Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007834.1 Hibiscus syriacus cultivar Beakdansim tig00110183_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 925658
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:357351 original size:23 final size:22
Alignment explanation
Indices: 357325--357368 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
357315 TATAAAAAAT
357325 TATTTTTTATTAAATATTTTTAG
1 TATTTTTTATTAAAT-TTTTTAG
*
357348 TATTTTTTATTTAATTTTTTA
1 TATTTTTTATTAAATTTTTTA
357369 AATAATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TATTTTTTATTAAATTTTTTAG
Found at i:358715 original size:26 final size:26
Alignment explanation
Indices: 358644--358709 Score: 123
Period size: 26 Copynumber: 2.5 Consensus size: 26
358634 TTTGTTAGGG
*
358644 ACGAACTTATAAAATTTTAAAAGATA
1 ACGAACTTATAAAATTTTAAAAGAGA
358670 ACGAACTTATAAAATTTTAAAAGAGA
1 ACGAACTTATAAAATTTTAAAAGAGA
358696 ACGAACTTATAAAA
1 ACGAACTTATAAAA
358710 AATTAAGAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (26 bp):
ACGAACTTATAAAATTTTAAAAGAGA
Found at i:358722 original size:24 final size:25
Alignment explanation
Indices: 358644--358724 Score: 110
Period size: 26 Copynumber: 3.2 Consensus size: 25
358634 TTTGTTAGGG
*
358644 ACGAACTTATAAAATTTTAAAAGATA
1 ACGAACTTATAAAATTTT-AAAGAGA
358670 ACGAACTTATAAAATTTTAAAAGAGA
1 ACGAACTTATAAAATTTT-AAAGAGA
**
358696 ACGAACTTATAAAAAATT-AAGAGA
1 ACGAACTTATAAAATTTTAAAGAGA
358720 ACGAA
1 ACGAA
358725 AACATAATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
24 11 0.21
26 41 0.79
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.25
Consensus pattern (25 bp):
ACGAACTTATAAAATTTTAAAGAGA
Found at i:358954 original size:22 final size:21
Alignment explanation
Indices: 358926--358976 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
358916 GCGAATATGT
358926 AAATCGCATTGCGATTTTTCCA
1 AAATCGCATTGCGA-TTTTCCA
* *
358948 AATTCGCGTTGCGATTTTCCA
1 AAATCGCATTGCGATTTTCCA
358969 AAATCGCA
1 AAATCGCA
358977 ACATATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (21 bp):
AAATCGCATTGCGATTTTCCA
Found at i:359179 original size:20 final size:20
Alignment explanation
Indices: 358986--359182 Score: 277
Period size: 20 Copynumber: 9.8 Consensus size: 20
358976 AACATATAAA
358986 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
* * *
359006 TCAAATTCGCAACACAAAAG
1 TCAAATTCGCAACGCGATAG
359026 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
359046 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
359066 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
*
359086 TCAATTTCGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
* * * *
359106 TCAATTTCGCAACACAAAAG
1 TCAAATTCGCAACGCGATAG
* * * *
359126 TCAAATTCACAACACAAAAG
1 TCAAATTCGCAACGCGATAG
*
359146 TCAAATTTGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
359166 TCAAATTCGCAACGCGA
1 TCAAATTCGCAACGCGA
359183 AACACAATAT
Statistics
Matches: 159, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 159 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
TCAAATTCGCAACGCGATAG
Found at i:361965 original size:42 final size:42
Alignment explanation
Indices: 361918--362016 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
361908 GACGCACCTA
* *
361918 TCATCATTCAAGAGGCGCCTCCTA-TCATTCAAGAGGCCCCTC
1 TCATCATTCAAGAGGCCCCTCCCACT-ATTCAAGAGGCCCCTC
* * *
361960 TCATCA-TCGAAGAAGCCCCTCCCACTGTTCAAGAGGCCCCTG
1 TCATCATTC-AAGAGGCCCCTCCCACTATTCAAGAGGCCCCTC
*
362002 TCATCGTTCAAGAGG
1 TCATCATTCAAGAGG
362017 TCCCGTCTGC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.04
42 42 0.89
43 3 0.06
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.22
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCCCTCCCACTATTCAAGAGGCCCCTC
Found at i:362010 original size:21 final size:21
Alignment explanation
Indices: 361918--362016 Score: 96
Period size: 21 Copynumber: 4.7 Consensus size: 21
361908 GACGCACCTA
*
361918 TCATCATTCAAGAGGCGCCTC
1 TCATCATTCAAGAGGCCCCTC
361939 -CTATCATTCAAGAGGCCCCTC
1 TC-ATCATTCAAGAGGCCCCTC
*
361960 TCATCA-TCGAAGAAGCCCCTC
1 TCATCATTC-AAGAGGCCCCTC
* * *
361981 CCA-CTGTTCAAGAGGCCCCTG
1 TCATC-ATTCAAGAGGCCCCTC
*
362002 TCATCGTTCAAGAGG
1 TCATCATTCAAGAGG
362017 TCCCGTCTGC
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
20 4 0.06
21 57 0.88
22 4 0.06
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.22
Consensus pattern (21 bp):
TCATCATTCAAGAGGCCCCTC
Found at i:363289 original size:23 final size:24
Alignment explanation
Indices: 363238--363289 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
363228 TTTTGTTGTT
363238 TGTTGGTTTTAGATGCGTAGAAAG
1 TGTTGGTTTTAGATGCGTAGAAAG
* *
363262 TGTTGGTTTTAGATGTGTA-TAAG
1 TGTTGGTTTTAGATGCGTAGAAAG
363285 TGTTG
1 TGTTG
363290 TTTGAGCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (24 bp):
TGTTGGTTTTAGATGCGTAGAAAG
Found at i:363535 original size:66 final size:64
Alignment explanation
Indices: 363407--363550 Score: 234
Period size: 66 Copynumber: 2.2 Consensus size: 64
363397 ATTTACATTG
363407 AAAGTTGATTTGTTTAATTGACGAGGAAATAAGAATTATTTTTTACTTGTTTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGACGAGGAAATAAGAATTATTTTTTACTTGTTTAATTGATTTGTA
* * * *
363471 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGACGAGGAAATAAGAATTA-TTTTTTACTTGTTTAATTGATTTGT
363536 A
64 A
363537 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
363551 ATTTTAAATT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
64 17 0.23
65 18 0.24
66 39 0.53
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (64 bp):
AAAGTTGATTTGTTTAATTGACGAGGAAATAAGAATTATTTTTTACTTGTTTAATTGATTTGTA
Found at i:365238 original size:35 final size:35
Alignment explanation
Indices: 365183--365277 Score: 156
Period size: 34 Copynumber: 2.7 Consensus size: 35
365173 CTTTCGCAAC
* *
365183 GCGAAAGTAAAATTCGCAACGCGAAAATAAGCGTT
1 GCGATAGTCAAATTCGCAACGCGAAAATAAGCGTT
365218 GCGATAGTCAAATTCGCAACGCG-AAATAAGCGTT
1 GCGATAGTCAAATTCGCAACGCGAAAATAAGCGTT
*
365252 GTGATAGTCAAATTCGCAACGCGAAA
1 GCGATAGTCAAATTCGCAACGCGAAA
365278 GTCAAATTCG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
34 33 0.59
35 23 0.41
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (35 bp):
GCGATAGTCAAATTCGCAACGCGAAAATAAGCGTT
Found at i:365295 original size:20 final size:20
Alignment explanation
Indices: 365247--365295 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
365237 CGCGAAATAA
* *
365247 GCGTTGTGATAGTCAAATTC
1 GCGTTGCGAAAGTCAAATTC
***
365267 GCAACGCGAAAGTCAAATTC
1 GCGTTGCGAAAGTCAAATTC
365287 GCGTTGCGA
1 GCGTTGCGA
365296 TTTCGCTTTG
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (20 bp):
GCGTTGCGAAAGTCAAATTC
Found at i:365360 original size:20 final size:20
Alignment explanation
Indices: 365337--365378 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
365327 TATTTCGCGA
*
365337 TGCGAATTTTACTTTCACGT
1 TGCGAATTTGACTTTCACGT
*
365357 TGCGAATTTGACTTTCGCGT
1 TGCGAATTTGACTTTCACGT
365377 TG
1 TG
365379 ATCGCAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (20 bp):
TGCGAATTTGACTTTCACGT
Found at i:365683 original size:18 final size:18
Alignment explanation
Indices: 365660--365695 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
365650 AAGCCGGTTG
*
365660 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
365678 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
365696 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:367964 original size:24 final size:24
Alignment explanation
Indices: 367932--367985 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
367922 CCATCACATC
367932 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
*
367956 ATCAAAATCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
367980 ATCAAA
1 ATCAAA
367986 TTTCGAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:367999 original size:24 final size:24
Alignment explanation
Indices: 367932--367999 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
367922 CCATCACATC
* *
367932 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAATACTGACCAAG
** *
367956 ATCAAAATCCGGGTATTGACCAAG
1 ATCAAAATCCGAATACTGACCAAG
* *
367980 ATCAAATTTCGAATACTGAC
1 ATCAAAATCCGAATACTGAC
368000 TAGTACTCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAATACTGACCAAG
Found at i:368964 original size:20 final size:20
Alignment explanation
Indices: 368939--369073 Score: 114
Period size: 20 Copynumber: 6.8 Consensus size: 20
368929 TTGTGAAATT
368939 AAATTCGTGTTGCGAATTTG
1 AAATTCGTGTTGCGAATTTG
*
368959 AAATTC-AGTTGCGAATTTG
1 AAATTCGTGTTGCGAATTTG
*
368978 AAATCCCGTGTTGCGAATTTG
1 AAAT-TCGTGTTGCGAATTTG
** *
368999 ACTTTTGTGTTGCGAATTTG
1 AAATTCGTGTTGCGAATTTG
* *
369019 -ACTATCGCGTTGCGAATTTG
1 AAAT-TCGTGTTGCGAATTTG
* *
369039 -ACTATCGCGTTGCGAATTTG
1 AAAT-TCGTGTTGCGAATTTG
** *
369059 ACTTTTGTGTTGCGA
1 AAATTCGTGTTGCGA
369074 TTTATAGATT
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
19 17 0.18
20 64 0.67
21 15 0.16
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.39
Consensus pattern (20 bp):
AAATTCGTGTTGCGAATTTG
Found at i:369011 original size:60 final size:60
Alignment explanation
Indices: 368945--369073 Score: 174
Period size: 60 Copynumber: 2.1 Consensus size: 60
368935 AATTAAATTC
*
368945 GTGTTGCGAATTTGAA-ATTC-AGTTGCGAATTTGA-AATCCCGTGTTGCGAATTTGACTTTT
1 GTGTTGCGAATTTGAATA-TCGAGTTGCGAATTTGACAAT--CGCGTTGCGAATTTGACTTTT
* * *
369005 GTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTT
1 GTGTTGCGAATTTGAATATCGAGTTGCGAATTTGACAATCGCGTTGCGAATTTGACTTTT
369065 GTGTTGCGA
1 GTGTTGCGA
369074 TTTATAGATT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
60 46 0.74
61 14 0.23
62 2 0.03
ACGTcount: A:0.20, C:0.15, G:0.26, T:0.40
Consensus pattern (60 bp):
GTGTTGCGAATTTGAATATCGAGTTGCGAATTTGACAATCGCGTTGCGAATTTGACTTTT
Found at i:369071 original size:40 final size:40
Alignment explanation
Indices: 368943--369073 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 40
368933 GAAATTAAAT
* * *
368943 TCGTGTTGCGAATTTGA-AATTC-AGTTGCGAATTTGA-AA
1 TCGTGTTGCGAATTTGACTA-TCGCGTTGCGAATTTGACTA
* * *
368981 TCCCGTGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTA
1 T--CGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTA
* *
369023 TCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTT
1 TCGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTA
*
369063 TTGTGTTGCGA
1 TCGTGTTGCGA
369074 TTTATAGATT
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
40 60 0.79
41 13 0.17
42 2 0.03
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (40 bp):
TCGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTA
