Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008373.1 Hibiscus syriacus cultivar Beakdansim tig00111129_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: 1027749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:280505 original size:13 final size:13
Alignment explanation
Indices: 280487--280512 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
280477 CCCCCTGGGG
280487 GGTATCTGTACCC
1 GGTATCTGTACCC
280500 GGTATCTGTACCC
1 GGTATCTGTACCC
280513 CTGGGGGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (13 bp):
GGTATCTGTACCC
Found at i:280519 original size:32 final size:33
Alignment explanation
Indices: 280467--280531 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
280457 ACCTGCAGGG
* *
280467 GGTATCTGTACCCCCTGGGGGGTATCTGTACCC
1 GGTATCTGTACCCCCTGGGGGGAATCTATACCC
280500 GGTATCTGTA-CCCCTGGGGGGAATCTATACCC
1 GGTATCTGTACCCCCTGGGGGGAATCTATACCC
280532 CCTGGGCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.26
Consensus pattern (33 bp):
GGTATCTGTACCCCCTGGGGGGAATCTATACCC
Found at i:280659 original size:29 final size:31
Alignment explanation
Indices: 280627--280686 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
280617 AAACTTTGAA
280627 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
280656 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
280687 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:283792 original size:20 final size:22
Alignment explanation
Indices: 283767--283806 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
283757 AGTCGTATAT
283767 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
283787 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
283807 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:283858 original size:21 final size:21
Alignment explanation
Indices: 283834--283876 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
283824 CCCAGAATAG
*
283834 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
283855 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
283876 A
1 A
283877 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:283992 original size:21 final size:21
Alignment explanation
Indices: 283967--284045 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
283957 AAAACCTGCA
283967 GGGGGTATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
283988 GGGGGTATCTGTA--CCC---
1 GGGGGTATCTGTACCCCCTGG
284004 -GGGGTATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
* * *
284024 GGGGGAATCTATACCCTCTGG
1 GGGGGTATCTGTACCCCCTGG
284045 G
1 G
284046 CAATCTTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
19 3 0.06
21 31 0.63
ACGTcount: A:0.13, C:0.27, G:0.37, T:0.24
Consensus pattern (21 bp):
GGGGGTATCTGTACCCCCTGG
Found at i:284008 original size:36 final size:36
Alignment explanation
Indices: 283968--284039 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
283958 AAACCTGCAG
* *
283968 GGGGTATCTGTACCCCCTGGGGGGGTATCTGTACCC
1 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
284004 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
1 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
284040 TCTGGGCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.14, C:0.28, G:0.35, T:0.24
Consensus pattern (36 bp):
GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
Found at i:284009 original size:15 final size:15
Alignment explanation
Indices: 283989--284018 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
283979 ACCCCCTGGG
283989 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
284004 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
284019 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:284167 original size:29 final size:31
Alignment explanation
Indices: 284135--284194 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
284125 AAACTTTGAA
284135 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
284164 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
284195 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:289174 original size:15 final size:15
Alignment explanation
Indices: 289154--289184 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
289144 TGGTGAAATT
289154 ATAGGTGATCCAACC
1 ATAGGTGATCCAACC
289169 ATAGGTGATCCAACC
1 ATAGGTGATCCAACC
289184 A
1 A
289185 AAGGGGTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (15 bp):
ATAGGTGATCCAACC
Found at i:291095 original size:23 final size:20
Alignment explanation
Indices: 291040--291099 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 20
291030 TTTTGGTGCA
*
291040 GAGGGAATCGA-TCCCCCTT
1 GAGGGAACCGATTCCCCCTT
*
291059 GAGGGAACCAATTCCCCCTTT
1 GAGGGAACCGATTCCCCC-TT
291080 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
291100 CACAGGGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.26
20 6 0.18
21 3 0.09
22 1 0.03
23 15 0.44
ACGTcount: A:0.23, C:0.33, G:0.25, T:0.18
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCTT
Found at i:295298 original size:18 final size:18
Alignment explanation
Indices: 295268--295328 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
295258 CTACAATCGA
*
295268 TTCATTCTCCTTCGGTCG
1 TTCATCCTCCTTCGGTCG
*
295286 TTCATCCTTCTTCGGTCG
1 TTCATCCTCCTTCGGTCG
*
295304 TTCA-CCTCCTTTGGTCG
1 TTCATCCTCCTTCGGTCG
295321 ATTCATCC
1 -TTCATCC
295329 ACCATAGAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 11 0.30
