Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004623.1 Hibiscus syriacus cultivar Beakdansim tig00010345_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: 173203
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:11152 original size:13 final size:13
Alignment explanation
Indices: 11108--11148 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
11098 AAGCACTAAA
11108 AAAGAAGAAACAG
1 AAAGAAGAAACAG
11121 AAAGAAGAAACAG
1 AAAGAAGAAACAG
11134 AAAGAAGAAA-AG
1 AAAGAAGAAACAG
11146 AAA
1 AAA
11149 AGAAATTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 5 0.18
13 23 0.82
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAACAG
Found at i:15364 original size:69 final size:70
Alignment explanation
Indices: 15264--15394 Score: 176
Period size: 69 Copynumber: 1.9 Consensus size: 70
15254 TTAAAGTTTG
*
15264 AAAGTATGGATATTTTTTCACAAATACCGATACATTCAA-ATTA-AAAAGATGAAAAATGAGAAG
1 AAAGTATGGATATTTTTTCACAAATACCGATACATTCAAGATTAGAAAAAATGAAAAATGAGAAG
15327 GTTGC
66 GTTGC
* * * * *
15332 AAAGTATTGATATTTTTTTTACAAATATCGATACTTTCAAGTTTTAGAAAAAATGAAAAATGA
1 AAAGTATGGATA-TTTTTTCACAAATACCGATACATTCAAG-ATTAGAAAAAATGAAAAATGA
15395 TATTTTAACT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 11 0.21
69 24 0.45
71 3 0.06
72 15 0.28
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (70 bp):
AAAGTATGGATATTTTTTCACAAATACCGATACATTCAAGATTAGAAAAAATGAAAAATGAGAAG
GTTGC
Found at i:15792 original size:77 final size:75
Alignment explanation
Indices: 15558--15831 Score: 293
Period size: 77 Copynumber: 3.6 Consensus size: 75
15548 AAAGGGTCAT
* * * *** *
15558 ATCGCAACCTACTTTCTTAGTAAACCTTAACATTCTTGGACACAATCCATTTTATTAATAAAAAT
1 ATCGCAA-CTA-TTTCTTAGTGAACCATGACATTCTTGGGTGCAACCCATTTTATTAATAAAAAT
15623 ATTAACATTTCAA
64 ATTAACA-TTCAA
* * * * * *
15636 ATTGTAACATATTTCTTAGTGAACCAAGACATTTTTGGG-GCAACTCATTTGATT-A-AAAAATA
1 ATCGCAAC-TATTTCTTAGTGAACCATGACATTCTTGGGTGCAACCCATTTTATTAATAAAAATA
*
15698 TTAACATTCTAG
65 TTAACATTC-AA
* *
15710 ATCGCAACTCATTTATTAGTGAACCATGACATTCTTGGGTGTAACCCATTTTATTAATAAAAATA
1 ATCGCAACT-ATTTCTTAGTGAACCATGACATTCTTGGGTGCAACCCATTTTATTAATAAAAATA
15775 TTAACATTCGAA
65 TTAACATTC-AA
* *
15787 ATCGCAACTTATTTCTTAGTAAACCATGACATTCTTGGGTTCAAC
1 ATCGCAAC-TATTTCTTAGTGAACCATGACATTCTTGGGTGCAAC
15832 TCTATTTCTT
Statistics
Matches: 162, Mismatches: 27, Indels: 15
0.79 0.13 0.07
Matches are distributed among these distances:
73 4 0.02
74 46 0.28
75 13 0.08
76 12 0.07
77 79 0.49
78 8 0.05
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (75 bp):
ATCGCAACTATTTCTTAGTGAACCATGACATTCTTGGGTGCAACCCATTTTATTAATAAAAATAT
TAACATTCAA
Found at i:20975 original size:39 final size:37
Alignment explanation
Indices: 20869--21012 Score: 103
Period size: 33 Copynumber: 4.0 Consensus size: 37
20859 TAAAAACAAT
* * *
20869 ATGTTCAAAGTTTGGCCACCTAGCAA-A-GAATTTTCC
1 ATGTT-AAAGTTTGGCCACCAACCAAGATGAAATTTCC
*
20905 AATGTGTACAAGTTT-GCCACC-A--AATAT-AAATTTCAC
1 -ATGT-TA-AAGTTTGGCCACCAACCAAGATGAAATTTC-C
20941 ATGTTCAAAGTTTGGCCACCAACCAAGATGAAATTTCC
1 ATGTT-AAAGTTTGGCCACCAACCAAGATGAAATTTCC
* *
20979 A--AT-AAG-TTGGCCACCAACCAAGATAAAATTTCC
1 ATGTTAAAGTTTGGCCACCAACCAAGATGAAATTTCC
21012 A
1 A
21013 ACTTGTCAAC
Statistics
Matches: 92, Mismatches: 4, Indels: 26
0.75 0.03 0.21
Matches are distributed among these distances:
33 27 0.29
34 12 0.13
35 18 0.20
36 4 0.04
37 11 0.12
38 13 0.14
39 7 0.08
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (37 bp):
ATGTTAAAGTTTGGCCACCAACCAAGATGAAATTTCC
Found at i:25724 original size:33 final size:33
Alignment explanation
Indices: 25685--25747 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
25675 TGTTCAAAGT
*
25685 TTGGCCATCAACCAAGATGAAATTTCCAATAAG
1 TTGGCCACCAACCAAGATGAAATTTCCAATAAG
*
25718 TTGGCCACCAACCAATATGAAATTTCCAAT
1 TTGGCCACCAACCAAGATGAAATTTCCAAT
25748 TTGTCAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (33 bp):
TTGGCCACCAACCAAGATGAAATTTCCAATAAG
Found at i:34545 original size:16 final size:14
Alignment explanation
Indices: 34512--34547 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
34502 TTTCAACTTA
34512 TCTCTCTCTTTTTT
1 TCTCTCTCTTTTTT
*
34526 TCTCTCTCTTCTTT
1 TCTCTCTCTTTTTT
34540 TCTCTCTC
1 TCTCTCTC
34548 CCACCATCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (14 bp):
TCTCTCTCTTTTTT
Found at i:38530 original size:180 final size:179
Alignment explanation
Indices: 38223--38759 Score: 738
Period size: 180 Copynumber: 3.0 Consensus size: 179
38213 CCAACCAAAT
* * * * *
38223 TTTCTGCATAACATAGTAAATAACCATTATCATCTCCAAGTTCATTACCATCTTCTGCATAACCA
1 TTTCTGCATAACATAGTTAATAACCATTATTATTTCAAAGTTCATTATCATCTTCTGCATAACCA
* * *
38288 AGAACTTATCAGAAGGAAATAAACAACATACTTTGAACAGTAGAAGCATGCTTTGATGTTTTCTG
66 AGAACTTATCAGAA-GAAAAAAACAACATACTTTGAACAGCAGAAGCATCCTTTGATGTTTTCTG
* *
38353 ACAAGTTGCATTCTTGGGTAATGAGTGGTCATTGAGCAAACCCTTCTTAG
130 ACAACTTGCATTCTTGGGTAATGAGTGGTCATTGAGCAAACTCTTCTTAG
*
38403 TTTCTGCATAACATAGTTAATAACCATTATTATTTCAAAGTTCATTATCATCTTCTTCATAACCA
1 TTTCTGCATAACATAGTTAATAACCATTATTATTTCAAAGTTCATTATCATCTTCTGCATAACCA
* *
38468 AGAACTCATCAGAAGAAAAAACACAACATACTTTGAACAGCAGAAGCATCCTTTGCTGTTTTCTG
66 AGAACTTATCAGAAGAAAAAA-ACAACATACTTTGAACAGCAGAAGCATCCTTTGATGTTTTCTG
*
38533 ACAACTTGCATTCTTGGGTAATGAGTGGTCATTGAGCAAGCTCTTCTTAG
130 ACAACTTGCATTCTTGGGTAATGAGTGGTCATTGAGCAAACTCTTCTTAG
* * * * * **
38583 TTTCTGCATAACATAGTTAATAACCTTTATTATTTCTAGGCTCATTATCATATTCTGCA-ATATT
1 TTTCTGCATAACATAGTTAATAACCATTATTATTTCAAAGTTCATTATCATCTTCTGCATA-ACC
* * * * * *
38647 AAGAACTTATCAGAAG--GAAAACGACATACTTCGAACAGCAGAAGCATCCTTTGGTTTTTTCAG
65 AAGAACTTATCAGAAGAAAAAAACAACATACTTTGAACAGCAGAAGCATCCTTTGATGTTTTCTG
* * * * *
38710 ACCACTTGCACTCTTGGGTGATGAGTGATCATTGTGCAAACTCTTCTTAG
130 ACAACTTGCATTCTTGGGTAATGAGTGGTCATTGAGCAAACTCTTCTTAG
38760 CTATGACTTT
Statistics
Matches: 320, Mismatches: 35, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
177 82 0.26
178 3 0.01
179 7 0.02
180 228 0.71
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (179 bp):
TTTCTGCATAACATAGTTAATAACCATTATTATTTCAAAGTTCATTATCATCTTCTGCATAACCA
AGAACTTATCAGAAGAAAAAAACAACATACTTTGAACAGCAGAAGCATCCTTTGATGTTTTCTGA
CAACTTGCATTCTTGGGTAATGAGTGGTCATTGAGCAAACTCTTCTTAG
Found at i:45146 original size:34 final size:36
Alignment explanation
Indices: 45102--45203 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
45092 TCTCGTCCTA
*
45102 CTAGGATTCAAACTCCTAAAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
45137 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
45172 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
45204 GTTCTACTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 29 0.48
35 3 0.05
37 29 0.48
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:45227 original size:37 final size:37
Alignment explanation
Indices: 45099--45237 Score: 158
Period size: 37 Copynumber: 3.8 Consensus size: 37
45089 ATTTCTCGTC
* *
45099 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
45136 -T--TAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
45170 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
** * * *
45207 CTACTATTATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
45238 CCACAAGCAC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
34 31 0.35
35 1 0.01
36 1 0.01
37 55 0.62
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:45634 original size:18 final size:17
Alignment explanation
Indices: 45595--45637 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
45585 ATTATATGGA
45595 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
45611 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
45629 TATTATTAT
1 TATTATTAT
45638 ATATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:46212 original size:22 final size:22
Alignment explanation
Indices: 46187--46231 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
46177 ATGACTTTAC
46187 TATTT-TTTTCATTTATCTTATT
1 TATTTATTTT-ATTTATCTTATT
*
46209 TATTTATTTTATTTATTTTATT
1 TATTTATTTTATTTATCTTATT
46231 T
1 T
46232 TTCCCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (22 bp):
TATTTATTTTATTTATCTTATT
Found at i:46215 original size:13 final size:13
Alignment explanation
Indices: 46197--46226 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
46187 TATTTTTTTC
46197 ATTTATCTTATTT
1 ATTTATCTTATTT
*
46210 ATTTATTTTATTT
1 ATTTATCTTATTT
46223 ATTT
1 ATTT
46227 TATTTTTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTATCTTATTT
Found at i:49278 original size:13 final size:13
Alignment explanation
Indices: 49260--49315 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
49250 GGGCAAAAAG
49260 AAAAAAAAGAAGC
1 AAAAAAAAGAAGC
49273 AAAAAACAA-AAGC
1 AAAAAA-AAGAAGC
49286 -AAAAAAAGAA-C
1 AAAAAAAAGAAGC
*
49297 AAAAAGAAAAAAG-
1 AAAAA-AAAGAAGC
49310 AAAAAA
1 AAAAAA
49316 GAAAAAGGAC
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
11 3 0.08
12 12 0.32
13 20 0.54
14 2 0.05
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAGC
Found at i:49282 original size:7 final size:7
Alignment explanation
Indices: 49254--49321 Score: 52
Period size: 7 Copynumber: 9.6 Consensus size: 7
49244 TAAAAAGGGC
49254 AAAAAG-
1 AAAAAGA
49260 AAAAA-A
1 AAAAAGA
* *
49266 AAGAAGC
1 AAAAAGA
49273 AAAAA-A
1 AAAAAGA
*
49279 CAAAAGCA
1 AAAAAG-A
49287 AAAAAAGAA
1 -AAAAAG-A
49296 CAAAAAGA
1 -AAAAAGA
49304 AAAAAGA
1 AAAAAGA
49311 AAAAAGA
1 AAAAAGA
49318 AAAA
1 AAAA
49322 GGACAAAAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
6 13 0.27
7 22 0.45
8 2 0.04
9 12 0.24
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:49289 original size:25 final size:24
Alignment explanation
Indices: 49254--49315 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
49244 TAAAAAGGGC
49254 AAAAAGAAAAAAAAGAAGCAAAAA-A
1 AAAAAG-AAAAAAAGAA-CAAAAAGA
*
49279 CAAAAGCAAAAAAAGAACAAAAAGA
