAT
36178775 TAGGGTTT
1 TAGGGTTT
36178783 TTGGTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (22 bp):
TAGGGTTTAAAATAAATTAAAT
Found at i:36178815 original size:21 final size:22
Alignment explanation
Indices: 36178768--36178817 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
36178758 TTTAAAATAA
* *
36178768 ATTAAATTAGGGTTTTTGGTTT
1 ATTAAATTAAGGTTTGTGGTTT
36178790 ATTAAATTAAGGTTTGT-GTTT
1 ATTAAATTAAGGTTTGTGGTTT
*
36178811 TTTAAAT
1 ATTAAAT
36178818 AGATTAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (22 bp):
ATTAAATTAAGGTTTGTGGTTT
Found at i:36178830 original size:34 final size:34
Alignment explanation
Indices: 36178792--36178860 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
36178782 TTTGGTTTAT
** *
36178792 TAAATTAAGGTTTGT-GTTTTTTAAATAGATTAAG
1 TAAATTAAGGTTT-TAGGGTTTTAAATAAATTAAG
36178826 TAAATTAAGGTTTTAGGGTTTTAAATAAATTAAG
1 TAAATTAAGGTTTTAGGGTTTTAAATAAATTAAG
36178860 T
1 T
36178861 TAGGTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 1 0.03
34 30 0.97
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (34 bp):
TAAATTAAGGTTTTAGGGTTTTAAATAAATTAAG
Found at i:36178866 original size:21 final size:22
Alignment explanation
Indices: 36178842--36178890 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
36178832 AAGGTTTTAG
*
36178842 GGTTTTAAATAAATTAAGTT-A
1 GGTTTTAAATAAATTAAATTAA
*
36178863 GGTTTAAAATAAATTAAATTAA
1 GGTTTTAAATAAATTAAATTAA
36178885 GGTTTT
1 GGTTTT
36178891 GGGTTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (22 bp):
GGTTTTAAATAAATTAAATTAA
Found at i:36178920 original size:108 final size:108
Alignment explanation
Indices: 36178587--36178976 Score: 592
Period size: 108 Copynumber: 3.6 Consensus size: 108
36178577 TAGGGCTTAG
*
36178587 GGTTTATG-GTTTTAAATAGATTAA-TAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGG
1 GGTTTATGTTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGG
*
36178650 GTTTAAAATAAATTAAATT-AGGGTTTGGGTTTATTAAATTAA
66 GTTTAAAATAAATTAAATTAAGGTTTTGGGTTTATTAAATTAA
**
36178692 GGTTTGGGTTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGG
1 GGTTTATGTTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGG
* *
36178757 GTTTAAAATAAATTAAATTAGGGTTTTTGGTTTATTAAATTAA
66 GTTTAAAATAAATTAAATTAAGGTTTTGGGTTTATTAAATTAA
* * * *
36178800 GGTTTGTGTTTTTTAAATAGATTAAGTAAATTAAGGTTTTAGGGTTTTAAATAAATTAAGTTA-G
1 GGTTTATGTTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGG
*
36178864 GTTTAAAATAAATTAAATTAAGGTTTTGGGTTTATTAAATTAG
66 GTTTAAAATAAATTAAATTAAGGTTTTGGGTTTATTAAATTAA
* * *
36178907 GGTTTATGTTTTTTTAAATTGATTAAGTAAATTAGGGTTTTAAGG-TTTTAAATAAATTAAATTA
1 GGTTTATG-TTTTTTAAATAGATTAAGTAAATTAGGGTTCT-AGGATTTTAAATAAATTAAGTTA
*
36178971 AGGTTT
64 GGGTTT
36178977 TGGGTTTATT
Statistics
Matches: 262, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
105 6 0.02
106 15 0.06
107 106 0.40
108 127 0.48
109 8 0.03
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.44
Consensus pattern (108 bp):
GGTTTATGTTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGG
GTTTAAAATAAATTAAATTAAGGTTTTGGGTTTATTAAATTAA
Found at i:36178987 original size:22 final size:24
Alignment explanation
Indices: 36178961--36179017 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
36178951 GTTTTAAATA
36178961 AATTAAATTAAGGTTT-TGGGTTT
1 AATTAAATTAAGGTTTATGGGTTT
* *
36178984 -ATTAAATTAGGGTTTATGGTTTT
1 AATTAAATTAAGGTTTATGGGTTT
*
36179007 AAATAAATTAA
1 AATTAAATTAA
36179018 ATTAGGGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 14 0.50
23 6 0.21
24 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.46
Consensus pattern (24 bp):
AATTAAATTAAGGTTTATGGGTTT
Found at i:36179459 original size:126 final size:124
Alignment explanation
Indices: 36179086--36179460 Score: 493
Period size: 126 Copynumber: 3.0 Consensus size: 124
36179076 TTTTACCCTG
* * * * *
36179086 AAAAAATAATTTTGACAAGACATTTTTAAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
1 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
* * * * *
36179151 TGTCAGTAAAAATACAAAAAAAAAGCTACCACGTGGA-CT-TTTTTCGCTATAGTAGTACCTG
66 TGTCAGCAAAAATAC-AGAAAAAAGCT-CCACGTGGAGCTCTTTTT--CTACAGTAGTTCCTA
*
36179212 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCATGATGCAC
1 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
*
36179277 TGTCAGCAAAAATACAGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTA
66 TGTCAGCAAAAATACAGAAAAAAGCT-CCACGTGGA-GCTCTTTTTCTACAGTAGTTCCTA
** * *
36179338 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACACTTTAAGCAGGATCCAC
1 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
* * *
36179403 TGTCAGCAAAATTTCTGAAAAAAGCTCTCACGTGGATGCTCTTTTTCTACAGTAGTTC
66 TGTCAGCAAAAATACAGAAAAAAGCTC-CACGTGGA-GCTCTTTTTCTACAGTAGTTC
36179461 ATGCTTGGCC
Statistics
Matches: 222, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
125 20 0.09
126 196 0.88
127 2 0.01
128 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (124 bp):
AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
TGTCAGCAAAAATACAGAAAAAAGCTCCACGTGGAGCTCTTTTTCTACAGTAGTTCCTA
Found at i:36179894 original size:12 final size:12
Alignment explanation
Indices: 36179879--36179909 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36179869 TTCTCTTTTA
36179879 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
36179891 TTTTTCTTTCTC
1 TTTTTCTTTCCC
36179903 TTTTTCT
1 TTTTTCT
36179910 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:36185336 original size:19 final size:19
Alignment explanation
Indices: 36185312--36185349 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
36185302 GACTCAACAG
36185312 TGGCATGTACTCCTAAACT
1 TGGCATGTACTCCTAAACT
36185331 TGGCATGTACTCCTAAACT
1 TGGCATGTACTCCTAAACT
36185350 CACTTCCGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (19 bp):
TGGCATGTACTCCTAAACT
Found at i:36185809 original size:12 final size:12
Alignment explanation
Indices: 36185794--36185824 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36185784 TTCTCTTTTA
36185794 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
36185806 TTTTTCTTTCTC
1 TTTTTCTTTCCC