18 24 0.65
19 2 0.05
ACGTcount: A:0.08, C:0.34, G:0.15, T:0.43
Consensus pattern (18 bp):
TTCATCCTCCTTCGGTCG
Found at i:296549 original size:19 final size:20
Alignment explanation
Indices: 296510--296549 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
296500 TAAGTGTTAA
*
296510 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
296530 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
296549 T
1 T
296550 CGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:300205 original size:19 final size:20
Alignment explanation
Indices: 300165--300243 Score: 64
Period size: 21 Copynumber: 4.2 Consensus size: 20
300155 AACCAAATTG
300165 CCCAGAGGGAACAGATTCCC
1 CCCAGAGGGAACAGATTCCC
*
300185 CCCAG-GGGATACCGATT--C
1 CCCAGAGGGA-ACAGATTCCC
300203 CCC---GGGAACAGATTCCC
1 CCCAGAGGGAACAGATTCCC
*
300220 CCCAAGAGGGTATC-GATTCCC
1 CCC-AGAGGG-AACAGATTCCC
300241 CCC
1 CCC
300244 CAGATTTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
15 6 0.12
16 4 0.08
17 4 0.08
18 4 0.08
19 4 0.08
20 11 0.23
21 13 0.27
22 2 0.04
ACGTcount: A:0.24, C:0.38, G:0.24, T:0.14
Consensus pattern (20 bp):
CCCAGAGGGAACAGATTCCC
Found at i:300217 original size:35 final size:36
Alignment explanation
Indices: 300171--300241 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
300161 ATTGCCCAGA
300171 GGGAACAGATTCCCCCC-AG-GGGATACCGATTCCCC
1 GGGAACAGATTCCCCCCAAGAGGG-TACCGATTCCCC
*
300206 GGGAACAGATTCCCCCCAAGAGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAAGAGGGTACCGATTCCCC
300242 CCCAGATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 17 0.52
36 13 0.39
37 3 0.09
ACGTcount: A:0.24, C:0.35, G:0.25, T:0.15
Consensus pattern (36 bp):
GGGAACAGATTCCCCCCAAGAGGGTACCGATTCCCC
Found at i:300335 original size:19 final size:20
Alignment explanation
Indices: 300276--300335 Score: 97
Period size: 19 Copynumber: 3.1 Consensus size: 20
300266 AACAGAATGT
300276 CCAGAGGGTACCGATT-CCC
1 CCAGAGGGTACCGATTCCCC
300295 CCAGAGGGTACCGATTCCCC
1 CCAGAGGGTACCGATTCCCC
*
300315 CCAG-GGGTATCGATTCCCC
1 CCAGAGGGTACCGATTCCCC
300334 CC
1 CC
300336 TGTGTAACGG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 32 0.82
20 7 0.18
ACGTcount: A:0.18, C:0.40, G:0.25, T:0.17
Consensus pattern (20 bp):
CCAGAGGGTACCGATTCCCC
Found at i:301114 original size:7 final size:7
Alignment explanation
Indices: 301102--301126 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
301092 TTTTGCAAAT
301102 AAACATA
1 AAACATA
301109 AAACATA
1 AAACATA
301116 AAACATA
1 AAACATA
301123 AAAC
1 AAAC
301127 GATATGCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.16, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACATA
Found at i:301870 original size:17 final size:17
Alignment explanation
Indices: 301848--301891 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
301838 ATAACCTTTT
301848 AATCATTCAGACTATTA
1 AATCATTCAGACTATTA
301865 AATCATTCAGACTATTA
1 AATCATTCAGACTATTA
301882 AATCATTCAG
1 AATCATTCAG
301892 TGTTAAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (17 bp):
AATCATTCAGACTATTA
Found at i:302807 original size:48 final size:49
Alignment explanation
Indices: 302696--302807 Score: 109
Period size: 48 Copynumber: 2.3 Consensus size: 49
302686 CGATAAAAAA
* * * * * * *
302696 TTACCAGAAATATTATTATTTTTTACCGGTTTTGTTATTATTGGGCGCT
1 TTACCGGAAATGTTATTATTTTCTACCAGTTTTGTTATTATTAGACACT
* *** *
302745 TTATCGGTTTTGTTATT-TTTTCTACTAGTTTTGTTATTATTAGACACT
1 TTACCGGAAATGTTATTATTTTCTACCAGTTTTGTTATTATTAGACACT
302793 TTACCGGAAATGTTA
1 TTACCGGAAATGTTA
302808 AAAAACATTG
Statistics
Matches: 47, Mismatches: 16, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
48 36 0.77
49 11 0.23
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (49 bp):
TTACCGGAAATGTTATTATTTTCTACCAGTTTTGTTATTATTAGACACT
Found at i:302966 original size:34 final size:33
Alignment explanation
Indices: 302919--302987 Score: 120
Period size: 34 Copynumber: 2.1 Consensus size: 33
302909 TTATATTAAA
302919 GGTACCGCAATGTAAAACTTCCCGTTGTGCTTG
1 GGTACCGCAATGTAAAACTTCCCGTTGTGCTTG
*
302952 GGTATCCGCAATGTAGAACTTCCCGTTGTGCTTG
1 GGTA-CCGCAATGTAAAACTTCCCGTTGTGCTTG
302986 GG
1 GG
302988 CAATCAATAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 4 0.12
34 30 0.88
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (33 bp):
GGTACCGCAATGTAAAACTTCCCGTTGTGCTTG
Found at i:311126 original size:14 final size:15
Alignment explanation
Indices: 311101--311129 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
311091 TTATATATAT
311101 AATAATATTTTAAAA
1 AATAATATTTTAAAA
311116 AATAA-ATTTTAAAA
1 AATAATATTTTAAAA
311130 TCATCATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATATTTTAAAA
Found at i:315046 original size:87 final size:87
Alignment explanation
Indices: 314900--315073 Score: 330
Period size: 87 Copynumber: 2.0 Consensus size: 87
314890 TACCAAGTCA
*
314900 ACATTTAGAAGTTTCAATTAAACATAAACAAAATATACCAAAACAGAACATCTGAGGAAATATAA
1 ACATTTAGAAGTTTCAATTAAACATAAACAAAATATACCAAAAAAGAACATCTGAGGAAATATAA
314965 TTGATGTGAACCTGAATAGCAT
66 TTGATGTGAACCTGAATAGCAT
*
314987 ACATTTATAAGTTTCAATTAAACATAAACAAAATATACCAAAAAAGAACATCTGAGGAAATATAA
1 ACATTTAGAAGTTTCAATTAAACATAAACAAAATATACCAAAAAAGAACATCTGAGGAAATATAA
315052 TTGATGTGAACCTGAATAGCAT
66 TTGATGTGAACCTGAATAGCAT
315074 GCCCTGTATG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (87 bp):