Found at i:370142 original size:15 final size:15
Alignment explanation
Indices: 370118--370189 Score: 101
Period size: 15 Copynumber: 4.9 Consensus size: 15
370108 AATAAGGTTA
*
370118 TTATTTTAAAATAAT
1 TTATTATAAAATAAT
370133 TTATTAT-AAATAAT
1 TTATTATAAAATAAT
* *
370147 TTATTACAAAAAAAT
1 TTATTATAAAATAAT
*
370162 TTATTTTAAAATAAT
1 TTATTATAAAATAAT
370177 TTATTATAAAATA
1 TTATTATAAAATA
370190 TGGATTGATT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
14 13 0.27
15 36 0.73
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATTATAAAATAAT
Found at i:370203 original size:22 final size:22
Alignment explanation
Indices: 370175--370269 Score: 61
Period size: 22 Copynumber: 4.3 Consensus size: 22
370165 TTTTAAAATA
370175 ATTTATTATAAAATATGGATTG
1 ATTTATTATAAAATATGGATTG
* * *
370197 ATTTATT-TGAAATAAT-TATTTTA
1 ATTTATTATAAAAT-ATGGA--TTG
* * * * *
370220 AATAATTAT-TAGTATAGATTG
1 ATTTATTATAAAATATGGATTG
*
370241 ATTTATTTTAAAATATGGATTG
1 ATTTATTATAAAATATGGATTG
370263 ATTTATT
1 ATTTATT
370270 TTAATAATTT
Statistics
Matches: 52, Mismatches: 15, Indels: 12
0.66 0.19 0.15
Matches are distributed among these distances:
21 14 0.27
22 27 0.52
23 10 0.19
24 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.51
Consensus pattern (22 bp):
ATTTATTATAAAATATGGATTG
Found at i:370210 original size:66 final size:66
Alignment explanation
Indices: 370131--370283 Score: 175
Period size: 66 Copynumber: 2.3 Consensus size: 66
370121 TTTTAAAATA
* *
370131 ATTTATTATAAATAATTTATTACAAAAAAAT-TTATTTTAAAATAATTTATTATAAAATATGGAT
1 ATTTATT-TAAATAATTTATTACAAAAAAATATTAGTATAAAATAATTTATTATAAAATATGGAT
370195 TG
65 TG
** * * * * * *
370197 ATTTATTTGAAATAA-TTATTTTAAATAATTATTAGTATAGATTGATTTATTTTAAAATATGGAT
1 ATTTATTT-AAATAATTTATTACAAAAAAATATTAGTATAAAATAATTTATTATAAAATATGGAT
370261 TG
65 TG
*
370263 ATTTATTTTAATAATTTATTA
1 ATTTATTTAAATAATTTATTA
370284 GTATGGATTG
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
65 17 0.24
66 55 0.76
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.50
Consensus pattern (66 bp):
ATTTATTTAAATAATTTATTACAAAAAAATATTAGTATAAAATAATTTATTATAAAATATGGATT
G
Found at i:370217 original size:13 final size:13
Alignment explanation
Indices: 370199--370229 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
370189 ATGGATTGAT
370199 TTATTTGAAATAA
1 TTATTTGAAATAA
*
370212 TTATTTTAAATAA
1 TTATTTGAAATAA
370225 TTATT
1 TTATT
370230 AGTATAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TTATTTGAAATAA
Found at i:370247 original size:31 final size:29
Alignment explanation
Indices: 370212--370356 Score: 97
Period size: 22 Copynumber: 5.3 Consensus size: 29
370202 TTTGAAATAA
370212 TTATTTTAAATAATTATTAGTATAGATTGAT
1 TTATTTT-AATAATTATTAGTAT-GATTGAT
370243 TTATTTTAA-AA-TA-T-G---GATTGAT
1 TTATTTTAATAATTATTAGTATGATTGAT
370265 TTATTTTAATAATTTATTAGTATGGATTGA-
1 TTATTTTAATAA-TTATTAGTAT-GATTGAT
370295 TT-TTTT-A-AA--A-TA-T-TGATTGAT
1 TTATTTTAATAATTATTAGTATGATTGAT
* *
370316 TCATTTTAAATAATTTATTAGTATAAATTGAT
1 TTATTTT-AATAA-TTATTAGTAT-GATTGAT
370348 TTATTTTAA
1 TTATTTTAA
370357 AATGGATTGA
Statistics
Matches: 90, Mismatches: 3, Indels: 42
0.67 0.02 0.31
Matches are distributed among these distances:
20 6 0.07
21 2 0.02
22 21 0.23
23 4 0.04
24 2 0.02
25 4 0.04
26 2 0.02
27 4 0.04
28 4 0.04
29 8 0.09
30 5 0.06
31 16 0.18
32 12 0.13
ACGTcount: A:0.37, C:0.01, G:0.10, T:0.53
Consensus pattern (29 bp):
TTATTTTAATAATTATTAGTATGATTGAT
Found at i:370272 original size:53 final size:53
Alignment explanation
Indices: 370212--371289 Score: 765
Period size: 53 Copynumber: 20.4 Consensus size: 53
370202 TTTGAAATAA
*
370212 TTATTTTAAATAATTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAATTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
370265 TTATTTT-AATAATTTATTAGTATGGATTGA-TT-TTTTAAAATATTGATTGAT
1 TTATTTTAAATAA-TTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* **
370316 TCATTTTAAATAATTTATTAGTATAAATTGATTTATTTT-AAA-ATGGATTGAT
1 TTATTTTAAATAA-TTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
370368 TTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTTAT
1 TTATTTTAAATAAT-TA-TTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* * * * * * * *** *
370412 TAGTATGGATTGATTTATT-TAAATATGAATTGATTTATTATTGTAGTTGTATGTATTGAT
1 T--TAT--TTTAAATAATTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTGAT
*
370472 TTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTTAAAATATCGATTGAT
1 TTATTTTAAATAA-TTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
370525 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATATGGATTGAT
1 TTATTTTAAATAA-TTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
370578 TTATTTTAAATAATTTATTAGTGTGGATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAA-TTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
370632 TTA-TTTAAATATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAATTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
**
370684 TTATTTTAAATAATTATTAGTATGGATTGATTTATTTTAAAATATTAATTGAT
1 TTATTTTAAATAATTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
370737 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAA-TTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* **
370791 TTA--TT--AT--TGTAGTT-GTATGAATTGATTTATTTT-AAATAATTTATTAGTAT
1 TTATTTTAAATAAT-TA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G-AT
** * ** * * * *** *
370841 GGA-TTGATTTATTTA-AAATATGGATTGATTTATTATTGTAGTTTGTATGAATTGAT
1 TTATTTTAAATAATTATTAGTATGGATTGATTTA-T-TT-TA--AAATATGGATTGAT
* *
370897 TTATTTT-AATAATTATTAGTATCGATTGATTTATTTTAAAATATCGATTGA-
1 TTATTTTAAATAATTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
370948 TTA--TT--AT--TGTAGTT-GTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAAT-TA-TTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
370996 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTACTATGGATTGAT
1 TTATTTTAAATAA-TTATTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTGAT
* **
371060 TTATTTTAAA-ATATGGATT-GT-TTTATT-ATTGTATTTGT---ATA--GATTGAT
1 TTATTTTAAATA-AT-TATTAGTATGGATTGATT-TATTT-TAAAATATGGATTGAT
*
371108 TTATTTTAAATAATTATTAGTATGGATTGA-TTA-TTT-AAATA---ATTTA-
1 TTATTTTAAATAATTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* * * * * *** *
371154 TTAGTATGAATTGATTTATTTTAAATATGGATTGATTTATTATTGTAGTTGTATGAATTGAT
1 TTA-TTTTAAAT-AATTA--TT-AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTGAT
371216 TTATTTTAAATAATTTATTAGTATGGA-TGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAA-TTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
371269 TTATTTTAAAATAATTTATTA
1 TTATTTT-AAATAA-TTATTA
371290 TTGTAGTTTA
Statistics
Matches: 826, Mismatches: 100, Indels: 197
0.74 0.09 0.18
Matches are distributed among these distances:
44 6 0.01
45 1 0.00
46 29 0.04
47 55 0.07
48 65 0.08
49 11 0.01
50 16 0.02
51 41 0.05
52 109 0.13
53 224 0.27
54 104 0.13
55 16 0.02
56 17 0.02
57 28 0.03
58 35 0.04
59 4 0.00
60 7 0.01
61 19 0.02
62 9 0.01
63 5 0.01
64 25 0.03
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (53 bp):
TTATTTTAAATAATTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
Found at i:370402 original size:78 final size:78
Alignment explanation
Indices: 370309--371148 Score: 391
Period size: 78 Copynumber: 10.7 Consensus size: 78
370299 TTAAAATATT
* *
370309 GATTGATTCATTTTAAATAATTTATTAGTATAAATTGATTTATTTTAAA-ATGGATTGATTTATT
1 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATATGGATTGATTTATT
370373 ATTGTAGTTGTATG
66 ATTGTA-TTGTATG
* *
370387 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTTAAATATGAATTGATTTATT
1 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATATGGATTGATTTATT
370451 ATTGTAGTTGTATG
66 ATTGTA-TTGTATG
* * * *
370465 TATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTAAAATATCGATTGATTTATT
1 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATATGGATTGATTTA--
*
370530 TTAAATAATTTATTAGTATG
64 TT--AT--TGTATT-GTATG
* * * * * * *
370550 GATTGATTTATTTTAAATATGGATTGATTTATTTTA-AATAATTTA--TT-AGTGTGGATTGATT
1 GATTGATTTATTTTAAATA---ATTTA-TTAGTATAGATTGATTTATTTTAAATATGGATTGATT
***
370611 TA-T-TT-TAAAATATG
62 TATTATTGTATTGTATG
370625 GATTGATTTA-TTTAAAT-ATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAATATGGATTGATTTA-
370688 TTTAAATAAT-TATTAGTATG
64 -TT--AT--TGTATT-GTATG
* * ** * * * * * *
370708 GATTGATTTATTTTAAA-ATATTAATT-GATTTATTTTAAATAATTTATTAGTATGAATTGATTT
1 GATTGATTTATTTTAAATA-ATTTATTAG-TATAGATTGATTTATTT-TAAATATGGATTGATTT
***
370771 A-T-TT-TAAAATATG
63 ATTATTGTATTGTATG
* **
370784 GATTGATTTA--TT--AT--TGTAGTT-GTAT-GAATTGATTTATTTTAAATAATTTATTAGTAT
1 GATTGATTTATTTTAAATAATTTA-TTAGTATAG-ATTGATTTATTTTAAAT-ATGGATT-G-AT
** *
370841 GGATTGATT-TATTTAAAATATG
61 TTATT-ATTGTA-TT---GTATG
* * * *
370863 GATTGATTTA--TT--AT--TGTAGTTTGTAT-GAATTGATTTATTTTAATAATTATTAGTATCG
1 GATTGATTTATTTTAAATAATTTA-TTAGTATAG-ATTGATTTATTTT-A-AA-TA-T-GGATTG
* * *** *
370921 ATTGATTTATTTTAAAATATC
59 ATTTA-TTATTGTATTGTATG
*
370942 GATTGA-TTA--TT--AT--TGTAGTT-GTATAGATTGATTTATTTTAAAATATGGATTGATTTA
1 GATTGATTTATTTTAAATAATTTA-TTAGTATAGATTGATTTATTTT-AAATATGGATTGATTTA
*
370999 TTTTAAATAATTTATTAGTATG
64 --TT--AT--TGTATT-GTATG
* * * *
371021 AATTGATTTATTTTAAATAATTTATTACTATGGATTGATTTATTTTAAAATATGGATTGTTTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAATATGGATTGATTTAT
*
371086 TATTGTATTTGTATA
65 TATTGTA-TTGTATG
*
371101 GATTGATTTATTTTAAATAA-TTATTAGTATGGATTGA-TTA-TTTAAATA
1 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATA
371149 ATTTATTAGT
Statistics
Matches: 609, Mismatches: 84, Indels: 140
0.73 0.10 0.17
Matches are distributed among these distances:
69 9 0.01
70 28 0.05
71 4 0.01
72 6 0.01
73 9 0.01
74 27 0.04
75 20 0.03
76 25 0.04
77 33 0.05
78 130 0.21
79 79 0.13
80 49 0.08
81 5 0.01
82 19 0.03
83 23 0.04
84 16 0.03
85 72 0.12
86 39 0.06
88 11 0.02
89 5 0.01
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (78 bp):
GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATATGGATTGATTTATT
ATTGTATTGTATG
Found at i:370523 original size:21 final size:21
Alignment explanation
Indices: 370497--370536 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
370487 TATTAGTATG
370497 GATTGATTTATTTAAAATATC
1 GATTGATTTATTTAAAATATC
*
370518 GATTGATTTATTTTAAATA
1 GATTGATTTATTTAAAATA
370537 ATTTATTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (21 bp):
GATTGATTTATTTAAAATATC
Found at i:370572 original size:21 final size:21
Alignment explanation
Indices: 370546--370589 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
370536 AATTTATTAG
370546 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