36185818 TTTTTCT
1 TTTTTCT
36185825 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:36190360 original size:3 final size:3
Alignment explanation
Indices: 36190352--36190400 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
36190342 TACTTTTAAC
* *
36190352 ATT ATT ATT A-T ATT ATT ATT ATT ATT AAT ATT AGT ATAT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
36190396 ATT AT
1 ATT AT
36190401 ATATGCATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:36190417 original size:21 final size:22
Alignment explanation
Indices: 36190387--36190434 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
36190377 TAATATTAGT
36190387 ATATATTTT-AT-TATATATGC
1 ATATATTTTAATATATATATGC
*
36190407 ATATATCTTTAATATATATATGT
1 ATATAT-TTTAATATATATATGC
36190430 ATATA
1 ATATA
36190435 ATTGTGTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 3 0.12
22 2 0.08
23 13 0.54
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (22 bp):
ATATATTTTAATATATATATGC
Found at i:36190428 original size:23 final size:20
Alignment explanation
Indices: 36190387--36190425 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
36190377 TAATATTAGT
36190387 ATATATTTTATTATATATGC
1 ATATATTTTATTATATATGC
*
36190407 ATATATCTTTAATATATAT
1 ATATAT-TTTATTATATAT
36190426 ATGTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (20 bp):
ATATATTTTATTATATATGC
Found at i:36190433 original size:23 final size:20
Alignment explanation
Indices: 36190353--36190434 Score: 71
Period size: 20 Copynumber: 3.9 Consensus size: 20
36190343 ACTTTTAACA
36190353 TTATTATTATAT-TAT-TATT
1 TTATTA-TATATGTATATATT
36190372 ATTATTA-ATATTAGTATATATT
1 -TTATTATATA-T-GTATATATT
*
36190394 TTATTATATATGCATATATCT
1 TTATTATATATGTATATAT-T
36190415 TTAATATATATATGTATATA
1 TT-AT-TATATATGTATATA
36190435 ATTGTGTAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.06
19 1 0.02
20 13 0.25
21 13 0.25
22 9 0.17
23 13 0.25
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TTATTATATATGTATATATT
Found at i:36190508 original size:24 final size:24
Alignment explanation
Indices: 36190480--36190526 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
36190470 CTAATATGTA
36190480 TATATTATGTAAATATTTTAATAC
1 TATATTATGTAAATATTTTAATAC
*
36190504 TATATTATGTATATATTTTAATA
1 TATATTATGTAAATATTTTAATA
36190527 TCATTAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
TATATTATGTAAATATTTTAATAC
Found at i:36190532 original size:22 final size:21
Alignment explanation
Indices: 36190479--36190597 Score: 71
Period size: 24 Copynumber: 5.1 Consensus size: 21
36190469 TCTAATATGT
*
36190479 ATATATTATGTAAATATTTTAA
1 ATATATTATGTATATATTTT-A
36190501 TACTATATTATGTATATATTTTA
1 -A-TATATTATGTATATATTTTA
36190524 ATATCATTA-GTTATATATTTTTTA
1 ATAT-ATTATG-TATATA--TTTTA
* *
36190548 CACTATTTTTTGTATATATTTCTA
1 -A-TATATTATGTATATATTT-TA
*
36190572 ATACTATATATTGTATAT-TTCTA
1 ATA-TAT-TA-TGTATATATTTTA
36190595 ATA
1 ATA
36190598 CCATTATTAT
Statistics
Matches: 78, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.05
22 13 0.17
23 13 0.17
24 28 0.36
25 16 0.21
26 4 0.05
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (21 bp):
ATATATTATGTATATATTTTA
Found at i:36190563 original size:23 final size:24
Alignment explanation
Indices: 36190537--36190595 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
36190527 TCATTAGTTA
* * *
36190537 TATATTTT-TTACACTATTTTTTG
1 TATATTTTCTAACACTATATATTG
*
36190560 TATATATTTCTAATACTATATATTG
1 TATAT-TTTCTAACACTATATATTG
36190585 TATA-TTTCTAA
1 TATATTTTCTAA
36190596 TACCATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 12 0.40
24 3 0.10
25 15 0.50
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (24 bp):
TATATTTTCTAACACTATATATTG
Found at i:36190770 original size:25 final size:24
Alignment explanation
Indices: 36190696--36190770 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 24
36190686 ATATATCATG
36190696 TATATATGATTTTTTTTACATATAT
1 TATATAT-ATTTTTTTTACATATAT
* **
36190721 TATGTATATATCTTTAATACTATATAAT
1 TA--TATATATTTTTTTTAC-ATAT-AT
36190749 T-TATATATTTTTTCTTACATAT
1 TATATATATTTTTT-TTACATAT
36190771 TATCTTACGT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
25 16 0.41
26 11 0.28
27 9 0.23
28 3 0.08
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (24 bp):
TATATATATTTTTTTTACATATAT
Found at i:36190917 original size:27 final size:26
Alignment explanation
Indices: 36190887--36190945 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
36190877 TAATATATAA
*
36190887 ATTATGTATACATTTTTTAAATACTAT
1 ATTATGTATACATTTTTT-AATACCAT
*
36190914 ATTA--TATATATTTTTTAATACCAT
1 ATTATGTATACATTTTTTAATACCAT
36190938 ATTATGTA
1 ATTATGTA
36190946 CATATTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 11 0.39
25 11 0.39
26 2 0.07
27 4 0.14
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (26 bp):
ATTATGTATACATTTTTTAATACCAT
Found at i:36190933 original size:24 final size:25
Alignment explanation
Indices: 36190893--36190948 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
36190883 ATAAATTATG
*
36190893 TATACATTTTTTAAATACTATATTA
1 TATACATTTTTTAAATACCATATTA
*
36190918 TATATATTTTTT-AATACCATATTA
1 TATACATTTTTTAAATACCATATTA
*
36190942 TGTACAT
1 TATACAT
36190949 ATTATTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (25 bp):
TATACATTTTTTAAATACCATATTA
Found at i:36191042 original size:16 final size:16
Alignment explanation
Indices: 36191021--36191086 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
36191011 ATTATACGTG
36191021 TATATATATACTTTTA
1 TATATATATACTTTTA
*
36191037 TATATAGTATTATTTTTA
1 TATATA-TA-TACTTTTA
*
36191055 TATATCAT-TATTTTTA
1 TATAT-ATATACTTTTA
36191071 T-TAT-TATACTTATTA
1 TATATATATACTT-TTA
36191086 T
1 T
36191087 TTTCACTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
13 1 0.02
14 4 0.09
15 7 0.16
16 15 0.35
17 2 0.05
18 13 0.30
19 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (16 bp):
TATATATATACTTTTA
Found at i:36191042 original size:18 final size:18
Alignment explanation
Indices: 36191021--36191059 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
