Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005330.1 Hibiscus syriacus cultivar Beakdansim tig00012074_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: 169095
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:2920 original size:2 final size:2
Alignment explanation
Indices: 2913--2956 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2903 TATTATTTAC
2913 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2955 AT
1 AT
2957 GCTTTTACTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3000 original size:21 final size:20
Alignment explanation
Indices: 2959--3009 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
2949 ATATATATGC
*
2959 TTTTACTTTTT-TTTATATA
1 TTTTACTTTTTAATTATATA
*
2978 TTTTACTTATTTAATTATCTA
1 TTTTACTT-TTTAATTATATA
2999 TTTT-CTTTTTA
1 TTTTACTTTTTA
3010 TTTTTATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.43
20 6 0.21
21 10 0.36
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTACTTTTTAATTATATA
Found at i:3196 original size:23 final size:24
Alignment explanation
Indices: 3151--3202 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
3141 ATTTTTATAT
* *
3151 TTATTTTATTTTTTATTACTTTCC
1 TTATTTCATTTGTTATTACTTTCC
*
3175 TTATTTCATTTGTT-TTACTTTCT
1 TTATTTCATTTGTTATTACTTTCC
3198 TTATT
1 TTATT
3203 ATTTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.15, C:0.12, G:0.02, T:0.71
Consensus pattern (24 bp):
TTATTTCATTTGTTATTACTTTCC
Found at i:3215 original size:34 final size:33
Alignment explanation
Indices: 3149--3217 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
3139 TCATTTTTAT
*
3149 ATTTATTTTATTTTTTATTACTTTCCTTATTTC
1 ATTTATTTTATTTTTTATTACTTTACTTATTTC
* *
3182 ATTTGTTTTACTTTCTTTATTA-TTTATTTATTTC
1 ATTTATTTTA-TTT-TTTATTACTTTACTTATTTC
3216 AT
1 AT
3218 CTCTTCTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 9 0.29
34 15 0.48
35 7 0.23
ACGTcount: A:0.19, C:0.10, G:0.01, T:0.70
Consensus pattern (33 bp):
ATTTATTTTATTTTTTATTACTTTACTTATTTC
Found at i:15086 original size:106 final size:101
Alignment explanation
Indices: 14884--15289 Score: 429
Period size: 106 Copynumber: 4.0 Consensus size: 101
14874 ATCGTGCACA
* *
14884 CAAGACAATACAAGCTCGAA-TTCACAGCGAAGGGGCGGCTGACTGT--CAACTTCCCAATTTCA
1 CAAGACAACACAAGCTC-AACTTCACAGCGAAGGGGCGACTGACTGTCACAACTTCCCAATTTCA
* *
14946 GAGCCAATTTCAACTTCATAACAAAGGATATTGGACT
65 GAGCCAATTTCAACTTCATAGCGAAGGATATTGGACT
*
14983 CAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCCCAAT
1 CAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGT---C--ACAACTTCCCAAT
* *
15048 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
61 TTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACT
*
15089 CAAGACAACACAAGCTCAACTTCAC-GACGAAGGGGCGACTGATTGTCA-AA-TT--C-A-TTCA
1 CAAGACAACACAAGCTCAACTTCACAG-CGAAGGGGCGACTGACTGTCACAACTTCCCAATTTCA
* * * * *
15147 GAGTCAATTTTAACTTCAT-GATGAAGGTTATTAGACT
65 GAGCCAATTTCAACTTCATAG-CGAAGGATATTGGACT
* * * *
15184 CAAGATAGCACAAGCTCAACTTCACAGCGAGGGGGCGACTGACTGTCAACAAACAATTTCCCAGT
1 CAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTC-AC-AAC---TTCCCAAT
* * * *
15249 TCCAGAACCAATTTCAACTTCATGGCGGAGGATATTGGACT
61 TTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACT
15290 AGGAGCAATA
Statistics
Matches: 257, Mismatches: 27, Indels: 39
0.80 0.08 0.12
Matches are distributed among these distances:
94 1 0.00
95 73 0.28
96 3 0.01
97 1 0.00
98 4 0.02
99 44 0.17
100 2 0.01
101 1 0.00
102 2 0.01
103 1 0.00
104 1 0.00
105 1 0.00
106 122 0.47
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.22
Consensus pattern (101 bp):
CAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCACAACTTCCCAATTTCAG
AGCCAATTTCAACTTCATAGCGAAGGATATTGGACT
Found at i:15203 original size:201 final size:204
Alignment explanation
Indices: 14884--15288 Score: 550
Period size: 201 Copynumber: 2.0 Consensus size: 204
14874 ATCGTGCACA
* * *
14884 CAAGACAATACAAGCTCGAATTCACAGCGAAGGGGCGGCTGACTGTCAACTTCCCAATTTCAGAG
1 CAAGACAACACAAGCTCGAATTCACAGCGAAGGGGCGACTGACTGTCAAATT-CCAATTTCAGAG
*
14949 CCAATTTCAACTTCATAACAAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAA
65 CCAATTTCAACTTCATAACAAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCGAA
* * *
15014 GGGGCGGCTGACTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
130 GGGGCGACTGACTGTCAACAAACAACTTCCCAATTCCAGAACCAATTTCAACTTCACAGCGAAGG
15079 ATATTGGACC
195 ATATTGGACC
*
15089 CAAGACAACACAAGCTC-AACTTCAC-GACGAAGGGGCGACTGATTGTCAAATT-C-A-TTCAGA
1 CAAGACAACACAAGCTCGAA-TTCACAG-CGAAGGGGCGACTGACTGTCAAATTCCAATTTCAGA
* * * ** * * *
15149 GTCAATTTTAACTTCATGATGAAGGTTATTAGACTCAAGATAGCACAAGCTCAACTTCACAGCGA
64 GCCAATTTCAACTTCATAACAAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCGA
* * * ** *
15214 GGGGGCGACTGACTGTCAACAAACAATTTCCCAGTTCCAGAACCAATTTCAACTTCATGGCGGAG
129 AGGGGCGACTGACTGTCAACAAACAACTTCCCAATTCCAGAACCAATTTCAACTTCACAGCGAAG
15279 GATATTGGAC
194 GATATTGGAC
15289 TAGGAGCAAT
Statistics
Matches: 176, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
201 128 0.73
202 1 0.01
203 1 0.01
204 3 0.02
205 43 0.24
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (204 bp):
CAAGACAACACAAGCTCGAATTCACAGCGAAGGGGCGACTGACTGTCAAATTCCAATTTCAGAGC
CAATTTCAACTTCATAACAAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCGAAG
GGGCGACTGACTGTCAACAAACAACTTCCCAATTCCAGAACCAATTTCAACTTCACAGCGAAGGA
TATTGGACC
Found at i:17333 original size:23 final size:24
Alignment explanation
Indices: 17288--17339 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
17278 ATTTTTATAT
* *
17288 TTATTTTATTTTTTATTACTTTCC
1 TTATTTCATTTGTTATTACTTTCC
*
17312 TTATTTCATTTGTT-TTACTTTCT
1 TTATTTCATTTGTTATTACTTTCC
17335 TTATT
1 TTATT
17340 ATTTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.15, C:0.12, G:0.02, T:0.71
Consensus pattern (24 bp):
TTATTTCATTTGTTATTACTTTCC
Found at i:17352 original size:34 final size:33
Alignment explanation
Indices: 17286--17354 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
17276 TCATTTTTAT
*
17286 ATTTATTTTATTTTTTATTACTTTCCTTATTTC
1 ATTTATTTTATTTTTTATTACTTTACTTATTTC
* *
17319 ATTTGTTTTACTTTCTTTATTA-TTTATTTATTTC
1 ATTTATTTTA-TTT-TTTATTACTTTACTTATTTC
17353 AT
1 AT
17355 CTCTTCTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 9 0.29
34 15 0.48
35 7 0.23
ACGTcount: A:0.19, C:0.10, G:0.01, T:0.70
Consensus pattern (33 bp):
ATTTATTTTATTTTTTATTACTTTACTTATTTC
Found at i:17992 original size:30 final size:29
Alignment explanation
Indices: 17926--17994 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
17916 ATACAAGAAT
17926 GTTATATGATATTGAAGTATGTGAATATA
1 GTTATATGATATTGAAGTATGTGAATATA
*
17955 GTATATATGATA-TGAGATTATGTGACA-ATAA
1 GT-TATATGATATTGA-AGTATGTGA-ATAT-A
17986 GTTATATGA
1 GTTATATGA
17995 GGTGAATGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
29 5 0.14
30 26 0.74
31 4 0.11
ACGTcount: A:0.39, C:0.01, G:0.20, T:0.39
Consensus pattern (29 bp):
GTTATATGATATTGAAGTATGTGAATATA
Found at i:18401 original size:32 final size:31
Alignment explanation
Indices: 18358--18486 Score: 111
Period size: 31 Copynumber: 4.1 Consensus size: 31
18348 AGAGTCTAGG
18358 GTTTACCTATGTTCTACGGAACATATGAACA
1 GTTTACCTATGTTCTACGGAACATATGAACA
* *
18389 -TAATTACCTATG-TCTTTCAGG-ACATATGGACA
1 GT--TTACCTATGTTC-TAC-GGAACATATGAACA
* * *
18421 GTGTACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGAACA
* * * * *
18452 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGAACA
18483 GTTT
1 GTTT
18487 CCGAGGTTCT
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
30 3 0.04
31 51 0.64
32 23 0.29
33 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGAACA
Found at i:18485 original size:31 final size:31
Alignment explanation
Indices: 18408--18497 Score: 110
Period size: 31 Copynumber: 2.9 Consensus size: 31
18398 ATGTCTTTCA
* * *
18408 GGACATATGGACAGTGTACCTATGTTCTAAG
1 GGACATATGGACAGTTTACCTAGGTTCTTAG
* *
18439 GAACATATGGACAGTTTACCTAGGTTCTTCG
1 GGACATATGGACAGTTTACCTAGGTTCTTAG
* *
18470 GGACCTATGGACAGTTT-CCGAGGTTCTT
1 GGACATATGGACAGTTTACCTAGGTTCTT
18498 TATGACCTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 10 0.20
31 41 0.80
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (31 bp):
GGACATATGGACAGTTTACCTAGGTTCTTAG
Found at i:21113 original size:137 final size:137
Alignment explanation
Indices: 20867--21143 Score: 554
Period size: 137 Copynumber: 2.0 Consensus size: 137
20857 ATCCAAATAT
20867 GAGCAAAATGCCTCTCAAAATAAAGTCCTAAACCCTAACATAATCTTTCCTTGAAAAAAACGAAA
1 GAGCAAAATGCCTCTCAAAATAAAGTCCTAAACCCTAACATAATCTTTCCTTGAAAAAAACGAAA
20932 GTCTATCTTGAAGTTCATGGGATGAAAGTTTCCTTTAGGATAATGAGAGAGAGATGTGATGGCTT
66 GTCTATCTTGAAGTTCATGGGATGAAAGTTTCCTTTAGGATAATGAGAGAGAGATGTGATGGCTT
20997 AATAAGA
131 AATAAGA
21004 GAGCAAAATGCCTCTCAAAATAAAGTCCTAAACCCTAACATAATCTTTCCTTGAAAAAAACGAAA
1 GAGCAAAATGCCTCTCAAAATAAAGTCCTAAACCCTAACATAATCTTTCCTTGAAAAAAACGAAA
21069 GTCTATCTTGAAGTTCATGGGATGAAAGTTTCCTTTAGGATAATGAGAGAGAGATGTGATGGCTT
66 GTCTATCTTGAAGTTCATGGGATGAAAGTTTCCTTTAGGATAATGAGAGAGAGATGTGATGGCTT
21134 AATAAGA
131 AATAAGA
21141 GAG
1 GAG
21144 GAGAGAAAAG
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 140 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (137 bp):
GAGCAAAATGCCTCTCAAAATAAAGTCCTAAACCCTAACATAATCTTTCCTTGAAAAAAACGAAA
GTCTATCTTGAAGTTCATGGGATGAAAGTTTCCTTTAGGATAATGAGAGAGAGATGTGATGGCTT
AATAAGA
Found at i:25311 original size:60 final size:60
Alignment explanation
Indices: 25218--25346 Score: 258
Period size: 60 Copynumber: 2.1 Consensus size: 60
25208 CCATATCCTG
25218 GAATGTGAAAACAATATGGATAGCATACGTATGTGAGCCATGACGCATGTTTTTGTGCTC
1 GAATGTGAAAACAATATGGATAGCATACGTATGTGAGCCATGACGCATGTTTTTGTGCTC
25278 GAATGTGAAAACAATATGGATAGCATACGTATGTGAGCCATGACGCATGTTTTTGTGCTC
1 GAATGTGAAAACAATATGGATAGCATACGTATGTGAGCCATGACGCATGTTTTTGTGCTC
25338 GAATGTGAA
1 GAATGTGAA
25347 CACATTTATC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 69 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (60 bp):
GAATGTGAAAACAATATGGATAGCATACGTATGTGAGCCATGACGCATGTTTTTGTGCTC
Found at i:28825 original size:156 final size:156
Alignment explanation
Indices: 28531--28847 Score: 553
Period size: 156 Copynumber: 2.0 Consensus size: 156
28521 CAAGTAGTCT
28531 CTGGACCATCATCCGTAAAATCTTTTCGTGAAGCAGTGTACATTGAAGATGTCCTCAGACTCTTC
1 CTGGACCATCATCCGTAAAATCTTTTCGTGAAGCAGTGTACATTGAAGATGTCCTCAGACTCTTC
*
28596 CTACTCTGATTCACCCCAGGTGAGACACTTAGTGTTGGGGATTTAAGAATTACAGAAGAATCTCC
66 CTACTCTGATTCACCCCAGGTGAGACACTTAGTGTTGGGGATTTAAGAATTACAGAAGAATCCCC
*
28661 ACCGGTTGTTTCCTCAGTTAGCTGAC
131 ACCAGTTGTTTCCTCAGTTAGCTGAC
* *
28687 CTGGACCATCATCCGTAAGATCTTTTTGTGAAGCAGTGTACATTGAAGATGTCCTCAGACTCTTC
1 CTGGACCATCATCCGTAAAATCTTTTCGTGAAGCAGTGTACATTGAAGATGTCCTCAGACTCTTC