370567 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
370588 TA
1 TA
370590 ATTTATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (21 bp):
TATGGATTGATTTATTTTAAA
Found at i:370686 original size:22 final size:22
Alignment explanation
Indices: 370601--370693 Score: 80
Period size: 22 Copynumber: 3.9 Consensus size: 22
370591 TTTATTAGTG
370601 TGGATTGATTTATTTTAAAATA
1 TGGATTGATTTATTTTAAAATA
370623 TGGATTGATTTA-TTTAAATATTTA
1 TGGATTGATTTATTTTAAA-A--TA
* *
370647 TTAGTATAGATTGATTTATTTTAAAATA
1 -T-GGATTGA-T--TT-ATTTTAAAATA
370675 TGGATTGATTTATTTTAAA
1 TGGATTGATTTATTTTAAA
370694 TAATTATTAG
Statistics
Matches: 57, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
21 6 0.11
22 21 0.37
23 2 0.04
24 2 0.04
25 2 0.04
26 10 0.18
27 2 0.04
28 2 0.04
29 2 0.04
30 2 0.04
31 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (22 bp):
TGGATTGATTTATTTTAAAATA
Found at i:370708 original size:31 final size:31
Alignment explanation
Indices: 370673--370778 Score: 131
Period size: 31 Copynumber: 3.7 Consensus size: 31
370663 TATTTTAAAA
370673 TATGGATTGATTTATTTTAAATAATTATTAG
1 TATGGATTGATTTATTTTAAATAATTATTAG
370704 TATGGATTGATTTATTTT-AA-AA-TA-T--
1 TATGGATTGATTTATTTTAAATAATTATTAG
370729 TA---ATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAA-TTATTAG
*
370758 TATGAATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
370779 ATATGGATTG
Statistics
Matches: 65, Mismatches: 0, Indels: 19
0.77 0.00 0.23
Matches are distributed among these distances:
22 13 0.20
23 2 0.03
24 2 0.03
25 2 0.03
26 2 0.03
27 2 0.03
28 2 0.03
29 4 0.06
30 2 0.03
31 18 0.28
32 16 0.25
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (31 bp):
TATGGATTGATTTATTTTAAATAATTATTAG
Found at i:370941 original size:22 final size:22
Alignment explanation
Indices: 370916--371005 Score: 99
Period size: 22 Copynumber: 4.0 Consensus size: 22
370906 TAATTATTAG
370916 TATCGATTGATTTATTTTAAAA
1 TATCGATTGATTTATTTTAAAA
* ***
370938 TATCGATTGATTATTATTGTAGTTG
1 TATCGATTGA-T-TTATTTTA-AAA
*
370963 TATAGATTGATTTATTTTAAAA
1 TATCGATTGATTTATTTTAAAA
*
370985 TATGGATTGATTTATTTTAAA
1 TATCGATTGATTTATTTTAAA
371006 TAATTTATTA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
22 30 0.55
23 8 0.15
24 8 0.15
25 9 0.16
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.51
Consensus pattern (22 bp):
TATCGATTGATTTATTTTAAAA
Found at i:371013 original size:14 final size:14
Alignment explanation
Indices: 370994--371046 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
370984 ATATGGATTG
370994 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
371008 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
371026 ATTTATTTTAAATA
1 ATTTATTTTAAATA
371040 ATTTATT
1 ATTTATT
371047 ACTATGGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:371028 original size:32 final size:32
Alignment explanation
Indices: 370985--371069 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
370975 TATTTTAAAA
*
370985 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAC
*
371017 TATGAATTGATTTATTTTAAATAATTTATTAC
1 TATGGATTGATTTATTTTAAATAATTTATTAC
371049 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
371070 ATATGGATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.35, C:0.01, G:0.11, T:0.53
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAC
Found at i:371115 original size:31 final size:29
Alignment explanation
Indices: 371080--371176 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 29
371070 ATATGGATTG
*
371080 TTTTATTATTGTATTTGTATAGATTGATTTA
1 TTTTATTATT-TATTAGTAT-GATTGATTTA
* *
371111 TTTTAAATAATTATTAGTATGGATTGA-TTA
1 TTTT-ATTATTTATTAGTAT-GATTGATTTA
* *
371141 TTTAAATAATTTATTAGTATGAATTGATTTA
1 TTT-TATTATTTATTAGTATG-ATTGATTTA
371172 TTTTA
1 TTTTA
371177 AATATGGATT
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
29 1 0.02
30 24 0.45
31 24 0.45
32 4 0.08
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (29 bp):
TTTTATTATTTATTAGTATGATTGATTTA
Found at i:371155 original size:30 final size:31
Alignment explanation
Indices: 371091--371180 Score: 130
Period size: 30 Copynumber: 2.9 Consensus size: 31
371081 TTTATTATTG
* *
371091 TATTTGTATAGATTGATTTATTTTAAATAAT
1 TATTAGTATGGATTGATTTATTTTAAATAAT
371122 TATTAGTATGGATTGA-TTA-TTTAAATAATT
1 TATTAGTATGGATTGATTTATTTTAAATAA-T
*
371152 TATTAGTATGAATTGATTTATTTTAAATA
1 TATTAGTATGGATTGATTTATTTTAAATA
371181 TGGATTGATT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
29 9 0.17
30 19 0.36
31 17 0.32
32 8 0.15
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (31 bp):
TATTAGTATGGATTGATTTATTTTAAATAAT
Found at i:371261 original size:21 final size:22
Alignment explanation
Indices: 371237--371281 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
371227 AATTTATTAG
371237 TATGGA-TGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
371258 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
371280 TA
1 TA
371282 ATTTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:382883 original size:223 final size:219
Alignment explanation
Indices: 382464--382892 Score: 688
Period size: 223 Copynumber: 1.9 Consensus size: 219
382454 TTATCTATCC
* *
382464 TTTTATAAAGTGTCCATACTTATTTCACTGTGAAAATATATTATTATCTTTAGTTAATATTGTTA
1 TTTTATAAAGTGTCCATACTTATTTCACTGTGAAAACATATTATTATATTTAGTTAATATTGTTA
**
382529 AATTAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAA
66 AATTAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGTAAATGAAA
382594 TTATTAAATTAATATTGTAGGTGGAAAACATGAAACATATTAAAAAATTTGAAACATAAATTACA
131 TTATTAAATTAATATTGTAGGTGGAAAACATGAAACATATTAAAAAATTTGAAACATAAATTACA
382659 TAACTTTCAAAAAAGTATATATCAT
196 TAACTTT-AAAAAAGTATATATCAT
*
382684 TTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTATATTATATTTGGTTAATATT
1 TTTTAT-AAAGTGTCCATACTTATTTCACTG-TGAAAACATA-T-TATTATATTTAGTTAATATT
382749 GTTAAATTTAAATGCTAAATAATATTTTATAAAATATC-AAACAATCAAATAAAATTTTGTGTAA
62 GTTAAA-TTAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGTAA
*
382813 ATTAAATTATTAAATT-A-ATTGTAGGTGGAAAAC-TGAAACACTATTAAATAAA-TTGAAACAT
125 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TATTAAA-AAATTTGAAACAT
382874 AAATTACATAACTTTAAAA
188 AAATTACATAACTTTAAAA
382893 GCAGTTTTAA
Statistics
Matches: 195, Mismatches: 6, Indels: 14
0.91 0.03 0.07
Matches are distributed among these distances:
220 6 0.03
221 24 0.12
222 20 0.10
223 48 0.25
224 28 0.14
225 45 0.23
226 24 0.12
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (219 bp):
TTTTATAAAGTGTCCATACTTATTTCACTGTGAAAACATATTATTATATTTAGTTAATATTGTTA
AATTAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGTAAATGAAA
TTATTAAATTAATATTGTAGGTGGAAAACATGAAACATATTAAAAAATTTGAAACATAAATTACA
TAACTTTAAAAAAGTATATATCAT
Found at i:382989 original size:19 final size:20
Alignment explanation
Indices: 382958--383002 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
382948 CGATATACCA
382958 GGTAAAAATATGATAAAA-C
1 GGTAAAAATATGATAAAACC
382977 GGTAACAAA-ATGATAAAACC
1 GGTAA-AAATATGATAAAACC
382997 GGTAAA
1 GGTAAA
383003 TTTAAAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.56, C:0.09, G:0.18, T:0.18
Consensus pattern (20 bp):
GGTAAAAATATGATAAAACC
Found at i:385286 original size:122 final size:122
Alignment explanation
Indices: 385129--385376 Score: 473
Period size: 122 Copynumber: 2.0 Consensus size: 122
385119 ATGGTAATAA
385129 ATGTAATTAAATAATATTAAGAATATAATCAATGTCTTAATATTGTAATTTAATTTTTTGAAGGT
1 ATGTAATTAAATAATATTAAGAATATAATCAATGTCTTAATATTGTAATTTAATTTTTTGAAGGT
385194 TATTGGCAAGGATGTAGAGGAGGCAGTGGAGGCAGAGGAGAAGAAAGGAGGGATGGTT
66 TATTGGCAAGGATGTAGAGGAGGCAGTGGAGGCAG-GGAGAAGAAAGGAGGGATGGTT
385252 ATGTAATTAAATAATATT-AGAATATAATCAATGTCTTAATATTGTAATTTAATTTTTTGAAGGT
1 ATGTAATTAAATAATATTAAGAATATAATCAATGTCTTAATATTGTAATTTAATTTTTTGAAGGT
385316 TATTGGCAAGGATGTAGAGGAGGCAGTGGAGGCAGGGAGAAGAAAGGAGGGATGGTT
66 TATTGGCAAGGATGTAGAGGAGGCAGTGGAGGCAGGGAGAAGAAAGGAGGGATGGTT
385373 -TGTA
1 ATGTA
385377 TTGGGGGATG
Statistics
Matches: 125, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
120 4 0.03
121 22 0.18
122 81 0.65
123 18 0.14
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.31
Consensus pattern (122 bp):
ATGTAATTAAATAATATTAAGAATATAATCAATGTCTTAATATTGTAATTTAATTTTTTGAAGGT
TATTGGCAAGGATGTAGAGGAGGCAGTGGAGGCAGGGAGAAGAAAGGAGGGATGGTT
Found at i:385622 original size:32 final size:33
Alignment explanation
Indices: 385568--385631 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
385558 AAATAGATGG
*
385568 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
385601 AGTGG-GAAAGAAGTTTCGGTGTTAAGGGGTG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTG
385632 TATTAAGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.28, C:0.02, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:387103 original size:23 final size:24
Alignment explanation
Indices: 387077--387125 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
387067 CATGTGTGGT
387077 TTTCAAA-TTTGTAACAGATATGA
1 TTTCAAATTTTGTAACAGATATGA
387100 TTTCAAATTTTGTAACAGATATGA
1 TTTCAAATTTTGTAACAGATATGA
387124 TT
1 TT
387126 GCGGCATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (24 bp):
TTTCAAATTTTGTAACAGATATGA
Found at i:388348 original size:396 final size:396
Alignment explanation
Indices: 387547--388961 Score: 2519
Period size: 396 Copynumber: 3.6 Consensus size: 396
387537 TTAAGGGTCA
*
387547 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
387612 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
387677 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATG--ATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
387742 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
193 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
387807 GCATCAATAAAGTGTCGATCCATATATAAAAA--GTCGATCCCAAAATCATCGAACCCAAAAGTA
258 GCATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
387870 TAATGTAATCTGTAA-TTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAGAATAAGTC
323 TAATGTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
387933 TAAATAATG
388 TAAATAATG
387942 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAC
1 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAC
388007 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
388072 GTAATCTG-TTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
130 GTAATATGATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
*
388136 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGC
195 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
388200 ATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAACCCAAAAGTAT
260 ATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AACCCAAAAGTAT
388265 AATGTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
324 AATGTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
388330 AAATAATG
389 AAATAATG
*
388338 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAT
1 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAC
*
388403 CAATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAAT
65 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
388465 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATG--ATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
388530 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
193 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
* *
388595 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
258 GCATCAATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
388660 ATAATGTAATCTGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAGAATAAGT
322 ATAATGTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
388724 CTAAATAATG
387 CTAAATAATG
*
388734 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
* *
388798 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCCAAAATCATCGAACCCAAACGTATAAA
66 CATAAAGTGTCGATCCATATATAAAAAGTGTCGAT-CCCAAAATCATCGAACCCAAAAGTATAAT
*
388863 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
130 GTAATATG--ATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
*
388928 TAATGTGTCGACACTAATATATTTTGTGTCGATA
193 TAATGTGTCGACACTAATATAGTTTGTGTCGATA
388962 CAAATTTAAA
Statistics
Matches: 988, Mismatches: 17, Indels: 27
0.96 0.02 0.03
Matches are distributed among these distances:
391 42 0.04
392 106 0.11
393 37 0.04
394 110 0.11
395 103 0.10
396 365 0.37
397 95 0.10
398 130 0.13
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (396 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAA
TGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCA
TCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
TGTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
ATAATG
Found at i:388349 original size:199 final size:199
Alignment explanation
Indices: 387547--388961 Score: 2541
Period size: 199 Copynumber: 7.1 Consensus size: 199
387537 TTAAGGGTCA
*
387547 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
387612 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
387677 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
387742 TAATG
195 TAATG
*
387747 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
387812 AATAAAGTGTCGATCCATATATAAAAA--GTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
387875 TAATCTGTAA-TTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
387938 AATG
196 AATG
387942 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAC
1 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAC
388007 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
388072 GTAATCTG---TTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
388134 TAATG
195 TAATG
* *
388139 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
388203 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AACCCAAAAGTATAAT
388268 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
388333 TAATG
195 TAATG
*
388338 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAT
1 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAC
*
388403 CAATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAAT
65 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
388465 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
388530 TAATG
195 TAATG
388535 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
388600 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
388665 GTAATCTGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
388729 TAATG
195 TAATG
*
388734 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
* *
388798 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCCAAAATCATCGAACCCAAACGTATAAA
66 CATAAAGTGTCGATCCATATATAAAAAGTGTCGAT-CCCAAAATCATCGAACCCAAAAGTATAAT
* *
388863 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
130 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
388928 TAATG
195 TAATG
*
388933 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
388962 CAAATTTAAA
Statistics
Matches: 1179, Mismatches: 19, Indels: 35
0.96 0.02 0.03
Matches are distributed among these distances:
195 121 0.10
196 205 0.17
197 227 0.19
198 160 0.14
199 296 0.25
200 139 0.12
201 31 0.03
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (199 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATG
Found at i:389255 original size:15 final size:15
Alignment explanation
Indices: 389235--389263 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
389225 TCTTTCTCAA
389235 AGTTCTTCTCAACCC
1 AGTTCTTCTCAACCC
389250 AGTTCTTCTCAACC
1 AGTTCTTCTCAACC
389264 ACCTCCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.38, G:0.07, T:0.34
Consensus pattern (15 bp):
AGTTCTTCTCAACCC
Found at i:389494 original size:52 final size:53
Alignment explanation
Indices: 389432--389537 Score: 205
Period size: 52 Copynumber: 2.0 Consensus size: 53
389422 ATATGCATTT
389432 AGTTTTAAATCCACATTTACATCTTGGGGTTGGCTTGAATTCCTT-GTGTAGA
1 AGTTTTAAATCCACATTTACATCTTGGGGTTGGCTTGAATTCCTTGGTGTAGA
389484 AGTTTTAAATCCACATTTACATCTTGGGGTTGGCTTGAATTCCTTGGTGTAGA
1 AGTTTTAAATCCACATTTACATCTTGGGGTTGGCTTGAATTCCTTGGTGTAGA
389537 A
1 A
389538 CCAAGATATT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 45 0.85
53 8 0.15
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.40
Consensus pattern (53 bp):
AGTTTTAAATCCACATTTACATCTTGGGGTTGGCTTGAATTCCTTGGTGTAGA
Found at i:390457 original size:18 final size:18
Alignment explanation
Indices: 390434--390495 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
390424 CCAATCGCCA
* * *
390434 GAAGATGAAGCTGACGAT
1 GAAGATGACGATGATGAT
390452 GAAGATGACGATGATGAT
1 GAAGATGACGATGATGAT
*
390470 GATGATGACGATGATGAT
1 GAAGATGACGATGATGAT
390488 GAAGATGA
1 GAAGATGA
390496 TGATCCAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (18 bp):
GAAGATGACGATGATGAT
Found at i:390458 original size:6 final size:6
Alignment explanation
Indices: 390434--390495 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
390424 CCAATCGCCA
* * * * * *
390434 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
*
390482 GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA
390496 TGATCCAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:390469 original size:3 final size:3
Alignment explanation
Indices: 390449--390499 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
390439 TGAAGCTGAC
* * * *
390449 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAT GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
390497 GAT
1 GAT
390500 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:390496 original size:12 final size:12
Alignment explanation
Indices: 390437--390499 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
390427 ATCGCCAGAA
* *
390437 GATGAAGCTGAC
1 GATGAAGATGAT
*
390449 GATGAAGATGAC
1 GATGAAGATGAT
*
390461 GATGATGATGAT
1 GATGAAGATGAT
*
390473 GATGACGATGAT
1 GATGAAGATGAT
390485 GATGAAGATGAT
1 GATGAAGATGAT
390497 GAT
1 GAT
390500 CCAAACAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:392305 original size:183 final size:182
Alignment explanation
Indices: 391853--392338 Score: 861
Period size: 183 Copynumber: 2.7 Consensus size: 182
391843 ACACTTTCAA
**
391853 CATATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGA
1 CATATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGA
391918 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTC--TACTTTATGTCCATATTGGAAG
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG
* *
391981 AAAATTGTGTCGATATATTTAAAAAAGTGTCGACATTTTACACATCGGAACC
131 AAAAATGTGTCGATAAATTTAAAAAAGTGTCGACATTTTACACATCGGAACC
392033 CATATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGA
1 CATATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGA
392098 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG
392163 AAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACC
131 AAAAATGTGTCGATA-AATTTAAAAAAGTGTCGACATTTTACACATCGGAACC
* *
392216 CATATTATAATGTAATAGATAA-TTTGTAATATAACCGGTATAAATATACCGGTTTTTATGAGCG
1 CATATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG-TCTTATGCGCG
**
392280 AATAGGTCTACAACCGGTATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
65 AATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
392339 CCATTTAAAA
Statistics
Matches: 294, Mismatches: 8, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
180 104 0.35
182 66 0.22
183 124 0.42
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (182 bp):
CATATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGA
ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG
AAAAATGTGTCGATAAATTTAAAAAAGTGTCGACATTTTACACATCGGAACC
Found at i:394911 original size:23 final size:22
Alignment explanation
Indices: 394885--394946 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
394875 AATAGGTAAC
*
394885 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTA-CCCTT
* *
394908 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTACCCTT
394930 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
394947 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 20 0.56
23 16 0.44
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.37
Consensus pattern (22 bp):
ATATAATGTAATAGGTACCCTT
Found at i:394934 original size:22 final size:22
Alignment explanation
Indices: 394885--394956 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
394875 AATAGGTAAC
* * *
394885 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTA-TCGTT
394908 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTATCGTT
*
394930 ATATAATGTAATAGGTAATGGTT
1 ATATAATGTAATAGGT-ATCGTT
394953 ATAT
1 ATAT
394957 TGTAAGTGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 19 0.43
23 25 0.57
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (22 bp):
ATATAATGTAATAGGTATCGTT
Found at i:405006 original size:11 final size:11
Alignment explanation
Indices: 404977--405006 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
404967 GAGACTCGAA
*
404977 CTCGATTGAAG
1 CTCGATTTAAG
404988 CTCGATTTAAG
1 CTCGATTTAAG
404999 CTCGATTT
1 CTCGATTT
405007 GAAAATAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (11 bp):
CTCGATTTAAG
Found at i:406601 original size:24 final size:24
Alignment explanation
Indices: 406570--406641 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
406560 GATACATGAC
406570 CTGAATTCTGTTATGATTTCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