36191011 ATTATACGTG
36191021 TATATA-TA-TACTTTTA
1 TATATAGTATTACTTTTA
*
36191037 TATATAGTATTATTTTTA
1 TATATAGTATTACTTTTA
36191055 TATAT
1 TATAT
36191060 CATTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TATATAGTATTACTTTTA
Found at i:36191076 original size:3 final size:3
Alignment explanation
Indices: 36191044--36191127 Score: 50
Period size: 3 Copynumber: 28.0 Consensus size: 3
36191034 TTATATATAG
* * *
36191044 TAT TAT TTT TAT ATAT CAT TAT TTT TAT TAT TA- TACT TAT TAT T-T
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * *
36191089 TCAC TAT TGT TACT TAT TAT T-T TAT T-T TAA TAT TAT TAT
1 T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
36191128 GCATTATTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
2 8 0.13
3 44 0.72
4 9 0.15
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:36195893 original size:30 final size:30
Alignment explanation
Indices: 36195857--36195918 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
36195847 ACTTATTTTA
36195857 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
36195887 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
36195917 TT
1 TT
36195919 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:36197769 original size:32 final size:34
Alignment explanation
Indices: 36197727--36197791 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
36197717 CTACATACTT
* *
36197727 CATTTCTTTTAACGT-A-GTTTTTTTATGTTTTC
1 CATTTATTTTAACATAACGTTTTTTTATGTTTTC
*
36197759 CATTTATTTTAACATAACTTTTTTTTATGTTTT
1 CATTTATTTTAACATAACGTTTTTTTATGTTTT
36197792 TGAAACAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 13 0.46
33 1 0.04
34 14 0.50
ACGTcount: A:0.20, C:0.11, G:0.06, T:0.63
Consensus pattern (34 bp):
CATTTATTTTAACATAACGTTTTTTTATGTTTTC
Found at i:36203500 original size:69 final size:69
Alignment explanation
Indices: 36203404--36203599 Score: 329
Period size: 69 Copynumber: 2.8 Consensus size: 69
36203394 TCTCGAATGC
* * * *
36203404 ACAAATGAGAAAGAGAGGGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTACAG
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTACAG
36203469 ATAG
66 ATAG
*
36203473 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTCCAG
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTACAG
36203538 ATAG
66 ATAG
* *
36203542 ACAAATAAGAAAGAGAGTGTGGAAGCATGTTTGGGGGCATGGATTGGAGGTTGGGACA
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACA
36203600 GTCAAGGATA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 120 1.00
ACGTcount: A:0.34, C:0.09, G:0.37, T:0.20
Consensus pattern (69 bp):
ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTACAG
ATAG
Found at i:36205020 original size:30 final size:30
Alignment explanation
Indices: 36204981--36205040 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
36204971 CCCTATCATG
36204981 CCTTCAATCACCATCAATATCATCATCTTT
1 CCTTCAATCACCATCAATATCATCATCTTT
*
36205011 CCTTGAATCACCATCAATATCATCATCTTT
1 CCTTCAATCACCATCAATATCATCATCTTT
36205041 ACCCCATCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.32, G:0.02, T:0.37
Consensus pattern (30 bp):
CCTTCAATCACCATCAATATCATCATCTTT
Found at i:36207443 original size:19 final size:20
Alignment explanation
Indices: 36207401--36207444 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
36207391 AAAGCAAATA
36207401 GAAAATAGGAGAGCAAGAAT
1 GAAAATAGGAGAGCAAGAAT
*
36207421 GAAAATATGAGATG-AAG-AT
1 GAAAATAGGAGA-GCAAGAAT
36207440 GAAAA
1 GAAAA
36207445 GGGGAAGGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 14 0.64
21 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.27, T:0.14
Consensus pattern (20 bp):
GAAAATAGGAGAGCAAGAAT
Found at i:36207529 original size:21 final size:21
Alignment explanation
Indices: 36207505--36207544 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
36207495 CTTCATCATT
36207505 GCTAACGGGACTTGTAAAACA
1 GCTAACGGGACTTGTAAAACA
36207526 GCTAACGGGACTTGTAAAA
1 GCTAACGGGACTTGTAAAA
36207545 TCACCTGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (21 bp):
GCTAACGGGACTTGTAAAACA
Found at i:36210442 original size:36 final size:33
Alignment explanation
Indices: 36210401--36210488 Score: 86
Period size: 39 Copynumber: 2.5 Consensus size: 33
36210391 AAATTAGAAA
36210401 AAAATTATAAAAAAATAAAAATAGATAAAATTT
1 AAAATTATAAAAAAATAAAAATAGATAAAATTT
** *
36210434 AGATAAATTATTAAATTTTAATAAAAATATATAAAATTT
1 --A-AAATTA-TAAA--AAAATAAAAATAGATAAAATTT
*
36210473 AAAATTATTAAAAAAT
1 AAAATTATAAAAAAAT
36210489 TAGAAATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
33 3 0.07
35 4 0.09
36 12 0.28
37 5 0.12
39 19 0.44
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (33 bp):
AAAATTATAAAAAAATAAAAATAGATAAAATTT
Found at i:36210468 original size:20 final size:20
Alignment explanation
Indices: 36210414--36210474 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
36210404 ATTATAAAAA
*
36210414 AATAAAAATAGATAAAATTT
1 AATAAAAATATATAAAATTT
* *
36210434 AGAT-AAATTAT-TAAATTTT
1 A-ATAAAAATATATAAAATTT
36210453 AATAAAAATATATAAAATTT
1 AATAAAAATATATAAAATTT
36210473 AA
1 AA
36210475 AATTATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 2 0.06
19 14 0.42
20 15 0.45
21 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
AATAAAAATATATAAAATTT
Found at i:36210518 original size:23 final size:23
Alignment explanation
Indices: 36210505--36210564 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
36210495 TTTTTTTTAT
*
36210505 AAAAATTGTAAAATTTTACATTA
1 AAAAATTATAAAATTTTACATTA
36210528 AAAAATTATAAAATTTTACATTA
1 AAAAATTATAAAATTTTACATTA
36210551 AAAAATTATAAAAT
1 AAAAATTATAAAAT
36210565 GCATCAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (23 bp):
AAAAATTATAAAATTTTACATTA
Found at i:36210521 original size:22 final size:22
Alignment explanation
Indices: 36210479--36210564 Score: 86
Period size: 23 Copynumber: 3.8 Consensus size: 22
36210469 ATTTAAAATT
*
36210479 ATTAAAAAA-T-TAGAAATTTTT
1 ATTAAAAAATTGTA-AAATTTTA
*
36210500 TTTATAAAAATTGTAAAATTTTA
1 ATTA-AAAAATTGTAAAATTTTA
*
36210523 CATTAAAAAATTATAAAATTTTA
1 -ATTAAAAAATTGTAAAATTTTA
*
36210546 CATTAAAAAATTATAAAAT