ACATTTAGAAGTTTCAATTAAACATAAACAAAATATACCAAAAAAGAACATCTGAGGAAATATAA
TTGATGTGAACCTGAATAGCAT
Found at i:323229 original size:51 final size:48
Alignment explanation
Indices: 323114--323244 Score: 127
Period size: 51 Copynumber: 2.6 Consensus size: 48
323104 CATGCCAAGA
* ** * *
323114 TGACGAGTTTCAATAAAAAATATTTTTATTCTAACTTTTTATCTTGATG
1 TGACGAG-TTCAATAAAAAATATTTTTATTCAAACTCGTCATCTTGACG
** * *
323163 TGATAAATTTTAATAAAATAATATATTTTATTCAAACTCGTCATCTTGACG
1 TGA-CGAGTTCAATAAAA-AATAT-TTTTATTCAAACTCGTCATCTTGACG
323214 TGACGAGTTCGAATAAAAAAATATTTTTATT
1 TGACGAGTTC-AAT-AAAAAATATTTTTATT
323245 AGAACTCATC
Statistics
Matches: 64, Mismatches: 13, Indels: 9
0.74 0.15 0.10
Matches are distributed among these distances:
49 12 0.19
50 16 0.25
51 32 0.50
52 4 0.06
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (48 bp):
TGACGAGTTCAATAAAAAATATTTTTATTCAAACTCGTCATCTTGACG
Found at i:323279 original size:50 final size:51
Alignment explanation
Indices: 323128--323279 Score: 141
Period size: 50 Copynumber: 3.0 Consensus size: 51
323118 GAGTTTCAAT
* ** * * * *
323128 AAAAAATAT-TTTTATTCTAACTTTTTATCTTGATGTGATAAATTTTAATA
1 AAAAAATATATTTTATTCAAACTCATCATCTTGACGTGATGAATTCTAATA
* * * * *
323178 AAATAATATATTTTATTCAAACTCGTCATCTTGACGTGACGAGTTCGAATA
1 AAAAAATATATTTTATTCAAACTCATCATCTTGACGTGATGAATTCTAATA
*
323229 AAAAAATAT-TTTTATT-AGAACTCATCA-CTTTGAGGTGATGAATTCTAATA
1 AAAAAATATATTTTATTCA-AACTCATCATC-TTGACGTGATGAATTCTAATA
323279 A
1 A
323280 CACTGTAAAA
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
49 2 0.02
50 41 0.50
51 39 0.48
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (51 bp):
AAAAAATATATTTTATTCAAACTCATCATCTTGACGTGATGAATTCTAATA
Found at i:323380 original size:6 final size:7
Alignment explanation
Indices: 323361--323387 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
323351 ATTATACTTA
323361 AATTTTT
1 AATTTTT
323368 AATTTTT
1 AATTTTT
323375 AATTTTT
1 AATTTTT
323382 AATTTT
1 AATTTT
323388 GACTTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
AATTTTT
Found at i:324367 original size:45 final size:45
Alignment explanation
Indices: 324308--324396 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
324298 GGCGTGACTT
324308 TCAACAATTATTTTAGCTATTTTGTTAACTCCTTTTAATGCTTTC
1 TCAACAATTATTTTAGCTATTTTGTTAACTCCTTTTAATGCTTTC
*
324353 TCAACGATTATTTTAGCTATTTTGTTAACTCCTTTTAATGCTTT
1 TCAACAATTATTTTAGCTATTTTGTTAACTCCTTTTAATGCTTT
324397 TTTTCACGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.24, C:0.17, G:0.08, T:0.52
Consensus pattern (45 bp):
TCAACAATTATTTTAGCTATTTTGTTAACTCCTTTTAATGCTTTC
Found at i:324389 original size:22 final size:22
Alignment explanation
Indices: 324318--324389 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
324308 TCAACAATTA
324318 TTTTAGCTATTTTGTTAACTCC
1 TTTTAGCTATTTTGTTAACTCC
* ** * * **
324340 TTTTA-ATGCTTTCTCAACGATTA
1 TTTTAGCTATTTTGTTAAC--TCC
324363 TTTTAGCTATTTTGTTAACTCC
1 TTTTAGCTATTTTGTTAACTCC
324385 TTTTA
1 TTTTA
324390 ATGCTTTTTT
Statistics
Matches: 33, Mismatches: 14, Indels: 6
0.62 0.26 0.11
Matches are distributed among these distances:
21 8 0.24
22 11 0.33
23 6 0.18
24 8 0.24
ACGTcount: A:0.21, C:0.17, G:0.08, T:0.54
Consensus pattern (22 bp):
TTTTAGCTATTTTGTTAACTCC
Found at i:325025 original size:24 final size:25
Alignment explanation
Indices: 324978--325025 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
324968 TAATATGTTA
* *
324978 TTTTTATTTTAATGAATATTTAATT
1 TTTTTATTTTAATGAAAATATAATT
325003 TTTTTATTTTAAT-AAAATATAAT
1 TTTTTATTTTAATGAAAATATAAT
325026 AATATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTTATTTTAATGAAAATATAATT
Found at i:325130 original size:25 final size:27
Alignment explanation
Indices: 325096--325157 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
325086 ATAATATTAG
*
325096 ATAA-ATTATTCTAATTTT-TGAA-AA
1 ATAATATTATTATAATTTTGTGAATAA
* * *
325120 ATATTATTATTATTATTTTGTTAATAA
1 ATAATATTATTATAATTTTGTGAATAA
325147 ATAATATTATT
1 ATAATATTATT
325158 GATTGCATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 3 0.10
25 12 0.40
26 3 0.10
27 12 0.40
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (27 bp):
ATAATATTATTATAATTTTGTGAATAA
Found at i:326030 original size:13 final size:13
Alignment explanation
Indices: 325969--326034 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
325959 AAATATTTAT
325969 TTATTT-TTTAAA
1 TTATTTATTTAAA
*
325981 --ATTTAATT-AA
1 TTATTTATTTAAA
*
325991 TTATTTGTTTGAAA
1 TTATTTATTT-AAA
*
326005 TAATATTTTTTTAAA
1 T--TATTTATTTAAA
326020 TTATTTATTTAAA
1 TTATTTATTTAAA
326033 TT
1 TT
326035 TAAATAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
10 6 0.14
11 2 0.05
12 6 0.14
13 13 0.31
14 3 0.07
15 4 0.10
16 8 0.19
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
TTATTTATTTAAA
Found at i:327033 original size:41 final size:41
Alignment explanation
Indices: 326988--327068 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
326978 AATTCTTACA
*
326988 TGTACAATATAATAATTTTAATTAATATTATATTTATAGAG
1 TGTACAATATAATAATGTTAATTAATATTATATTTATAGAG
*
327029 TGTACAATATATTAATGTTAATTAATATTATATTTATAGA
1 TGTACAATATAATAATGTTAATTAATATTATATTTATAGA
327069 TTTTGATGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.47
Consensus pattern (41 bp):
TGTACAATATAATAATGTTAATTAATATTATATTTATAGAG
Found at i:327230 original size:27 final size:29
Alignment explanation