* *
406594 CTGGATTCTGTTATGATATCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
* * * *
406618 TTGAATTATGTTTTGATTCCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
406642 ATATCCGTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.50
Consensus pattern (24 bp):
CTGAATTCTGTTATGATTTCTGAT
Found at i:407263 original size:25 final size:27
Alignment explanation
Indices: 407227--407285 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
407217 ATTGTATTTT
407227 GTTTTATATATG-AGT-CTGA-AAATCA
1 GTTTTATATATGCA-TACTGATAAATCA
*
407252 GTTTTATTTATGCATACTGATAAATCA
1 GTTTTATATATGCATACTGATAAATCA
407279 -TTTTATA
1 GTTTTATA
407286 AGTTACATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 12 0.41
26 11 0.38
27 6 0.21
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (27 bp):
GTTTTATATATGCATACTGATAAATCA
Found at i:407766 original size:31 final size:31
Alignment explanation
Indices: 407715--407773 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
407705 CGACGCAACC
* *
407715 TAAAATTTTAATTTTTTAATATTTGTGTAACT
1 TAAAATGTTAATTTATTAATATTT-TGTAACT
407747 TAAAATGTT-ATTTATTAATATTTTGTA
1 TAAAATGTTAATTTATTAATATTTTGTA
407774 TTGAGAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.16
31 13 0.52
32 8 0.32
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (31 bp):
TAAAATGTTAATTTATTAATATTTTGTAACT
Found at i:413747 original size:47 final size:47
Alignment explanation
Indices: 413691--413794 Score: 181
Period size: 47 Copynumber: 2.2 Consensus size: 47
413681 CCTTATAACT
* * *
413691 TGTTCGATTAATTTACAAAGTATGATTGTTGTTTGCATTAAGTATAG
1 TGTTTGATTAATTTACAAAGTATGATTGTTGTTTGCATGAAGTATAA
413738 TGTTTGATTAATTTACAAAGTATGATTGTTGTTTGCATGAAGTATAA
1 TGTTTGATTAATTTACAAAGTATGATTGTTGTTTGCATGAAGTATAA
413785 TGTTTGATTA
1 TGTTTGATTA
413795 TTTTTCCACT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.46
Consensus pattern (47 bp):
TGTTTGATTAATTTACAAAGTATGATTGTTGTTTGCATGAAGTATAA
Found at i:414189 original size:106 final size:106
Alignment explanation
Indices: 414004--414211 Score: 389
Period size: 106 Copynumber: 2.0 Consensus size: 106
413994 AATCTGACTT
*
414004 GATGAGTGAAAAATAGTTTTGCATTATGAAGTGGATGAAGGAAGGTAATATGTTCTTGTTCCTTT
1 GATGAGCGAAAAATAGTTTTGCATTATGAAGTGGATGAAGGAAGGTAATATGTTCTTGTTCCTTT
*
414069 CCTCGTAAGTATTGAGTTGATTGGTTTGGTTAGATGAAATC
66 CCTCATAAGTATTGAGTTGATTGGTTTGGTTAGATGAAATC
*
414110 GATGAGCGAAAAATAGTTTTGCATTATGAAGTGGATGAAGGAGGGTAATATGTTCTTGTTCCTTT
1 GATGAGCGAAAAATAGTTTTGCATTATGAAGTGGATGAAGGAAGGTAATATGTTCTTGTTCCTTT
414175 CCTCATAAGTATTGAGTTGATTGGTTTGGTTAGATGA
66 CCTCATAAGTATTGAGTTGATTGGTTTGGTTAGATGA
414212 CCTCTAGAAT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.28, C:0.08, G:0.27, T:0.38
Consensus pattern (106 bp):
GATGAGCGAAAAATAGTTTTGCATTATGAAGTGGATGAAGGAAGGTAATATGTTCTTGTTCCTTT
CCTCATAAGTATTGAGTTGATTGGTTTGGTTAGATGAAATC
Found at i:418559 original size:17 final size:17
Alignment explanation
Indices: 418537--418569 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
418527 ACAGATATGA
418537 ATAAAAACTTTAATTTG
1 ATAAAAACTTTAATTTG
*
418554 ATAAAAATTTTAATTT
1 ATAAAAACTTTAATTT
418570 TAAATTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
ATAAAAACTTTAATTTG
Found at i:427774 original size:18 final size:18
Alignment explanation
Indices: 427751--427837 Score: 129
Period size: 18 Copynumber: 4.8 Consensus size: 18
427741 AGAGATTATC
427751 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
427769 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
427787 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAT
* * *
427805 AGTGGACCTTCAGGATAT
1 AGTGGTCCTTCGGGACAT
*
427823 AGTGGTCCTACGGGA
1 AGTGGTCCTTCGGGA
427838 AAAAATTCTA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.25
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:431555 original size:17 final size:16
Alignment explanation
Indices: 431506--431556 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 16
431496 ATAATAATTT
*
431506 TAATTTTTAGAAAATA
1 TAATTTTTAAAAAATA
431522 TAATTTTTTCAAAAAATA
1 TAA-TTTTT-AAAAAATA
431540 TAATTTTTAAAGAAATA
1 TAATTTTTAAA-AAATA
431557 AAAAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 6 0.19
17 15 0.48
18 10 0.32
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (16 bp):
TAATTTTTAAAAAATA
Found at i:431574 original size:12 final size:13
Alignment explanation
Indices: 431557--431587 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
431547 TAAAGAAATA
431557 AAAAAATAA-TTT
1 AAAAAATAAGTTT
431569 AAAAAATAAGTTT
1 AAAAAATAAGTTT
431582 AAAAAA
1 AAAAAA
431588 AATATAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (13 bp):
AAAAAATAAGTTT
Found at i:436391 original size:13 final size:13
Alignment explanation
Indices: 436373--436400 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
436363 GAATTTATGC
436373 TTCTCTACTCTTA
1 TTCTCTACTCTTA
436386 TTCTCTACTCTTA
1 TTCTCTACTCTTA
436399 TT
1 TT
436401 GAGTGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (13 bp):
TTCTCTACTCTTA
Found at i:436662 original size:21 final size:21
Alignment explanation
Indices: 436623--436662 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
436613 TGGTACATGT
*
436623 AAAAATAAATATTTATATTTA
1 AAAAATAAATAATTATATTTA
436644 AAAAATATAATAATT-TATT
1 AAAAATA-AATAATTATATT
436663 AAATATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAATAAATAATTATATTTA
Found at i:439321 original size:34 final size:35
Alignment explanation
Indices: 439270--439345 Score: 118
Period size: 34 Copynumber: 2.2 Consensus size: 35
439260 CGATTGGATC
** *
439270 AAATGTTCAATCCCTACCTTCAATGTCACTACATT
1 AAATGTTCAATCCCTACCCACAATGTCACGACATT
439305 AAATGTTC-ATCCCTACCCACAATGTCACGACATT
1 AAATGTTCAATCCCTACCCACAATGTCACGACATT
439339 AAATGTT
1 AAATGTT
439346 GTGACACATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 30 0.79
35 8 0.21
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.32
Consensus pattern (35 bp):
AAATGTTCAATCCCTACCCACAATGTCACGACATT
Found at i:439748 original size:44 final size:44
Alignment explanation
Indices: 439700--439802 Score: 124
Period size: 42 Copynumber: 2.4 Consensus size: 44
439690 TCTTACTGTA
439700 TTTTTAAAAAAAATCAATACATAAATATTAATATTA-T-TAATATTT
1 TTTTTAAAAAAAAT-AATA-ATAAATA-TAATATTATTATAATATTT
* *
439745 TTTTTTAAAAAAA-AATAATATATATAATATTATTATAAT-TTT
1 TTTTTAAAAAAAATAATAATAAATATAATATTATTATAATATTT
*
439787 TTTTTAATAAAAATAA
1 TTTTTAAAAAAAATAA
439803 ATCTTAATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
41 8 0.16
42 21 0.41
43 10 0.20
45 12 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (44 bp):
TTTTTAAAAAAAATAATAATAAATATAATATTATTATAATATTT
Found at i:439812 original size:47 final size:44
Alignment explanation
Indices: 439700--439820 Score: 121
Period size: 41 Copynumber: 2.8 Consensus size: 44
439690 TCTTACTGTA
* *
439700 TTTTTAAAAAAAATCAATACATAA-ATATTAATATTATTAATATTT
1 TTTTTTAAAAAAATAAAT-C-TAATATATTAATATTATTAATATTT
439745 TTTTTT-AAAAAA-AAA--TAATATATATAATATTATT-ATAATTT
1 TTTTTTAAAAAAATAAATCTAATATAT-TAATATTATTAAT-ATTT
439786 TTTTTTAATAAAAATAAATCTTAATATATT-ATATT
1 TTTTTTAA-AAAAATAAATC-TAATATATTAATATT
439821 TTCGAGCTGT
Statistics
Matches: 65, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
39 3 0.05
40 6 0.09
41 20 0.31
42 1 0.02
43 7 0.11
44 9 0.14
45 10 0.15
46 1 0.02
47 8 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (44 bp):
TTTTTTAAAAAAATAAATCTAATATATTAATATTATTAATATTT
Found at i:443919 original size:21 final size:21
Alignment explanation
Indices: 443893--443936 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
443883 AGACTTCACC
443893 AACCTCTATATTTATAGTTAA
1 AACCTCTATATTTATAGTTAA
443914 AACCTCTATATTTATAGTTAA
1 AACCTCTATATTTATAGTTAA
443935 AA
1 AA
443937 GTAGTACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (21 bp):
AACCTCTATATTTATAGTTAA
Found at i:447467 original size:19 final size:19
Alignment explanation
Indices: 447420--447473 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
447410 GATACTCTTA
*
447420 CCTAGAGTGTCGATACTAC
1 CCTAGAGTATCGATACTAC
* *
447439 CCCACG-GTATTGATACTAC
1 CCTA-GAGTATCGATACTAC
447458 CCTAGAGTATCGATAC
1 CCTAGAGTATCGATAC
447474 CAAATTTTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 1 0.04
19 26 0.93
20 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (19 bp):
CCTAGAGTATCGATACTAC
Found at i:447567 original size:20 final size:22
Alignment explanation
Indices: 447529--447581 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
447519 CATGTCATCG
*
447529 ATATCAATACTCGAGGAA-C-A
1 ATATCGATACTCGAGGAACCGA
* *
447549 ATATCGATACTCTATGAACCGA
1 ATATCGATACTCGAGGAACCGA
*
447571 GTATCGATACT
1 ATATCGATACT
447582 ACCTAGCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 15 0.56
21 1 0.04
22 11 0.41
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (22 bp):
ATATCGATACTCGAGGAACCGA
Found at i:454796 original size:16 final size:16
Alignment explanation
Indices: 454775--454817 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
454765 ACTTTAGCAA
454775 CAACTTATAATTTTTT
1 CAACTTATAATTTTTT
454791 CAACTTATAATTTTTT
1 CAACTTATAATTTTTT
*
454807 CAATTTATAAT
1 CAACTTATAAT
454818 GGATAGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (16 bp):
CAACTTATAATTTTTT
Found at i:457726 original size:26 final size:26
Alignment explanation
Indices: 457697--457782 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
457687 AAATGCATAG
457697 AATAAAATATCAGTAACCAAATCAGA
1 AATAAAATATCAGTAACCAAATCAGA
* * * * *
457723 AATAAAAAAT-AGTGACTAAAATGTATAA
1 AATAAAATATCAGTAAC-CAAAT-CA-GA
* * *
457751 AATAAAATAGCAATAGCCAAATCAGA
1 AATAAAATATCAGTAACCAAATCAGA
457777 AATAAA
1 AATAAA
457783 CAGTGACTGA
Statistics
Matches: 43, Mismatches: 13, Indels: 8
0.67 0.20 0.12
Matches are distributed among these distances:
25 5 0.12
26 20 0.47
27 2 0.05
28 13 0.30
29 3 0.07
ACGTcount: A:0.60, C:0.10, G:0.09, T:0.20
Consensus pattern (26 bp):
AATAAAATATCAGTAACCAAATCAGA
Found at i:457755 original size:54 final size:54
Alignment explanation
Indices: 457675--457782 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
457665 ATCAGGAAAG
* * *
457675 AAATAATGAATAAAATGCATAGAATAAAATATCAGTAACCAAATCAGAAATAAA
1 AAATAATGAATAAAATGCATAAAATAAAATAGCAATAACCAAATCAGAAATAAA
* * * *
457729 AAATAGTGACTAAAATGTATAAAATAAAATAGCAATAGCCAAATCAGAAATAAA
1 AAATAATGAATAAAATGCATAAAATAAAATAGCAATAACCAAATCAGAAATAAA
457783 CAGTGACTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.60, C:0.09, G:0.10, T:0.20
Consensus pattern (54 bp):
AAATAATGAATAAAATGCATAAAATAAAATAGCAATAACCAAATCAGAAATAAA
Found at i:459260 original size:3 final size:3