1 AAAAAG-AAAAAAAGAACAAAAAGA
49304 AAAAAGAAAAAA
1 AAAAAGAAAAAA
49316 GAAAAAGGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.36
25 21 0.64
ACGTcount: A:0.82, C:0.06, G:0.11, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAAAAAGAACAAAAAGA
Found at i:49316 original size:14 final size:16
Alignment explanation
Indices: 49254--49321 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 16
49244 TAAAAAGGGC
*
49254 AAAAAGAAAAAAAAGA
1 AAAAAGAACAAAAAGA
49270 AGCAAAA-AAC-AAAAGCAA
1 A--AAAAGAACAAAAAG--A
49288 AAAAAGAACAAAAAGA
1 AAAAAGAACAAAAAGA
49304 AAAAAG-A-AAAAAGA
1 AAAAAGAACAAAAAGA
49318 AAAA
1 AAAA
49322 GGACAAAAGC
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 17 0.38
17 5 0.11
18 11 0.24
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAGAACAAAAAGA
Found at i:49329 original size:14 final size:14
Alignment explanation
Indices: 49288--49330 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
49278 ACAAAAGCAA
*
49288 AAAAAGAACAAAAAG
1 AAAAAGGAC-AAAAG
* *
49303 AAAAAAGAAAAAAG
1 AAAAAGGACAAAAG
49317 AAAAAGGACAAAAG
1 AAAAAGGACAAAAG
49331 CACATACAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAGGACAAAAG
Found at i:49945 original size:22 final size:22
Alignment explanation
Indices: 49917--49960 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
49907 AGCTACCCTA
49917 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
49939 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
49961 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:50418 original size:17 final size:18
Alignment explanation
Indices: 50396--50430 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
50386 TCAACAACAA
50396 ATATTGGGGCAT-TTTGG
1 ATATTGGGGCATCTTTGG
50413 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
50431 GGATTCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.17, C:0.09, G:0.34, T:0.40
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:51093 original size:36 final size:36
Alignment explanation
Indices: 50994--51151 Score: 262
Period size: 36 Copynumber: 4.3 Consensus size: 36
50984 ATTGAAAACA
*
50994 TTTCCCTTGAAATAAATTTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAATAAATTTT-GTCTCTCTTGAGACAG
*
51031 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGACAG
* *
51068 TTTCCCTTGAAATAAATTTTATCTCTCTTGAGGCAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
51104 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
51140 TTTCCCTTGAAA
1 TTTCCCTTGAAA
51152 CAAAATATTT
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
36 67 0.59
37 39 0.35
38 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
Found at i:51235 original size:174 final size:173
Alignment explanation
Indices: 50911--51293 Score: 511
Period size: 174 Copynumber: 2.2 Consensus size: 173
50901 ACTAGAAGAG
*
50911 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTGTCTCCCTTGAGACAGTTTCTCTTGAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTGTCTCCCTTGAGACAGTTTCCCTTGAA
* * *
50976 ACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTCGTCTCTCTTGAGATAGTTTCCCTTGA
66 ACATAAACATTGAAAACATTTCCCTTGAAACAAATTTTCGTCTCCCTTGAGACAGTTTCCCTTGA
*
51041 AACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAA
131 AACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * *
51084 TTTTATCTCTCTTGAGGCAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA--TTGTCTCCCTTGAGACAGTTTCCCTTG
* * ** * **
51149 AAACA-AAATATTTGAATATGTTT-TCTCTGAAACAAA-TTTCGTCTCCCTTGAGACAGTTTCTT
64 AAACATAAACA-TTGAAAACATTTCCCT-TGAAACAAATTTTCGTCTCCCTTGAGACAGTTTCCC
* * * *
51211 TTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
127 TTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* *
51258 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
51294 ATCTTTGAAT
Statistics
Matches: 181, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
173 33 0.18
174 101 0.56
175 47 0.26
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (173 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTGTCTCCCTTGAGACAGTTTCCCTTGAA
ACATAAACATTGAAAACATTTCCCTTGAAACAAATTTTCGTCTCCCTTGAGACAGTTTCCCTTGA
AACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:51245 original size:102 final size:101
Alignment explanation
Indices: 51075--51257 Score: 267
Period size: 102 Copynumber: 1.8 Consensus size: 101
51065 CAGTTTCCCT
* * * *
51075 TGAAATAAATTTTATCTCTCTTGAGGCAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TGAAACAAATTTCATCTCCCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
51140 TTTCCCTTGAAACAAAATATTTGAATATGTTTTCTC
66 TTTCCCTTGAAACAAAATATTTGAATATGTTTTCTC
* ** * *
51176 TGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 TGAAACAAATTTCATCTCCCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCTTGAGACA
*
51241 GTTTCTCTTGAAACAAA
65 GTTTCCCTTGAAACAAA
51258 TTTCGTCTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
101 30 0.42
102 41 0.58
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (101 bp):
TGAAACAAATTTCATCTCCCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
TTTCCCTTGAAACAAAATATTTGAATATGTTTTCTC
Found at i:51251 original size:138 final size:137
Alignment explanation
Indices: 51038--51354 Score: 436
Period size: 138 Copynumber: 2.3 Consensus size: 137
51028 TAGTTTCCCT
* *
51038 TGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAATTTTATCTCTCTTGAGGCA
1 TGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAATAAATTTTATCTCTCTTGAGACA
* * *
51103 GTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
65 GTTTCCCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * *
51168 GTTTTCTC
130 ATTTCCAC
* ** * * *
51176 TGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 TGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTT-GAAATAAATTTTATCTCTCTTGAGACA
* * *
51241 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
65 GTTTCCCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
51306 ATTTCCAC
130 ATTTCCAC
* * *
51314 TAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAA
1 TGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
51355 CACAAAATCT
Statistics
Matches: 156, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
137 30 0.19
138 126 0.81
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.39
Consensus pattern (137 bp):
TGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAATAAATTTTATCTCTCTTGAGACAG
TTTCCCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATA
TTTCCAC
Found at i:51278 original size:36 final size:36
Alignment explanation
Indices: 51170--51293 Score: 169
Period size: 36 Copynumber: 3.4 Consensus size: 36
51160 TTGAATATGT
*
51170 TTTCTC-TGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * * *
51205 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
*
51242 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
51278 TTTCCCTTGAAACAAA
1 TTTCTCTTGAAACAAA
51294 ATCTTTGAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
35 5 0.07
36 40 0.53
37 31 0.41
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.39
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:51355 original size:65 final size:65
Alignment explanation
Indices: 51242--51425 Score: 217
Period size: 65 Copynumber: 2.8 Consensus size: 65
51232 CTTGAGACAG
* * * ** * **
51242 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTA
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTAAAATTTA
*
51307 TTTCCAC-TAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTAAAAT
1 TTTCC-CTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTAAAAT
51371 TTA
63 TTA
* * *
51374 TTTCCCTTAAAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 TTTCCCTTAAAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
51426 CAGATATCTT
Statistics
Matches: 101, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
65 36 0.36
66 8 0.08
67 30 0.30
68 27 0.27
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.38
Consensus pattern (65 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTAAAATTTA
Found at i:52257 original size:105 final size:105
Alignment explanation
Indices: 52029--52689 Score: 929
Period size: 105 Copynumber: 6.3 Consensus size: 105
52019 GCCATCCGCG
* * * * * *
52029 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
52094 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
52138 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
52203 ACCGCTGCTTGTCAATAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
*
52243 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
52308 ACCACTGCTTGTAAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * * *
52348 ATTTCAACTTCACAATGAAGGATATTGGATTCCAGACAATGCAAGTTCAACTTCATGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
52413 ACCGCTGCTTGTCAACAACAACTTGC-CAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTT-CTCAATTTCAGAGCCA
52453 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
52518 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * *
52553 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * * * * *
52618 ACGGTTGGTTGTCAACAAACAATTTCCCAGTTCCAGAGCCA
66 ACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* *
52659 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
52690 TGGAACAATG
Statistics
Matches: 502, Mismatches: 42, Indels: 19
0.89 0.07 0.03
Matches are distributed among these distances:
100 82 0.16
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 298 0.59
106 84 0.17
107 3 0.01
109 22 0.04
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:53281 original size:34 final size:36
Alignment explanation
Indices: 53237--53338 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
53227 TATCGTCCTA
*
53237 CTAGGATTCAAACTCCTAAAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
53272 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