1 -ATTAAAAAATTGTAAAAT
36210565 GCATCAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.05
22 5 0.09
23 44 0.77
24 5 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTAAAAAATTGTAAAATTTTA
Found at i:36211282 original size:11 final size:12
Alignment explanation
Indices: 36211266--36211294 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
36211256 TACAACGCAA
36211266 AAAAAATAT-AT
1 AAAAAATATAAT
36211277 AAAAAATATAAT
1 AAAAAATATAAT
36211289 AAAAAA
1 AAAAAA
36211295 GAAAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAAATATAAT
Found at i:36211904 original size:9 final size:9
Alignment explanation
Indices: 36211882--36211914 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
36211872 ATATAGTATG
36211882 TGTAT-TTA
1 TGTATATTA
*
36211890 TATATATTA
1 TGTATATTA
36211899 TGTATATTA
1 TGTATATTA
36211908 TGTATAT
1 TGTATAT
36211915 ATTAAATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (9 bp):
TGTATATTA
Found at i:36211995 original size:65 final size:64
Alignment explanation
Indices: 36211926--36212057 Score: 187
Period size: 65 Copynumber: 2.0 Consensus size: 64
36211916 TTAAATATCA
* *
36211926 TATTATCATGTAT-TTTATATATGTAT-ATATATATATTATATAAGTATATCTTCATGTAATATT
1 TATTATCAT-TATATGTATATATCTATAATATATAT-TTATATAAGTATATC-TCATGTAATATT
36211989 AG
63 AG
* *
36211991 TATTATTATTATATGTATATATCTTTAATATATATTTATATAAGTATATCTCATGTAATATTAG
1 TATTATCATTATATGTATATATCTATAATATATATTTATATAAGTATATCTCATGTAATATTAG
36212055 TAT
1 TAT
36212058 ATTATTAATG
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
64 20 0.33
65 33 0.54
66 8 0.13
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.52
Consensus pattern (64 bp):
TATTATCATTATATGTATATATCTATAATATATATTTATATAAGTATATCTCATGTAATATTAG
Found at i:36212127 original size:23 final size:25
Alignment explanation
Indices: 36212100--36212151 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
36212090 ATGTGTGTGC
36212100 ATATATATGTAAATATTTTA-ATATT
1 ATAT-TATGTAAATATTTTATATATT
** *
36212125 ATATTATGTGTATGTTTTATATATT
1 ATATTATGTAAATATTTTATATATT
36212150 AT
1 AT
36212152 GAACATGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (25 bp):
ATATTATGTAAATATTTTATATATT
Found at i:36215761 original size:21 final size:23
Alignment explanation
Indices: 36215723--36215803 Score: 89
Period size: 22 Copynumber: 3.6 Consensus size: 23
36215713 AAAATTATTA
* *
36215723 AAAAATTAGAAATTTTTTTA-A-T
1 AAAAATTATAAA-ATTTTTACATT
*
36215745 AAAAATTGTAAAA-TTTTACATT
1 AAAAATTATAAAATTTTTACATT
36215767 AAAAATTATAAAA-TTTTACATT
1 AAAAATTATAAAATTTTTACATT
36215789 AAAAAATTATAAAAT
1 -AAAAATTATAAAAT
36215804 GCATCAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
20 5 0.10
21 1 0.02
22 32 0.63
23 13 0.25
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
AAAAATTATAAAATTTTTACATT
Found at i:36216518 original size:11 final size:12
Alignment explanation
Indices: 36216502--36216530 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
36216492 TACAACGCAA
36216502 AAAAAATAT-AT
1 AAAAAATATAAT
36216513 AAAAAATATAAT
1 AAAAAATATAAT
36216525 AAAAAA
1 AAAAAA
36216531 GAAAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAAATATAAT
Found at i:36217105 original size:26 final size:26
Alignment explanation
Indices: 36217075--36217124 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
36217065 TTATAATTGT
*
36217075 TATATA-TATATGTTTTGTTATATACG
1 TATATAGTATATGTATT-TTATATACG
*
36217101 TATATAGTATGTGTATTTTATATA
1 TATATAGTATATGTATTTTATATA
36217125 TATTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (26 bp):
TATATAGTATATGTATTTTATATACG
Found at i:36217124 original size:20 final size:21
Alignment explanation
Indices: 36217101--36217142 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
36217091 GTTATATACG
*
36217101 TATATAGTATGTGTATT-TTA
1 TATATAGTATGTATATTATTA
*
36217121 TATATATTATGTATATTATTA
1 TATATAGTATGTATATTATTA
36217142 T
1 T
36217143 TTTTACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
TATATAGTATGTATATTATTA
Found at i:36217216 original size:21 final size:21
Alignment explanation
Indices: 36217192--36217231 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36217182 ATTCATGTAT
*
36217192 TTTATTATATATGTATATATC
1 TTTAATATATATGTATATATC
*
36217213 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
36217232 AGTATATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:36220881 original size:19 final size:21
Alignment explanation
Indices: 36220838--36220881 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
36220828 GCCCCCGCTC
36220838 TAAT-TAAAAAAATTAGAAAA
1 TAATATAAAAAAATTAGAAAA
*
36220858 AAATATAAAAAAA-TA-AAAA
1 TAATATAAAAAAATTAGAAAA
36220877 TAATA
1 TAATA
36220882 AAATTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 8 0.38
20 5 0.24
21 8 0.38
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (21 bp):
TAATATAAAAAAATTAGAAAA
Found at i:36220932 original size:15 final size:16
Alignment explanation
Indices: 36220902--36220938 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
36220892 TACAATTATT
36220902 AAATTTTAATAAATAA
1 AAATTTTAATAAATAA
36220918 AAATTTTAA-AAATAA
1 AAATTTTAATAAATAA
36220933 ACAATT
1 A-AATT
36220939 AGAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTTTAATAAATAA
Found at i:36221011 original size:24 final size:22
Alignment explanation
Indices: 36220952--36221013 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 22
36220942 AATTTTTTTA
*
36220952 TAAAGAATTGTAAAATTTTACAT
1 TAAA-AATTATAAAATTTTACAT
36220975 TAAAAATTCATAAAATTATTAACAT
1 TAAAAATT-ATAAAATT-TT-ACAT
36221000 TAAAAATTATAAAA
1 TAAAAATTATAAAA
36221014 AGCATCAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
22 4 0.11
23 11 0.31
24 8 0.23
25 12 0.34
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.35
Consensus pattern (22 bp):
TAAAAATTATAAAATTTTACAT
Found at i:36221712 original size:12 final size:13
Alignment explanation
Indices: 36221695--36221725 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
36221685 ATACAACGCA
36221695 AAAAAAATAT-AT
1 AAAAAAATATAAT
36221707 AAAAAAATATAAT
1 AAAAAAATATAAT