Alignment explanation
Indices: 459252--459289 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
459242 ATTAGATGTA
459252 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
459290 ATATATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:459949 original size:136 final size:135
Alignment explanation
Indices: 459738--460032 Score: 425
Period size: 136 Copynumber: 2.2 Consensus size: 135
459728 GCTAAGGTTA
* * * *
459738 AACAAGTTATTCTCATTATGAACTTTTTCTCCCTCATCGGGTTAGTTCTTCTCATTATGAACTCT
1 AACAAGCTATTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCT
**
459803 CCATTGGAAATGTTAATCCCTCAAGCGAGGTGTCACTGATTCGAAATACCGTGAATCGAGTGATA
66 CCATTGGAAATGTTAATCCCTCAAGCGAGGTGTCACTGATTCGAAATACAATGAATCGAGTGATA
*
459868 GTTCG
131 GGTCG
* *
459873 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTC
1 AACAAGCTATTCTCATTATGAACTTCTTCTCCCTC-ATCGGATGAGTTCTTCTCATTATGAACTC
* * * * * *
459938 TCCATTTGAAATGTTGATCCCTCGAGTGAGGTGTCACTGATTTGAAATGCAATGAATCGAGTGAT
65 TCCATTGGAAATGTTAATCCCTCAAGCGAGGTGTCACTGATTCGAAATACAATGAATCGAGTGAT
460003 AGGTCG
130 AGGTCG
460009 AACAAGCTATTC-C-TTATGAA-TTCT
1 AACAAGCTATTCTCATTATGAACTTCT
460033 GTACTGGCAA
Statistics
Matches: 143, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
133 4 0.03
134 7 0.05
135 33 0.23
136 99 0.69
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (135 bp):
AACAAGCTATTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCT
CCATTGGAAATGTTAATCCCTCAAGCGAGGTGTCACTGATTCGAAATACAATGAATCGAGTGATA
GGTCG
Found at i:460237 original size:42 final size:40
Alignment explanation
Indices: 460132--460239 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 40
460122 GCCTGAAGGT
* * * *
460132 CTTATGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGA
1 CTTATAGATGG-CCGAAGGACTTAACATCATGCTCGAAAGA
* *
460173 GTTATAGATGGCCTGAAGGACTTACACATCATGCTCGGAAGA
1 CTTATAGATGGCC-GAAGGACTTA-ACATCATGCTCGAAAGA
460215 CTTACTA-ATGGTCCGAAGGACTTAA
1 CTTA-TAGATGG-CCGAAGGACTTAA
460240 GCTGATTCGA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
40 2 0.04
41 20 0.36
42 30 0.54
43 4 0.07
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTATAGATGGCCGAAGGACTTAACATCATGCTCGAAAGA
Found at i:460341 original size:56 final size:57
Alignment explanation
Indices: 460242--460390 Score: 176
Period size: 56 Copynumber: 2.6 Consensus size: 57
460232 GGACTTAAGC
* * * * *
460242 TGATTCGAAGTGTTGTAAAACGAGCAATGGAAATGTTAACCCCTCTGGTGGGGCGTT-T
1 TGATTCGAAGTGTTGT-GAA-TAGCAAAGGAAATGTTAACCCCTCTAGTGGGGCATTGT
*
460300 CTGATTCTAAGTGTTGTGAAT-GCAAAGGAAATGTTAACCCCTCTAGTGGGGCATTGT
1 -TGATTCGAAGTGTTGTGAATAGCAAAGGAAATGTTAACCCCTCTAGTGGGGCATTGT
*
460357 TGATTCGAAGTTTTGTGAATCGAGCAAAGGAAAT
1 TGATTCGAAGTGTTGTGAAT--AGCAAAGGAAAT
460391 ATTGAAAACA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
56 49 0.63
57 1 0.01
58 2 0.03
59 26 0.33
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (57 bp):
TGATTCGAAGTGTTGTGAATAGCAAAGGAAATGTTAACCCCTCTAGTGGGGCATTGT
Found at i:460502 original size:85 final size:85
Alignment explanation
Indices: 460357--460523 Score: 253
Period size: 85 Copynumber: 2.0 Consensus size: 85
460347 GGGGCATTGT
* * * *
460357 TGATTCGAAGTTTTGTGAATCGAGCAAAGGAAATATTGAAAACATCCTGTCCGAAGGTCTTATGG
1 TGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATATTGAAAACATCCTGCCCAAAAGTCTTATGG
460422 ATGGCCCAAAGGACTTAAGC
66 ATGGCCCAAAGGACTTAAGC
* * *
460442 TGATTCGAAGTGTTGTGAATCGGGTAAAGGAAATGTTGAAAACATCCTGCCCAAAAGTCTTATGG
1 TGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATATTGAAAACATCCTGCCCAAAAGTCTTATGG
* *
460507 ATGGTCCGAAGGACTTA
66 ATGGCCCAAAGGACTTA
460524 TCATCTTGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (85 bp):
TGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATATTGAAAACATCCTGCCCAAAAGTCTTATGG
ATGGCCCAAAGGACTTAAGC
Found at i:460777 original size:52 final size:53
Alignment explanation
Indices: 460650--460902 Score: 228
Period size: 52 Copynumber: 4.7 Consensus size: 53
460640 TTCTTAGTTG
* * *
460650 TCAAGGAACCCTTAAAAATTAGGCTTAGTTTCCTTTTAAAAACTCA-TTGAAAATCATCA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTT-C--TTAAAAACTCATTTG-AAA--A-CA
* *
460709 TCAAGAAACCCCTAAAAATCAAGCTTAGTTTC-TAAAAACTCATTTGAAAATA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAAAAACTCATTTGAAAACA
* * * * * *
460761 TCAAGAAATCCATAAAAATTAGGCTTAATTTCTTTAAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAAAAACTCATTTGAAAACA
* * * ** *
460814 TTAAG-AACCCCT-AAAATTAGGCTTAGATTCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAAAAACTCATTTGAAAACA
** *
460865 TTGAGAAATCCCTAAAAATCAGGCTTAGTTTC-TAAAAA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAAAAA
460903 TCTCTTGTTT
Statistics
Matches: 165, Mismatches: 25, Indels: 15
0.80 0.12 0.07
Matches are distributed among these distances:
51 40 0.24
52 43 0.26
53 38 0.23
55 13 0.08
56 3 0.02
58 1 0.01
59 27 0.16
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.31
Consensus pattern (53 bp):
TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAAAAACTCATTTGAAAACA
Found at i:460845 original size:51 final size:53
Alignment explanation
Indices: 460656--460897 Score: 249
Period size: 51 Copynumber: 4.5 Consensus size: 53
460646 GTTGTCAAGG
*
460656 AACCCTTAAAAATTAGGCTTAGTTTCCTTTTAAAAACTCA-TTGAAAATCATCATCAAGA
1 AACCCCTAAAAATTAGGCTTAGTTT-C-TTT-AAAACTCATTTGAAAA-CAT--T-AAGA
* * * * *
460715 AACCCCTAAAAATCAAGCTTAGTTTC-TAAAAACTCATTTGAAAATATCAAGA
1 AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAACTCATTTGAAAACATTAAGA
* * * *
460767 AATCCATAAAAATTAGGCTTAATTTCTTTAAAATTCATTTGAAAACATTAAG-
1 AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAACTCATTTGAAAACATTAAGA
* * * *
460819 AACCCCT-AAAATTAGGCTTAGATTCTTTCAAATTCATTTGAAAACATTGAGA
1 AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAACTCATTTGAAAACATTAAGA
* *
460871 AATCCCTAAAAATCAGGCTTAGTTTCT
1 AACCCCTAAAAATTAGGCTTAGTTTCT
460898 AAAAATCTCT
Statistics
Matches: 155, Mismatches: 24, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
51 40 0.26
52 36 0.23
53 38 0.25
55 10 0.06
56 8 0.05
58 1 0.01
59 22 0.14
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.32
Consensus pattern (53 bp):
AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAACTCATTTGAAAACATTAAGA
Found at i:460860 original size:104 final size:108
Alignment explanation
Indices: 460662--460897 Score: 268
Period size: 104 Copynumber: 2.2 Consensus size: 108
460652 AAGGAACCCT
460662 TAAAAATTAGGCTTAGTTTCCTTTTAAAAACTCATTGAAAATCATCATCAAGAAACCCCTAAAAA
1 TAAAAATTAGGCTTAGTTT-C-TTTAAAAACTCATTGAAAATCAT-ATCAAGAAACCCCTAAAAA
* *
460727 TCAAGCTTAGTTTCTAAAAACTCATTTGAAAATATCAAGAAATCCA
63 TCAAGCTTAGATTCTAAAAACTCATTTGAAAACATCAAGAAATCCA
* * *
460773 TAAAAATTAGGCTTAATTTCTTT-AAAATTCATTTGAAAA-CAT-T-AAG-AACCCCT-AAAATT
1 TAAAAATTAGGCTTAGTTTCTTTAAAAACTCA-TTGAAAATCATATCAAGAAACCCCTAAAAATC
* ** * ** *
460832 AGGCTTAGATTCTTTCAAATTCATTTGAAAACATTGAGAAATCCC
65 AAGCTTAGATTC-TAAAAACTCATTTGAAAACATCAAGAAATCCA
*
460877 TAAAAATCAGGCTTAGTTTCT
1 TAAAAATTAGGCTTAGTTTCT
460898 AAAAATCTCT
Statistics
Matches: 109, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
103 15 0.14
104 51 0.47
105 3 0.03
106 1 0.01
108 10 0.09
109 10 0.09
110 1 0.01
111 18 0.17
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.33
Consensus pattern (108 bp):
TAAAAATTAGGCTTAGTTTCTTTAAAAACTCATTGAAAATCATATCAAGAAACCCCTAAAAATCA
AGCTTAGATTCTAAAAACTCATTTGAAAACATCAAGAAATCCA
Found at i:460952 original size:39 final size:38
Alignment explanation
Indices: 460899--460985 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 38
460889 TTAGTTTCTA
*
460899 AAAATCTCTTGTTTCGAGCGAAACTATCTCAAGCGAAAT
1 AAAATCT-TTGTTTCGAGCGAAACAATCTCAAGCGAAAT
* *
460938 AAAATCTTATGTTTCGAGTGAAACAATCTCAAGCGAGAT
1 AAAATCTT-TGTTTCGAGCGAAACAATCTCAAGCGAAAT
460977 AAAATCTTT
1 AAAATCTTT
460986 TGGTTTTAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.05
39 42 0.95
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (38 bp):
AAAATCTTTGTTTCGAGCGAAACAATCTCAAGCGAAAT
Found at i:461081 original size:36 final size:36
Alignment explanation
Indices: 460958--461090 Score: 113
Period size: 36 Copynumber: 3.6 Consensus size: 36
460948 GTTTCGAGTG
* *
460958 AAACAATCTCAAGCGAGATAAAATCTTTTGGTTTTAAGAA
1 AAACAATCTCAAGTGAGAT-AAA---GTTGGTTTTAAGAA
* * * * *
460998 AAACAATCTCGAGTGAGATAAATTTTGTTTCAAGGGA
1 AAACAATCTCAAGTGAGATAAAGTTGGTTTTAA-GAA
** * *
461035 AAACTGTCTCAAGCGAGATGAAGTTGGTTTTAAGAA
1 AAACAATCTCAAGTGAGATAAAGTTGGTTTTAAGAA
*
461071 AAACCATCTCAAGTGAGATA
1 AAACAATCTCAAGTGAGATA
461091 CATTTCTTTC
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
36 27 0.36
37 27 0.36
39 3 0.04
40 17 0.23
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
AAACAATCTCAAGTGAGATAAAGTTGGTTTTAAGAA
Found at i:461175 original size:66 final size:65
Alignment explanation
Indices: 461097--461258 Score: 209
Period size: 66 Copynumber: 2.5 Consensus size: 65
461087 GATACATTTC
* * *
461097 TTTCAAGGGAAACTGTCTCTAGATAGACAAAATTTGTTTCAAGGGAAACGAT-GTCAAAGATTGG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC-ATAGTCAAAGATT-G
461161 TG
64 TG
* * * * *
461163 TTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTTGTTTCAAGGGAAACATATTCAAATATTTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATAGTCAAAGATTGTG
* *
461228 TTTCGAGAGAAATTGTCTCAAGAGAGACAAA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAA
461259 TTTTTTTTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
65 31 0.37
66 52 0.63
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (65 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATAGTCAAAGATTGTG
Found at i:461211 original size:36 final size:35
Alignment explanation
Indices: 461012--461211 Score: 128
Period size: 36 Copynumber: 5.7 Consensus size: 35
461002 AATCTCGAGT
*
461012 GAGATAAATTTTGTTTCAAGGGAAAACTGTCTCAAG
1 GAGATAAAATTTGTTTCAAGGG-AAACTGTCTCAAG
* * * * ** **
461048 CGAGATGAAGTTGGTTTTAAGAAAAACCATCTCAAG
1 -GAGATAAAATTTGTTTCAAGGGAAACTGTCTCAAG
* * *
461084 TGAGAT-ACATTTCTTTCAAGGGAAACTGTCTCTAG
1 -GAGATAAAATTTGTTTCAAGGGAAACTGTCTCAAG
* * *
461119 ATAGACAAAATTTGTTTCAAGGGAAAC-GATGTCAA-
1 -GAGATAAAATTTGTTTCAAGGGAAACTG-TCTCAAG
* *
461154 -AGAT----TGGTGTTTCAAGAGAAACTGTCTCAAGG
1 GAGATAAAAT-TTGTTTCAAGGGAAACTGTCTCAA-G
461186 GAGATAAAATTTGTTTCAAGGGAAAC
1 GAGATAAAATTTGTTTCAAGGGAAAC
461212 ATATTCAAAT
Statistics
Matches: 120, Mismatches: 32, Indels: 23
0.69 0.18 0.13
Matches are distributed among these distances:
29 1 0.01
30 19 0.16
31 1 0.01
33 7 0.06
35 23 0.19
36 52 0.43
37 17 0.14
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (35 bp):
GAGATAAAATTTGTTTCAAGGGAAACTGTCTCAAG