53307 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
53339 GTTCTACTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 29 0.48
35 3 0.05
37 29 0.48
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:53362 original size:37 final size:37
Alignment explanation
Indices: 53234--53372 Score: 158
Period size: 37 Copynumber: 3.8 Consensus size: 37
53224 ATTTATCGTC
* *
53234 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
53271 -T--TAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
53305 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
** * * *
53342 CTACTATTATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
53373 CCACAAGCAC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
34 31 0.35
35 1 0.01
36 1 0.01
37 55 0.62
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:53684 original size:18 final size:17
Alignment explanation
Indices: 53645--53687 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
53635 ATTATATGGA
53645 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
53661 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
53679 TATTATTAT
1 TATTATTAT
53688 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:53740 original size:2 final size:2
Alignment explanation
Indices: 53733--53759 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
53723 TACTATATTT
53733 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
53760 TTCTTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53934 original size:2 final size:2
Alignment explanation
Indices: 53929--53965 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
53919 TCTTATAACT
53929 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
53966 TTATTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:54182 original size:38 final size:40
Alignment explanation
Indices: 54131--54210 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
54121 AGTGAGAGGG
*
54131 TAGCTTTTCTATTTT-TAAATA-TTTGGTGTATATATATA
1 TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
*
54169 TAGCTTATT-TATTTTATTAATACTTTGATGTATATATATA
1 TAGCTT-TTCTATTTTATAAATACTTTGATGTATATATATA
54209 TA
1 TA
54211 TATATTTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 12 0.32
39 7 0.19
40 18 0.49
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (40 bp):
TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
Found at i:54291 original size:9 final size:9
Alignment explanation
Indices: 54270--54303 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
54260 TTTTTTTTCC
54270 TTTATCTTA-
1 TTTAT-TTAT
54279 TTTATTTAT
1 TTTATTTAT
54288 TTTATTTAT
1 TTTATTTAT
54297 TTTATTT
1 TTTATTT
54304 TCCCCTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 3 0.12
9 21 0.88
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:54292 original size:13 final size:14
Alignment explanation
Indices: 54270--54304 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
54260 TTTTTTTTCC
*
54270 TTTATCTTATTTA-
1 TTTATTTTATTTAT
54283 TTTATTTTATTTAT
1 TTTATTTTATTTAT
54297 TTTATTTT
1 TTTATTTT
54305 CCCCTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:61786 original size:8 final size:8
Alignment explanation
Indices: 61773--61813 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
61763 CTCATTTTCA
61773 GAGAATTT
1 GAGAATTT
61781 GAGAATTT
1 GAGAATTT
*
61789 -AGAGTTT
1 GAGAATTT
*
61796 GGGAATTT
1 GAGAATTT
61804 GAGAATTT
1 GAGAATTT
61812 GA
1 GA
61814 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:62098 original size:128 final size:128
Alignment explanation
Indices: 61884--62993 Score: 1904
Period size: 128 Copynumber: 8.9 Consensus size: 128
61874 TAATCGGAGT
61884 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTA--TT-TCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
61946 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
62009 ACTATTCACATGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
62074 CATTGCCCTATTATGTCACTCATGT-CCTCGGGGACACTAGATATATCAGTACCTATTA-TTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
62135 ACTATTCACATGAAGGCGCGTT-CCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
62199 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
62262 ACTATTCACATGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
62327 CATTGCCCTATTATGTCACTCCTGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
62390 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGTGCCTACCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
62455 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
62518 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
62583 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
62646 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCG----CC-----TTTGTTAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
62702 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
62765 ACTATTCACATGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
62830 CATTTCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
62893 ACTATTCACATGAA---------------G-GCGCCTTCCATTATTTTGTCATAGAATATTTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
62942 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACATTAGATATATCAGTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
62994 AATCAGGTAA
Statistics
Matches: 952, Mismatches: 18, Indels: 43
0.94 0.02 0.04
Matches are distributed among these distances:
112 82 0.09
113 1 0.00
119 115 0.12
123 2 0.00
124 2 0.00
125 109 0.11
126 58 0.06
127 60 0.06
128 523 0.55
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:62709 original size:119 final size:119
Alignment explanation
Indices: 62563--62993 Score: 633
Period size: 119 Copynumber: 3.6 Consensus size: 119
62553 CTTCCATTAT
62563 TTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATAT
1 TTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATAT
*
62628 ATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCC
66 ATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCTCC
*
62682 TTTGTTAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATAT
1 TTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATAT
62747 ATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGGGGGTGCGCCTTCC
66 ATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCC-GGGG-GCG-C-TCC
*
62805 ATTATTTTGTCAGAGAATATGTTATCATTTCCCTATTATGTCACTCATGTCCCTCGGGGACACTA
1 -----TTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTA
* ** **
62870 GATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCCTT--C-----CATTAT
61 GATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCTCC
* * *
62922 TTTGTCATAGAATATTTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACATTAGATAT
1 TTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATAT
62987 ATCAGTA
66 ATCAGTA
62994 AATCAGGTAA
Statistics
Matches: 290, Mismatches: 13, Indels: 25
0.88 0.04 0.08
Matches are distributed among these distances:
112 68 0.23
117 1 0.00
119 108 0.37
120 4 0.01
121 3 0.01
122 1 0.00
123 2 0.01
126 1 0.00
128 102 0.35
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (119 bp):
TTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATAT
ATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCTCC
Found at i:62883 original size:503 final size:501
Alignment explanation
Indices: 61884--62993 Score: 1900
Period size: 503 Copynumber: 2.2 Consensus size: 501
61874 TAATCGGAGT
*
61884 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTA--TT-TCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGTGCC-TCCATTATTTTGTCAGAGAATATGTTAT
61946 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
65 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*
62011 TATTCACATGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
130 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
62076 TTGCCCTATTATGTCACTCATGTCCTCGGGGACACTAGATATATCAGTACCTATTATTCACTATT
195 TTGCCCTATTATGTCACTCATGTCCTCGGGGACACTAGATATATCAGTACCTATTATTCACTATT
62141 CACATGAAGGCGCGTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCC
260 CACATGAAGGCGCGTTCCGGGGGCGCG-C--CC----TTTTGTCAGAGAATATGTTATCATTGCC
62206 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
318 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
62271 ATGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
383 ATGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
*
62336 ATTATGTCACTCCTGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
448 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
62390 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGTGCCTACCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGTGCCT-CCATTATTTTGTCAGAGAATATGTTAT
62455 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
65 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
62520 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
130 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
62585 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA
195 TTGCCCTATTATGTCACTCATGT-CCTCGGGGACACTAGATATATCAGTACCTATTA-TTCACTA
*
62650 TTCACATGAAGGCGCGTTCCCGGGGGCGCG-CC-TTTGTTAGAGAATATGTTATCATTGCCCTAT
258 TTCACATGAAGGCGCGTT-CCGGGGGCGCGCCCTTTTGTCAGAGAATATGTTATCATTGCCCTAT
62713 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGA
322 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGA
*
62778 AGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTTCCCTATTA
387 AGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
62843 TGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
452 TGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
62893 ACTATTCACATGAA-G-GCG----C-----C-T---TCCATTATTTTGTCATAGAATATTTTATC
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGTGCCTCCATTATTTTGTCAGAGAATATGTTATC
*