36221720 AAAAAA
1 AAAAAA
36221726 GAAAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAAAATATAAT
Found at i:36228145 original size:15 final size:15
Alignment explanation
Indices: 36228121--36228158 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
36228111 GAGGCCCCCA
*
36228121 TACCCGAAATGGTAC
1 TACCCAAAATGGTAC
36228136 TACCCAAAATGGTAC
1 TACCCAAAATGGTAC
36228151 TACCCAAA
1 TACCCAAA
36228159 TGCTAGTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.18
Consensus pattern (15 bp):
TACCCAAAATGGTAC
Found at i:36235106 original size:73 final size:70
Alignment explanation
Indices: 36234841--36235117 Score: 224
Period size: 73 Copynumber: 3.8 Consensus size: 70
36234831 TATGTGGATG
* * *
36234841 TTTC-ATTTCTGTTTTAAAAAAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCGGGGCAT
1 TTTCAATTTCTGTTTT--CAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTAAGCCTC-GGGCAC
*
36234905 GTCGAGGTAT
62 GT-GAGGTAA
* ** * * *
36234915 TTTCAAATTCTACTTTCAAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCT-TGGCTTA
1 TTTCAATTTCTGTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGC--A
* *
36234979 CGTGTTGAGTCAC
61 CGTG-AG-GT-AA
* * *
36234992 TTTCAATTTCTGTTTT----TATCAACTCATATTGCGGGAAGTGAGTTAAGCCTCAGGGCACGCT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC-GGGCACG-T
36235053 GAGGTAA
64 GAGGTAA
*
36235060 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTAAGCCTCGG
1 TTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGG
36235118 CTCACATGCT
Statistics
Matches: 162, Mismatches: 24, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
68 16 0.10
69 3 0.02
70 33 0.20
71 2 0.01
72 5 0.03
73 34 0.21
74 5 0.03
75 34 0.21
76 16 0.10
77 14 0.09
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (70 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGCACGTGA
GGTAA
Found at i:36235151 original size:143 final size:144
Alignment explanation
Indices: 36234863--36235152 Score: 345
Period size: 143 Copynumber: 2.0 Consensus size: 144
36234853 TTTAAAAAAA
* * * * *
36234863 ATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGTCGAGGTATTTTCAAATTCTAC
1 ATCAACTCATAATTGCGAGAAGTGAGTTAAGCCTCAGGGCACGTCGAGGTAATTTCAAATTCTAC
* * * * * *
36234928 TTTCAAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTTGGCTTACGTGTTGAGTCACT
66 TTTC--AAAAAATCAACTCATATCGAGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGAGTCACT
*
36234993 TTCAATTTCTGTTTTT
129 TTCAATTTCTATTTTT
* * *
36235009 ATCAACTCAT-ATTGCGGGAAGTGAGTTAAGCCTCAGGGCACG-CTGAGGTAATTTCAATTTCTG
1 ATCAACTCATAATTGCGAGAAGTGAGTTAAGCCTCAGGGCACGTC-GAGGTAATTTCAAATTCTA
* * *
36235072 TTTGTC-AAAAATCAACTCATATCGCGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGAGGTC-T
65 CTT-TCAAAAAATCAACTCATATCGAGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGA-GTCAC
36235135 TTTCAATTTCTATTTTT
128 TTTCAATTTCTATTTTT
36235152 A
1 A
36235153 ATTTCTGTTT
Statistics
Matches: 123, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
143 62 0.50
144 4 0.03
145 45 0.37
146 12 0.10
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (144 bp):
ATCAACTCATAATTGCGAGAAGTGAGTTAAGCCTCAGGGCACGTCGAGGTAATTTCAAATTCTAC
TTTCAAAAAATCAACTCATATCGAGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGAGTCACTTT
CAATTTCTATTTTT
Found at i:36235268 original size:89 final size:87
Alignment explanation
Indices: 36235060--36236449 Score: 988
Period size: 89 Copynumber: 16.6 Consensus size: 87
36235050 GCTGAGGTAA
* * *
36235060 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTAAGCCTC-GGCTCACA
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
* ** *
36235124 TGCTGAGGTCTTTTCAATTTCTATT
63 CGCTGAGGTAATTTCAATTTCTGTT
* *
36235149 TTT-AATTTCTGTTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
36235213 TGAGGTAATTTCAATTTCTGTT
66 TGAGGTAATTTCAATTTCTGTT
* *
36235235 TTCTCCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TT-T-CAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
36235300 GCTGAGGTATTTTCAATTTCTGCT
64 GCTGAGGTAATTTCAATTTCTGTT
* * *
36235324 TTTCAATTTCTGCTTTCCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * *
36235389 GCTGAGGTGATTTCGATTTATGTT
64 GCTGAGGTAATTTCAATTTCTGTT
* *
36235413 TGTCAA------------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * *
36235466 TGAGGTATTTTCGATTTCTGCT
66 TGAGGTAATTTCAATTTCTGTT
* * *
36235488 CTTCAA------------AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACAC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
36235541 TGAGGTAATTTCAATTTCTGTT
66 TGAGGTAATTTCAATTTCTGTT
* ** *** * * * * * * *
36235563 TGTCAGAAATC---AACTC--ATATC-GC-GAGA--G-GTGAGTTGAGCCTCG-G-CTC---ACA
1 TTTCA-ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG--TTGAGCCTCAGGACA
* ** *
36235613 TGCTGAGGTCTTTTCAATTTCTATT
63 CGCTGAGGTAATTTCAATTTCTGTT
* *
36235638 TTT-AATTTCTGTTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
36235702 TGAGGTAATTTCAATTTCTGTT
66 TGAGGTAATTTCAATTTCTGTT
* * * *
36235724 TTCTCCAATTTATGTTTTTTAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TT-T-CAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * **
36235789 CCTGAGGTATTTTCAATTTCTACT
64 GCTGAGGTAATTTCAATTTCTGTT
* *
36235813 TTCCAA------------AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * *
36235866 TGAGGTGATTTCGATTTATGTT
66 TGAGGTAATTTCAATTTCTGTT
* *
36235888 TGTCAA------------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* ** *
36235941 TGAGGTATTTTTGATTTCTGCT
66 TGAGGTAATTTCAATTTCTGTT
* * * * *
36235963 TTCCAATTTCCGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTGAGCCTTAGGACA
1 TTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGACA
36236028 CGCTGAGGTAATTTCAATTTCTGTT
63 CGCTGAGGTAATTTCAATTTCTGTT
* ** *** * * * * * * *
36236053 TGTCAAAAATC---AACTC--ATATC-GC-GAGA--G-GTGAGATGAGCCTCG-G-CTC---ACA
1 TTTC-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG--TTGAGCCTCAGGACA
* ** *
36236103 TGCTGAGGTCTTTTCAATTTCTATT
63 CGCTGAGGTAATTTCAATTTCTGTT
* *
36236128 TTT-AATTTCTGTTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
36236192 TGAGGTAATTTTAATTTCTGTT
66 TGAGGTAATTTCAATTTCTGTT