Found at i:461460 original size:36 final size:35
Alignment explanation
Indices: 461418--461496 Score: 95
Period size: 37 Copynumber: 2.2 Consensus size: 35
461408 TGTGTTCCGA
*
461418 AAGAAAATATCTCAAGTGAGACGAAATTCGTTTTG
1 AAGAAAATATCTCAAGTGAGACAAAATTCGTTTTG
* * * *
461453 AGAGAAAAATGTTTCAAGTGAGACAAAATTTGTTTTT
1 A-AG-AAAATATCTCAAGTGAGACAAAATTCGTTTTG
461490 AAGAAAA
1 AAGAAAA
461497 ATAACTTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 5 0.14
36 4 0.11
37 28 0.76
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (35 bp):
AAGAAAATATCTCAAGTGAGACAAAATTCGTTTTG
Found at i:461470 original size:37 final size:36
Alignment explanation
Indices: 461429--461498 Score: 104
Period size: 37 Copynumber: 1.9 Consensus size: 36
461419 AGAAAATATC
*
461429 TCAAGTGAGACGAAATTCGTTTTGAGAGAAAAATGTT
1 TCAAGTGAGACAAAATTCGTTTTGA-AGAAAAATGTT
* *
461466 TCAAGTGAGACAAAATTTGTTTTTAAGAAAAAT
1 TCAAGTGAGACAAAATTCGTTTTGAAGAAAAAT
461499 AACTTTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 8 0.27
37 22 0.73
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.31
Consensus pattern (36 bp):
TCAAGTGAGACAAAATTCGTTTTGAAGAAAAATGTT
Found at i:461534 original size:103 final size:103
Alignment explanation
Indices: 461364--461702 Score: 491
Period size: 103 Copynumber: 3.3 Consensus size: 103
461354 GAAAATTGCC
* * * * * * * *
461364 TCAAGCGAGACAAAAATTG-GTTCAAGTAAAACAGCTTTGAAATTTGTGTTCCGAAAGAAAATAT
1 TCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAAGGAAAATGT
* * *
461428 CTCAAGTGAGACGAAATTCGTTTTGAGAGAAAAATGTT
66 CTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTA
*
461466 TCAAGTGAGACAAAATTTGTTTTTAAGAAAAATAACTTTGAAATTTGTGTTCCGAAGGAAAATGT
1 TCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAAGGAAAATGT
461531 CTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTA
66 CTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTA
* *
461569 TCAAATGAGACAAAATTTGTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCAAAGGAAAATGT
1 TCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAAGGAAAATGT
* * *
461634 CTAAAGTGAGACGAAATTTGTTTTAAGAAAAAAATGTC
66 CTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTA
* **
461672 TGAAGTGAGACAAAATTTACTTTTAAGAAAA
1 TCAAGTGAGACAAAATTTGTTTTTAAGAAAA
461703 GAATATCTCT
Statistics
Matches: 214, Mismatches: 22, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
102 17 0.08
103 197 0.92
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (103 bp):
TCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAAGGAAAATGT
CTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTA
Found at i:461578 original size:37 final size:36
Alignment explanation
Indices: 461524--461600 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 36
461514 GTTCCGAAGG
* * *
461524 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGA
1 AAAATGTATCAAATGAGACAAAATTTGTTTTAA-AGA
*
461561 AAAATGTATCAAATGAGACAAAATTTGTTTTTAAGA
1 AAAATGTATCAAATGAGACAAAATTTGTTTTAAAGA
461597 AAAA
1 AAAA
461601 CAACTTTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 7 0.19
37 29 0.81
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (36 bp):
AAAATGTATCAAATGAGACAAAATTTGTTTTAAAGA
Found at i:461672 original size:37 final size:38
Alignment explanation
Indices: 461627--461702 Score: 118
Period size: 37 Copynumber: 2.0 Consensus size: 38
461617 GTTCCAAAGG
* *
461627 AAAATGTCTAAAGTGAGACGAAATTT-GTTTTAAGAAA
1 AAAATGTCTAAAGTGAGACAAAATTTACTTTTAAGAAA
*
461664 AAAATGTCTGAAGTGAGACAAAATTTACTTTTAAGAAA
1 AAAATGTCTAAAGTGAGACAAAATTTACTTTTAAGAAA
461702 A
1 A
461703 GAATATCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 24 0.69
38 11 0.31
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.29
Consensus pattern (38 bp):
AAAATGTCTAAAGTGAGACAAAATTTACTTTTAAGAAA
Found at i:462087 original size:16 final size:16
Alignment explanation
Indices: 462066--462096 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
462056 TTCATGTGTC
462066 ATGTATGTATGTTTTG
1 ATGTATGTATGTTTTG
462082 ATGTATGTATGTTTT
1 ATGTATGTATGTTTT
462097 CTCGGTGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (16 bp):
ATGTATGTATGTTTTG
Found at i:463066 original size:2 final size:2
Alignment explanation
Indices: 463059--463105 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
463049 TTGTATACAT
463059 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
463101 AC AC A
1 AC AC A
463106 TATATATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:464048 original size:22 final size:22
Alignment explanation
Indices: 464014--464057 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
464004 TGCAATGTAC
*
464014 GATGTATAGATGCTAATGCAAA
1 GATGTAAAGATGCTAATGCAAA
* *
464036 GATGTAAATATGCTCATGCAAA
1 GATGTAAAGATGCTAATGCAAA
464058 TGCAAAGATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (22 bp):
GATGTAAAGATGCTAATGCAAA
Found at i:464087 original size:28 final size:28
Alignment explanation
Indices: 464023--464084 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
464013 CGATGTATAG
* * ***
464023 ATGCTAATGCAAAGATGTAAATATGCTC
1 ATGCAAATGCAAAGATGCAAATATGAGA
464051 ATGCAAATGCAAAGATGCAAA-ATGAGA
1 ATGCAAATGCAAAGATGCAAATATGAGA
464078 ATGCAAA
1 ATGCAAA
464085 ATGTAAATGC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (28 bp):
ATGCAAATGCAAAGATGCAAATATGAGA
Found at i:467064 original size:53 final size:52
Alignment explanation
Indices: 466968--467091 Score: 162
Period size: 53 Copynumber: 2.4 Consensus size: 52
466958 TAAGGAAAGT
* * * *
466968 AGTAA-CAAATCAGGAA-AGAAATAATGGCTAAATGTATAGAATAAAATAAC
1 AGTAACCAAATCAGAAATAAAAATAATGACTAAATGTATAAAATAAAATAAC
* *
467018 AGTAACCAAATCAGAAATAAAAATAGTGACTAAAATGTATAAAATAAAATAGC
1 AGTAACCAAATCAGAAATAAAAATAATGACT-AAATGTATAAAATAAAATAAC
*
467071 AGTAGCCAAATCAGAAATAAA
1 AGTAACCAAATCAGAAATAAA
467092 CAGTGAGTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
50 5 0.08
51 10 0.16
52 10 0.16
53 39 0.61
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.19
Consensus pattern (52 bp):
AGTAACCAAATCAGAAATAAAAATAATGACTAAATGTATAAAATAAAATAAC
Found at i:468560 original size:3 final size:3
Alignment explanation
Indices: 468552--468591 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
468542 ATATAAATTA
468552 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
468592 TATATATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:470974 original size:14 final size:14
Alignment explanation
Indices: 470955--470990 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
470945 AACCTAAGTA
470955 GAGTCAACTCGTCC
1 GAGTCAACTCGTCC
470969 GAGTCAACTCGTCC
1 GAGTCAACTCGTCC
470983 GAGTCAAC
1 GAGTCAAC
470991 CTGTTGACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.19
Consensus pattern (14 bp):
GAGTCAACTCGTCC
Found at i:473023 original size:96 final size:96
Alignment explanation
Indices: 472884--473083 Score: 285
Period size: 96 Copynumber: 2.1 Consensus size: 96
472874 TTTATTGATT
* * *
472884 TACTAGTTTATGAGCTATGATTACCTAAAATATGTTCTCTGGTTACCTGTTTTCATTGTAAAATA
1 TACTAGTTTATGAACTATGATTACCTAAAATATGTTATCTGGTTACCTGTTTTCATTGAAAAATA
*
472949 TGATCGTTCCTGATTTATGAATCATGGAATC
66 TGATCATTCCTGATTTATGAATCATGGAATC
* * * * *
472980 TACTGGTTTATGAATTATGGTTACCTTAAATGTGTTATCTGGTTACCTGTTTTCATTGAAAAATA
1 TACTAGTTTATGAACTATGATTACCTAAAATATGTTATCTGGTTACCTGTTTTCATTGAAAAATA
* *
473045 TGATCATTCCTTATTTATGGATCATGGAAT-
66 TGATCATTCCTGATTTATGAATCATGGAATC
473075 TCACTAGTT
1 T-ACTAGTT
473084 ACTACTTGAA
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 90 0.99
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (96 bp):
TACTAGTTTATGAACTATGATTACCTAAAATATGTTATCTGGTTACCTGTTTTCATTGAAAAATA
TGATCATTCCTGATTTATGAATCATGGAATC
Found at i:479623 original size:16 final size:17
Alignment explanation
Indices: 479573--479624 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
479563 TAAAAAATTA
479573 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
479590 GA-TT-AAAG-TAGGAGT
1 AATTTGAAAGTTA-GAGT
479605 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
479621 AATT
1 AATT
479625 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 2 0.07
15 9 0.31
16 11 0.38
17 5 0.17
18 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:481979 original size:2 final size:2
Alignment explanation
Indices: 481972--482003 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
481962 TTAAATTATC
481972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
482004 TGATTAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:483652 original size:30 final size:30
Alignment explanation
Indices: 483616--483679 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
483606 CAGGGAACAC
483616 CGAAGCATCGACAACAAAATATAGTTTACT
1 CGAAGCATCGACAACAAAATATAGTTTACT
483646 CGAAGCATCGACAACAAAATATAGTTTACT
1 CGAAGCATCGACAACAAAATATAGTTTACT
483676 CGAA
1 CGAA
483680 AATACGAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (30 bp):
CGAAGCATCGACAACAAAATATAGTTTACT
Found at i:485561 original size:15 final size:15
Alignment explanation
Indices: 485541--485600 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
485531 AATTGGTTTT
*
485541 CTGGAATTTGAATTA
1 CTGGAAATTGAATTA
485556 CTGGAAAATT-AATTA
1 CTGG-AAATTGAATTA
*
485571 CTGGAATTTGAATT-
1 CTGGAAATTGAATTA
*
485585 CTGGAAAATGAATTA
1 CTGGAAATTGAATTA
485600 C
1 C
485601 ATTTCTGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
14 16 0.42
15 18 0.47
16 4 0.11
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.35
Consensus pattern (15 bp):
CTGGAAATTGAATTA
Found at i:485598 original size:29 final size:30
Alignment explanation
Indices: 485541--485600 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
485531 AATTGGTTTT
*
485541 CTGGAATTTGAATTACTGGAAAATTAATTA
1 CTGGAATTTGAATTACTGGAAAATGAATTA
485571 CTGGAATTTGAATT-CTGGAAAATGAATTA
1 CTGGAATTTGAATTACTGGAAAATGAATTA
485600 C
1 C
485601 ATTTCTGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.35
Consensus pattern (30 bp):
CTGGAATTTGAATTACTGGAAAATGAATTA
Found at i:485769 original size:27 final size:29
Alignment explanation
Indices: 485688--485873 Score: 97
Period size: 28 Copynumber: 6.3 Consensus size: 29
485678 GTTTTTAAAA
*
485688 ATTATTTATTACAAATA-TAAATATAATAAAT
1 ATTA-TTATTA-AAATATTAAATATAAT-ATT
* **
485719 AATATTATTATCATA--AAACT-TAATATT
1 ATTATTATTAAAATATTAAA-TATAATATT
485746 ATTATT-TTAAAATATTAAA-ATAAT-TT
1 ATTATTATTAAAATATTAAATATAATATT
*
485772 ATTTATTATTAAATATTATTTAAATATAAATAAT
1 A-TTATTATTAAA-A-TA-TTAAATAT-AATATT
*
485806 ATTATTCATTATTAAATATATAAA-A-ATTATT
1 ATTATT-ATTA--AAATAT-TAAATATAATATT
*
485837 A-TATATATTAAAATA-AAAATATAATATAT
1 ATTAT-TATTAAAATATTAAATATAATAT-T