62943 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACATTAGATATATCAGTA
66 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
62994 AATCAGGTAA
Statistics
Matches: 589, Mismatches: 8, Indels: 33
0.93 0.01 0.05
Matches are distributed among these distances:
487 76 0.13
488 1 0.00
491 1 0.00
492 1 0.00
497 1 0.00
501 3 0.01
502 1 0.00
503 222 0.38
505 1 0.00
506 41 0.07
508 4 0.01
509 168 0.29
510 33 0.06
511 25 0.04
512 11 0.02
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (501 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGTGCCTCCATTATTTTGTCAGAGAATATGTTATC
ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACT
ATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCAT
TGCCCTATTATGTCACTCATGTCCTCGGGGACACTAGATATATCAGTACCTATTATTCACTATTC
ACATGAAGGCGCGTTCCGGGGGCGCGCCCTTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
TCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGC
GCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
ACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:63131 original size:23 final size:22
Alignment explanation
Indices: 63095--63137 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
63085 AAATTAGATA
*
63095 AAATGTTATGGATAAATTGAAT
1 AAATGTTAAGGATAAATTGAAT
*
63117 AAATGTTAAGTGATAAGTTGA
1 AAATGTTAAG-GATAAATTGA
63138 TTGTGACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (22 bp):
AAATGTTAAGGATAAATTGAAT
Found at i:63432 original size:34 final size:34
Alignment explanation
Indices: 63394--63494 Score: 121
Period size: 34 Copynumber: 3.0 Consensus size: 34
63384 AAATTTAATG
* *
63394 TTAAATTTCAAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * * *
63428 TTAAATTTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* *
63462 TTAAATATCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
63495 AACATTTATC
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:63738 original size:15 final size:15
Alignment explanation
Indices: 63718--63749 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
63708 TGGAACTTGT
*
63718 TCTTCACTCTCATCA
1 TCTTCACTATCATCA
63733 TCTTCACTATCATCA
1 TCTTCACTATCATCA
63748 TC
1 TC
63750 AGCAGCACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.41
Consensus pattern (15 bp):
TCTTCACTATCATCA
Found at i:64040 original size:21 final size:20
Alignment explanation
Indices: 64013--64103 Score: 101
Period size: 21 Copynumber: 4.3 Consensus size: 20
64003 GGTATAAAAC
*
64013 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
*
64033 CCTGGCGGGCTAGAAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
* *
64054 CATTGCGGGCTCGGAATGTAA
1 C-CTGCGGGCTAGGAATGTAA
*
64075 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
64096 CCCTGCGG
1 -CCTGCGG
64104 AGATGGCATA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
20 3 0.05
21 57 0.92
22 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.34, T:0.20
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:64103 original size:42 final size:42
Alignment explanation
Indices: 64010--64103 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
64000 TATGGTATAA
*
64010 AACCCTGCGGGCTAGGCATGTAACCTGGCGGGCTAGAAATGT
1 AACCCTGCGGGCTAGGAATGTAACCTGGCGGGCTAGAAATGT
** * * *
64052 AACATTGCGGGCTCGGAATGTAACCCT-GCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGTAA-CCTGGCGGGCTAGAAATGT
64094 AACCCTGCGG
1 AACCCTGCGG
64104 AGATGGCATA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 40 0.93
43 3 0.07
ACGTcount: A:0.22, C:0.26, G:0.33, T:0.19
Consensus pattern (42 bp):
AACCCTGCGGGCTAGGAATGTAACCTGGCGGGCTAGAAATGT
Found at i:64133 original size:21 final size:21
Alignment explanation
Indices: 64107--64154 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
64097 CCTGCGGAGA
*
64107 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
64128 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
64149 GGGCAT
1 TGGCAT
64155 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:65929 original size:35 final size:32
Alignment explanation
Indices: 65890--65974 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
65880 AATTCTAAAT
65890 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAATA-TA--TTAATAAAAA
* * *
65925 AAATAATATTTACATAAATATATTAATATAAA
1 AAATAATAATTATATAAATATATTAATAAAAA
* *
65957 AAATAATAACTATTTAAA
1 AAATAATAATTATATAAA
65975 AAAATACTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 23 0.53
34 2 0.05
35 18 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (32 bp):
AAATAATAATTATATAAATATATTAATAAAAA
Found at i:65964 original size:32 final size:34
Alignment explanation
Indices: 65885--65965 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 34
65875 TTAATAATTC
*
65885 TAAATAAATAATAATTATATAAATATTATTTTAATA
1 TAAA-AAATAATAATTACATAAATATTA-TTTAATA
* *
65921 AAAAAAATAATATTTACATAAATA-TA-TTAATA
1 TAAAAAATAATAATTACATAAATATTATTTAATA
65953 TAAAAAATAATAA
1 TAAAAAATAATAA
65966 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 17 0.43
34 2 0.05
35 18 0.45
36 3 0.08
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (34 bp):
TAAAAAATAATAATTACATAAATATTATTTAATA
Found at i:65990 original size:34 final size:34
Alignment explanation
Indices: 65918--65997 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
65908 TATTATTTTA
* * *
65918 ATAAAAAAAATAATATTTACATAAATATATTAAT
1 ATAAAAAAAATAATATTTACATAAAAATACTAAC
65952 ATAAAAAATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAAAA-AATAA-TATTTACATAAAAATACTAAC
65986 ATAAAAATAAAT
1 ATAAAAA-AAAT
65998 TTCTTATCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 27 0.68
35 7 0.17
36 6 0.15
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
ATAAAAAAAATAATATTTACATAAAAATACTAAC
Found at i:67132 original size:6 final size:6
Alignment explanation
Indices: 67121--67193 Score: 128
Period size: 6 Copynumber: 12.2 Consensus size: 6
67111 GTGTCCACCT
67121 CTCACA CTCACA CTCACA CTCACA CTCACA CTCACA CTCACA CTCACA
1 CTCACA CTCACA CTCACA CTCACA CTCACA CTCACA CTCACA CTCACA
* *
67169 CTCACA CTCACT CTCACT CTCACA C
1 CTCACA CTCACA CTCACA CTCACA C
67194 AAGTGTCTCA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.30, C:0.51, G:0.00, T:0.19
Consensus pattern (6 bp):
CTCACA
Found at i:78758 original size:18 final size:19
Alignment explanation
Indices: 78724--78777 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 19
78714 TAATGTATTA
*
78724 TTTAAAAA-AAATT-AAAT
1 TTTAAAAATATATTAAAAT
*
78741 TATTAATAAT-TA-TAAAAT
1 T-TTAAAAATATATTAAAAT
78759 TTTAAAAATATATTAAAAT
1 TTTAAAAATATATTAAAAT
78778 ATTTTTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
17 9 0.31
18 14 0.48
19 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTAAAAATATATTAAAAT
Found at i:79287 original size:24 final size:24
Alignment explanation
Indices: 79255--79303 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
79245 CAATGGTAGG
79255 GTCATGTTACTTTATTTTTGTCAT
1 GTCATGTTACTTTATTTTTGTCAT
79279 GTCATGTTACTTTATTTTTGTCAT
1 GTCATGTTACTTTATTTTTGTCAT
79303 G
1 G
79304 CCTTTCTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.12, G:0.14, T:0.57
Consensus pattern (24 bp):
GTCATGTTACTTTATTTTTGTCAT
Found at i:79332 original size:21 final size:19
Alignment explanation
Indices: 79278--79332 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
79268 ATTTTTGTCA
* *
79278 TGTCATGTTACTTTATTTT
1 TGTCATGTTCCTTTCTTTT
79297 TGTCATG--CCTTTCTTGTT
1 TGTCATGTTCCTTTCTT-TT
79315 TGTCATGTTCCATTTCTT
1 TGTCATGTTCC-TTTCTT
79333 CTTTCTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 6 0.20
18 9 0.30
19 7 0.23
20 2 0.07
21 6 0.20
ACGTcount: A:0.11, C:0.18, G:0.13, T:0.58
Consensus pattern (19 bp):
TGTCATGTTCCTTTCTTTT
Found at i:81732 original size:21 final size:21
Alignment explanation
Indices: 81697--81737 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
81687 ATGTATTTAA
*
81697 ATGATTTTATAAATATTAAAT
1 ATGATTTTATAAATAATAAAT
81718 ATGATTTTA-ATAATAATAAA
1 ATGATTTTATA-AATAATAAA
81738 ATAAATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
ATGATTTTATAAATAATAAAT
Found at i:81769 original size:26 final size:27
Alignment explanation
Indices: 81740--81798 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
81730 ATAATAAAAT
*
81740 AAATGTT-TATTAAGTGACTAAATTG-A
1 AAATGTTATATTAA-TGACAAAATTGTA
*
81766 AAATGTTGATTTTAATGACAAAATTGTA
1 AAATGTT-ATATTAATGACAAAATTGTA
81794 AAATG
1 AAATG
81799 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 7 0.25
27 10 0.36
28 11 0.39
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.37
Consensus pattern (27 bp):
AAATGTTATATTAATGACAAAATTGTA
Found at i:88891 original size:817 final size:815
Alignment explanation
Indices: 87319--88954 Score: 3007
Period size: 817 Copynumber: 2.0 Consensus size: 815
87309 TGTTTTCTGG
*
87319 ATTATTGTTCTGTGTTCATTTTTCTGTTAGTTATTGGTAGATTGCACAACAATTATTATGTTATT
1 ATTATTGTTCTGTGTTCATTTTTCTGATAGTTATTGGTAGATTGCACAACAATTATTATGTTATT
87384 ATCTATTAAATCATTTTTTCAATTGTATTTGATTTTGATATGGAATTCTTTAAAATAAGCTTGAT
66 ATCTATTAAATCATTTTTTCAATTGTATTTGATTTTGATATGGAATTCTTTAAAATAAGCTTGAT
*
87449 TTTGGCATTTTTTTCAAAAATCCAGGAATTATTGTTGATTGAAGTCATTTTTAGGTTTCTAGTTG
131 TTTGCCATTTTTTTCAAAAATCCAGGAATTATTGTTGATTGAAGTCATTTTTAGGTTTCTAGTTG
*
87514 GATATAGTTGTTGATATTAGTTGTTCTTGATCATATCTTGTTGAGAAGAAGTAGTGTTGATTAGA
196 GATATAGTTGTTGATATTAGTTGATCTTGATCATATCTTGTTGAGAAGAAGTAGTGTTGATTAGA
*
87579 CCATAGGCTTAGAGAGTTGTTTCGGTAAGATTTTCGGTTCTTTCGCTCTGTTTTGGAAACTAAAA
261 CCATAAGCTTAGAGAGTTGTTTCGGTAAGATTTTCGGTTCTTTCGCTCTGTTTTGGAAACTAAAA
87644 ATTATGCTTTGTTTTGGATATGTTCTTAATGTTTTGTTTTTTCCAAGGTTTTTAATGTGTTGAGA
326 ATTATGCTTTGTTTTGGA-ATGTTCTTAATGTTTTGTTTTTTCCAAGGTTTTTAATGTGTTGAGA
*
87709 ATTGAGGAAAGTTGGTACATCGTGTTTGGTGGTCATTTGTAAGTGTTTGGAAGTGATTTCGATTA
390 ATTGAGGAAAGTTGGTACATCATGTTTGGTGGTCATTTGTAAGTGTTTGGAAGTGATTTCGATTA
87774 GTGGACAACAAAGGTGAATGAATTTCATTCTTAAAGGATGAACATATTCAAAGGTAAAAAAAGGT