* * *
36236214 TTCTCCAATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TT-T-CAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
36236279 GCTGAGGTATTTTCAATTTCTGTT
64 GCTGAGGTAATTTCAATTTCTGTT
* * * *
36236303 TTTCAATTTCCGCTTTTCAAAAAAAAACCAACTCATATTACGAGAGGTGAGTTGAGCCTC-GGCT
1 TTTCAATTTCTGTTTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
* * *
36236367 CACATGCTGAGGTATTTTCAATTTATGTTT
60 -ACACGCTGAGGTAATTTCAATTTCTG-TT
* * *
36236397 TTTCAATTTATATTTTTCAAAGATCAACTCATATTGC-A-ATGGTGAGTTGAGCC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGA-GGTGAGTTGAGCC
36236450 GTGGGTTCAC
Statistics
Matches: 1054, Mismatches: 167, Indels: 160
0.76 0.12 0.12
Matches are distributed among these distances:
73 7 0.01
74 1 0.00
75 313 0.30
76 5 0.00
78 20 0.02
79 13 0.01
80 9 0.01
81 6 0.01
82 7 0.01
83 27 0.03
84 4 0.00
86 80 0.08
87 30 0.03
88 53 0.05
89 347 0.33
90 54 0.05
91 39 0.04
93 23 0.02
94 16 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (87 bp):
TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTT
Found at i:36235328 original size:14 final size:14
Alignment explanation
Indices: 36235309--36235339 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
36235299 CGCTGAGGTA
36235309 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
36235323 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
36235337 TTT
1 TTT
36235340 CCAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.19, G:0.06, T:0.61
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:36235465 original size:75 final size:74
Alignment explanation
Indices: 36235324--36235724 Score: 391
Period size: 75 Copynumber: 5.2 Consensus size: 74
36235314 AATTTCTGCT
* * *
36235324 TTTCAATTTCTGCTTT-CCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCGATTTCTG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
36235388 CGCTGAGGTGA
65 CGCTGAGGT-A
* *
36235399 TTTCGATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTCGATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
36235464 GCTGAGGTA
66 GCTGAGGTA
* *
36235473 TTTTCGATTTCTGCTCT-TCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGAC
1 -TTTCGATTTCTG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
36235537 ACACTGAGGTAA
64 ACGCTGAGGT-A
* * *
36235549 TTTCAATTTCTGTTTGTC--AGAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCA
1 TTTCGATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---A
* *
36235611 CATGCTGAGGTCT
63 CACGCTGAGGT-A
* * * *
36235624 TTTCAATTTCTATTT-TTAATTTCTGTTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGA
1 TTTCGATTTCTGTTTGTCAA------------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
36235688 GCCTCAGGACATGCTGAGGTAA
54 GCCTCAGGACACGCTGAGGT-A
*
36235710 TTTCAATTTCTGTTT
1 TTTCGATTTCTGTTT
36235725 TCTCCAATTT
Statistics
Matches: 276, Mismatches: 27, Indels: 35
0.82 0.08 0.10
Matches are distributed among these distances:
72 2 0.01
73 35 0.13
74 7 0.03
75 166 0.60
76 3 0.01
86 26 0.09
88 35 0.13
89 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (74 bp):
TTTCGATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTA
Found at i:36235758 original size:489 final size:492
Alignment explanation
Indices: 36235009--36236396 Score: 2265
Period size: 489 Copynumber: 2.8 Consensus size: 492
36234999 TTCTGTTTTT
* * * *
36235009 ATCAACTCATATTGCGGGAAGTGAGTTAAGCCTCAGGGCACGCTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
*
36235074 TGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGAGGTCTTTTC
66 TGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTC
36235139 AATTTCTATTTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTC
131 AATTTCTATTTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTC
36235204 AGGACATGCTGAGGTAATTTCAATTTCTGTTTTCTCCAATTTATGTTTTTCAAAAATCAACTCAT
196 AGGACATGCTGAGGTAATTTCAATTTCTGTTTTCTCCAATTTATGTTTTTCAAAAATCAACTCAT
36235269 ATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTC
261 ATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTC
36235334 TGCTTTCCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGA
326 -GCTTTCCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGA
36235399 TTTCGATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
390 TTTCGATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
*
36235464 GCTGAGGTA-T-TTTC-G-ATTTCTGCTCTTCAAAAAA
455 GCTGAGGTATTATTTCTGCATTTCCGCTCTTCAAAAAA
* *
36235498 ATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
*
36235563 TGTCAGAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTC
66 TGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTC
36235628 AATTTCTATTTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTC
131 AATTTCTATTTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTC
* *
36235693 AGGACATGCTGAGGTAATTTCAATTTCTGTTTTCTCCAATTTATGTTTTTTAGAAATCAACTCAT
196 AGGACATGCTGAGGTAATTTCAATTTCTGTTTTCTCCAATTTATGTTTTTCAAAAATCAACTCAT
*
36235758 ATTGCGAGAGGTGAGTTGAGCCTCAGGGCACCCTGAGGTATTTTCAA-TT-T-C---T--A----
261 ATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTC
36235811 -CTTTCCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGAT
326 GCTTTCCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGAT
36235875 TTCGATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
391 TTCGATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
36235940 CTGAGGTATTTTTGATTTCTGCTTTCCAATTTCCGCTCTTCAAAAAA
456 CTGAGGTA---TT-ATTTCTG-----C-ATTTCCGCTCTTCAAAAAA
*
36235987 ATCAACTCATATTGCGAGAGGTGAGTTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTCTGT
1 ATCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
*
36236052 TTGTCAAAAATCAACTCATATCGCGAGAGGTGAGATGAGCCTCGGCTCACATGCTGAGGTCTTTT
65 TTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTT
36236117 CAATTTCTATTTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCT
130 CAATTTCTATTTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCT
* *
36236182 CAGGACATGCTGAGGTAATTTTAATTTCTGTTTTCTCCAATTTATGTTTTTCAAAAATCAGCTCA
195 CAGGACATGCTGAGGTAATTTCAATTTCTGTTTTCTCCAATTTATGTTTTTCAAAAATCAACTCA
*