Indices: 327170--327252 Score: 125
Period size: 27 Copynumber: 2.9 Consensus size: 29
327160 AAGGCTTAGC
327170 ACTTTTATCATAGTATATCGACTTAATTT
1 ACTTTTATCATAGTATATCGACTTAATTT
*
327199 ACTTTTATCAAAGTA-ATCGA-TTAATTT
1 ACTTTTATCATAGTATATCGACTTAATTT
* *
327226 TCTTTTATCATAGTATATCAACTTAAT
1 ACTTTTATCATAGTATATCGACTTAAT
327253 AAAAAATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 20 0.42
28 9 0.19
29 19 0.40
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (29 bp):
ACTTTTATCATAGTATATCGACTTAATTT
Found at i:332878 original size:105 final size:105
Alignment explanation
Indices: 332729--332925 Score: 270
Period size: 105 Copynumber: 1.9 Consensus size: 105
332719 TCAAAAGGCT
* * *
332729 GCTTACTCTCCTCTTTAGAAGGTGGTTCCTGACCACCATCTGCCTCAAAACTCTCAACTTTACCC
1 GCTTACTCTCCTCTTTAGAAAGTGGTTCATGACCACCATATGCCTCAAAACTCTCAACTTTACCC
* * *
332794 AAGTCACCATCAGTAGTCTCATGATTACCTGTAAATTGTG
66 AACTCACCATCACTAGCCTCATGATTACCTGTAAATTGTG
* **
332834 GCTTACTCTCGTCTTTA-ATAAGTGGTTCATGACCATTATATGCCTCAAAACTCTCAACTTTACC
1 GCTTACTCTCCTCTTTAGA-AAGTGGTTCATGACCACCATATGCCTCAAAACTCTCAACTTTACC
* **
332898 TAACTCGGCATCACTAGCCTCATGATTA
65 CAACTCACCATCACTAGCCTCATGATTA
332926 TCTATAGATT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
104 1 0.01
105 78 0.99
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.32
Consensus pattern (105 bp):
GCTTACTCTCCTCTTTAGAAAGTGGTTCATGACCACCATATGCCTCAAAACTCTCAACTTTACCC
AACTCACCATCACTAGCCTCATGATTACCTGTAAATTGTG
Found at i:335632 original size:65 final size:65
Alignment explanation
Indices: 335529--335660 Score: 232
Period size: 65 Copynumber: 2.0 Consensus size: 65
335519 TAAATTATAA
335529 TTATTTATTCCTTAGAAAATAATCGTAGAAAACAACTA-TTTT-TCTCTCGATAGCAAGACTATT
1 TTATTTATTCCTTAGAAAATAATCGTAGAAAACAACTATTTTTCTCTCTCGATAGC-AGACTATT
335592 G
65 G
335593 TTATTTATTTCCTTAGAAAATAATCGTAGAAAACAACTATTTTTCTCTCTCGATAGCAGACTATT
1 TTATTTA-TTCCTTAGAAAATAATCGTAGAAAACAACTATTTTTCTCTCTCGATAGCAGACTATT
335658 G
65 G
335659 TT
1 TT
335661 CTTGGGGATT
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
64 7 0.11
65 31 0.48
66 15 0.23
67 12 0.18
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (65 bp):
TTATTTATTCCTTAGAAAATAATCGTAGAAAACAACTATTTTTCTCTCTCGATAGCAGACTATTG
Found at i:352512 original size:22 final size:22
Alignment explanation
Indices: 352484--352527 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
352474 AGTCGAGGGT
*
352484 TACATAGGTCCTTCGGGACATA
1 TACATAGGTCATTCGGGACATA
352506 TACATAGGTCATTCGGGACATA
1 TACATAGGTCATTCGGGACATA
352528 CATAAGGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (22 bp):
TACATAGGTCATTCGGGACATA
Found at i:352544 original size:21 final size:20
Alignment explanation
Indices: 352484--352536 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 20
352474 AGTCGAGGGT
*
352484 TACATAGGTCCTTCGGGACATA
1 TACATAGGTCATTCGGGAC--A
352506 TACATAGGTCATTCGGGACA
1 TACATAGGTCATTCGGGACA
352526 TACATAAGGTC
1 TACAT-AGGTC
352537 TTTTGGGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 6 0.21
21 5 0.17
22 18 0.62
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (20 bp):
TACATAGGTCATTCGGGACA
Found at i:356850 original size:22 final size:22
Alignment explanation
Indices: 356822--356865 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
356812 AGTGGAGGGT
*
356822 TACATAGGTCCTTCGGGACATA
1 TACATAGGTCCTTCGAGACATA
*
356844 TACATAGGTCTTTCGAGACATA
1 TACATAGGTCCTTCGAGACATA
356866 CATGAGGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (22 bp):
TACATAGGTCCTTCGAGACATA
Found at i:356868 original size:20 final size:21
Alignment explanation
Indices: 356822--356877 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
356812 AGTGGAGGGT
* *
356822 TACATAGGTCCTTCGGGACATA
1 TACATAGGTCTTTCGAGACA-A
356844 TACATAGGTCTTTCGAGAC-A
1 TACATAGGTCTTTCGAGACAA
356864 TACATGAGGTCTTT
1 TACAT-AGGTCTTT
356878 TGGGACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 6 0.19
21 8 0.26
22 17 0.55
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (21 bp):
TACATAGGTCTTTCGAGACAA
Found at i:366618 original size:22 final size:21
Alignment explanation
Indices: 366592--366632 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
366582 TATAAAAAAT
366592 TATTTTTATTAAATATTTTTGG
1 TATTTTTATTAAAT-TTTTTGG
*
366614 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
366633 AAATAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTGG
Found at i:382354 original size:102 final size:102
Alignment explanation
Indices: 382186--382442 Score: 300
Period size: 102 Copynumber: 2.5 Consensus size: 102
382176 TGACAACATC
* * * * *
382186 CCTTCAAGTTCAATGGGAAGGCATTCATTTTCCAACTTATTATACCTTAACATGGAAATGCTTTC
1 CCTTCAAGTTCAATGGGAAGGCATTCATCTGCCAACTTATTAGACCTCAACATGGAAATGCATTC
* * *
382251 GAAACAACAGTTTGTTCAAAACCCATATAACATAATG
66 GAAACAACAGTATGTTCAAAACCCATACAACACAATG
* * * * *
382288 CCTTCAAGTTTCAATGAG-AGGCATTCATCTGCCAACTTTTTGGACCTCAATATGGAGATGCATT
1 CCTTCAAG-TTCAATGGGAAGGCATTCATCTGCCAACTTATTAGACCTCAACATGGAAATGCATT
* ** *
382352 CGACACAGTAGTATGTTCAAAACCCATACGACACAATG
65 CGAAACAACAGTATGTTCAAAACCCATACAACACAATG
* * * * *
382390 CCTTCAAGTTCAAGGGGAAGACATTCATCTGCCAACTTGTTCGACCTGAACAT
1 CCTTCAAGTTCAATGGGAAGGCATTCATCTGCCAACTTATTAGACCTCAACAT
382443 TGAATTGGCA
Statistics
Matches: 129, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
101 7 0.05
102 114 0.88
103 8 0.06