455 GTGGACAACAAAGGTGAATGAATTTCATTCTTAAAGGATGAACATATTCAAAGGTAAAAAAAGGT
87839 GTAGTTTAGAGTAATTATCTTGGCTTGAATTCTATTTTAAGTGAACTTATATTGATACACATAAT
520 GTAGTTTAGAGTAATTATCTTGGCTTGAATTCTATTTTAAGTGAACTTATATTGATACACATAAT
87904 TAATTTTGGAATATGATATGAAATGATGATTTTGGTATATGCATTGTATATGTGATGTATAGTGG
585 TAATTTTGGAATATGATATGAAATGATGATTTTGGTATATGCATTGTATATGTGATGTATAGTGG
87969 TTTTGAAAGTGTATGTATATGAATGTATTAACGATGAGTGGAACAACTTCACTATCCATGGATGA
650 TTTTGAAAGTGTATGTATATGAATGTATTAACGATGAGTGGAACAACTTCACTATCCATGGATGA
88034 GTGAGAAACGTGTTGTCCATATAAGGTTGATCATGGCAACCATTTCTGATAAGTGTTTCAAAGTG
715 GTGAGAAACGTGTTGTCCATATAAGGTTGATCATGGCAACCATTTCTGATAAGTGTTTCAAAGTG
88099 TATTTTGGAAGTGTATATGTGTATAATTTATGCATC
780 TATTTTGGAAGTGTATATGTGTATAATTTATGCATC
*
88135 ATTATTGTTCTGTGTTCGTTTTTCTGATAGTTATTGGTAGATTGCACAACAATTATTATGTTATT
1 ATTATTGTTCTGTGTTCATTTTTCTGATAGTTATTGGTAGATTGCACAACAATTATTATGTTATT
88200 ATCTATTAAATCATTTTTTTTCAATTGTATTTGATTTTGATATGGAATTCTTTAAAATAAGCTTG
66 ATCTATTAAATCA--TTTTTTCAATTGTATTTGATTTTGATATGGAATTCTTTAAAATAAGCTTG
*
88265 ATTTTGCCCCTTTTGTTTCAAAAATCCAGGAATTATTGTTGATTGAAGTCATTTTTAGGTTTCTA
129 ATTTTG-CCATTTT-TTTCAAAAATCCAGGAATTATTGTTGATTGAAGTCATTTTTAGGTTTCTA
88330 GTTGGATATAGTTGTTGATATTAGTTGATCTTGATCATATCTTGTTGAGAAG-AG-AGTG-TG-T
192 GTTGGATATAGTTGTTGATATTAGTTGATCTTGATCATATCTTGTTGAGAAGAAGTAGTGTTGAT
*
88391 TAGATCATAAGCTTAGAGAGTTGTTTCGGTAAGATTTTCGGTTCTTTCGCTCTGTTTTGGAAACT
257 TAGACCATAAGCTTAGAGAGTTGTTTCGGTAAGATTTTCGGTTCTTTCGCTCTGTTTTGGAAACT
88456 AAAAATTATGCTTTGTTTTGG-ATGTTCTTAATGTTTTGTTTTGTTTTCCAAGGTTTTTAATGT-
322 AAAAATTATGCTTTGTTTTGGAATGTTCTTAATGTTTTG--TT-TTTTCCAAGGTTTTTAATGTG
* *
88519 TTGAGAATTGAGGAAATTTGGTGCATCATGTTTTGGTGGTCATTTGCTAAGTG-TTGGAAGTGAT
384 TTGAGAATTGAGGAAAGTTGGTACATCATG-TTTGGTGGTCATTTG-TAAGTGTTTGGAAGTGAT
88583 TTCGATTAGTGGACAACAAAGGTGAATGAATTTCATTCTTAAAGGATGAACATATTCAAAGGTAA
447 TTCGATTAGTGGACAACAAAGGTGAATGAATTTCATTCTTAAAGGATGAACATATTCAAAGGTAA
**
88648 AAAACTGTGTAGTTTAGAGTAATTATCTTGGCTTGAATTCTATTTTAAGTGAACTTATATTGATA
512 AAAAAGGTGTAGTTTAGAGTAATTATCTTGGCTTGAATTCTATTTTAAGTGAACTTATATTGATA
*
88713 CACATAATTAATTTTGGAATATGATATGAAATGATGATTTTGGTATATGCATTGTATTTGTGATG
577 CACATAATTAATTTTGGAATATGATATGAAATGATGATTTTGGTATATGCATTGTATATGTGATG
*
88778 TATAGTGGTTTTGAAAGTGTATGTATATGAATGTATTAAGGATGAGTGGAACAACTTCACTATCC
642 TATAGTGGTTTTGAAAGTGTATGTATATGAATGTATTAACGATGAGTGGAACAACTTCACTATCC
88843 ATGGATGAGTGAGAAACGTGTTGTCCATATAAGGTTGATCATGGCAACCATTTCTGATAAGTGTT
707 ATGGATGAGTGAGAAACGTGTTGTCCATATAAGGTTGATCATGGCAACCATTTCTGATAAGTGTT
88908 TCAAAGTGTATTTTGGAAGTGTATATGTGTATAATTTATGCATC
772 TCAAAGTGTATTTTGGAAGTGTATATGTGTATAATTTATGCATC
88952 ATT
1 ATT
88955 TGATAAGAAC
Statistics
Matches: 797, Mismatches: 14, Indels: 17
0.96 0.02 0.02
Matches are distributed among these distances:
814 17 0.02
816 190 0.24
817 416 0.52
818 66 0.08
819 7 0.01
820 101 0.13
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (815 bp):
ATTATTGTTCTGTGTTCATTTTTCTGATAGTTATTGGTAGATTGCACAACAATTATTATGTTATT
ATCTATTAAATCATTTTTTCAATTGTATTTGATTTTGATATGGAATTCTTTAAAATAAGCTTGAT
TTTGCCATTTTTTTCAAAAATCCAGGAATTATTGTTGATTGAAGTCATTTTTAGGTTTCTAGTTG
GATATAGTTGTTGATATTAGTTGATCTTGATCATATCTTGTTGAGAAGAAGTAGTGTTGATTAGA
CCATAAGCTTAGAGAGTTGTTTCGGTAAGATTTTCGGTTCTTTCGCTCTGTTTTGGAAACTAAAA
ATTATGCTTTGTTTTGGAATGTTCTTAATGTTTTGTTTTTTCCAAGGTTTTTAATGTGTTGAGAA
TTGAGGAAAGTTGGTACATCATGTTTGGTGGTCATTTGTAAGTGTTTGGAAGTGATTTCGATTAG
TGGACAACAAAGGTGAATGAATTTCATTCTTAAAGGATGAACATATTCAAAGGTAAAAAAAGGTG
TAGTTTAGAGTAATTATCTTGGCTTGAATTCTATTTTAAGTGAACTTATATTGATACACATAATT
AATTTTGGAATATGATATGAAATGATGATTTTGGTATATGCATTGTATATGTGATGTATAGTGGT
TTTGAAAGTGTATGTATATGAATGTATTAACGATGAGTGGAACAACTTCACTATCCATGGATGAG
TGAGAAACGTGTTGTCCATATAAGGTTGATCATGGCAACCATTTCTGATAAGTGTTTCAAAGTGT
ATTTTGGAAGTGTATATGTGTATAATTTATGCATC
Found at i:93811 original size:2 final size:2
Alignment explanation
Indices: 93806--93830 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93796 ACACACACAC
93806 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
93831 ATGTTTAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96184 original size:26 final size:26
Alignment explanation
Indices: 96135--96184 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
96125 CTAACGTGGT
*
96135 AGTTTCTAGAAGGTCCAGTCAGCGGC
1 AGTTTCTAGAAGATCCAGTCAGCGGC
* *
96161 AGTTTCTAGAAGATCTAGTTAGCG
1 AGTTTCTAGAAGATCCAGTCAGCG
96185 CGCCTTCTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (26 bp):
AGTTTCTAGAAGATCCAGTCAGCGGC
Found at i:103889 original size:823 final size:823
Alignment explanation
Indices: 101952--104420 Score: 4737
Period size: 823 Copynumber: 3.0 Consensus size: 823
101942 TGTTTTATGG
* *
101952 ATTATTGTTCTGTGTTCATTTTTCTGTTAGTTATTGGTAGATTGCACAACAATTATTATGTTATT
1 ATTATTGTTCTGTGTTCGTTTTTCTGTTAGTTATTGGTAGATTGCACAAAAATTATTATGTTATT
102017 ATCTATTAAATCATTTTTTT-AATTGTATTTGATTTTGATATGGAATTCTTTAAAATAAGCTTGA
66 ATCTATTAAATCATTTTTTTCAATTGTATTTGATTTTGATATGGAATTCTTTAAAATAAGCTTGA
* * *
102081 TTTTG-GCATTTTTTTTCAAAAATCCAGGAATTATTGTTGATTGAAGTCATTTTTAGGTTTCTAG
131 TTTTGCCCCTTTTGTTTCAAAAATCCAGGAATTATTGTTGATTGAAGTCATTTTTAGGTTTCTAG
102145 TTGGATATAGTTGTTGATATTAGTTGTTCTTGATCATATCTTGTTGAGAAGAAGTAGTGTTGATT
196 TTGGATATAGTTGTTGATATTAGTTGTTCTTGATCATATCTTGTTGAGAAGAAGTAGTGTTGATT
* *
102210 AGACCATAGGCTTAGAGAGTTGTTTCGGTAAGATTTTCGGTTCTTTCGCTCTGTTTTGGAAACTA
261 AGATCATAAGCTTAGAGAGTTGTTTCGGTAAGATTTTCGGTTCTTTCGCTCTGTTTTGGAAACTA
*
102275 AAAATTATGCTTTGTTTTGGATATGTTCTTAATGTTTTGTTTTGTTTTCCAAGGTTTTTAATGTG
326 AAAATTATGCTTTGTTTTGGATATGTTCTTAATGTTTTGTTTTGTTTTCCAAGGTTTTTAATGTT
* * * *
102340 TTGAGAATTGAGGAAAGTTGGTACATCGTGTTTGGTGGTCATTTGTTAAGTGTTTGGAAGTGATT
391 TTGAGAATTGAGGAAATTTGGTGCATCATGTTTGGTGGTCATTTGCTAAGTGTTTGGAAGTGATT
*
102405 TCGATTAGTGGACAACAAAGGTGAATAAATTTCATTCTTAAAGGATGAACATATTCAAAGGTAAA
456 TCGATTAGTGGACAACAAAGGTGAATGAATTTCATTCTTAAAGGATGAACATATTCAAAGGTAAA
*
102470 AAAAGGTGTAGTTTAGAGTAATTATCTTGGCTTGAATTCTATTTTAAGTGAACTTATATTGATAC
521 AAAAGGTGTAGTTTAGAGTAATTATCTTGGCTTCAATTCTATTTTAAGTGAACTTATATTGATAC
102535 ACATAATTAATTTTGGAATATGATATGAAATGATGATTTTGGTATATGCATTGTATATGTGATGT
586 ACATAATTAATTTTGGAATATGATATGAAATGATGATTTTGGTATATGCATTGTATATGTGATGT
102600 ATAGTGGTTTTGAAAGTGTATGTATATGAATGTATTAACGATGAGTGGAAC-ACTTCACTATCCA
651 ATAGTGGTTTTGAAAGTGTATGTATATGAATGTATTAACGATGAGTGGAACAACTTCACTATCCA
102664 TGGATGAGTGAGAAACGTGTTGTCCATATAAGGTTGATCATGGCAACCATTTCTGATAAGTGTTT
716 TGGATGAGTGAGAAACGTGTTGTCCATATAAGGTTGATCATGGCAACCATTTCTGATAAGTGTTT
102729 CAAAGTTTATTTTGGAAGTGTATATGTGTATAATTTATGCATC
781 CAAAGTTTATTTTGGAAGTGTATATGTGTATAATTTATGCATC
102772 ATTATTGTTCTGTGTTCGTTTTTCTGTTAGTTATTGGTAGATTGCACAAAAATTATTATGTTATT
1 ATTATTGTTCTGTGTTCGTTTTTCTGTTAGTTATTGGTAGATTGCACAAAAATTATTATGTTATT
102837 ATCTATTAAATCATTTTTTTCAATTGTATTTGATTTTGATATGGAATTCTTTAAAATAAGCTTGA
66 ATCTATTAAATCATTTTTTTCAATTGTATTTGATTTTGATATGGAATTCTTTAAAATAAGCTTGA
102902 TTTTGCCCCTTTTGTTTCAAAAATCCAGGAATTATTGTTGATTGAAGTCATTTTTAGGTTTCTAG
131 TTTTGCCCCTTTTGTTTCAAAAATCCAGGAATTATTGTTGATTGAAGTCATTTTTAGGTTTCTAG
102967 TTGGATATAGTTGTTGATATTAGTTGTTCTTGATCATATCTTGTTGAGAAGAAGTAGTGTTGATT
196 TTGGATATAGTTGTTGATATTAGTTGTTCTTGATCATATCTTGTTGAGAAGAAGTAGTGTTGATT
103032 AGATCATAAGCTTAGAGAGTTGTTTCGGTAAGATTTTCGGTTCTTTCGCTCTGTTTTGGAAACTA
261 AGATCATAAGCTTAGAGAGTTGTTTCGGTAAGATTTTCGGTTCTTTCGCTCTGTTTTGGAAACTA
103097 AAAATTATGCTTTGTTTTGGATATGTTCTTAATGTTTTGTTTTGTTTTCCAAGGTTTTTAATGTT
326 AAAATTATGCTTTGTTTTGGATATGTTCTTAATGTTTTGTTTTGTTTTCCAAGGTTTTTAATGTT
103162 TTGAGAATTGAGGAAATTTGGTGCATCATGTTTGGTGGTCATTTGCTAAGTGTTTGGAAGTGATT
391 TTGAGAATTGAGGAAATTTGGTGCATCATGTTTGGTGGTCATTTGCTAAGTGTTTGGAAGTGATT
103227 TCGATTAGTGGACAACAAAGGTGAATGAATTTCATTCTTAAAGGATGAACATATTCAAAGGTAAA
456 TCGATTAGTGGACAACAAAGGTGAATGAATTTCATTCTTAAAGGATGAACATATTCAAAGGTAAA
*
103292 AAACGGTGTAGTTTAGAGTAATTATCTTGGCTTCAATTCTATTTTAAGTGAACTTATATTGATAC
521 AAAAGGTGTAGTTTAGAGTAATTATCTTGGCTTCAATTCTATTTTAAGTGAACTTATATTGATAC
103357 ACATAATTAATTTTGGAATATGATATGAAATGATGATTTTGGTATATGCATTGTATATGTGATGT
586 ACATAATTAATTTTGGAATATGATATGAAATGATGATTTTGGTATATGCATTGTATATGTGATGT
103422 ATAGTGGTTTTGAAAGTGTATGTATATGAATGTATTAACGATGAGTGGAACAACTTCACTATCCA
651 ATAGTGGTTTTGAAAGTGTATGTATATGAATGTATTAACGATGAGTGGAACAACTTCACTATCCA
103487 TGGATGAGTGAGAAACGTGTTGTCCATATAAGGTTGATCATGGCAACCATTTCTGATAAGTGTTT
716 TGGATGAGTGAGAAACGTGTTGTCCATATAAGGTTGATCATGGCAACCATTTCTGATAAGTGTTT
103552 CAAAGTTTATTTTGGAAGTGTATATGTGTATAATTTATGCATC
781 CAAAGTTTATTTTGGAAGTGTATATGTGTATAATTTATGCATC
103595 ATTATTGTTCTGTGTTCGTTTTTCTGTTAGTTATTGGTAGATTGCACAAAAATTATTATGTTATT
1 ATTATTGTTCTGTGTTCGTTTTTCTGTTAGTTATTGGTAGATTGCACAAAAATTATTATGTTATT
103660 ATCTATTAAATCATTTTTTTCAATTGTATTTGATTTTGATATGGAATTCTTTAAAATAAGCTTGA
66 ATCTATTAAATCATTTTTTTCAATTGTATTTGATTTTGATATGGAATTCTTTAAAATAAGCTTGA
103725 TTTTGCCCCTTTTGTTTCAAAAATCCAGGAATTATTGTTGATTGAAGTCATTTTTAGGTTTCTAG
131 TTTTGCCCCTTTTGTTTCAAAAATCCAGGAATTATTGTTGATTGAAGTCATTTTTAGGTTTCTAG
103790 TTGGATATAGTTGTTGATATTAGTTGTTCTTGATCATATCTTGTTGAGAAGAAGTAGTGTTGATT
196 TTGGATATAGTTGTTGATATTAGTTGTTCTTGATCATATCTTGTTGAGAAGAAGTAGTGTTGATT
103855 AGATCATAAGCTTAGAGAGTTGTTTCGGTAAGATTTTCGGTTCTTTCGCTCTGTTTTGGAAACTA
261 AGATCATAAGCTTAGAGAGTTGTTTCGGTAAGATTTTCGGTTCTTTCGCTCTGTTTTGGAAACTA
103920 AAAATTATGCTTTGTTTTGGATATGTTCTTAATGTTTTGTTTTGTTTTCCAAGGTTTTTAATGTT
326 AAAATTATGCTTTGTTTTGGATATGTTCTTAATGTTTTGTTTTGTTTTCCAAGGTTTTTAATGTT
103985 TTGAGAATTGAGGAAATTTGGTGCATCATGTTTGGTGGTCATTTGCTAAGTGTTTGGAAGTGATT
391 TTGAGAATTGAGGAAATTTGGTGCATCATGTTTGGTGGTCATTTGCTAAGTGTTTGGAAGTGATT
104050 TCGATTAGTGGACAACAAAGGTGAATGAATTTCATTCTTAAAGGATGAACATATTCAAAGGTAAA
456 TCGATTAGTGGACAACAAAGGTGAATGAATTTCATTCTTAAAGGATGAACATATTCAAAGGTAAA
*
104115 AAATGGTGTAGTTTAGAGTAATTATCTTGGCTTCAATTCTATTTTAAGTGAACTTATATTGATAC
521 AAAAGGTGTAGTTTAGAGTAATTATCTTGGCTTCAATTCTATTTTAAGTGAACTTATATTGATAC
*