**
28752 CTACTCTGATTCACCTTAGGTGAGACACTTAGTGTTGGGGATTTAAGAATTACAGAAGAATCCCC
66 CTACTCTGATTCACCCCAGGTGAGACACTTAGTGTTGGGGATTTAAGAATTACAGAAGAATCCCC
* * *
28817 ATCAGTTGTTTTCTCAGTTAGCTGGC
131 ACCAGTTGTTTCCTCAGTTAGCTGAC
28843 CTGGA
1 CTGGA
28848 TTCTCTTTGA
Statistics
Matches: 152, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
156 152 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (156 bp):
CTGGACCATCATCCGTAAAATCTTTTCGTGAAGCAGTGTACATTGAAGATGTCCTCAGACTCTTC
CTACTCTGATTCACCCCAGGTGAGACACTTAGTGTTGGGGATTTAAGAATTACAGAAGAATCCCC
ACCAGTTGTTTCCTCAGTTAGCTGAC
Found at i:35520 original size:25 final size:27
Alignment explanation
Indices: 35486--35539 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
35476 TATTATAAAT
*
35486 AAGTACCT-AAAGTA-CTTTTTGGTCA
1 AAGTACCTAAAAGTATCTTTTTAGTCA
* *
35511 AAGTATCTAAAATTATCTTTTTAGTCA
1 AAGTACCTAAAAGTATCTTTTTAGTCA
35538 AA
1 AA
35540 ATAAGTACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 5 0.21
27 12 0.50
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (27 bp):
AAGTACCTAAAAGTATCTTTTTAGTCA
Found at i:35692 original size:29 final size:28
Alignment explanation
Indices: 35638--35696 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
35628 TGAAAAATTG
*
35638 AATAATTTAGGTACCTGTTTCAACCACAA
1 AATAATTTAGGTACCTATTTCAACCA-AA
* **
35667 AATACTTTAGGTACCTATTTTGACCAAA
1 AATAATTTAGGTACCTATTTCAACCAAA
35695 AA
1 AA
35697 GATTAGGTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (28 bp):
AATAATTTAGGTACCTATTTCAACCAAA
Found at i:35714 original size:26 final size:26
Alignment explanation
Indices: 35673--35722 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
35663 ACAAAATACT
* *
35673 TTAGGTACCTATTTTGACCAAAAAGA
1 TTAGGTACCTACTTTGACAAAAAAGA
*
35699 TTAGGTACTTACTTTGACAAAAAA
1 TTAGGTACCTACTTTGACAAAAAA
35723 AAATACTTTA
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:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (26 bp):
TTAGGTACCTACTTTGACAAAAAAGA
Found at i:42258 original size:20 final size:22
Alignment explanation
Indices: 42233--42272 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
42223 AGTCGTATAT
42233 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
42253 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
42273 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:42327 original size:21 final size:21
Alignment explanation
Indices: 42301--42342 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
42291 CCAGAATGGG
*
42301 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
42322 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
42343 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:42553 original size:29 final size:31
Alignment explanation
Indices: 42521--42580 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
42511 AAATTTTGAA
*
42521 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
42550 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
42581 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAATCATTTTG
Found at i:42914 original size:16 final size:16
Alignment explanation
Indices: 42888--42935 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
42878 TTTTAAGAAC
42888 TTGACACTTAAACAAAA
1 TTGA-ACTTAAACAAAA
42905 TTGAACTTAAACAAAA
1 TTGAACTTAAACAAAA
* *
42921 TTGAATTTCAACAAA
1 TTGAACTTAAACAAA
42936 GAATAACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (16 bp):
TTGAACTTAAACAAAA
Found at i:43853 original size:19 final size:20
Alignment explanation
Indices: 43810--43857 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
43800 TCTAAATCCT
*
43810 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
43830 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
43849 TTTTCAAAA
1 TTTTCAAAA
43858 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:46839 original size:10 final size:11
Alignment explanation
Indices: 46817--46841 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46807 TTATTATTTC
46817 AAAAATTTAAA
1 AAAAATTTAAA
46828 AAAAATTTAAA
1 AAAAATTTAAA
46839 AAA
1 AAA
46842 TTCTTGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATTTAAA
Found at i:54856 original size:75 final size:76
Alignment explanation
Indices: 54674--54881 Score: 267
Period size: 76 Copynumber: 2.8 Consensus size: 76
54664 CAAACCCAAA
* * * * **
54674 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCC-TGAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTTAAACAGT
54738 TTGGCTCCGAG
66 TTGGCTCCGAG
* *
54749 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTTAAACATT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTTAAACAGT
* *
54814 TTTGTTCCGAG
66 TTGGCTCCGAG
* * * *
54825 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCCT
54882 GTTCAACGGT
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
75 52 0.45
76 58 0.50
77 6 0.05
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTTAAACAGT
TTGGCTCCGAG
Found at i:56098 original size:23 final size:23
Alignment explanation
Indices: 56007--56090 Score: 123
Period size: 23 Copynumber: 3.7 Consensus size: 23
55997 CATTATTATA
*
56007 TGGCACTACGGTGCAATTTTACG
1 TGGCACTACGGTGCAATTCTACG
*
56030 TGGCACTACGATGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
56053 TGGCATTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
56076 CGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
56091 TTTATACGAG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.27
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:56370 original size:12 final size:13
Alignment explanation
Indices: 56355--56389 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
56345 TAATTTGATG
56355 ATAATGATATAA-
1 ATAATGATATAAT
56367 ATAATGATATAAT
1 ATAATGATATAAT
56380 ATAAATGATA
1 AT-AATGATA
56390 ATGCTAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 2 0.10
14 7 0.33
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (13 bp):
ATAATGATATAAT
Found at i:57853 original size:23 final size:23
Alignment explanation
Indices: 57819--57868 Score: 93
Period size: 22 Copynumber: 2.2 Consensus size: 23
57809 TTTACAAATC
57819 ATACATACTTTTTACCAGTTCAA
1 ATACATACTTTTTACCAGTTCAA
57842 ATAC-TACTTTTTACCAGTTCAA
1 ATACATACTTTTTACCAGTTCAA
57864 ATACA
1 ATACA
57869 AAGAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (23 bp):
ATACATACTTTTTACCAGTTCAA
Found at i:61768 original size:20 final size:20
Alignment explanation
Indices: 61674--62042 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
61664 GATTTTCCAT
* ** *
61674 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
61694 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
61714 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
61734 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
61754 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
61774 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
61794 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
61814 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
61834 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
61854 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
61874 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
61894 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
61914 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
61934 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
61954 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
61974 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
61994 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
62014 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
62034 AATCACAAC
1 AATCGCAAC
62043 ACTTAAATTT
Statistics
Matches: 305, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.01
20 297 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:62761 original size:24 final size:24
Alignment explanation
Indices: 62722--62768 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
62712 AAATTTGGTC
62722 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
62746 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
62769 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:62960 original size:12 final size:12
Alignment explanation
Indices: 62943--62967 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62933 ATATAATCCT
62943 GAAGAAGAAAAA
1 GAAGAAGAAAAA
62955 GAAGAAGAAAAA
1 GAAGAAGAAAAA
62967 G
1 G
62968 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:65270 original size:19 final size:19
Alignment explanation
Indices: 65248--65521 Score: 354
Period size: 19 Copynumber: 15.4 Consensus size: 19
65238 ACGGAAATAC
*
65248 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
65267 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
65281 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
65301 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
65315 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
65334 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
65353 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
65367 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
65386 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
65405 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
65424 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
65443 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
65462 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
65476 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
65495 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
65514 AATCGCAA
1 AATCGCAA
65522 CGAGATAATC
Statistics
Matches: 226, Mismatches: 8, Indels: 42
0.82 0.03 0.15
Matches are distributed among these distances:
14 38 0.17
15 1 0.00
16 14 0.06
17 12 0.05
18 2 0.01
19 146 0.65
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:65399 original size:71 final size:74
Alignment explanation
Indices: 65248--65543 Score: 314
Period size: 71 Copynumber: 4.2 Consensus size: 74
65238 ACGGAAATAC
* *
65248 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-GAAATG-AAATCGCA
*
65308 A--CG--A-GAG
63 ATGCGAAATGAA
*
65315 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGACA-G-AATCGCAATG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGAAATCGCAATG
*
65377 CGAAATTAA
66 CGAAATGAA
65386 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-AAATCGCAA
65451 TGCGAAATGAA
64 TGCGAAATGAA
65462 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-AAATCGCAA
*
65522 --CG--A-GAT
64 TGCGAAATGAA
65528 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
65544 TATAAACGCA
Statistics
Matches: 203, Mismatches: 8, Indels: 34
0.83 0.03 0.14