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (102 bp):
CCTTCAAGTTCAATGGGAAGGCATTCATCTGCCAACTTATTAGACCTCAACATGGAAATGCATTC
GAAACAACAGTATGTTCAAAACCCATACAACACAATG
Found at i:387726 original size:2 final size:2
Alignment explanation
Indices: 387719--387749 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
387709 CCGTCGCGTC
387719 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
387750 ATTTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:396690 original size:14 final size:14
Alignment explanation
Indices: 396657--396683 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
396647 AGCGTGGCGC
396657 GTGAGAGTGAGAGA
1 GTGAGAGTGAGAGA
396671 GTGAGAGTGAGAG
1 GTGAGAGTGAGAG
396684 TGAGAGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (14 bp):
GTGAGAGTGAGAGA
Found at i:401588 original size:147 final size:146
Alignment explanation
Indices: 401348--401617 Score: 400
Period size: 147 Copynumber: 1.8 Consensus size: 146
401338 TAAGTTTTAA
* * *
401348 TTTTTTGAAAATTTCCTATTCCACGAGGGGAAAATTTATTTAAGATTTAATTTTTTGAAGAAAAA
1 TTTTTTGAAAATTTCCTAATCCACGAAGGGAAAATTTATTTAAGATTTAAGTTTTTGAAGAAAAA
* * *
401413 AATAATTTTAACATTTTCGACATCAAGTGATAAATAACTATCTACTTATCATTTTCAATACTTCA
66 AATAAGTTTAACATTTTCAACATCAAGTGATAAATAACTATATACTTATCATTTTCAATACTTCA
401478 ATCTTAATATACTTTT
131 ATCTTAATATACTTTT
*
401494 TTTTTTGGAAAA-TTCCTTAATCCAC-AAGGGAATAATTTATTTCAGATTTAAGTTTTTGAAGAA
1 TTTTTT-GAAAATTTCC-TAATCCACGAAGGGAA-AATTTATTTAAGATTTAAGTTTTTGAAGAA
* * * *
401557 TAAAATAAGTTTAATATTTTCAACATTAAGTGATAAGTAACTATATACTTATCATTTTCAA
63 AAAAATAAGTTTAACATTTTCAACATCAAGTGATAAATAACTATATACTTATCATTTTCAA
401618 ACAAGTAAAA
Statistics
Matches: 110, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
146 16 0.15
147 94 0.85
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (146 bp):
TTTTTTGAAAATTTCCTAATCCACGAAGGGAAAATTTATTTAAGATTTAAGTTTTTGAAGAAAAA
AATAAGTTTAACATTTTCAACATCAAGTGATAAATAACTATATACTTATCATTTTCAATACTTCA
ATCTTAATATACTTTT
Found at i:409650 original size:165 final size:162
Alignment explanation
Indices: 409381--409707 Score: 627
Period size: 165 Copynumber: 2.0 Consensus size: 162
409371 GTTGGTGAAA
409381 AATCCTTGAAATTGTGATAGATCATGATTATTGAAGGTGCTCGGACTTGCAAATTAGCTTTTTGT
1 AATCCTTGAAATTGTGATAGATCATGATTATTGAAGGTGCTCGGACTTGCAAATTAGCTTTTTGT
409446 GAGCATTGAATCAAAGGGAAGAAGACGATGGTGAAATTTGGAACAACAATCCATGATACTAAAGG
66 GAGCATTGAATCAAAGGGAAGAAGACGATGGTGAAATTTGGAACAACAATCCATGATACTAAAGG
409511 TATTTTGGATTATGTTCATTCAGATGTGTGGG
131 TATTTTGGATTATGTTCATTCAGATGTGTGGG
409543 AATCCTTGAAATTGTTGATAGATCAATGATTATTGAAGGGTGCTCGGACTTGCAAATTAGCTTTT
1 AATCCTTGAAATTG-TGATAGATC-ATGATTATTGAA-GGTGCTCGGACTTGCAAATTAGCTTTT
409608 TGTGAGCATTGAATCAAAGGGAAGAAGACGATGGTGAAATTTGGAACAACAATCCATGATACTAA
63 TGTGAGCATTGAATCAAAGGGAAGAAGACGATGGTGAAATTTGGAACAACAATCCATGATACTAA
409673 AGGTATTTTGGATTATGTTCATTCAGATGTGTGGG
128 AGGTATTTTGGATTATGTTCATTCAGATGTGTGGG
409708 GGCCTTCCAA
Statistics
Matches: 162, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
162 14 0.09
163 9 0.06
164 12 0.07
165 127 0.78
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (162 bp):
AATCCTTGAAATTGTGATAGATCATGATTATTGAAGGTGCTCGGACTTGCAAATTAGCTTTTTGT
GAGCATTGAATCAAAGGGAAGAAGACGATGGTGAAATTTGGAACAACAATCCATGATACTAAAGG
TATTTTGGATTATGTTCATTCAGATGTGTGGG
Found at i:429039 original size:17 final size:18
Alignment explanation
Indices: 429005--429037 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
428995 TTTTGTTAGT
429005 AATTTATTTAACTATTTA
1 AATTTATTTAACTATTTA
429023 AATTT-TTTAA-TATTT
1 AATTTATTTAACTATTT
429038 TATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
AATTTATTTAACTATTTA
Found at i:431024 original size:3 final size:3
Alignment explanation
Indices: 431016--431041 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
431006 ACTTCGTCTA
431016 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
431042 GGGTTGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:432748 original size:17 final size:18
Alignment explanation
Indices: 432719--432759 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
432709 TTTTAGACAA
432719 TTTAATATTTTTCAAGAT
1 TTTAATATTTTTCAAGAT
*
432737 TTTAATA-TTTTCATGAT
1 TTTAATATTTTTCAAGAT
432754 TTTAAT
1 TTTAAT
432760 TTTCACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTAATATTTTTCAAGAT
Found at i:436491 original size:32 final size:32
Alignment explanation
Indices: 436450--436515 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
436440 AATTATTTTT
436450 AATATTTTAATTAAATAATATATTCACCAATC
1 AATATTTTAATTAAATAATATATTCACCAATC
*
436482 AATATTTTAATTAAGTAATATATTCACCAATC
1 AATATTTTAATTAAATAATATATTCACCAATC
436514 AA
1 AA
436516 GTGTGACACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (32 bp):
AATATTTTAATTAAATAATATATTCACCAATC
Found at i:439623 original size:23 final size:23
Alignment explanation
Indices: 439567--439633 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
439557 CACCACAGCT
439567 CATA-AATTGCACCGAAGTG-CA
1 CATAGAATTGCACCGAAGTGCCA
* * *
439588 CATATAATTGCACCGGAGTGCCG
1 CATAGAATTGCACCGAAGTGCCA
* *
439611 CGTAGAATTGCACCGTAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
439634 TATACTGTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.11
22 14 0.37
23 20 0.53
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:439819 original size:103 final size:103
Alignment explanation