36236247 TATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTT
260 TATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTT
* * ** *
36236312 CCGCTTTTCAAAAAAAAACCAACTCATATTACGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTG
325 -CGC-TTTC-CAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG---ACACGCTG
*
36236376 AGGT-ATTTTCAATTTATGTTT
384 AGGTGA-TTTCGATTTATGTTT
36236397 TTTCAATTTA
Statistics
Matches: 835, Mismatches: 29, Indels: 51
0.91 0.03 0.06
Matches are distributed among these distances:
475 137 0.16
479 1 0.00
481 5 0.01
482 1 0.00
483 1 0.00
486 1 0.00
487 1 0.00
488 2 0.00
489 338 0.40
490 273 0.33
491 2 0.00
492 1 0.00
496 1 0.00
498 1 0.00
504 1 0.00
505 6 0.01
506 37 0.04
507 1 0.00
508 25 0.03
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (492 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
TGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTC
AATTTCTATTTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTC
AGGACATGCTGAGGTAATTTCAATTTCTGTTTTCTCCAATTTATGTTTTTCAAAAATCAACTCAT
ATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTC
GCTTTCCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGAT
TTCGATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
CTGAGGTATTATTTCTGCATTTCCGCTCTTCAAAAAA
Found at i:36235869 original size:75 final size:74
Alignment explanation
Indices: 36235746--36235968 Score: 331
Period size: 75 Copynumber: 3.0 Consensus size: 74
36235736 TGTTTTTTAG
* *
36235746 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACCCTGAGGTATTTTCAATTTCTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCT-
36235811 CTTTCCAAAA
65 CTTTCCAAAA
* * *
36235821 AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGA-TTTCGATTTAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT-ATTTTCGATTTCT
* *
36235885 GTTTGTCAAAA
65 CTTT-CCAAAA
*
36235896 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTTGATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCT-
36235961 CTTTCCAA
65 CTTTCCAA
36235969 TTTCCGCTCT
Statistics
Matches: 131, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
74 4 0.03
75 123 0.94
76 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (74 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTC
TTTCCAAAA
Found at i:36236307 original size:14 final size:14
Alignment explanation
Indices: 36236288--36236322 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
36236278 CGCTGAGGTA
* *
36236288 TTTTCAATTTCTGT
1 TTTTCAATTTCCGC
36236302 TTTTCAATTTCCGC
1 TTTTCAATTTCCGC
36236316 TTTTCAA
1 TTTTCAA
36236323 AAAAAAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGC
Found at i:36236401 original size:15 final size:15
Alignment explanation
Indices: 36236381--36236413 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36236371 TGCTGAGGTA
*
36236381 TTTTCAATTTATGTT
1 TTTTCAATTTATATT
36236396 TTTTCAATTTATATT
1 TTTTCAATTTATATT
36236411 TTT
1 TTT
36236414 CAAAGATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTTCAATTTATATT
Found at i:36238474 original size:26 final size:27
Alignment explanation
Indices: 36238419--36238507 Score: 80
Period size: 27 Copynumber: 3.4 Consensus size: 27
36238409 ATAATTGTTA
* *
36238419 ATATAGTATATGTTTTGTTATATACGT
1 ATATAGTATATGTATTGTTATATACAT
* *
36238446 ATATAGTATGTGTATT-TTATATATAT
1 ATATAGTATATGTATTGTTATATACAT
*
36238472 ATATA-T-TAT-TATTTTTACTATACAT
1 ATATAGTATATGTATTGTTA-TATACAT
36238497 AT-TACGTATAT
1 ATATA-GTATAT
36238508 ATTAAATATC
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.08
24 7 0.14
25 9 0.18
26 14 0.27
27 17 0.33
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (27 bp):
ATATAGTATATGTATTGTTATATACAT
Found at i:36238557 original size:21 final size:21
Alignment explanation
Indices: 36238533--36238572 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36238523 AGTCATGTAT
*
36238533 TTTATTATATATGTATATATC
1 TTTAATATATATGTATATATC
*
36238554 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
36238573 AGTATATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:36238672 original size:24 final size:25
Alignment explanation
Indices: 36238645--36238695 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
36238635 ATGTGTGTAC
36238645 ATATTATGTAAATGTTTTA-ATATT
1 ATATTATGTAAATGTTTTATATATT
**
36238669 ATATTATGTGTATGTTTTATATATT
1 ATATTATGTAAATGTTTTATATATT
36238694 AT
1 AT
36238696 GAACATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (25 bp):
ATATTATGTAAATGTTTTATATATT
Found at i:36239774 original size:10 final size:10
Alignment explanation
Indices: 36239759--36239950 Score: 77
Period size: 10 Copynumber: 19.8 Consensus size: 10
36239749 TTGGTACGAT
36239759 AATTTTTATA
1 AATTTTTATA
36239769 AATTTTTTATGA
1 AA-TTTTTAT-A
36239781 AA--TTTAT-
1 AATTTTTATA
36239788 -ATTTCTT-TA
1 AATTT-TTATA
*
36239797 CATTTTGTATA
1 AATTTT-TATA
* *
36239808 ATTTTCTTATG
1 AATTT-TTATA
* *
36239819 ACTTTATA-A
1 AATTTTTATA
36239828 AA-TTTTATA
1 AATTTTTATA
*
36239837 TATTTTTAT-
1 AATTTTTATA
*
36239846 -ATTTCTATA
1 AATTTTTATA
*
36239855 TA-TTTTAT-
1 AATTTTTATA
36239863 AATTTTTATA
1 AATTTTTATA
36239873 AATTTTTATA
1 AATTTTTATA
* *
36239883 AAATTTTACA
1 AATTTTTATA
*
36239893 ATTTTTTATA
1 AATTTTTATA
* *
36239903 TATTTTTTTA
1 AATTTTTATA
*
36239913 CGATTTTTAT-
1 -AATTTTTATA
* *
36239923 ATTTTTTCT-
1 AATTTTTATA
*
36239932 AATATTTAATA
1 AAT-TTTTATA
36239943 AATTTTTA
1 AATTTTTA
36239951 AGATTTGATT
Statistics
Matches: 134, Mismatches: 29, Indels: 38
0.67 0.14 0.19
Matches are distributed among these distances:
6 1 0.01
8 14 0.10
9 30 0.22
10 56 0.42
11 29 0.22
12 4 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (10 bp):
AATTTTTATA
Found at i:36239854 original size:18 final size:17
Alignment explanation
Indices: 36239829--36239882 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
36239819 ACTTTATAAA
36239829 ATTTTATATATTTTTAT
1 ATTTTATATATTTTTAT
36239846 ATTTCTATATA-TTTTAT
1 ATTT-TATATATTTTTAT
*
36239863 AATTTTTATAAATTTTTAT
1 -A-TTTTATATATTTTTAT
36239882 A
1 A
36239883 AAATTTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 10 0.31
18 13 0.41