Matches are distributed among these distances:
66 18 0.09
67 26 0.13
68 8 0.04
69 6 0.03
70 2 0.01
71 93 0.46
72 13 0.06
73 5 0.02
74 6 0.03
76 26 0.13
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (74 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGAAATCGCAATG
CGAAATGAA
Found at i:65447 original size:109 final size:104
Alignment explanation
Indices: 65276--65543 Score: 446
Period size: 109 Copynumber: 2.5 Consensus size: 104
65266 AAATCCCAAC
*
65276 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
*
65341 ATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
65 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
*
65381 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAAAAT
65446 CGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
61 CGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
*
65490 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAAT
65544 TATAAACGCA
Statistics
Matches: 153, Mismatches: 5, Indels: 11
0.91 0.03 0.07
Matches are distributed among these distances:
104 34 0.22
105 16 0.10
106 2 0.01
107 2 0.01
108 1 0.01
109 98 0.64
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (104 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAA
TGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
Found at i:65491 original size:161 final size:157
Alignment explanation
Indices: 65248--65559 Score: 502
Period size: 161 Copynumber: 2.0 Consensus size: 157
65238 ACGGAAATAC
*
65248 AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAG
1 AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAA
65313 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGC
66 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGC
65378 GAAATTA-AAATCGCAATGCGAAATGAA
131 GAAATTATAAA-CGCAATGCGAAATGAA
* *
65405 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
* *
65469 ACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGC
61 ACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGC
*
65534 AATGCGAAATTATAAACGCATTGCGA
126 AATGCGAAATTATAAACGCAATGCGA
65560 TTTTCATTTC
Statistics
Matches: 143, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
157 25 0.17
159 1 0.01
161 98 0.69
162 19 0.13
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (157 bp):
AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAA
AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGC
GAAATTATAAACGCAATGCGAAATGAA
Found at i:65559 original size:52 final size:52
Alignment explanation
Indices: 65276--65543 Score: 437
Period size: 52 Copynumber: 5.0 Consensus size: 52
65266 AAATCCCAAC
65276 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
65329 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
65381 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
65438 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
65490 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
65542 AT
1 AT
65544 TATAAACGCA
Statistics
Matches: 201, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
52 133 0.66
53 17 0.08
54 2 0.01
55 2 0.01
56 1 0.00
57 46 0.23
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:65659 original size:19 final size:19
Alignment explanation
Indices: 65550--65651 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
65540 AAATTATAAA
65550 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
65569 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
65589 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
65605 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
65622 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
65641 CGCATTGCGAT
1 CGCATTGCGAT
65652 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:65777 original size:14 final size:14
Alignment explanation
Indices: 65758--65794 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
65748 CATCAATTAC
65758 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
65772 ACAAATCATCTTTT
1 ACAAATCAACTTTT
65786 ACAAATCAA
1 ACAAATCAA
65795 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:67770 original size:14 final size:14
Alignment explanation
Indices: 67751--67807 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
67741 GCGAAATGAA
*
67751 AATCGCAACGACAG
1 AATCGCAACGAAAG
67765 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
67782 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
67798 AATCGCAACG
1 AATCGCAACG
67808 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:67778 original size:33 final size:33
Alignment explanation
Indices: 67732--67824 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
67722 GCGAAACCAA
*
67732 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
67765 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
67798 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
67825 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:67789 original size:19 final size:19
Alignment explanation
Indices: 67695--67829 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
67685 TAGTTTACTT
* *
67695 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
67715 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
67734 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
67753 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
67767 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
67786 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
67800 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
67819 TCGCAATGCGA
1 TCGCAACGCGA
67830 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:67847 original size:19 final size:19
Alignment explanation
Indices: 67825--67953 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
67815 AAAATCGCAA
67825 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
67844 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
67858 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
67877 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
67891 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
67910 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
67929 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
67949 TGCGA
1 TGCGA
67954 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:67867 original size:33 final size:33
Alignment explanation
Indices: 67825--67916 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
67815 AAAATCGCAA
67825 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
67858 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
67891 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
67917 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:68288 original size:93 final size:93
Alignment explanation
Indices: 67997--68468 Score: 912
Period size: 93 Copynumber: 5.1 Consensus size: 93
67987 TTGAATGGAT
67997 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
68062 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
68090 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
68154 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
68182 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
68247 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
68275 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
68339 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
68367 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
68432 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
68460 AAATTTACT
1 AAATTTACT
68469 AAGCAATCTA
Statistics
Matches: 374, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
92 183 0.49
93 191 0.51
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:68309 original size:185 final size:185
Alignment explanation
Indices: 67997--68468 Score: 926
Period size: 185 Copynumber: 2.6 Consensus size: 185
67987 TTGAATGGAT
67997 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
68062 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
68127 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
68182 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
68247 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
68312 TATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
68367 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
68432 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
68469 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 285 1.00
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:70191 original size:14 final size:14
Alignment explanation
Indices: 70172--70261 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
70162 TTGAAATGAA
70172 AATCGCAACGAGAG
1 AATCGCAACGAGAG
70186 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
70203 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
70219 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
70238 AATCGCAACGAGAG
1 AATCGCAACGAGAG
70252 AATCGCAACG
1 AATCGCAACG
70262 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:70209 original size:33 final size:33
Alignment explanation
Indices: 70164--70278 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
70154 TCTTTTGGTT
70164 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
70197 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
70230 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
70263 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
70279 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:70210 original size:19 final size:18
Alignment explanation
Indices: 70171--70283 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
70161 GTTGAAATGA
70171 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
70186 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
70203 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
70219 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
70236 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
70252 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
70269 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
70284 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:70314 original size:14 final size:14
Alignment explanation
Indices: 70295--70349 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
70285 TTTGGTTTCG
70295 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
70309 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
70328 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
70342 CGTTGCGA
1 CGTTGCGA
70350 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:70327 original size:33 final size:33
Alignment explanation
Indices: 70279--70349 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
70269 AAAATCGCAA