Indices: 439632--439863 Score: 365
Period size: 103 Copynumber: 2.2 Consensus size: 103
439622 ACCGTAGTGC
** * * * *
439632 CATATACTGTCCATAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATTAAG
1 CATATA-TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAA
*
439697 TATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATA
65 TATGTGTCTCACCAAACTTCACACATGTTCCAAAGAATA
*
439736 CATATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAAT
1 CATATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAAT
*
439801 ATGTGTCTCACCAAACTTCACGCATGTTCCAAAGAATA
66 ATGTGTCTCACCAAACTTCACACATGTTCCAAAGAATA
*
439839 CATATATATCCCGAAGGACCACATA
1 CATATATGTCCCGAAGGACCACATA
439864 GACCCTCGAC
Statistics
Matches: 118, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 112 0.95
104 6 0.05
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (103 bp):
CATATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAAT
ATGTGTCTCACCAAACTTCACACATGTTCCAAAGAATA
Found at i:439934 original size:41 final size:41
Alignment explanation
Indices: 439877--439961 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
439867 CCTCGACTCT
439877 TGGCATACCAACTATACCCCTAGCTCTCATGACACATAACA
1 TGGCATACCAACTATACCCCTAGCTCTCATGACACATAACA
439918 TGGCATACCAACTATACCCCTAGCTCTCATGACACATAACA
1 TGGCATACCAACTATACCCCTAGCTCTCATGACACATAACA
439959 TGG
1 TGG
439962 GCATTATCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.33, C:0.33, G:0.12, T:0.22
Consensus pattern (41 bp):
TGGCATACCAACTATACCCCTAGCTCTCATGACACATAACA
Found at i:441462 original size:12 final size:12
Alignment explanation
Indices: 441445--441471 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
441435 TATCAAGAAG
441445 TTCGACAACAAC
1 TTCGACAACAAC
441457 TTCGACAACAAC
1 TTCGACAACAAC
441469 TTC
1 TTC
441472 AATATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.33, G:0.07, T:0.22
Consensus pattern (12 bp):
TTCGACAACAAC
Found at i:446560 original size:75 final size:75
Alignment explanation
Indices: 446437--446586 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
446427 TTAAGCATTT
446437 GAGTAATATCTATATTCTATACGAAAGCCCCTACAACCGTACCCAAACAAGCATTTGAGATGGAT
1 GAGTAATATCTATATTCTATACGAAAGCCCCTACAACCGTACCCAAACAAGCATTTGAGATGGAT
446502 GTTTTTCAGC
66 GTTTTTCAGC
446512 GAGTAATATCTATATTCTATACGAAAGCCCCTACAACCGTACCCAAACAAGCATTTGAGATGGAT
1 GAGTAATATCTATATTCTATACGAAAGCCCCTACAACCGTACCCAAACAAGCATTTGAGATGGAT
446577 GTTTTTCAGC
66 GTTTTTCAGC
446587 CTTTGAGAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (75 bp):
GAGTAATATCTATATTCTATACGAAAGCCCCTACAACCGTACCCAAACAAGCATTTGAGATGGAT
GTTTTTCAGC
Found at i:448526 original size:123 final size:124
Alignment explanation
Indices: 448307--448552 Score: 485
Period size: 123 Copynumber: 2.0 Consensus size: 124
448297 TAAAACTTGA
448307 ATTTGAACACAAAAATGATTTTCTAGAAAAGAAGTATCGATATTGTTCTTACAATATCGATAACA
1 ATTTGAACACAAAAATGATTTTCTAGAAAAGAAGTATCGATATTGTTCTTACAATATCGATAACA
448372 CATGAACAATATCGATATTGTTCTTGTAGTATCGATACCCAAGGTAAAAG-AGTATCAT
66 CATGAACAATATCGATATTGTTCTTGTAGTATCGATACCCAAGGTAAAAGAAGTATCAT
448430 ATTTGAACACAAAAATGATTTTCTAGAAAAGAAGTATCGATATTGTTCTTACAATATCGATAACA
1 ATTTGAACACAAAAATGATTTTCTAGAAAAGAAGTATCGATATTGTTCTTACAATATCGATAACA
448495 CATGAACAATATCGATATTGTTCTTGTAGTATCGATACCCAAGGTAAAAGAAGTATCA
66 CATGAACAATATCGATATTGTTCTTGTAGTATCGATACCCAAGGTAAAAGAAGTATCA
448553 ATACTCTCAT
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
123 115 0.94
124 7 0.06
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (124 bp):
ATTTGAACACAAAAATGATTTTCTAGAAAAGAAGTATCGATATTGTTCTTACAATATCGATAACA
CATGAACAATATCGATATTGTTCTTGTAGTATCGATACCCAAGGTAAAAGAAGTATCAT
Found at i:450479 original size:50 final size:50
Alignment explanation
Indices: 450420--450531 Score: 154
Period size: 50 Copynumber: 2.2 Consensus size: 50
450410 GTAGCAGTAA
* * *
450420 AGCGCGCCCCCTGAACC-GCGCTATACGCTGATTTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTG-ACCTGCGATATACGCTGATCTGACGCCACGTGGGTAT
* *
450470 AGCGCGCCCCCTGCCCTGCGATATACGGTGATCTGACGCCACGTGGGTAT
1 AGCGCGCCCCCTGACCTGCGATATACGCTGATCTGACGCCACGTGGGTAT
450520 AGCGCCGCCCCC
1 AGCG-CGCCCCC
450532 CCTGATCCGT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
49 2 0.04
50 46 0.84
51 7 0.13
ACGTcount: A:0.15, C:0.38, G:0.29, T:0.18
Consensus pattern (50 bp):
AGCGCGCCCCCTGACCTGCGATATACGCTGATCTGACGCCACGTGGGTAT
Found at i:455282 original size:20 final size:21
Alignment explanation
Indices: 455257--455349 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
455247 TTTTCCCAAT
*
455257 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
455277 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
455298 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
455318 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
455339 TCGCAATGCGA
1 TCGCAATGCGA
455350 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:455302 original size:41 final size:41
Alignment explanation
Indices: 455257--455349 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
455247 TTTTCCCAAT
455257 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
455298 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
455339 TCGCAATGCGA
1 TCGCAATGCGA
455350 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:455362 original size:41 final size:41
Alignment explanation