19 9 0.28
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTATATATTTTTAT
Found at i:36239886 original size:11 final size:10
Alignment explanation
Indices: 36239821--36239950 Score: 83
Period size: 10 Copynumber: 13.4 Consensus size: 10
36239811 TTCTTATGAC
*
36239821 TTTATAAAAT
1 TTTATAAATT
*
36239831 TTTATATATT
1 TTTATAAATT
36239841 TTTAT--ATT
1 TTTATAAATT
* *
36239849 TCTATATA-T
1 TTTATAAATT
36239858 TTTAT-AATT
1 TTTATAAATT
36239867 TTTATAAATT
1 TTTATAAATT
*
36239877 TTTATAAAAT
1 TTTATAAATT
* *
36239887 TTTACAATTT
1 TTTATAAATT
*
36239897 TTTATATATT
1 TTTATAAATT
* *
36239907 TTTTTACGATT
1 TTTATA-AATT
*
36239918 TTTAT-ATTT
1 TTTATAAATT
*
36239927 TTTCT-AATAT
1 TTTATAAAT-T
*
36239937 TTAATAAATT
1 TTTATAAATT
36239947 TTTA
1 TTTA
36239951 AGATTTGATT
Statistics
Matches: 91, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
8 8 0.09
9 19 0.21
10 54 0.59
11 10 0.11
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTATAAATT
Found at i:36239927 original size:30 final size:29
Alignment explanation
Indices: 36239821--36239938 Score: 105
Period size: 30 Copynumber: 4.0 Consensus size: 29
36239811 TTCTTATGAC
*
36239821 TTTATAAAATTTTATATATTTT-TATATT
1 TTTATAAAATTTTATATTTTTTATATATT
* * * *
36239849 TCTAT-ATATTTTATAATTTTTATAAATT
1 TTTATAAAATTTTATATTTTTTATATATT
*
36239877 TTTATAAAATTTTACAATTTTTTATATATT
1 TTTATAAAATTTTA-TATTTTTTATATATT
* * * *
36239907 TTTTTACGATTTTTATATTTTTTCTAATATT
1 TTTATA-AAATTTTATATTTTTTAT-ATATT
36239938 T
1 T
36239939 AATAAATTTT
Statistics
Matches: 70, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
27 13 0.19
28 13 0.19
29 7 0.10
30 25 0.36
31 12 0.17
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTATAAAATTTTATATTTTTTATATATT
Found at i:36253860 original size:26 final size:26
Alignment explanation
Indices: 36253825--36253878 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
36253815 AGCAATAGTA
36253825 AAATAAAGATATTAATACAT-AAATAT
1 AAATAAAGATA-TAATACATAAAATAT
* *
36253851 AAATAGAGATATAATACCTAAAATAT
1 AAATAAAGATATAATACATAAAATAT
36253877 AA
1 AA
36253879 CAATAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (26 bp):
AAATAAAGATATAATACATAAAATAT
Found at i:36253932 original size:19 final size:16
Alignment explanation
Indices: 36253902--36253949 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 16
36253892 ACAAGTAGGC
*
36253902 AAGAAAAATAAATAGAT
1 AAGAAAACTAAATA-AT
36253919 AAATGAAAACTAAATAAT
1 -AA-GAAAACTAAATAAT
36253937 AAGAAAAC-AAATA
1 AAGAAAACTAAATA
36253950 TAGGTGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.18
16 6 0.21
17 2 0.07
18 4 0.14
19 11 0.39
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.17
Consensus pattern (16 bp):
AAGAAAACTAAATAAT
Found at i:36253969 original size:3 final size:3
Alignment explanation
Indices: 36253961--36254318 Score: 114
Period size: 3 Copynumber: 118.3 Consensus size: 3
36253951 AGGTGAAAGT
* * * * * ** *
36253961 ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ACA ATA ATA AAA AGG GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
36254008 ATA ATA AT- ATA TTAA ATA GTA A-A ATAA ATA ATA GTA ACA GTA ATTA
1 ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA ATA A-TA
* * *
36254054 A-A AAA ATG ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA GA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* ** *
36254098 ATTA AGGA ATA ATA ATA AT- ATCA ACC AT- ATT ATAA ATA ATAA ATA
1 A-TA A-TA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA AT-A ATA
* * * * * *
36254143 AAA ACA AAA ATC ATA ATA ATA A-A AT- ATA AGTA ATA GTA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * ** * *
36254187 ATG GTA ATA ACG ATA ATAA ATA ATA GTA GTA GATA ATGA A-A ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA -ATA AT-A ATA ATA ATA
* ** *
36254234 ATA GTA ATA ATA ATA ATA ATGA A-A ATA GGGA A-A ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA -ATA ATA ATA ATA ATA ATA
* * *
36254279 ATG ATA ATA A-A TATA AGTA ATA GTA A-A ATA ATA TTA ATA A
1 ATA ATA ATA ATA -ATA A-TA ATA ATA ATA ATA ATA ATA ATA A
36254319 ATTAATTAAT
Statistics
Matches: 255, Mismatches: 70, Indels: 60
0.66 0.18 0.16
Matches are distributed among these distances:
2 25 0.10
3 194 0.76
4 36 0.14
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:36255395 original size:11 final size:11
Alignment explanation
Indices: 36255368--36255414 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
36255358 GGGCTGATAG
*
36255368 TTGGGTTTAGGT
1 TTGGGTTT-GTT
*
36255380 TTGGGTTGGTT
1 TTGGGTTTGTT
*
36255391 TTGGGTTTGTA
1 TTGGGTTTGTT
36255402 TTGGGTTTGTT
1 TTGGGTTTGTT
36255413 TT
1 TT
36255415 AGCCCGGGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 23 0.77
12 7 0.23
ACGTcount: A:0.04, C:0.00, G:0.38, T:0.57
Consensus pattern (11 bp):
TTGGGTTTGTT
Found at i:36255410 original size:17 final size:17
Alignment explanation
Indices: 36255368--36255410 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
36255358 GGGCTGATAG
* *
36255368 TTGGGTTTAGGTTTGGG
1 TTGGGTTTGGGTTTGGA
* *
36255385 TTGGTTTTGGGTTTGTA
1 TTGGGTTTGGGTTTGGA
36255402 TTGGGTTTG
1 TTGGGTTTG
36255411 TTTTAGCCCG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.05, C:0.00, G:0.42, T:0.53
Consensus pattern (17 bp):
TTGGGTTTGGGTTTGGA
Found at i:36255809 original size:41 final size:42
Alignment explanation
Indices: 36255764--36255876 Score: 111
Period size: 45 Copynumber: 2.6 Consensus size: 42
36255754 GATTGTTTTG
*
36255764 ATCTGCTCTACTGCAACTTCAGAGAGAGATTT-ATAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGAGATTTGATAACTTCA
* * * * * *
36255805 ATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTACCTTCA
1 ATCTGCTCCACTGCAACTTCA--GAGA-GAGATTTGATAACTTCA
* *
36255850 GTCTGCTCCACTGCAACTTCAGGGAGA
1 ATCTGCTCCACTGCAACTTCAGAGAGA
36255877 TAAGACTAGT
Statistics
Matches: 55, Mismatches: 13, Indels: 7
0.73 0.17 0.09
Matches are distributed among these distances:
41 18 0.33
42 1 0.02
43 5 0.09
44 6 0.11
45 25 0.45
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATCTGCTCCACTGCAACTTCAGAGAGAGATTTGATAACTTCA
Done.