**
70279 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
70312 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
70345 TGCGA
1 TGCGA
70350 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:70357 original size:33 final size:33
Alignment explanation
Indices: 70290--70371 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
70280 GCGATTTTGG
***
70290 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
70323 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
70356 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
70372 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:70376 original size:20 final size:20
Alignment explanation
Indices: 70302--70390 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
70292 TCGCGTTGCG
70302 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
70322 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
70335 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
70355 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
70375 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
70391 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:70512 original size:33 final size:33
Alignment explanation
Indices: 70470--70540 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
70460 AATACTAACT
*
70470 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
70503 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
70536 TGAAA
1 TGAAA
70541 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:70772 original size:22 final size:22
Alignment explanation
Indices: 70720--70774 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
70710 TGGTTGTGAG
**
70720 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
70742 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
70764 GGATTTCTTCG
1 GGATTTCTTCG
70775 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:70945 original size:20 final size:20
Alignment explanation
Indices: 70920--71112 Score: 210
Period size: 20 Copynumber: 9.6 Consensus size: 20
70910 CTTTAAATAT
70920 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
70940 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
70962 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
70981 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* * **
71001 CACATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
71021 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
71041 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
71061 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
71081 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
71101 CGCGTTGCGATT
1 CGCGTTGCGATT
71113 ATGGAAAATC
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 125 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:71107 original size:60 final size:60
Alignment explanation
Indices: 70920--71112 Score: 242
Period size: 60 Copynumber: 3.2 Consensus size: 60
70910 CTTTAAATAT
**
70920 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * * *** *
70981 CGCGTTGCGATATACGGATACACATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
71041 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
71101 CGCGTTGCGATT
1 CGCGTTGCGATT
71113 ATGGAAAATC
Statistics
Matches: 109, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 82 0.75
61 27 0.25
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:71193 original size:20 final size:20
Alignment explanation
Indices: 71168--71219 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
71158 AAGAATCGCG
*
71168 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
71188 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
71208 TTGCGATTCTGG
1 TTGCGATTCTGG
71220 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:71489 original size:28 final size:28
Alignment explanation
Indices: 71458--71551 Score: 75
Period size: 28 Copynumber: 3.4 Consensus size: 28
71448 TTTGAGTATT
* * *
71458 TAAAGTATTTTTTATTAAAATGAATATC
1 TAAAGTATTTTTTATTAAAATAAACACC
*
71486 TAAA-T-TTTTTTAAGTAAAAATAAACACC
1 TAAAGTATTTTTT-A-TTAAAATAAACACC
* * * * *
71514 TAAAGTATTCTTTATTAACATAGATACT
1 TAAAGTATTTTTTATTAAAATAAACACC
71542 TAAAGTATTT
1 TAAAGTATTT
71552 AATTATTTAT
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
26 6 0.12
27 2 0.04
28 36 0.71
29 2 0.04
30 5 0.10
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (28 bp):
TAAAGTATTTTTTATTAAAATAAACACC
Found at i:72842 original size:3 final size:3
Alignment explanation
Indices: 72834--72872 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
72824 TGTAAATTTA
* * *
72834 ATT ATT ATT ATT ATT ATT ATC ATC ATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
72873 GATATGATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:73802 original size:13 final size:14
Alignment explanation
Indices: 73772--73805 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
73762 AATGAAAGAC
73772 TTAATAAAATTAATT
1 TTAA-AAAATTAATT
73787 TTAAAAAATTAA-T
1 TTAAAAAATTAATT
73800 TTAAAA
1 TTAAAA
73806 TAAGTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 8 0.42
15 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAAAAAATTAATT
Found at i:75151 original size:33 final size:34
Alignment explanation
Indices: 75114--75178 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
75104 TGGTAAATTA
*
75114 ACTTCAACGGTAA-CACAAGTTCAGAACCATTTT
1 ACTTCAACGGCAATCACAAGTTCAGAACCATTTT
* * *
75147 ACTTCAACTGCAATCACAAGTTTATAACCATT
1 ACTTCAACGGCAATCACAAGTTCAGAACCATT
75179 GCAGTCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 11 0.41
34 16 0.59
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.29
Consensus pattern (34 bp):
ACTTCAACGGCAATCACAAGTTCAGAACCATTTT
Found at i:82188 original size:3 final size:3
Alignment explanation
Indices: 82182--82260 Score: 114
Period size: 3 Copynumber: 28.0 Consensus size: 3
82172 TAGTATTATT
82182 TAA TAA TAA T-A TAA TAA T-A TAA TAA TAA TAA TAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
82227 TAA TAA TAA TAA -AA TAA TAA T-A TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
82261 AACAGAATGG
Statistics
Matches: 70, Mismatches: 1, Indels: 10
0.86 0.01 0.12
Matches are distributed among these distances:
2 10 0.14
3 60 0.86
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:82198 original size:11 final size:11
Alignment explanation
Indices: 82182--82259 Score: 104
Period size: 11 Copynumber: 7.0 Consensus size: 11
82172 TAGTATTATT
82182 TAATAATAATA
1 TAATAATAATA
82193 TAATAAT-ATAA
1 TAATAATAAT-A
82204 TAATAATAATA
1 TAATAATAATA
*
82215 AAATAATAATAA
1 TAATAATAAT-A
82227 TAATAATAATA
1 TAATAATAATA
*
82238 AAATAATAATA
1 TAATAATAATA
*
82249 TGATAATAATA
1 TAATAATAATA
82260 AAACAGAATG
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
10 2 0.03
11 45 0.76
12 12 0.20
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (11 bp):
TAATAATAATA
Found at i:82199 original size:14 final size:15
Alignment explanation
Indices: 82182--82260 Score: 114
Period size: 14 Copynumber: 5.6 Consensus size: 15
82172 TAGTATTATT
82182 TAATAATAAT-ATAA
1 TAATAATAATAATAA
82196 TAAT-ATAATAATAA
1 TAATAATAATAATAA
82210 TAATAA-AATAATAA
1 TAATAATAATAATAA
82224 TAATAATAATAATAA
1 TAATAATAATAATAA
*
82239 -AATAATAAT-ATGA
1 TAATAATAATAATAA
82252 TAATAATAA
1 TAATAATAA
82261 AACAGAATGG
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
13 8 0.13
14 43 0.72
15 9 0.15
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (15 bp):
TAATAATAATAATAA
Found at i:90764 original size:42 final size:42
Alignment explanation
Indices: 90680--90773 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
90670 CTTATCATCT
* * *
90680 TGCTCGAAAGGTTTACAGATGACCCGAAGGATTTAAGCATCA
1 TGCTCGAAAGGCTTACAGATGACCCGAAGGATCTAAGAATCA
* *
90722 TGCTCGAAAGGCTTATAGATGACCCGAATGATCTACA-AATCA
1 TGCTCGAAAGGCTTACAGATGACCCGAAGGATCTA-AGAATCA
*
90764 TGCTCAAAAG
1 TGCTCGAAAG
90774 AAGTACAGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.23
Consensus pattern (42 bp):
TGCTCGAAAGGCTTACAGATGACCCGAAGGATCTAAGAATCA
Found at i:90784 original size:42 final size:42
Alignment explanation
Indices: 90693--90784 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 42
90683 TCGAAAGGTT
* * * ***
90693 TACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGGCT
1 TACAGATGACCCGAAGGATCTAAGAATCATGCTCAAAAGAAG
* *
90735 TATAGATGACCCGAATGATCTACA-AATCATGCTCAAAAGAAG
1 TACAGATGACCCGAAGGATCTA-AGAATCATGCTCAAAAGAAG
90777 TACAGATG
1 TACAGATG
90785 GCCAGAATAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
42 39 0.98
43 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (42 bp):
TACAGATGACCCGAAGGATCTAAGAATCATGCTCAAAAGAAG
Found at i:91001 original size:303 final size:305
Alignment explanation
Indices: 90516--91063 Score: 872
Period size: 303 Copynumber: 1.8 Consensus size: 305
90506 AAAATTAAGT
* *
90516 TTAGTTTCTTAGTTGTCAAGGAACCCCTTAAAAGCCTTAGCTTCTTTTAACAACTCTTTTGAGAT
1 TTAGTTTCTTAGTTGACAAGGAACCCCTTAAAAGCCTTAGCTTCCTTTAACAACTCTTTTGAGAT
* * * **
90581 AATTAAAAAAACCCTTAAAATTAGGCTTAGTTTTTTAAAATCTTATTCGAAAACATCCTGCCTGA
66 AATTAAAAAAACCCCTAAAATGAGGCTTAGTTTTTTAAAATCTTATTCGAAAACATCCTACCCAA
* **
90646 AGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGGTTTACAGATGACCCGAAGGA
131 AGGTCTTATGGATGGCCCGAAGGCCTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGA
* *
90711 TTTAAGCATCATGCTCGAAAGGCTTA-TAGATGACCCGAATGATCTACAAATCATGCTCAAAAGA
196 TTTAAGCATCATGCTC-AAAGACTTACT-GATGACCCGAAGGATCTACAAATCATGCTCAAAAGA
90775 AGTACAGATGGCCAGAATAACTTACAAATCAAGAAACCCTCAAAAGC
259 AGTACAGATGGCCAGAATAACTTACAAATCAAGAAACCCTCAAAAGC
90822 TTAGTTTCTTAGTTGACAAGGAACCCCTTAAAATG-CTTAGCTTCCTTTAACAACTCTTTTGAGA
1 TTAGTTTCTTAGTTGACAAGGAACCCCTTAAAA-GCCTTAGCTTCCTTTAACAACTCTTTTGAGA
* ** *
90886 TAATT-AAGAAACCCCTAAAA-GAGGCTTAG-TTTTTAAAATCTTATTTTAAAGCATCCTACCCA
65 TAATTAAAAAAACCCCTAAAATGAGGCTTAGTTTTTTAAAATCTTATTCGAAAACATCCTACCCA
90948 AAGGTCTTATGGATGGCCCGAAGGCCTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
130 AAGGTCTTATGGATGGCCCGAAGGCCTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
* *
91013 ATTTAAGCATCATGCTCAAAGACTTACTGATGACCTGAAGGATTTACAAAT
195 ATTTAAGCATCATGCTCAAAGACTTACTGATGACCCGAAGGATCTACAAAT
91064 TCAGGAAATA
Statistics
Matches: 222, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
302 28 0.13
303 107 0.48
304 8 0.04
305 13 0.06
306 65 0.29
307 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (305 bp):
TTAGTTTCTTAGTTGACAAGGAACCCCTTAAAAGCCTTAGCTTCCTTTAACAACTCTTTTGAGAT
AATTAAAAAAACCCCTAAAATGAGGCTTAGTTTTTTAAAATCTTATTCGAAAACATCCTACCCAA
AGGTCTTATGGATGGCCCGAAGGCCTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGA
TTTAAGCATCATGCTCAAAGACTTACTGATGACCCGAAGGATCTACAAATCATGCTCAAAAGAAG