104180 ACATAATTAATTTTGGAATATGATATGAAATGATGATTTTGGTATATGCATTGTATTTGTGATGT
586 ACATAATTAATTTTGGAATATGATATGAAATGATGATTTTGGTATATGCATTGTATATGTGATGT
*
104245 ATAGTGGTTTTGAAAGTGTATGTATATGAATGTATTAAGGATGAGTGGAACAACTTCACTATCCA
651 ATAGTGGTTTTGAAAGTGTATGTATATGAATGTATTAACGATGAGTGGAACAACTTCACTATCCA
*
104310 TGGATGAGTGAGAAACGTGTTGTACATATAAGGTTGATCATGGCAACCATTTCTGATAAGTGTTT
716 TGGATGAGTGAGAAACGTGTTGTCCATATAAGGTTGATCATGGCAACCATTTCTGATAAGTGTTT
*
104375 CAAAGTGTATTTTGGAAGTGTATATGTGTATAATTTATGCATC
781 CAAAGTTTATTTTGGAAGTGTATATGTGTATAATTTATGCATC
104418 ATT
1 ATT
104421 TGATAAGAAC
Statistics
Matches: 1626, Mismatches: 20, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
820 83 0.05
821 49 0.03
822 552 0.34
823 942 0.58
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (823 bp):
ATTATTGTTCTGTGTTCGTTTTTCTGTTAGTTATTGGTAGATTGCACAAAAATTATTATGTTATT
ATCTATTAAATCATTTTTTTCAATTGTATTTGATTTTGATATGGAATTCTTTAAAATAAGCTTGA
TTTTGCCCCTTTTGTTTCAAAAATCCAGGAATTATTGTTGATTGAAGTCATTTTTAGGTTTCTAG
TTGGATATAGTTGTTGATATTAGTTGTTCTTGATCATATCTTGTTGAGAAGAAGTAGTGTTGATT
AGATCATAAGCTTAGAGAGTTGTTTCGGTAAGATTTTCGGTTCTTTCGCTCTGTTTTGGAAACTA
AAAATTATGCTTTGTTTTGGATATGTTCTTAATGTTTTGTTTTGTTTTCCAAGGTTTTTAATGTT
TTGAGAATTGAGGAAATTTGGTGCATCATGTTTGGTGGTCATTTGCTAAGTGTTTGGAAGTGATT
TCGATTAGTGGACAACAAAGGTGAATGAATTTCATTCTTAAAGGATGAACATATTCAAAGGTAAA
AAAAGGTGTAGTTTAGAGTAATTATCTTGGCTTCAATTCTATTTTAAGTGAACTTATATTGATAC
ACATAATTAATTTTGGAATATGATATGAAATGATGATTTTGGTATATGCATTGTATATGTGATGT
ATAGTGGTTTTGAAAGTGTATGTATATGAATGTATTAACGATGAGTGGAACAACTTCACTATCCA
TGGATGAGTGAGAAACGTGTTGTCCATATAAGGTTGATCATGGCAACCATTTCTGATAAGTGTTT
CAAAGTTTATTTTGGAAGTGTATATGTGTATAATTTATGCATC
Found at i:106488 original size:85 final size:83
Alignment explanation
Indices: 106367--106557 Score: 206
Period size: 83 Copynumber: 2.3 Consensus size: 83
106357 CTCAAAAAAT
* ** * *
106367 TTTGTTGACAGATAGCCCTTCTTGCCTTGACCTATGCTGTAAATT-TGATTTACCTCT-GAGTTG
1 TTTGTTGACAGATAACCCTTCTTGCCTTGACCTATGCTACAAATTATG-TGT--CT-TGGAGATG
* *
106430 AATGTAATCGAACTCGAAGGTC
62 AACGTAATCGAACTCCAAGGTC
* * *** *
106452 TTTGATGATAGATAACCCTTCTTGCCTTGTGTTATGCTACAAATTATGTGTCTTGGAGATGAGCG
1 TTTGTTGACAGATAACCCTTCTTGCCTTGACCTATGCTACAAATTATGTGTCTTGGAGATGAACG
*
106517 TAGTCGAACTCCAAGGTC
66 TAATCGAACTCCAAGGTC
106535 TTTGTTGACAGATAACCCTTCTT
1 TTTGTTGACAGATAACCCTTCTT
106558 TGAGTTGGAT
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
82 1 0.01
83 46 0.52
85 39 0.44
86 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (83 bp):
TTTGTTGACAGATAACCCTTCTTGCCTTGACCTATGCTACAAATTATGTGTCTTGGAGATGAACG
TAATCGAACTCCAAGGTC
Found at i:106933 original size:110 final size:110
Alignment explanation
Indices: 106789--106995 Score: 315
Period size: 110 Copynumber: 1.9 Consensus size: 110
106779 AACTGGGAAA
* * *
106789 TTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAATTGAGCTTGTGTTGTCTTGAGTTCAATA
1 TTGTTTGTTGACAATCAGTCACCCCTTCGCTGTGAAATTGAGCTTGTGTTGTCTTGAGTCCAATA
* *
106854 TCCTTCACTGTGAAGTTGAAATTGACTCTGAATGAGACAGAAAAG
66 TCCCTCACTGTGAAGTTAAAATTGACTCTGAATGAGACAGAAAAG
* * *
106899 TTGTTTGTTGATAATCAGTCACCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATA
1 TTGTTTGTTGACAATCAGTCACCCCTTCGCTGTGAAATTGAGCTTGTGTTGTCTTGAGTCCAATA
** *
106964 TCCCTCGTTGTGAAGTTAAAATTGGCTCTGAA
66 TCCCTCACTGTGAAGTTAAAATTGACTCTGAA
106996 ACTGGGAAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
110 86 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (110 bp):
TTGTTTGTTGACAATCAGTCACCCCTTCGCTGTGAAATTGAGCTTGTGTTGTCTTGAGTCCAATA
TCCCTCACTGTGAAGTTAAAATTGACTCTGAATGAGACAGAAAAG
Found at i:107765 original size:67 final size:65
Alignment explanation
Indices: 107666--107831 Score: 215
Period size: 65 Copynumber: 2.5 Consensus size: 65
107656 ATGAAAACGA
* **
107666 TCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAGAAA
1 TCTCAAGGGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGAGAAA
107731 CTG
63 CTG
* *
107734 TCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAACTG
1 TCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTG
* ** * *
107799 TCTCAAGAGAGATGAAATTTGTTTCAAGAGAAA
1 TCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
107832 CTGTCTCAAG
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
65 43 0.49
66 3 0.03
67 25 0.29
68 16 0.18
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (65 bp):
TCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTG
Found at i:107820 original size:65 final size:67
Alignment explanation
Indices: 107584--107831 Score: 211
Period size: 65 Copynumber: 3.7 Consensus size: 67
107574 CAGATGATGC
* * * * * * * *
107584 TTCAAGAAAAATTGTCTCGAA-AGAGATAGAATTCGTTTCAAGGGAAA-CAATCTCAAAGATATC
1 TTCAAGAGAAACTGTCTC-AAGAGAGACAAAATTTGTTTTAAGGGAAATAAAT-TCAAAGAT-TT
107647 TGATGT
63 TG-TGT
* * * * **
107653 TTTATGA-AAAC-GATCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGATTTT
1 TTCAAGAGAAACTG-TCTCAAGAGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGATTTT
107716 GTGT
64 GTGT
* *
107720 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGA-TTT-T
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGT
107783 GT
66 GT
* ** * *
107785 TTCAAGGGAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGAGAAA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAA
107832 CTGTCTCAAG
Statistics
Matches: 147, Mismatches: 26, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
65 43 0.29
66 3 0.02
67 36 0.24
68 36 0.24
69 26 0.18
70 3 0.02
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.30
Consensus pattern (67 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGT
GT
Found at i:107832 original size:36 final size:36
Alignment explanation
Indices: 107780--108089 Score: 217
Period size: 36 Copynumber: 9.0 Consensus size: 36
107770 ATTCAAAGAT
107780 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
* **
107816 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
* * ** * *
107852 CTTAGTTCCAAAAGAAACTGTCTCAAGGGGGATGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
* ** *
107889 TTTGTTGCAA-TAAAACATAT-TC---A-A-AT--AA
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGATGAAA
* **
107917 -TTGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
107952 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
* ** *
107988 TTTATTTCAAGGGAAA-TGT-T--TTA-A-ATG--T
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
* * *
108016 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGA-CAATA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGATGAA-A
* * *
108053 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
108089 T
1 T
108090 CTTCTTTTCA
Statistics
Matches: 210, Mismatches: 41, Indels: 46
0.71 0.14 0.15
Matches are distributed among these distances:
27 9 0.04
28 10 0.05
29 12 0.06
30 8 0.04
31 3 0.01
32 2 0.01
33 1 0.00
34 2 0.01
35 12 0.06
36 118 0.56
37 33 0.16
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAA
Found at i:107877 original size:37 final size:36
Alignment explanation
Indices: 107792--107878 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 36
107782 TGTTTCAAGG
** * * *
107792 GAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
107828 GAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAA
107865 GAAACTGTCTCAAG
1 GAAACTGTCTCAAG
107879 GGGGATGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 22 0.49
37 23 0.51
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
Found at i:108048 original size:101 final size:99
Alignment explanation
Indices: 107817--108089 Score: 305
Period size: 101 Copynumber: 2.7 Consensus size: 99
107807 GAGATGAAAT
* * ** * *
107817 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGG
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGA
* *
107882 GATGAAATTTGTTGCAATAAAACATATTCAAATAA
65 GATGAAATTTATTGCAAGAAAACATATTCAAATAA
* *
107917 TTGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
* ** * * **
107982 ATGAAATTTATTTCAAGGGAA-ATGTTTTAAATGTT
66 ATGAAATTTATTGCAAGAAAACAT-ATTCAAAT-AA
* * * *
108017 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTTGTTTCAAGGGAAACTATCTCAAGCGA
1 T-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
*
108082 GATAAAAT
65 GATGAAAT
108090 CTTCTTTTCA
Statistics
Matches: 146, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
98 2 0.01
99 46 0.32
100 34 0.23
101 64 0.44
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (99 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
ATGAAATTTATTGCAAGAAAACATATTCAAATAA
Found at i:109789 original size:15 final size:13
Alignment explanation
Indices: 109746--109798 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
109736 TTTTCTTCAA
*
109746 TTTTC-CTTTGTT
1 TTTTCTCTTTTTT
*
109758 TTTTCTCTTTTTA
1 TTTTCTCTTTTTT
109771 TTTTCTCTTTACTTT
1 TTTTCTCTTT--TTT
109786 TTTTCTCTTTTTT
1 TTTTCTCTTTTTT
109799 ATCTTTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 5 0.14
13 18 0.51
15 12 0.34
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTCTCTTTTTT
Found at i:113036 original size:18 final size:17
Alignment explanation
Indices: 113004--113050 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
112994 TATTAATGGA
113004 GTAAAAAAATAAAAAAG
1 GTAAAAAAATAAAAAAG
* *
113021 GTAAAAGAAATTAAAAAT
1 GTAAAA-AAATAAAAAAG
113039 G-AATAAAAATAA
1 GTAA-AAAAATAA
113051 TGTGTACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (17 bp):
GTAAAAAAATAAAAAAG
Found at i:113193 original size:31 final size:31
Alignment explanation
Indices: 113158--113236 Score: 79
Period size: 35 Copynumber: 2.5 Consensus size: 31
113148 AGATATTAAG
113158 AAAAAAATATAATAGA-AAAAAAAAATAAAGTA
1 AAAAAAATATAATAGATAAAAAAAAATAAA--A
* * *
113190 AAAATATAATATAATATATATAAATAAATAAAA
1 AAAA-A-AATATAATAGATAAAAAAAAATAAAA
*
113223 ACAAAAATATAATA
1 AAAAAAATATAATA
113237 TTAAGAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