485866 ATTATTAT
1 ATTATTAT
485874 AATATAATTG
Statistics
Matches: 122, Mismatches: 12, Indels: 44
0.69 0.07 0.25
Matches are distributed among these distances:
26 12 0.10
27 17 0.14
28 24 0.20
29 10 0.08
30 18 0.15
31 14 0.11
32 2 0.02
33 10 0.08
34 12 0.10
35 1 0.01
36 2 0.02
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (29 bp):
ATTATTATTAAAATATTAAATATAATATT
Found at i:485790 original size:17 final size:17
Alignment explanation
Indices: 485770--485824 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
485760 TTAAAATAAT
485770 TTATTTATTATTAAATA
1 TTATTTATTATTAAATA
* *
485787 TTATTTAAATATAAATAATA
1 TTATTT-ATTAT-TA-AATA
*
485807 TTATTCATTATTAAATA
1 TTATTTATTATTAAATA
485824 T
1 T
485825 ATAAAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 11 0.37
18 5 0.17
19 5 0.17
20 9 0.30
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATTTATTATTAAATA
Found at i:485809 original size:30 final size:28
Alignment explanation
Indices: 485775--485936 Score: 103
Period size: 27 Copynumber: 5.9 Consensus size: 28
485765 ATAATTTATT
*
485775 TATTATTAAATATTATTTAAATATAAATAA
1 TATTATTATATATTA-TTAAATATAAA-AA
*
485805 TATTA-T-T-CATTATTAAATATATAAAA
1 TATTATTATATATTATTAAATATA-AAAA
485831 -ATTATTATATA-TATTAAA-ATAAAAA
1 TATTATTATATATTATTAAATATAAAAA
* *
485856 TA-TAATATATATTATTATAATAT--AAT
1 TATTATTATATATTATTA-AATATAAAAA
* *
485882 TGATT-TTATATATTA-AAAATATAATATTA
1 T-ATTATTATATATTATTAAATATAA-A-AA
*
485911 TATTATTATAAATATTAATAAATATA
1 TATTATTAT--ATATTATTAAATATA
485937 TTTTAAATAT
Statistics
Matches: 104, Mismatches: 10, Indels: 34
0.70 0.07 0.23
Matches are distributed among these distances:
25 21 0.20
26 25 0.24
27 26 0.25
28 8 0.08
29 6 0.06
30 5 0.05
31 6 0.06
32 7 0.07
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
TATTATTATATATTATTAAATATAAAAA
Found at i:485818 original size:37 final size:40
Alignment explanation
Indices: 485745--485824 Score: 114
Period size: 37 Copynumber: 2.1 Consensus size: 40
485735 AACTTAATAT
*
485745 TATTATTTTAAAATATTAAAATAATTTATTTATTATTAAA
1 TATTATTTTAAAATATTAAAATAATTTATTCATTATTAAA
485785 TATTA-TTT-AAATA-T-AAATAATATTATTCATTATTAAA
1 TATTATTTTAAAATATTAAAATAAT-TTATTCATTATTAAA
485822 TAT
1 TAT
485825 ATAAAAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
36 7 0.18
37 18 0.47
38 5 0.13
39 3 0.08
40 5 0.13
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (40 bp):
TATTATTTTAAAATATTAAAATAATTTATTCATTATTAAA
Found at i:485822 original size:20 final size:20
Alignment explanation
Indices: 485758--485823 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 20
485748 TATTTTAAAA
*
485758 TATTAAAATAAT-TTATTTAT
1 TATT-AAATAATATTATTAAT
* *
485778 TATTAAATATTA-T-TTAAA
1 TATTAAATAATATTATTAAT
*
485796 TA-TAAATAATATTATTCAT
1 TATTAAATAATATTATTAAT
485815 TATTAAATA
1 TATTAAATA
485824 TATAAAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
17 8 0.22
18 6 0.17
19 12 0.33
20 10 0.28
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTAAATAATATTATTAAT
Found at i:485836 original size:18 final size:18
Alignment explanation
Indices: 485813--485850 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
485803 AATATTATTC
485813 ATTATTAAATATATAAAA
1 ATTATTAAATATATAAAA
* *
485831 ATTATTATATATATTAAA
1 ATTATTAAATATATAAAA
485849 AT
1 AT
485851 AAAAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTATTAAATATATAAAA
Found at i:485846 original size:37 final size:37
Alignment explanation
Indices: 485754--485832 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 37
485744 TTATTATTTT
* *
485754 AAAATATTAAAATAAT-TTATTTATTATTAAATATTATT
1 AAAATA-T-AAATAATATTATTCATTATTAAATATTATA
*
485792 TAAATATAAATAATATTATTCATTATTAAATA-TATA
1 AAAATATAAATAATATTATTCATTATTAAATATTATA
485828 AAAAT
1 AAAAT
485833 TATTATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 14 0.39
37 17 0.47
38 5 0.14
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (37 bp):
AAAATATAAATAATATTATTCATTATTAAATATTATA
Found at i:485875 original size:23 final size:23
Alignment explanation
Indices: 485824--485943 Score: 90
Period size: 23 Copynumber: 5.3 Consensus size: 23
485814 TTATTAAATA
* *
485824 TATAAAAATTATTATATATATTAA
1 TATAAAAA-TATAATATATATTAT
*
485848 AATAAAAATATAATATATATTAT
1 TATAAAAATATAATATATATTAT
*
485871 TAT---AATATAAT-TGATTTTAT
1 TATAAAAATATAATAT-ATATTAT
485891 ATATTAAAAATATAATATTATATTAT
1 -TA-TAAAAATATAATA-TATATTAT
* *
485917 TATAAATAT-TAATAAATA-TAT
1 TATAAAAATATAATATATATTAT
*
485938 TTTAAA
1 TATAAA
485944 TATTTTAATA
Statistics
Matches: 79, Mismatches: 9, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
19 1 0.01
20 14 0.18
21 10 0.13
22 4 0.05
23 20 0.25
24 13 0.16
25 10 0.13
26 6 0.08
27 1 0.01
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (23 bp):
TATAAAAATATAATATATATTAT
Found at i:485934 original size:27 final size:27
Alignment explanation
Indices: 485784--485935 Score: 98
Period size: 26 Copynumber: 6.0 Consensus size: 27
485774 TTATTATTAA
*
485784 ATATTATT-TAAATATAAAT-AATATT
1 ATATTATTATAAATATTAATAAATATT
*
485809 AT-TCATTATTAAATATATAA-AAATTATT
1 ATATTATTA-TAAATAT-TAATAAA-TATT
**
485837 ATATATATTA-AAATAAAAATATAATA-T
1 ATAT-TATTATAAATATTAATA-AATATT
** *
485864 ATATTATTAT-AATA-TAATTGATTTT
1 ATATTATTATAAATATTAATAAATATT
485889 ATA-TATTA-AAA-A-T-AT-AATATT
1 ATATTATTATAAATATTAATAAATATT
485910 ATATTATTATAAATATTAATAAATAT
1 ATATTATTATAAATATTAATAAATAT
485936 ATTTTAAATA
Statistics
Matches: 98, Mismatches: 11, Indels: 34
0.69 0.08 0.24
Matches are distributed among these distances:
21 7 0.07
22 7 0.07
23 5 0.05
24 14 0.14
25 10 0.10
26 18 0.18
27 16 0.16
28 14 0.14
29 3 0.03
30 4 0.04
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.46
Consensus pattern (27 bp):
ATATTATTATAAATATTAATAAATATT
Found at i:485946 original size:43 final size:45
Alignment explanation
Indices: 485850--485938 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
485840 TATATTAAAA
* **
485850 TAAAAATATAATATATATTATTATAATATAATTGATTTTATATAT
1 TAAAAATATAATATATATTATTATAATATAATTGAATAAATATAT
485895 TAAAAATATAATATTATATTATTATAA-AT-ATT-AATAAATATAT
1 TAAAAATATAATA-TATATTATTATAATATAATTGAATAAATATAT
485938 T
1 T
485939 TTAAATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
43 9 0.22
44 3 0.08
45 15 0.38
46 13 0.32
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (45 bp):
TAAAAATATAATATATATTATTATAATATAATTGAATAAATATAT
Found at i:486191 original size:42 final size:42
Alignment explanation
Indices: 486132--486250 Score: 220
Period size: 42 Copynumber: 2.8 Consensus size: 42
486122 ATGAATTACG
486132 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
486174 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
486216 TTCCGAAAAACGAATTACATGAAACAAACACGGGA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGA
486251 TTTCGGAGAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.46, C:0.19, G:0.18, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:502951 original size:29 final size:30
Alignment explanation
Indices: 502889--502951 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
502879 AACCACACGC
502889 TCCTCAACTTTGTATTTTACCTTAATTTGG
1 TCCTCAACTTTGTATTTTACCTTAATTTGG
502919 TCCTCAACTTTGTATTTTA-CTTAATTTGG
1 TCCTCAACTTTGTATTTTACCTTAATTTGG
502948 TCCT
1 TCCT
502952 ACGATTGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 14 0.42
30 19 0.58
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.51
Consensus pattern (30 bp):
TCCTCAACTTTGTATTTTACCTTAATTTGG
Found at i:504447 original size:2 final size:2
Alignment explanation
Indices: 504440--504471 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
504430 CGGAGCTTGA
504440 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
504472 TTGTTTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:504859 original size:56 final size:59
Alignment explanation
Indices: 504727--504874 Score: 176
Period size: 56 Copynumber: 2.5 Consensus size: 59
504717 ATTAATTTTT
* * **
504727 AAACTTTAGAATATTCTAATTTCATCTCTAAACTATGATTCTCATTCTAAATTAGTCCTT
1 AAACTTTTGAATATTCTAATTTCATCACTAAACTATGA-TCTCATTCTAAATTAGTCCCC
* * *
504787 AAACTTTTGAACATTCTAATTTCATCAC-AAACTATGA-C-CTTTCTATATTAGTCCCC
1 AAACTTTTGAATATTCTAATTTCATCACTAAACTATGATCTCATTCTAAATTAGTCCCC
* * *
504843 AAACTTTTCAATATTCTAATTTTATCCCTAAA
1 AAACTTTTGAATATTCTAATTTCATCACTAAA
504875 TTCATCCAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
56 38 0.50
57 4 0.05
59 9 0.12
60 25 0.33
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.41
Consensus pattern (59 bp):
AAACTTTTGAATATTCTAATTTCATCACTAAACTATGATCTCATTCTAAATTAGTCCCC
Found at i:512152 original size:16 final size:16
Alignment explanation
Indices: 512131--512173 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
512121 ATAATGTATG
512131 ATATTGTGGTCACTGA
1 ATATTGTGGTCACTGA
*
512147 ATATTGTGGTCACTGG
1 ATATTGTGGTCACTGA
*
512163 ATATTGCGGTC
1 ATATTGTGGTC
512174 GTGTAGTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (16 bp):
ATATTGTGGTCACTGA
Found at i:515024 original size:27 final size:27
Alignment explanation
Indices: 514994--515063 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
514984 ATTTTAATTA
514994 TTGT-TAATATTTATTTATTTATTT-AAT
1 TTGTATAATATTTATTTA--TATTTCAAT
*
515021 TTGTGTAATA-TTAGTTTATATTTCAAT
1 TTGTATAATATTTA-TTTATATTTCAAT
*
515048 TTCTATAATATTTATT
1 TTGTATAATATTTATT
515064 AAATTCATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 5 0.14
27 20 0.54
28 12 0.32
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (27 bp):
TTGTATAATATTTATTTATATTTCAAT
Found at i:519870 original size:27 final size:26
Alignment explanation
Indices: 519840--519898 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
519830 TTTGATATTC
519840 AAATGATTAAAATACCCCTA-AACTCCA
1 AAATGATTAAAATA--CCTAGAACTCCA
*
519867 AAATGATTGAAATACCTAGAACTCCA
1 AAATGATTAAAATACCTAGAACTCCA
*
519893 AGATGA
1 AAATGA
519899 CTGAAGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 4 0.14
26 12 0.41
27 13 0.45
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.22
Consensus pattern (26 bp):
AAATGATTAAAATACCTAGAACTCCA
Found at i:519889 original size:26 final size:26
Alignment explanation
Indices: 519840--519903 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
519830 TTTGATATTC
*
519840 AAATGATTAAAATACCCCTAAACTCCA
1 AAATGATTGAAATA-CCCTAAACTCCA
519867 AAATGATTGAAATA-CCTAGAACTCCA
1 AAATGATTGAAATACCCTA-AACTCCA
* *
519893 AGATGACTGAA
1 AAATGATTGAA
519904 GTAACCTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.12
26 16 0.48
27 13 0.39
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.22
Consensus pattern (26 bp):
AAATGATTGAAATACCCTAAACTCCA
Done.