TACAGATGGCCAGAATAACTTACAAATCAAGAAACCCTCAAAAGC
Found at i:91034 original size:41 final size:42
Alignment explanation
Indices: 90978--91058 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 42
90968 AAGGCCTTAT
*
90978 CATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
* *
91020 CATCATGCTC-AAAGACTTACTGATGACCTGAAGGATTTA
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTA
91059 CAAATTCAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 27 0.75
42 9 0.25
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
Found at i:98900 original size:25 final size:25
Alignment explanation
Indices: 98849--98900 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
98839 ACACGGGTAT
*
98849 AAAATAATAAATGAAAGAAATCAAA
1 AAAATAATAAATGAAAGAAAACAAA
* * * *
98874 AAAATTATAAATTAAATAAAACTAA
1 AAAATAATAAATGAAAGAAAACAAA
98899 AA
1 AA
98901 TCTCAATTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (25 bp):
AAAATAATAAATGAAAGAAAACAAA
Found at i:101094 original size:19 final size:19
Alignment explanation
Indices: 101070--101108 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
101060 CAGGTTGAAA
*
101070 TTGTAATCGGGCCTCTGGG
1 TTGTAATCGGGCCTCCGGG
*
101089 TTGTAATTGGGCCTCCGGG
1 TTGTAATCGGGCCTCCGGG
101108 T
1 T
101109 ATGGGCCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.10, C:0.21, G:0.36, T:0.33
Consensus pattern (19 bp):
TTGTAATCGGGCCTCCGGG
Found at i:101396 original size:23 final size:22
Alignment explanation
Indices: 101353--101397 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
101343 TATCAAGAGC
* *
101353 GTAACTTTTTAGGTTGGATCGA
1 GTAACATTTTAGGTTGAATCGA
101375 GTAACATTTTAGGTTGAAATCGA
1 GTAACATTTTAGGTTG-AATCGA
101398 AAATGTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
GTAACATTTTAGGTTGAATCGA
Found at i:101672 original size:30 final size:31
Alignment explanation
Indices: 101606--101672 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
101596 ATTTCTAAAT
*
101606 ATTTTG-AGTGGTCAAATTGAATTTTTTTAA
1 ATTTTGAAGTGGTCAAATTGAAATTTTTTAA
* *
101636 AATTTGAAG-GGTCAAAATT-AAATTTTTTGA
1 ATTTTGAAGTGGTC-AAATTGAAATTTTTTAA
101666 ATTTTGA
1 ATTTTGA
101673 GGGGCCCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.46
Consensus pattern (31 bp):
ATTTTGAAGTGGTCAAATTGAAATTTTTTAA
Found at i:102785 original size:31 final size:31
Alignment explanation
Indices: 102747--102811 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
102737 TTAGATAGAC
102747 AAGTCTATGGTGAACTTCTTGTCGATTAGTG
1 AAGTCTATGGTGAACTTCTTGTCGATTAGTG
102778 AAGTCTATGGTGAACTTCTTGTCGATTAGTG
1 AAGTCTATGGTGAACTTCTTGTCGATTAGTG
102809 AAG
1 AAG
102812 ATGAGAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (31 bp):
AAGTCTATGGTGAACTTCTTGTCGATTAGTG
Found at i:108054 original size:13 final size:13
Alignment explanation
Indices: 108038--108083 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
108028 AGTAAAATTG
*
108038 ATATATAAATTTA
1 ATATATATATTTA
108051 ATATA-ATATTTA
1 ATATATATATTTA
108063 ATA-ATATTATTTA
1 ATATATA-TATTTA
108076 AT-TATATA
1 ATATATATA
108084 CCATTATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 1 0.03
12 12 0.41
13 16 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATATATTTA
Found at i:108242 original size:16 final size:16
Alignment explanation
Indices: 108221--108261 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
108211 CATGCACAAC
108221 AAGAAATAAACAT-TTT
1 AAGAAATAAA-ATATTT
108237 AAGAAATAAAATATTT
1 AAGAAATAAAATATTT
*
108253 AAAAAATAA
1 AAGAAATAA
108262 GTACATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (16 bp):
AAGAAATAAAATATTT
Found at i:110256 original size:3 final size:3
Alignment explanation
Indices: 110250--110277 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
110240 ACCATTTTTT
110250 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
110278 AAATCAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:115552 original size:95 final size:95
Alignment explanation
Indices: 115385--115665 Score: 413
Period size: 95 Copynumber: 3.0 Consensus size: 95
115375 TATAATATTA
* * *** * *
115385 TATA-TATACAATAAAGCTTGAGTTGTCCCTCTAGAGTAATTGGTTAAACGCGCTAACTCTATAG
1 TATACTATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCACCGGCTTTATGG
115449 ATAATATTCAGCTAGCCTGATAAAGGTGAT
66 ATAATATTCAGCTAGCCTGATAAAGGTGAT
* *
115479 TATACTATACAATAAATCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACACCGGCTTTATGG
1 TATACTATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCACCGGCTTTATGG
115544 ATAATATTCAGCTAGCCTGATAAAGGTGAT
66 ATAATATTCAGCTAGCCTGATAAAGGTGAT
* *
115574 TATACTATACAATAAAGCTTGAGCTGTCCCTCTA-AGGCAATTGGTTAAACGCCCCGGCTTTATG
1 TATACTATACAATAAAGCTTGAGTTGTCCCTCTAGA-GCAATTGGTTAAACGCACCGGCTTTATG
* * *
115638 GATAAGATTCAGCTAACCCGATAAAGGT
65 GATAATATTCAGCTAGCCTGATAAAGGT
115666 ATTTACAGAT
Statistics
Matches: 169, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
94 5 0.03
95 164 0.97
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (95 bp):
TATACTATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCACCGGCTTTATGG
ATAATATTCAGCTAGCCTGATAAAGGTGAT
Found at i:117048 original size:84 final size:83
Alignment explanation
Indices: 116863--117841 Score: 911
Period size: 84 Copynumber: 11.8 Consensus size: 83
116853 ATATCGACAA
* * * * * * * *
116863 CATAACTCAAGGCGAGAAAGGTTGTCTGTCAGCC-AAGACCTTTGAGTTTGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCA-CCAAAGACCTTCGAGTTCGACTACACTCAGCTC
**
116927 TGAGGCACATCATTTGCAG
65 CAAGGCACATCATTTGCAG
* * * * * * *
116946 CATAGCTCAAGGCTAGAAGGGTTATCTGCCACTAAAAGACCTTCGAGTTCGACTACGCTCAGATC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCAC-CAAAGACCTTCGAGTTCGACTACACTCAGCTC
*
117011 CAAGGCATATCATTTGCAG
65 CAAGGCACATCATTTGCAG
* * *
117030 CATAACTTAAGTCGAGAAGGGTTATCTGTCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTG-CCACCAAAGACCTTCGAGTTCGACTACACTCAGCTC
*
117095 CAAGGCACATCATTTGTAG
65 CAAGGCACATCATTTGCAG
* * * * * * * *
117114 CATAACTTAAGTCGAGAAGAGCTATATG---CTAAATACCCTCGAGTTCGATTACACTCAACTTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACACTCAGC-TC
* * *
117176 GAGGGCACATCATTTACAG
65 CAAGGCACATCATTTGCAG
* * * * * *
117195 CATAACTCAAGGCTAGAAGGGTTATATGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACACTCAGCTC
* * *
117260 TAAGGCATATCATTTTCAG
65 CAAGGCACATCATTTGCAG
* * * *
117279 TATAACTTAAGTAC-AGAAGGGTTATCTGCCAACCGAAGACCTTCGAGTTCGACTACACTTAACT
1 CATAACTTAAGT-CGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACACTCAGCT
* *
117343 CCAAGGCGCATCATTTGTAG
64 CCAAGGCACATCATTTGCAG
* * * *
117363 CATAACTTAAGTCGAGAAGGGCTATCT---ACCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCC
* *
117425 GAGAGCACATCATTTACAG
66 AAG-GCACATCATTTGCAG
* * * ** * *
117444 CATAACTCAAGACTAGAAGGGTTATCTATCACTAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCAC-CAAAGACCTTCGAGTTCGACTACACTCAGCTC
* * *
117509 TAAGGTATATCATTTGCAG
65 CAAGGCACATCATTTGCAG
* * * * *
117528 CATAACTTAAGTCGAGTAGGGTTATCTGCTAACCAATGACCTTCGAGTTTGACTACACTCAACTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGC-CACCAAAGACCTTCGAGTTCGACTACACTCAGCTC
*
117593 CAAGACACATCATTTGCAG
65 CAAGGCACATCATTTGCAG
* * * * * *
117612 CATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTATACTCAGCTTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCC
**
117674 AAGGGCACATCATTTATAG
66 AA-GGCACATCATTTGCAG
* * * ** * * * *
117693 CATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCGAGTCCGACTCCGCTCAGCTT
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACACTCAGCTC
*
117758 AAAGGCACATCATTTGCAG
65 CAAGGCACATCATTTGCAG
* * * * *
117777 CATAGCTTAAATCGAAGAA-GGCTATCTACCATCCAAAGACCTTCGAGTTCGATTACACTCAGCT
1 CATAACTTAAGTCG-AGAAGGGTTATCTGCCA-CCAAAGACCTTCGAGTTCGACTACACTCAGCT
117841 C
64 C
117842 AGAGGCAAAC
Statistics
Matches: 725, Mismatches: 147, Indels: 47
0.79 0.16 0.05
Matches are distributed among these distances:
80 84 0.12
81 110 0.15
82 1 0.00
83 27 0.04
84 408 0.56
85 95 0.13
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (83 bp):
CATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCC
AAGGCACATCATTTGCAG
Found at i:117368 original size:249 final size:249
Alignment explanation
Indices: 116930--117837 Score: 1345
Period size: 249 Copynumber: 3.6 Consensus size: 249
116920 TCAGCTCTGA
* * ** *
116930 GGCACATCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACTAAAAGACCTTCGAGTT
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCGAGTT
* * *
116995 CGACTACGCTCAGATCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC
66 CGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC
* * *
117060 AACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAACTTAAG
131 AACCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGTAGCATAACTTAAG
* * * * *
117125 TCGAGAAGAGCTATATGCTAAATACCCTCGAGTTCGATTACACTCAACTTCGAG
196 TCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAG
* *
117179 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCACCAAAAGACCTTCGAGTT
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCGAGTT
* *
117244 CGACTACGCTCAGCTCTAAGGCATATCATTTTCAGTATAACTTAAGTAC-AGAAGGGTTATCTGC
66 CGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCATAACTTAAGT-CGAGAAGGGTTATCTGC
* * *
117308 CAACCGAAGACCTTCGAGTTCGACTACACTTAACTCCAAGGCGCATCATTTGTAGCATAACTTAA
130 CAACCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGTAGCATAACTTAA
*
117373 GTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAG
195 GTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAG
* * *
117428 AGCACATCATTTACAGCATAACTCAAGACTAGAAGGGTTATCTATCACTAAAAGACCTTCGAGTT
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCGAGTT
* * *
117493 CGACTACGCTCAGCTCTAAGGTATATCATTTGCAGCATAACTTAAGTCGAGTAGGGTTATCTGCT
66 CGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC
* * * * *
117558 AACCAATGACCTTCGAGTTTGACTACACTCAACTCCAAGACACATCATTTGCAGCATAGCTTAAG
131 AACCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGTAGCATAACTTAAG
* *
117623 TCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTATACTCAGCTTCAAG
196 TCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAG
* *
117677 GGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCGAGTC
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCGAGTT
* * * * * *
117742 CGACTCCGCTCAGCT-TAAAGGCACATCATTTGCAGCATAGCTTAAATCGAAGAA-GGCTATCTA
66 CGACTACGCTCAGCTCT-AAGGCATATCATTTGCAGCATAACTTAAGTCG-AGAAGGGTTATCTG
* *
117805 CCATCCAAAGACCTTCGAGTTCGATTACACTCA
129 CCAACCAAAGACCTTCGAGTTCGACTACACTCA
117838 GCTCAGAGGC
Statistics
Matches: 594, Mismatches: 61, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
248 2 0.00
249 588 0.99
250 4 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (249 bp):
GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCGAGTT
CGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC
AACCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGTAGCATAACTTAAG
TCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAG
Found at i:121538 original size:14 final size:14
Alignment explanation
Indices: 121519--121547 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
121509 TAATTATATT
121519 GGTATTTGCATTAA
1 GGTATTTGCATTAA
121533 GGTATTTGCATTAA
1 GGTATTTGCATTAA
121547 G
1 G
121548 TGGCTCATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (14 bp):
GGTATTTGCATTAA
Found at i:122027 original size:20 final size:19
Alignment explanation
Indices: 122004--122050 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
121994 CGATATACCA
122004 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
122024 GGTAAGAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
122044 GGTAAAA
1 GGTAAAA
122051 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:122146 original size:181 final size:182
Alignment explanation
Indices: 121791--122265 Score: 632
Period size: 182 Copynumber: 2.6 Consensus size: 182
121781 GATCCAAATT
* * * *
121791 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCAGTATTAAAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA--AAAAATGAT
* * * * * * *
121856 AAAACCGGTAAAGCGCTACCGAATACATTTAAAGTGTTGGTACTTTAATATAAGGATCGACACTT
64 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * * *
121921 CGTGAATTTAAAAGTGAAGCAGTTTTAAGTCCTATAAAGTGTCGATACTTT-TA
129 CGTGAATTTAAAAGAGAAGCAATTTTAAGGCCTATAAAGTGTCGATACTTTAAA
*
121974 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAAGAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAA-AAAATGATA
* *
122039 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
65 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
122103 GTGAATTTAAAAGAGAAGCAATTTT-AGCGCCTATAATGTGTCGATACTTTAAA
130 GTGAATTTAAAAGAGAAGCAATTTTAAG-GCCTATAAAGTGTCGATACTTTAAA
* * * * * *
122156 AAAAATATATCGATCGACAACGATATAACATGTAAAAATATGATAAAACAGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-AAAAATGATA
* * *
122221 AAATCGATAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
65 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
122266 CGTAAGTACG
Statistics
Matches: 259, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
180 2 0.01
181 62 0.24
182 146 0.56
183 49 0.19
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAAAAAATGATAA
AACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAATTTTAAGGCCTATAAAGTGTCGATACTTTAAA
Found at i:122205 original size:20 final size:20
Alignment explanation
Indices: 122177--122223 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
122167 GATCGACAAC
* *
122177 GATATAACATGTA-AAAATAT
1 GATAAAACAGGTATAAAA-AT
*
122197 GATAAAACAGGTATCAAAAT
1 GATAAAACAGGTATAAAAAT
122217 GATAAAA
1 GATAAAA
122224 TCGATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.57, C:0.06, G:0.13, T:0.23
Consensus pattern (20 bp):
GATAAAACAGGTATAAAAAT
Found at i:122404 original size:24 final size:24
Alignment explanation
Indices: 122377--122429 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
122367 TGTATCGATT
122377 AAATATAA-ATAACATATCCGATGA
1 AAATATAAGATAA-ATATCCGATGA
* *
122401 AAATATAAGCTAAATATCCTATGA
1 AAATATAAGATAAATATCCGATGA
122425 AAATA
1 AAATA
122430 GATAGAACGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (24 bp):
AAATATAAGATAAATATCCGATGA
Found at i:124477 original size:21 final size:21
Alignment explanation
Indices: 124451--124491 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
124441 AAGACAATCA
124451 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
* *
124472 AGAGTCGAAGATACACTTGA
1 AGAGTCGAAGAGAAACTTGA
124492 GAGACATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAT
Found at i:124571 original size:33 final size:33
Alignment explanation
Indices: 124529--124593 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
124519 AATAGATGGA
*
124529 GTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGAG
1 GTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGAG
* *
124562 GTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 GTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
124594 TATTAAGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.00, G:0.51, T:0.23
Consensus pattern (33 bp):
GTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGAG
Found at i:126429 original size:18 final size:19
Alignment explanation
Indices: 126383--126430 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
126373 AATGTAGGGT
126383 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
126402 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
126421 TAA-TTTGTAT
1 TAATTTTGTAT
126431 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:126892 original size:200 final size:198
Alignment explanation
Indices: 126549--128054 Score: 2481
Period size: 200 Copynumber: 7.7 Consensus size: 198
126539 CAATATGGCC
* * *
126549 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACTTCGGAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAA
126614 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
126679 TAATATGTCTAAATAATGTGTCGACACGTTTTTAGTTTGTGTCGAT-TTTTTGGGTCCAGAATGA
130 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTT-GGTCCAGAATGA
126743 ATGGAA
193 ATGGAA
126749 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAA-GTGTCGATCCCAAAAACATCGAAAA
126814 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
126879 GAATATGTCTAAATAATTTGTCGACAGTTTTTTAGTTTGTGTCGATA-GTTTGGTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACA-CTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
126943 TGGAA
194 TGGAA
*
126948 AATAGGGTGCAACCATAAAGTGTCGATCCATATATAGAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATA-AAAGTGTCGATCCCAAAAACATCGAAAA
127013 CCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
127077 GAATATGTCTAAATAATGTGTCGACACTTTGTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTTT-TTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
127142 TGGAA
194 TGGAA
127147 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAGAAAGTGTCGATCCC-AAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATA-AAAGTGTCGATCCCAAAAACATCGAAAA
* *
127211 CC-AAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
127275 GAATATGTCTAAATAATTTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGCTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
127340 TGG-A
194 TGGAA
127344 AACA-GGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAAACATCGAAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAAACATCGAAAAC
127408 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
127473 AATATGTCTAAATAATGTGTCGACACTTTGTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTTT-TTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
127538 GGAA
195 GGAA
*
127542 AACAGGGTGCAACCATAAAGTGTCGATCTATATATAGAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATA-AAAGTGTCGATCCCAAAAACATCGAAAA
* *
127607 CCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
127672 GAATATGTCTAAATAATTTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGCTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
127737 TGGAA
194 TGGAA
* *
127742 AACAGGGTGCAACCATAAAGTGTCAATCCATATTTAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAA
127807 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
127872 GAATATGTCTAAATAATGTGTCGACACTTTGTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTTT-TTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
127937 TGGAA
194 TGGAA
127942 AACAGGGTG----C----A------A-CC----AT-AAAGTGTCGATCCCAAAAACATCGAAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAAACATCGAAAAC
* *
127987 CAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
128052 AAT
131 AAT
128055 TGGTATATAA
Statistics
Matches: 1249, Mismatches: 40, Indels: 55
0.93 0.03 0.04
Matches are distributed among these distances:
179 95 0.08
181 1 0.00
185 2 0.00
186 1 0.00
192 1 0.00
195 14 0.01
196 50 0.04
197 149 0.12
198 202 0.16
199 213 0.17
200 517 0.41
201 4 0.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAAACATCGAAAAC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
GAA
Found at i:128095 original size:400 final size:382
Alignment explanation
Indices: 126549--128054 Score: 2219
Period size: 395 Copynumber: 3.8 Consensus size: 382
126539 CAATATGGCC
* *
126549 AACAGGGTGCAACCATAAAGTGTCGAA-CCATATATAAAAAGTGTCGATCCCAAAAACTTCGGAA
1 AACA-GGTGCAACCATAAAGTGTC-AATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAA
126613 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
63 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
* *
126678 ATAATATGTCTAAATAATGTGTCGACACGTTT-TTAGTTTGTGTCGAT-TTTTTGGGTCCAGAAT
128 AGAATATGTCTAAATAATGTGTCGACAC-TTTGTTAGTTTGTGTCGATATTTTT-TGTCCAGAAT
126741 GAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAAAC
191 GAATGGAAAACAGGGTG--A-C--AAA--G-C-A--C---TATAAAA-GTGTCGATCCCAAAAAC
* *
126806 ATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTT
241 ATCGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATT
* * * *
126871 TTATGAGAGAATATGTCTAAATAATTTGTCGACAGTTTTTTAGTTTGTGTCGAT-AGTTTGGTCC
306 TTATGAGAGAATATGTCGAAATAATTTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGCTCC
126935 AGAATGAATGGAA
371 AGAATGAATGG-A
* *
126948 AATAGGGTGCAACCATAAAGTGTCGATCCATATATAGAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACA-GGTGCAACCATAAAGTGTCAATCCATATATA-AAAGTGTCGATCCCAAAAACATCGAAAA
127013 CCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
64 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
127077 GAATATGTCTAAATAATGTGTCGACACTTTGTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
129 GAATATGTCTAAATAATGTGTCGACACTTTGTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
127142 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAGAAAGTGTCGATCCC-AAAACATC
194 TGGAAAACAGGGTG--A-C--AAA--G-C-A--C---TATA-AAAGTGTCGATCCCAAAAACATC
* *
127206 GAAAACC-AAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
244 GAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTA
* *
127270 TGAGAGAATATGTCTAAATAATTTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGCTCCAGA
309 TGAGAGAATATGTCGAAATAATTTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGCTCCAGA
127335 ATGAATGGA
374 ATGAATGGA
*
127344 AACAGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAAACATCGAAAACC
1 AACAGGTGCAACCATAAAGTGTCAATCCATATATAAAAGTGTCGATCCCAAAAACATCGAAAACC
127409 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