31 9 0.22
32 5 0.12
33 5 0.12
34 10 0.25
35 11 0.28
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (31 bp):
AAAAAAATATAATAGATAAAAAAAAATAAAA
Found at i:113245 original size:16 final size:16
Alignment explanation
Indices: 113226--113301 Score: 52
Period size: 16 Copynumber: 4.8 Consensus size: 16
113216 AATAAAAACA
113226 AAAATATAATATTAAG
1 AAAATATAATATTAAG
113242 AAAATAT-ATATATATA-
1 AAAATATAATAT-TA-AG
* * * *
113258 TATATATAA-ACGT-AT
1 AAAATATAATA-TTAAG
113273 AAAATATAATATTAAG
1 AAAATATAATATTAAG
113289 AAAATATATATAT
1 AAAATATA-ATAT
113302 ACATAGTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 15
0.67 0.10 0.22
Matches are distributed among these distances:
14 1 0.02
15 12 0.27
16 26 0.58
17 6 0.13
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (16 bp):
AAAATATAATATTAAG
Found at i:113322 original size:45 final size:46
Alignment explanation
Indices: 113203--113312 Score: 143
Period size: 47 Copynumber: 2.4 Consensus size: 46
113193 ATATAATATA
***
113203 ATATATATA-A-ATAAATAAAAACAAAAATATAATATTAAGAAAAT
1 ATATATATACATATAAATAAACGTAAAAATATAATATTAAGAAAAT
* *
113247 ATATATATATATATATATAAACGTATAAAATATAATATTAAGAAAAT
1 ATATATATACATATAAATAAACGTA-AAAATATAATATTAAGAAAAT
113294 ATATATATACATAGTAAAT
1 ATATATATACATA-TAAAT
113313 GGAGAAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
44 9 0.16
45 1 0.02
46 9 0.16
47 33 0.59
48 4 0.07
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (46 bp):
ATATATATACATATAAATAAACGTAAAAATATAATATTAAGAAAAT
Found at i:113344 original size:2 final size:2
Alignment explanation
Indices: 113332--113372 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
113322 TTAATACATC
*
113332 TA TA CA TA TA TA TA TA TA TA TA TA -A TGA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
113373 ATAAAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 2 0.06
2 30 0.88
3 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:113369 original size:17 final size:17
Alignment explanation
Indices: 113341--113391 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
113331 CTATACATAT
*
113341 ATATATATATATATAATG
1 ATATA-ATATATATAATA
113359 ATATAATATATATAATA
1 ATATAATATATATAATA
*
113376 AAATAATATAATATAA
1 ATATAATAT-ATATAA
113392 ATAAAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 19 0.63
18 11 0.37
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
ATATAATATATATAATA
Found at i:113384 original size:13 final size:14
Alignment explanation
Indices: 113337--113395 Score: 59
Period size: 14 Copynumber: 4.1 Consensus size: 14
113327 ACATCTATAC
*
113337 ATAT-ATATATATA
1 ATATAATATAAATA
113350 TATATAATGATATAATA
1 -ATATAAT-ATA-AATA
113367 TATATAATA-AAATA
1 -ATATAATATAAATA
113381 ATATAATATAAATA
1 ATATAATATAAATA
113395 A
1 A
113396 AAAAGGAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
13 8 0.20
14 14 0.35
15 3 0.08
16 4 0.10
17 11 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
ATATAATATAAATA
Found at i:113384 original size:22 final size:22
Alignment explanation
Indices: 113337--113399 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
113327 ACATCTATAC
* *
113337 ATAT-ATATATATATATATAATG
1 ATATAATATATATA-ATAAAATA
113359 ATATAATATATATAATAAAATA
1 ATATAATATATATAATAAAATA
*
113381 ATATAATATAAATAA-AAAA
1 ATATAATATATATAATAAAA
113400 GGAGTATAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.11
22 24 0.65
23 9 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
ATATAATATATATAATAAAATA
Found at i:113398 original size:20 final size:17
Alignment explanation
Indices: 113347--113397 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
113337 ATATATATAT
* *
113347 ATATATATAATGATATA
1 ATATATATAATAAAATA
113364 ATATATATAATAAAATA
1 ATATATATAATAAAATA
113381 ATATAATATAAATAAAA
1 ATAT-ATAT-AATAAAA
113398 AAGGAGTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 19 0.63
18 4 0.13
19 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
ATATATATAATAAAATA
Found at i:114920 original size:46 final size:46
Alignment explanation
Indices: 114867--114974 Score: 135
Period size: 46 Copynumber: 2.3 Consensus size: 46
114857 TTATTGGTTG
* * *
114867 CATCCTTTCATGTCAATTATTCAACGTTAAGCATTTTCATTTATGA
1 CATCCTTTCATGCCAATAATGCAACGTTAAGCATTTTCATTTATGA
* * * * * *
114913 TATCCTTTCATACCGATAATGCACCGTTATGCATTTTCATTTATGG
1 CATCCTTTCATGCCAATAATGCAACGTTAAGCATTTTCATTTATGA
114959 CATCCTTTCATGCCAA
1 CATCCTTTCATGCCAA
114975 AGGCATTTAA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (46 bp):
CATCCTTTCATGCCAATAATGCAACGTTAAGCATTTTCATTTATGA
Found at i:115072 original size:81 final size:81
Alignment explanation
Indices: 114972--115168 Score: 279
Period size: 81 Copynumber: 2.4 Consensus size: 81
114962 CCTTTCATGC
* ** **
114972 CAAAGGCATTTAACCTTTCATCTAACTTGCATTATTGGCACCTTTCTACCAAATGCACAGTTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTTGCATTATTAACACCTTTCTACCAAATGCACAGCCAGG
115037 CAATTAATCTTTTACT
66 CAATTAATCTTTTACT
* * * ** *
115053 TAAAGGTATTTAACCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGCACAGCCATG
1 CAAAGGTATTTAACCTTTCATCTAACTTGCATTATTAACACCTTTCTACCAAATGCACAGCCAGG
115118 CAATTAATCTTTTACT
66 CAATTAATCTTTTACT
115134 CAAAGGTATTTAACCTTTCATCTAAC-TGCCATTAT
1 CAAAGGTATTTAACCTTTCATCTAACTTG-CATTAT
115169 GTATACCTTT
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 100 0.99
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (81 bp):
CAAAGGTATTTAACCTTTCATCTAACTTGCATTATTAACACCTTTCTACCAAATGCACAGCCAGG
CAATTAATCTTTTACT
Found at i:115176 original size:27 final size:27
Alignment explanation
Indices: 115146--115206 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
115136 AAGGTATTTA
115146 ACCTTTCATCTAACTGCCATTA-TGTAT
1 ACCTTTCATCTAACTGCCATTATTG-AT
*
115173 ACCTTTCATCTAACTGGCATTATTGAT
1 ACCTTTCATCTAACTGCCATTATTGAT
115200 ACCTTTC
1 ACCTTTC
115207 TATCAAATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.25, C:0.26, G:0.08, T:0.41
Consensus pattern (27 bp):
ACCTTTCATCTAACTGCCATTATTGAT
Found at i:115254 original size:108 final size:108
Alignment explanation
Indices: 115065--115269 Score: 329
Period size: 108 Copynumber: 1.9 Consensus size: 108
115055 AAGGTATTTA
* * * *
115065 ACCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGCACAGCCATGCAATTAATCTTT
1 ACCTTTCATCTAACTGGCATAATTAACACCTTTCTATCAAATGCACAACCAGGCAATTAATATTT
115130 TACTCAAAGGTATTTAACCTTTCATCTAACTGCCATTATGTAT
66 TACTCAAAGGTATTTAACCTTTCATCTAACTGCCATTATGTAT
* * * *
115173 ACCTTTCATCTAACTGGCATTATTGATACCTTTCTATCAAATGCACAACTAGGCAATTAATATTT
1 ACCTTTCATCTAACTGGCATAATTAACACCTTTCTATCAAATGCACAACCAGGCAATTAATATTT
*
115238 TACTCAGAGGTATTTAACCTTTCATCTAACTG
66 TACTCAAAGGTATTTAACCTTTCATCTAACTG
115270 TTAGGATTGA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 88 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.37
Consensus pattern (108 bp):
ACCTTTCATCTAACTGGCATAATTAACACCTTTCTATCAAATGCACAACCAGGCAATTAATATTT
TACTCAAAGGTATTTAACCTTTCATCTAACTGCCATTATGTAT
Found at i:115312 original size:81 final size:81
Alignment explanation
Indices: 115173--115635 Score: 676
Period size: 81 Copynumber: 5.7 Consensus size: 81
115163 CATTATGTAT
* * * *
115173 ACCTTTCATCTAACTGGCATTATTGATACCTTTCTATCAAATGCACAACTAGGCAATTAATATTT
1 ACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAATATTT
*
115238 TACTCAGAGGTATTTA
66 TACTCAAAGGTATTTA
** * * * *
115254 ACCTTTCATCTAACTGTTAGGATTGACACCTTTCTGTCAAATACATAGCTAGGTAATTAATATTT
1 ACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAATATTT
115319 TACTCAAAGGTATTTA
66 TACTCAAAGGTATTTA
* * * * * *
115335 ACCTTTCATCTAACTGGCATGACTGACACCTTTATGTCAAATGCACAACTAAGTAATTAATCTTT
1 ACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAATATTT
*
115400 TACTCAAAGGTAATTA
66 TACTCAAAGGTATTTA
* *
115416 GCCTTTCATCTAACTGGCATGATTGACACCTTTCTGTAAAATGCACAGCTAGGCAATTAATATTT
1 ACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAATATTT
* *
115481 TGCTCAAAGATATTTA
66 TACTCAAAGGTATTTA
*
115497 ACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACATCTAGGC-ATTAATATTT
1 ACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAATATTT
* *
115561 TACACAAAGCTATTTA
66 TACTCAAAGGTATTTA
* *
115577 ACCTTTCATCTAACTGTCATGATTGACACATTTCTGTCAAATGCACAGCTAGGCAATTA
1 ACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTA
115636 GTCTTTTATT
Statistics
Matches: 339, Mismatches: 42, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
80 74 0.22
81 265 0.78
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (81 bp):
ACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAATATTT
TACTCAAAGGTATTTA
Found at i:115314 original size:189 final size:189
Alignment explanation
Indices: 114984--115350 Score: 554
Period size: 189 Copynumber: 1.9 Consensus size: 189
114974 AAGGCATTTA
* * ** *
114984 ACCTTTCATCTAACTTGCATTATTGGCACCTTTCTACCAAATGCACAGTTAGGCAATTAATCTTT
1 ACCTTTCATCTAACTGGCATTATTGACACCTTTCTACCAAATGCACAACTAGGCAATTAATATTT
* * *
115049 TACTTAAAGGTATTTAACCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGCACAGC
66 TACTCAAAGGTATTTAACCTTTCATCTAACTGGCAGAATTAACACCTTTCTGTCAAATACACAGC
* *
115114 CATGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCCATTATGTAT
131 CAGGCAATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCCATTATGTAT
* *
115173 ACCTTTCATCTAACTGGCATTATTGATACCTTTCTATCAAATGCACAACTAGGCAATTAATATTT
1 ACCTTTCATCTAACTGGCATTATTGACACCTTTCTACCAAATGCACAACTAGGCAATTAATATTT
* ** * * *
115238 TACTCAGAGGTATTTAACCTTTCATCTAACTGTTAGGATTGACACCTTTCTGTCAAATACATAGC
66 TACTCAAAGGTATTTAACCTTTCATCTAACTGGCAGAATTAACACCTTTCTGTCAAATACACAGC
* *
115303 TAGGTAATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTG
131 CAGGCAATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTG
115351 GCATGACTGA
Statistics
Matches: 158, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