Indices: 455276--455410 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
455266 GAATAAGTAA
* *
455276 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
455317 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
455358 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
455399 TTCGCAACGCGA
1 ATCGCAACGCGA
455411 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:455363 original size:20 final size:20
Alignment explanation
Indices: 455338--455430 Score: 87
Period size: 20 Copynumber: 4.6 Consensus size: 20
455328 AATTGGGAAA
*
455338 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
455358 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
455379 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
455399 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
455419 TTCGCAACGCGA
1 ATCGCAACGCGA
455431 ATTGGGAAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
20 45 0.76
21 14 0.24
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:457782 original size:14 final size:14
Alignment explanation
Indices: 457760--457817 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
457750 ATGCGAAATA
*
457760 AAAACCGCAACGAC
1 AAAATCGCAACGAC
*
457774 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
*
457790 ATGAAATTGCAACGAC
1 A--AAATCGCAACGAC
457806 AAAATCGCAACG
1 AAAATCGCAACG
457818 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 19 0.54
16 8 0.23
18 8 0.23
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:457786 original size:33 final size:32
Alignment explanation
Indices: 457744--457834 Score: 128
Period size: 32 Copynumber: 2.8 Consensus size: 32
457734 CTTCAGTTCT
*
457744 ATCGCAATGCGAAATAAAAACCGCAACGACAAA
1 ATCGCAATGCGAAAT-AAAATCGCAACGACAAA
* *
457777 ATCGCAATGCGAAATGAAATTGCAACGACAAA
1 ATCGCAATGCGAAATAAAATCGCAACGACAAA
*
457809 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAAT-AAAATCGCAA
457835 TGCGATTTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
32 28 0.55
33 23 0.45
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (32 bp):
ATCGCAATGCGAAATAAAATCGCAACGACAAA
Found at i:457870 original size:14 final size:14
Alignment explanation
Indices: 457851--457908 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
457841 TTGTGTTTCG
457851 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
457865 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
457881 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
457897 CGTTGCGATTTT
1 CGTTGCGATTTT
457909 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:457885 original size:32 final size:33
Alignment explanation
Indices: 457846--457924 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
457836 GCGATTTGTG
457846 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
457878 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
457911 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
457925 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:457923 original size:19 final size:17
Alignment explanation
Indices: 457846--457924 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 17
457836 GCGATTTGTG
457846 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
457862 TGTCG-TTGCGATTTCA
1 TTTCGCTTGCGATTTCA
457878 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
457894 TGTCG-TTGCGATTTTCA
1 TTTCGCTTGCGA-TTTCA
457911 TTTCGCATTGCGAT
1 TTTCGC-TTGCGAT
457925 AGCCATTTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 15 0.30
15 3 0.06
16 12 0.24
17 4 0.08
18 10 0.20
19 6 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (17 bp):
TTTCGCTTGCGATTTCA
Found at i:459842 original size:14 final size:14
Alignment explanation
Indices: 459823--459858 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
459813 ATTGTTTAAT
459823 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
459837 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
459851 TGATTTGT
1 TGATTTGT
459859 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:459982 original size:14 final size:14
Alignment explanation
Indices: 459963--460015 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
459953 CGAAATGGCT
459963 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
*
459977 ATCGCAATGCGAAATGAA
1 ATCGCAA--CGAGA--AA
459995 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
460009 ATCGCAA
1 ATCGCAA
460016 TGCGATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 16 0.48
16 8 0.24
18 9 0.27
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:459998 original size:18 final size:16
Alignment explanation
Indices: 459974--460020 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 16
459964 TCGCAACGAG
459974 AAAATCGCAATGCGAA
1 AAAATCGCAATGCGAA
*
459990 ATGAAATCGCAA--CGAG
1 A--AAATCGCAATGCGAA
460006 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
460021 TTTTCATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 9 0.35
16 8 0.31
18 9 0.35
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (16 bp):
AAAATCGCAATGCGAA
Found at i:460004 original size:32 final size:33
Alignment explanation
Indices: 459944--460020 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 33
459934 AAAACAGACT
* **
459944 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGGAAATCGCAACGAGAAA
459977 ATCGCAATGCGAAAT-GAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGGAAATCGCAACGAGAAA
460009 ATCGCAATGCGA