127474 ATATGTCTAAATAATGTGTCGACACTTTGTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAATG
131 ATATGTCTAAATAATGTGTCGACACTTTGTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAATG
127539 GAAAACAGGGTGCAACCATAAAGTGTCGATCTATATATAGAAAGTGTCGATCCCAAAAACATCGA
196 GAAAACAGGGTG--A-C--AAA--G-C-A-C----TATA-AAAGTGTCGATCCCAAAAACATCGA
* *
127604 AAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATG
246 AAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATG
*
127669 AGAGAATATGTCTAAATAATTTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGCTCCAGAAT
311 AGAGAATATGTCGAAATAATTTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGCTCCAGAAT
127734 GAATGGAA
376 GAATGG-A
*
127742 AACAGGGTGCAACCATAAAGTGTCAATCCATATTTAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACA-GGTGCAACCATAAAGTGTCAATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAA
127807 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
64 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
127872 GAATATGTCTAAATAATGTGTCGACACTTTGTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
129 GAATATGTCTAAATAATGTGTCGACACTTTGTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
127937 TGGAAAACAGGGTG-C-AA-C-C-AT-AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTAC
194 TGGAAAACAGGGTGACAAAGCACTATAAAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTAC
127996 AATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGAGAAT
259 AATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGAGAAT
128055 TGGTATATAA
Statistics
Matches: 1075, Mismatches: 19, Indels: 46
0.94 0.02 0.04
Matches are distributed among these distances:
379 95 0.09
381 2 0.00
386 1 0.00
389 1 0.00
393 2 0.00
394 53 0.05
395 188 0.17
396 125 0.12
397 165 0.15
398 153 0.14
399 117 0.11
400 173 0.16
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (382 bp):
AACAGGTGCAACCATAAAGTGTCAATCCATATATAAAAGTGTCGATCCCAAAAACATCGAAAACC
AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
ATATGTCTAAATAATGTGTCGACACTTTGTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAATG
GAAAACAGGGTGACAAAGCACTATAAAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTACAA
TGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGAGAATATGTCGAA
ATAATTTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGCTCCAGAATGAATGGA
Found at i:130114 original size:25 final size:25
Alignment explanation
Indices: 130086--130150 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
130076 TTATCATTAA
130086 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
130111 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
130136 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
130151 TCTTTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:130527 original size:23 final size:23
Alignment explanation
Indices: 130496--130558 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
130486 ATAGGTAAAA
*
130496 ATATGATGTAATAGGTAACACTT
1 ATATAATGTAATAGGTAACACTT
* * **
130519 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAACACTT
130542 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
130559 GTTGTAAAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAACACTT
Found at i:131006 original size:23 final size:23
Alignment explanation
Indices: 130975--131038 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
130965 ATAGGTAAAA
*
130975 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
130998 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
131021 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
131039 TTGTAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:131070 original size:479 final size:480
Alignment explanation
Indices: 130150--131441 Score: 2383
Period size: 479 Copynumber: 2.7 Consensus size: 480
130140 AGGTATATAC
* *
130150 ATCTTTTAAATGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
130215 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGA-ATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
130280 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
130 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
130345 ATTTTTTTTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
195 ATTTTTTTTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
130410 AAATTAAAACATAAATTACATAACTTTAAAAAAAGTTTCGATCATTTTTATAAAAAGTATGGACA
260 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTTTCGATCATTTTTATAAAAAGTATGGACA
130475 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAACACTTATATAATGTAATAGATATCGT
325 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAACACTTATATAATGTAATAGATATCGT
*
130540 TTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
390 TTATATAATGTAATAGGTAGTTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
130605 ACTGTGGAAAACATTAATTTAAGATT
455 ACTGTGGAAAACATTAATTTAAGATT
130631 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
130696 GTTACG-ATATA-TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
66 GTTACGAATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
130759 TTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA
131 TTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA
130824 TTTTTTTTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
196 TTTTTTTTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAA
* * *
130889 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTTTCGATCCTTTTTATAAAAAATATGGACG
260 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTTTCGATCATTTTTATAAAAAGTATGGACA
* * *
130954 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGT
325 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAACACTTATATAATGTAATAGATATCGT
131019 TTATATAATGTAATAGGTAGTTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
390 TTATATAATGTAATAGGTAGTTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
*
131084 ACTGTGGAAAACATTAATTTAAGGTT
455 ACTGTGGAAAACATTAATTTAAGATT
*
131110 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTACTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
131175 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGA-ATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
131240 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
130 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
* * *
131305 AATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
195 ATTTTTTTTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
131370 AAATTGAAACATAAATTACATAACTTTAAAAAAA-TTATCGATCATTTTTATAAAAAGTATGAAC
260 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTT-TCGATCATTTTTATAAAAAGTATGGAC
131434 ACTTTCAA
324 ACTTTCAA
131442 CATATTATAA
Statistics
Matches: 787, Mismatches: 19, Indels: 10
0.96 0.02 0.01
Matches are distributed among these distances:
478 177 0.22
479 291 0.37
480 2 0.00
481 143 0.18
482 174 0.22
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (480 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGAATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
TTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA
TTTTTTTTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
AATTGAAACATAAATTACATAACTTTAAAAAAAGTTTCGATCATTTTTATAAAAAGTATGGACAC
TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAACACTTATATAATGTAATAGATATCGTT
TATATAATGTAATAGGTAGTTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
CTGTGGAAAACATTAATTTAAGATT
Found at i:135688 original size:48 final size:52
Alignment explanation
Indices: 135636--135745 Score: 129
Period size: 55 Copynumber: 2.1 Consensus size: 52
135626 AGGATTTTTG
135636 TTGTTG-CTT-TG-ATGGAAAAGCAGTTTCAGAGG-TGTGTTTTCTTCATTC
1 TTGTTGACTTGTGCATGGAAAAGCAGTTTCAGAGGATGTGTTTTCTTCATTC
* ** *
135684 TTGTTGAATTTGTGCTCATGGGCAAGCAGTTTTAGAGGATGTGTTTTCTTCATTC
1 TTGTTG-ACTTGTG--CATGGAAAAGCAGTTTCAGAGGATGTGTTTTCTTCATTC
135739 TTGTTGA
1 TTGTTGA
135746 ATTTGTGCTC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
48 6 0.12
50 2 0.04
51 2 0.04
54 19 0.37
55 22 0.43
ACGTcount: A:0.18, C:0.12, G:0.25, T:0.45
Consensus pattern (52 bp):
TTGTTGACTTGTGCATGGAAAAGCAGTTTCAGAGGATGTGTTTTCTTCATTC
Found at i:135712 original size:54 final size:55
Alignment explanation
Indices: 135653--135766 Score: 212
Period size: 55 Copynumber: 2.1 Consensus size: 55
135643 TTTGATGGAA
135653 AAGCAGTTTCAGAGG-TGTGTTTTCTTCATTCTTGTTGAATTTGTGCTCATGGGC
1 AAGCAGTTTCAGAGGATGTGTTTTCTTCATTCTTGTTGAATTTGTGCTCATGGGC
*
135707 AAGCAGTTTTAGAGGATGTGTTTTCTTCATTCTTGTTGAATTTGTGCTCATGGGC
1 AAGCAGTTTCAGAGGATGTGTTTTCTTCATTCTTGTTGAATTTGTGCTCATGGGC
135762 AAGCA
1 AAGCA
135767 AAGAACCCAT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 14 0.24
55 44 0.76
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.41
Consensus pattern (55 bp):
AAGCAGTTTCAGAGGATGTGTTTTCTTCATTCTTGTTGAATTTGTGCTCATGGGC
Found at i:143649 original size:2 final size:2
Alignment explanation
Indices: 143637--143668 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
143627 CTATTGTTTA
*
143637 AT AT GT 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
143669 TATTTGGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:147638 original size:4 final size:4
Alignment explanation
Indices: 147629--147679 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
147619 AAAGTTAGTA
* *
147629 AAAT AAAT AAAT AAAT AAAT -AAT ATACT AAAGT AAAT AAAA AAAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAA-T AAAT AAAT AAAT AAAT
147677 AAA
1 AAA
147680 AGAAAACAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 6 0.15
4 26 0.67
5 7 0.18
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:149263 original size:19 final size:19
Alignment explanation
Indices: 149195--149263 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 19
149185 TGAAAAACAA
*
149195 AAATAAAATTAATAATAATAA
1 AAATAAAA--AATAATAATAT
* *
149216 AAAT-AAAAAGAGTAA-AT
1 AAATAAAAAATAATAATAT
*
149233 AAATAAACAATAATAATAT
1 AAATAAAAAATAATAATAT
*
149252 ATATAAAAAATA
1 AAATAAAAAATA
149264 TTTTCCAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 5 0.13
18 14 0.37
19 12 0.32
20 3 0.08
21 4 0.11
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (19 bp):
AAATAAAAAATAATAATAT
Found at i:149316 original size:34 final size:36
Alignment explanation
Indices: 149255--149352 Score: 110
Period size: 34 Copynumber: 2.7 Consensus size: 36
149245 ATAATATATA
*
149255 TAAAAAATATTTTCCAAAAATCTATATAACATATGTTTT
1 TAAAAAATATTTT-C-AAAAT-TATATAACATATATTTT
* **
149294 T-AAAAGTATTTT-AAAATTATATATTATATATTTT
1 TAAAAAATATTTTCAAAATTATATAACATATATTTT
*
149328 TAAAAAATGTTTTCAAAATTATATA
1 TAAAAAATATTTTCAAAATTATATA
149353 GTTTTCAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
34 15 0.29
35 14 0.27
36 11 0.22
38 10 0.20
39 1 0.02