189 158 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (189 bp):
ACCTTTCATCTAACTGGCATTATTGACACCTTTCTACCAAATGCACAACTAGGCAATTAATATTT
TACTCAAAGGTATTTAACCTTTCATCTAACTGGCAGAATTAACACCTTTCTGTCAAATACACAGC
CAGGCAATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCCATTATGTAT
Found at i:122238 original size:30 final size:30
Alignment explanation
Indices: 122193--122262 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
122183 AGAGTCAATA
* * *
122193 CGTTGAATTTGACCGAGTTAACCAGGTGA-
1 CGTTGACTTTAACCGAGTCAACCAGGTGAT
* *
122222 CTGTTGACTTTAACCGAGTCAACCCGTTGAT
1 C-GTTGACTTTAACCGAGTCAACCAGGTGAT
122253 CGTTGACTTT
1 CGTTGACTTT
122263 GATCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 1 0.03
30 32 0.94
31 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (30 bp):
CGTTGACTTTAACCGAGTCAACCAGGTGAT
Found at i:124734 original size:21 final size:21
Alignment explanation
Indices: 124709--124767 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
124699 GTCCGAGTTA
*
124709 CCCGCGACTGCCGCAATAGCG
1 CCCGCGACAGCCGCAATAGCG
*
124730 TCCGCGACAGCCGCAATAGCG
1 CCCGCGACAGCCGCAATAGCG
*
124751 CCCGCGACGGCCGCAAT
1 CCCGCGACAGCCGCAAT
124768 CACGGTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.20, C:0.42, G:0.29, T:0.08
Consensus pattern (21 bp):
CCCGCGACAGCCGCAATAGCG
Found at i:137787 original size:42 final size:42
Alignment explanation
Indices: 137727--137822 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
137717 TTGCACTTAG
* * * * *
137727 TAAATCCTTCGAGTCATCAATAAGTCTTTCGAGCATGATGCT
1 TAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGAT
*
137769 TAAATCCTTAGGGCCATCAGTAAGTCTTTTGAGCATGATGAT
1 TAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGAT
*
137811 TAAATCGTTAGG
1 TAAATCCTTAGG
137823 TAATTTGTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (42 bp):
TAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGAT
Found at i:137879 original size:13 final size:13
Alignment explanation
Indices: 137861--137885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
137851 TGAAGCAAAC
137861 CCATCAGTAAGTG
1 CCATCAGTAAGTG
137874 CCATCAGTAAGT
1 CCATCAGTAAGT
137886 CTTTCGAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:137934 original size:42 final size:42
Alignment explanation
Indices: 137875--138058 Score: 228
Period size: 42 Copynumber: 4.4 Consensus size: 42
137865 CAGTAAGTGC
*
137875 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGT
*
137917 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGC
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGT
* * *
137959 CATCATTAAGTCTTTCGAGCATGATGATTAAATCATTTGAGT
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGT
*** * * * *
138001 CATTTTTGAGTCTTTCGAGCAAGAT-AATAAATCCTTCGGGT
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGT
*
138042 CATCCA-TAAGTCCTTCG
1 CAT-CAGTAAGTCTTTCG
138059 GGTAGGATGT
Statistics
Matches: 123, Mismatches: 18, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
41 24 0.20
42 99 0.80
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (42 bp):
CATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGT
Found at i:137975 original size:20 final size:20
Alignment explanation
Indices: 137873--137978 Score: 59
Period size: 20 Copynumber: 5.1 Consensus size: 20
137863 ATCAGTAAGT
*
137873 GCCATCAGTAAGTCTTTCGA
1 GCCATCATTAAGTCTTTCGA
* * * * *
137893 GCATGATGATTAAATCCTTCGG
1 GC--CATCATTAAGTCTTTCGA
* *
137915 GTCATCAGTAAGTCTTTCGA
1 GCCATCATTAAGTCTTTCGA
* * * * *
137935 GCATGATGATTAAATCATTCGG
1 GC--CATCATTAAGTCTTTCGA
137957 GCCATCATTAAGTCTTTCGA
1 GCCATCATTAAGTCTTTCGA
137977 GC
1 GC
137979 ATGATGATTA
Statistics
Matches: 57, Mismatches: 25, Indels: 8
0.63 0.28 0.09
Matches are distributed among these distances:
20 30 0.53
22 27 0.47
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (20 bp):
GCCATCATTAAGTCTTTCGA
Found at i:137988 original size:22 final size:22
Alignment explanation
Indices: 137881--137989 Score: 93
Period size: 22 Copynumber: 5.1 Consensus size: 22
137871 GTGCCATCAG
137881 TAAGTCTTTCGAGCATGATGAT
1 TAAGTCTTTCGAGCATGATGAT
* * * *
137903 TAAATCCTTCGGGTCATCA-G--
1 TAAGTCTTTCGAG-CATGATGAT
137923 TAAGTCTTTCGAGCATGATGAT
1 TAAGTCTTTCGAGCATGATGAT
* * * * *
137945 TAAATCATTCGGGC--CATCAT
1 TAAGTCTTTCGAGCATGATGAT
137965 TAAGTCTTTCGAGCATGATGAT
1 TAAGTCTTTCGAGCATGATGAT
137987 TAA
1 TAA
137990 ATCATTTGAG
Statistics
Matches: 63, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
19 4 0.06
20 26 0.41
22 29 0.46
23 4 0.06
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (22 bp):
TAAGTCTTTCGAGCATGATGAT
Found at i:138594 original size:53 final size:53
Alignment explanation
Indices: 138480--138581 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 53
138470 AGAATTACAC
* * * *
138480 CAGAAAATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCTGTAGG
1 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAAGGAGCGAACCCGTAGG
*
138533 CAGAAGATTATTCGAGTTCTACTCCTTGAAGCAAGAAGGAGCGAACCCG
1 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAAGGAGCGAACCCG
138582 CTGGTCGAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (53 bp):
CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAAGGAGCGAACCCGTAGG
Found at i:149620 original size:64 final size:65
Alignment explanation
Indices: 149466--149649 Score: 214
Period size: 65 Copynumber: 2.8 Consensus size: 65
149456 AATTAAATTG
* *
149466 AACATCGAATGCATTTTATGCATCGATGCACTTACCATGCACCGATACACTAAGGATTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACTCACCATGCACCGATACACTAAGGATTTTATGAA
* * ** *
149531 AACATCGAATGCATTTGATGCATCGATGCAC-CAGCCATGCATCGATGCACTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACTCA-CCATGCACCGATACACTAAGGAT-TTTATG
149594 -A
64 AA
* ** *
149595 AACATCGAATGCACTTGATGCATCGATGCACTC-TTAGTGCACCGATGCACTAAGG
1 AACATCGAATGCATTTGATGCATCGATGCACTCACCA-TGCACCGATACACTAAGG
149650 GTCCAATGGT
Statistics
Matches: 102, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
63 1 0.01
64 47 0.46
65 51 0.50
66 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCACCATGCACCGATACACTAAGGATTTTATGAA
Found at i:149625 original size:17 final size:19
Alignment explanation
Indices: 149597--149645 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
149587 TATTTTGAAA
149597 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
149615 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
149634 CACCGATGCACT
1 CATCGATGCACT
149646 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:155457 original size:24 final size:23
Alignment explanation
Indices: 155430--155510 Score: 71
Period size: 24 Copynumber: 3.6 Consensus size: 23
155420 ACACTTAACA
155430 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCC-TTGAAT
* * *
155454 GTGCATTGATTCAT--CATG-AT
1 GTGCATCGATGCATCCCTTGAAT
*
155474 GATGCACCGATGCA-CGCCTTGAAT
1 G-TGCATCGATGCATC-CCTTGAAT
155498 GTGCATCGATGCA
1 GTGCATCGATGCA
155511 CGGGGTTATG
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
20 3 0.07
21 11 0.25
22 1 0.02
23 14 0.32
24 15 0.34
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (23 bp):
GTGCATCGATGCATCCCTTGAAT
Found at i:158243 original size:67 final size:64
Alignment explanation
Indices: 158162--158347 Score: 200
Period size: 67 Copynumber: 2.9 Consensus size: 64
158152 AATTAAATTG
*
158162 AACATCGAATGCATTTCATGCATCGATGCACTTACCATGCACCGATGCACTAAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACTTACCATGCACCGATGCACTAAGGATATTT-TG-
158226 AA
64 -A
* * ** *
158228 ACACATCGAATGCATTTGATGCATCGATGCAC-CAGCCATGCATCGATGCACTCTGGCTATTTTG
1 A-ACATCGAATGCATTTGATGCATCGATGCACTTA-CCATGCACCGATGCACTAAGGATATTTTG
158292 A
64 A
* * *
158293 AACATCGAATGCACTTGATGCATCGATACACTCTTA--GTGCACCGATGCACTAAGG
1 AACATCGAATGCATTTGATGCATCGATGCA--CTTACCATGCACCGATGCACTAAGG
158348 GTCCAACGGT
Statistics
Matches: 101, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
64 42 0.42
65 2 0.02
66 3 0.03
67 51 0.50
68 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACTTACCATGCACCGATGCACTAAGGATATTTTGA
Found at i:163794 original size:26 final size:26
Alignment explanation
Indices: 163760--163810 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
163750 CTGAGCTAAT
*
163760 CATGCTAGGCTTATGCTTGTCATTAC
1 CATGCTAGGATTATGCTTGTCATTAC
*
163786 CATGTTAGGATTATGCTTGTCATTA
1 CATGCTAGGATTATGCTTGTCATTA
163811 TTCGTAGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (26 bp):
CATGCTAGGATTATGCTTGTCATTAC
Found at i:164741 original size:21 final size:19
Alignment explanation
Indices: 164717--164762 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
164707 TAATGTTTGA
164717 AATTATTAAAGATGTTGGGT-T
1 AATTATTAAA-AT-TT-GGTAT
164738 AATT-TTAAAATTTGGTAT
1 AATTATTAAAATTTGGTAT
164756 AATTATT
1 AATTATT
164763 GTTATTGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.13
18 7 0.30
19 4 0.17
20 5 0.22
21 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (19 bp):
AATTATTAAAATTTGGTAT
Found at i:167248 original size:10 final size:10
Alignment explanation
Indices: 167232--167267 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
167222 TATTTCCCAC
167232 TTTTTGTTTT
1 TTTTTGTTTT
*
167242 GTTTTGTTTT
1 TTTTTGTTTT
*
167252 TTTTTTTTTT
1 TTTTTGTTTT
167262 TTTTTG
1 TTTTTG
167268 CTGATGATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:169101 original size:25 final size:26
Alignment explanation
Indices: 169059--169112 Score: 92
Period size: 25 Copynumber: 2.1 Consensus size: 26
169049 TCTTAATTTA
169059 TTATGAGAAAAAACATAATCTCTAAC
1 TTATGAGAAAAAACATAATCTCTAAC
*
169085 TTATGAGAAAAAA-ATAATCTTTAAC
1 TTATGAGAAAAAACATAATCTCTAAC
169110 TTA
1 TTA
169113 GAAAAACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 14 0.52
26 13 0.48
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.31
Consensus pattern (26 bp):
TTATGAGAAAAAACATAATCTCTAAC
Done.