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (36 bp):
TAAAAAATATTTTCAAAATTATATAACATATATTTT
Found at i:149364 original size:29 final size:29
Alignment explanation
Indices: 149316--149381 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
149306 AAAATTATAT
* *
149316 ATTATATATTTTTAAAAAATGTTTTCAAA
1 ATTATATAGTTTTAAAAAATATTTTCAAA
* * *
149345 ATTATATAGTTTTCAGAAATATTTTTAAA
1 ATTATATAGTTTTAAAAAATATTTTCAAA
*
149374 ACTATATA
1 ATTATATA
149382 TTATATAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (29 bp):
ATTATATAGTTTTAAAAAATATTTTCAAA
Found at i:149385 original size:36 final size:34
Alignment explanation
Indices: 149345--149601 Score: 193
Period size: 36 Copynumber: 7.3 Consensus size: 34
149335 TGTTTTCAAA
*
149345 ATTATATAGTTTTCAGAAATATTTTTAAAACTATAT
1 ATTATATA-TTTTCA-AAATATTTTAAAAACTATAT
* *
149381 ATTATATAATTTTTCAAAATGA-TTTCAAAATTATAT
1 ATTATAT-A-TTTTCAAAAT-ATTTTAAAAACTATAT
* * **
149417 AATATATATGTTCTCAAAATGTTTTTTTAAAC--TAT
1 ATTATATAT-TT-TCAAAAT-ATTTTAAAAACTATAT
* * *
149452 A-TATAT-TTTT-AAAATGTTTTAAAAACTGTAG
1 ATTATATATTTTCAAAATATTTTAAAAACTATAT
* *
149483 AATATATATTTTCAAAAATGTTTTAAAAACTATAT
1 ATTATATATTTTC-AAAATATTTTAAAAACTATAT
149518 ATTATATTTATTTTCAAAATATTTTAAAAACTATACAAT
1 ATTATA--TATTTTCAAAATATTTTAAAAACTAT---AT
* * *
149557 ATATAAATGTTTTCAAACATATTTTCAAAACTATAT
1 AT-TATATATTTTCAAA-ATATTTTAAAAACTATAT
149593 ATTATATAT
1 ATTATATAT
149602 ATATTTTTTA
Statistics
Matches: 182, Mismatches: 21, Indels: 37
0.76 0.09 0.15
Matches are distributed among these distances:
29 8 0.04
30 5 0.03
31 4 0.02
32 7 0.04
33 5 0.03
34 6 0.03
35 36 0.20
36 59 0.32
37 21 0.12
38 9 0.05
39 19 0.10
40 3 0.02
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (34 bp):
ATTATATATTTTCAAAATATTTTAAAAACTATAT
Found at i:149411 original size:101 final size:100
Alignment explanation
Indices: 149258--149524 Score: 238
Period size: 101 Copynumber: 2.6 Consensus size: 100
149248 ATATATATAA
* * * * * *
149258 AAAATATTTTCCAAAAATCTATATAACATATGTTTTTAAAAGT-ATTTTAAAATTATATATTATA
1 AAAATATTTT--AAAAA-CTATAGAATATATATTTTCAAAAATGATTTAAAAATTATATATTATA
*
149322 TAT-TTTTAAAAAATG-TTTTCAAAAT-TATATAGTTTTC
63 TATGTTCT-AAAAATGTTTTTCAAAATATATATA-TTTTC
* * * * *
149359 AGAAATATTTTTAAAACTATATATTATATAATTTTTC-AAAATGATTTCAAAATTATATAATATA
1 A-AAATATTTTAAAAACTATAGAATATAT-A-TTTTCAAAAATGATTTAAAAATTATATATTATA
* * * *
149423 TATGTTCTCAAAATGTTTTTTTAAACTATATATATTTTT
63 TATGTTCTAAAAATG-TTTTTCAAAATATATATATTTTC
* * * *
149462 AAAATGTTTTAAAAACTGTAGAATATATATTTTCAAAAATGTTTTAAAAACTATATATTATAT
1 AAAATATTTTAAAAACTATAGAATATATATTTTCAAAAATGATTTAAAAATTATATATTATAT
149525 TTATTTTCAA
Statistics
Matches: 135, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
99 11 0.08
100 13 0.10
101 58 0.43
102 34 0.25
103 13 0.10
104 6 0.04
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (100 bp):
AAAATATTTTAAAAACTATAGAATATATATTTTCAAAAATGATTTAAAAATTATATATTATATAT
GTTCTAAAAATGTTTTTCAAAATATATATATTTTC
Found at i:149517 original size:64 final size:67
Alignment explanation
Indices: 149383--149594 Score: 177
Period size: 66 Copynumber: 3.1 Consensus size: 67
149373 AACTATATAT
* * * **
149383 TATATA-ATTTTTCAAAATGATTTCAAAATTATATAATATATATGTTCTCAAAATGTTTTTTTAA
1 TATATATATTTTTCAAAATGATTTAAAAACTATAGAATATATATGTTCTCAAAATGTTTTTAAAA
149447 AC
66 AC
* *
149449 TATATATATTTTT-AAAATGTTTTAAAAACTGTAGAATATATAT-TT-TCAAAAATG-TTTTAAA
1 TATATATATTTTTCAAAATGATTTAAAAACTATAGAATATATATGTTCTC-AAAATGTTTTTAAA
149510 AAC
65 AAC
* *
149513 TATATATTATATTTATTTTCAAAAT-ATTTTAAAAACTATACAATATATAAATGTTTTCAAACAT
1 --TATA-TATA--T-TTTTCAAAATGA-TTTAAAAACTATAGAATATAT--ATGTTCTCAAA-AT
* *
149577 -ATTTTCAAAAC
56 GTTTTTAAAAAC
149588 TATATAT
1 TATATAT
149595 TATATATATA
Statistics
Matches: 119, Mismatches: 11, Indels: 26
0.76 0.07 0.17
Matches are distributed among these distances:
64 10 0.08
65 8 0.07
66 35 0.29
67 10 0.08
69 1 0.01
70 4 0.03
71 24 0.20
72 3 0.03
73 6 0.05
74 5 0.04
75 13 0.11
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (67 bp):
TATATATATTTTTCAAAATGATTTAAAAACTATAGAATATATATGTTCTCAAAATGTTTTTAAAA
AC
Found at i:149587 original size:39 final size:38
Alignment explanation
Indices: 149353--149642 Score: 118
Period size: 36 Copynumber: 7.9 Consensus size: 38
149343 AAATTATATA
* * *
149353 GTTTTCAGAAATATTTTTAAAACTATATATTATAT-AAT
1 GTTTTCA-AAATATTTTCAAAACTATACAATATATAAAT
* *
149391 -TTTTCAAAATGA-TTTCAAAATTATATAATATAT--AT
1 GTTTTCAAAAT-ATTTTCAAAACTATACAATATATAAAT
* * * *
149426 GTTCTCAAAATGTTTT------TTTA-AACTATATATAT
1 GTTTTCAAAATATTTTCAAAACTATACAA-TATATAAAT
* * * *
149458 -TTTT-AAAATGTTTTAAAAACTGTAGAATATAT--A-
1 GTTTTCAAAATATTTTCAAAACTATACAATATATAAAT
* * * **
149491 -TTTTCAAAAATGTTTTAAAAACTATA-TAT-TATATTT
1 GTTTTC-AAAATATTTTCAAAACTATACAATATATAAAT
* *
149527 ATTTTCAAAATATTTTAAAAACTATACAATATATAAAT
1 GTTTTCAAAATATTTTCAAAACTATACAATATATAAAT
* *
149565 GTTTTCAAACATATTTTCAAAACTATATATTATATATATAT
1 GTTTTCAAA-ATATTTTCAAAACTATACA--ATATATAAAT
* * *
149606 TTTTTAAAAAATGTTTTC-AAACTATATACAATATATA
1 GTTTT-CAAAATATTTTCAAAAC--TATACAATATATA
149643 TATGATAAAA
Statistics
Matches: 202, Mismatches: 23, Indels: 52
0.73 0.08 0.19
Matches are distributed among these distances:
29 2 0.01
30 18 0.09
31 3 0.01
32 2 0.01
33 7 0.03
34 3 0.01
35 21 0.10
36 61 0.30
37 16 0.08
38 13 0.06
39 17 0.08
40 11 0.05
41 20 0.10
42 8 0.04
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (38 bp):
GTTTTCAAAATATTTTCAAAACTATACAATATATAAAT
Found at i:149592 original size:137 final size:137
Alignment explanation
Indices: 149347--149595 Score: 310
Period size: 137 Copynumber: 1.8 Consensus size: 137
149337 TTTTCAAAAT
* * * *
149347 TATATAGTTTTCAGAAATATTTTTAAAACTATATATTATATAATTTTTCAAAATGATTTCAAAAT
1 TATATAGTTTTCAAAAATATTTTAAAAACTATATATTATATAATTTTTCAAAATGATTTAAAAAC
* * **
149412 TATATAATATATATGTTCTCAAAATGTTTTTTTAAACTATATATATTTTTAAAATGTTTTAAAAA
66 TATACAATATATATGTTCTCAAAATGATTTTCAAAAC-ATATATATTTTTAAAATGTTTTAAAAA
149477 CTGTAGAA
130 CTGTAGAA
* *
149485 TATATA-TTTTCAAAAATGTTTTAAAAACTATATATTATAT-TTATTTTCAAAAT-ATTTTAAAA
1 TATATAGTTTTCAAAAATATTTTAAAAACTATATATTATATAAT-TTTTCAAAATGA-TTTAAAA
*
149547 ACTATACAATATATAAATGTTTTCAAACAT-ATTTTCAAAAC-TATATATT
64 ACTATACAATATAT--ATGTTCTCAAA-ATGATTTTCAAAACATATATATT
149596 ATATATATAT
Statistics
Matches: 95, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
136 2 0.02
137 67 0.71
138 6 0.06
139 18 0.19
140 2 0.02
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (137 bp):
TATATAGTTTTCAAAAATATTTTAAAAACTATATATTATATAATTTTTCAAAATGATTTAAAAAC
TATACAATATATATGTTCTCAAAATGATTTTCAAAACATATATATTTTTAAAATGTTTTAAAAAC
TGTAGAA
Found at i:149640 original size:40 final size:41
Alignment explanation
Indices: 149484--149646 Score: 135
Period size: 41 Copynumber: 4.2 Consensus size: 41
149474 AAACTGTAGA
* * * *
149484 ATATATATTTTCAAAAATGTTTTAAAAACTATAT---AT-T
1 ATATATGTTTTAAAAAATATTTTCAAAACTATATACAATAT
* * * *
149521 ATATTTATTTT-CAAAATATTTTAAAAAC--TATACAATAT
1 ATATATGTTTTAAAAAATATTTTCAAAACTATATACAATAT
* * * **
149559 ATAAATGTTTTCAAACATATTTTCAAAACTATATATTATAT
1 ATATATGTTTTAAAAAATATTTTCAAAACTATATACAATAT
* *
149600 ATATATTTTTTAAAAAATGTTTTC-AAACTATATACAATAT
1 ATATATGTTTTAAAAAATATTTTCAAAACTATATACAATAT
149640 ATATATG
1 ATATATG
149647 ATAAAATAAA
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
34 3 0.03
36 15 0.15
37 12 0.12
38 9 0.09
39 14 0.14
40 20 0.20
41 27 0.27
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (41 bp):
ATATATGTTTTAAAAAATATTTTCAAAACTATATACAATAT
Found at i:153232 original size:39 final size:39
Alignment explanation
Indices: 153189--153267 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
153179 TACTAATAAA
153189 ATAAAATACTAATAATTAATCCTAATCGTAATATAACTC
1 ATAAAATACTAATAATTAATCCTAATCGTAATATAACTC
153228 ATAAAATACTAATAATTAATCCTAATCGTAATATAACTC
1 ATAAAATACTAATAATTAATCCTAATCGTAATATAACTC
153267 A
1 A
153268 CAAATTCCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (39 bp):
ATAAAATACTAATAATTAATCCTAATCGTAATATAACTC
Found at i:156129 original size:16 final size:17
Alignment explanation
Indices: 156098--156130 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
156088 GCTGATTCGA
*
156098 GAATTGATGCGTTGGTG
1 GAATTGAAGCGTTGGTG
156115 GAATTGAAG-GTTGGTG
1 GAATTGAAGCGTTGGTG
156131 ACAACTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.21, C:0.03, G:0.42, T:0.33
Consensus pattern (17 bp):
GAATTGAAGCGTTGGTG
Found at i:160451 original size:51 final size:50
Alignment explanation
Indices: 160364--160556 Score: 242
Period size: 51 Copynumber: 3.8 Consensus size: 50
160354 TTCATACTAC
* * * * * *
160364 AAAAAATGTAGCACTTAACATATGCTTATACCGGTGTAAGTGAATAAAAT
1 AAAAAGTGTAACACTTAACACATACTTACACCGATGTAAGTGAATAAAAT
* *
160414 AAACAAGTGTAACACTTAACACATACTTACACCGGTGTATGTGAATAAAAT
1 AAA-AAGTGTAACACTTAACACATACTTACACCGATGTAAGTGAATAAAAT
* * * *
160465 AAAAAAATGTAGCACTTAATACATACTTACACCGATGTAAGCGAATAAAAT
1 -AAAAAGTGTAACACTTAACACATACTTACACCGATGTAAGTGAATAAAAT
* *
160516 AAAAAGTGTAACACTTAACACGTACTTAGACCGATGTAAGT
1 AAAAAGTGTAACACTTAACACATACTTACACCGATGTAAGT
160557 ATGTACATCT
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
50 38 0.31
51 82 0.67
52 3 0.02
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.25
Consensus pattern (50 bp):
AAAAAGTGTAACACTTAACACATACTTACACCGATGTAAGTGAATAAAAT
Found at i:160483 original size:102 final size:101
Alignment explanation
Indices: 160364--160553 Score: 290
Period size: 102 Copynumber: 1.9 Consensus size: 101
160354 TTCATACTAC
* * * * *
160364 AAAAAATGTAGCACTTAACATATGCTTATACCGGTGTAAGTGAATAAAATAAACAAGTGTAACAC
1 AAAAAATGTAGCACTTAACACATACTTACACCGATGTAAGCGAATAAAATAAA-AAGTGTAACAC
*
160429 TTAACACATACTTACACCGGTGTATGTGAATAAAATA
65 TTAACACATACTTACACCGATGTATGTGAATAAAATA
*
160466 AAAAAATGTAGCACTTAATACATACTTACACCGATGTAAGCGAATAAAATAAAAAGTGTAACACT
1 AAAAAATGTAGCACTTAACACATACTTACACCGATGTAAGCGAATAAAATAAAAAGTGTAACACT
* *
160531 TAACACGTACTTAGACCGATGTA
66 TAACACATACTTACACCGATGTA
160554 AGTATGTACA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 32 0.41
102 47 0.59
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (101 bp):
AAAAAATGTAGCACTTAACACATACTTACACCGATGTAAGCGAATAAAATAAAAAGTGTAACACT
TAACACATACTTACACCGATGTATGTGAATAAAATA
Found at i:160694 original size:22 final size:25
Alignment explanation
Indices: 160646--160694 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
160636 GAAATAAAAA
*
160646 ATAAAAAAATATATTAAGTTATTTAT
1 ATAAAAAAATATATTAAG-TATATAT
160672 ATAAAAAAAT-TATT-A-TATATAT
1 ATAAAAAAATATATTAAGTATATAT
160694 A
1 A
160695 AATTATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 7 0.32
24 1 0.05
25 4 0.18
26 10 0.45
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
ATAAAAAAATATATTAAGTATATAT
Done.