1 ATCGCAATGCGA
460021 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 27 0.66
33 14 0.34
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGGAAATCGCAACGAGAAA
Found at i:460096 original size:20 final size:20
Alignment explanation
Indices: 460039--460096 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
460029 TCGCATTGCG
* *
460039 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
460059 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
460079 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
460097 TCAATGATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:461061 original size:24 final size:24
Alignment explanation
Indices: 461034--461087 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
461024 GTATTCGAAA
* *
461034 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
461058 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
461082 TTTGAT
1 TTTGAT
461088 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:462244 original size:19 final size:19
Alignment explanation
Indices: 462222--462280 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
462212 GGAAATTACT
462222 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
462241 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
462255 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
462274 ATCGCAA
1 ATCGCAA
462281 CGCTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:462264 original size:33 final size:33
Alignment explanation
Indices: 462222--462348 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
462212 GGAAATTACT
462222 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
462255 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
462287 TTTTGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
462321 ATCGCAATACGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
462349 GGAATTTAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
32 1 0.01
33 80 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:462334 original size:66 final size:66
Alignment explanation
Indices: 462225--462348 Score: 230
Period size: 66 Copynumber: 1.9 Consensus size: 66
462215 AATTACTATC
*
462225 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCTAATTT
462290 T
66 T
*
462291 GCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATACGAAATGAAAATCGCAACG
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACG
462349 GGAATTTAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.15
Consensus pattern (66 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCTAATTT
T
Found at i:462555 original size:14 final size:14
Alignment explanation
Indices: 462532--462565 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
462522 TCAATTAAAC
462532 AATCAACTTTTACA
1 AATCAACTTTTACA
*
462546 AATCACCTTTTACA
1 AATCAACTTTTACA
462560 AATCAA
1 AATCAA
462566 TTAAACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
AATCAACTTTTACA
Found at i:463979 original size:21 final size:21
Alignment explanation
Indices: 463915--463979 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
463905 GTGAATCGGG
*
463915 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
463935 C-CTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA
463955 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
463976 CTCT
1 CTCT
463980 CGAGGAATGA
Statistics
Matches: 30, Mismatches: 13, Indels: 3
0.65 0.28 0.07
Matches are distributed among these distances:
19 9 0.30
20 4 0.13
21 17 0.57
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:464019 original size:42 final size:42
Alignment explanation
Indices: 463952--464035 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
463942 CGATGACAGT
* * *
463952 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
463994 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
464036 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:465163 original size:21 final size:22
Alignment explanation
Indices: 465121--465163 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
465111 AATAACAAAC
*
465121 ATTAGTAATTGTTAAATAATTA
1 ATTAGTAATTGTTAAAAAATTA
465143 ATTA-TAATT-TTAAAAACATTA
1 ATTAGTAATTGTTAAAAA-ATTA
465164 TATAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTAGTAATTGTTAAAAAATTA
Found at i:466029 original size:20 final size:19
Alignment explanation
Indices: 465998--466082 Score: 72
Period size: 20 Copynumber: 4.6 Consensus size: 19
465988 TCTTTTGGTT
465998 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
466017 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
466038 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
466057 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
466071 GAAATGAAAATC
1 GAAATGAAAATC
466083 CCAATGCGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
14 10 0.19
16 2 0.04
17 2 0.04
19 7 0.13
20 29 0.56
21 2 0.04
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:466681 original size:20 final size:20
Alignment explanation
Indices: 466656--466705 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
466646 GCGCTATGTA
466656 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
466676 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
466696 TATCTCGTTG
1 AATCGCGTTG
466706 TGATTTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:466742 original size:20 final size:20
Alignment explanation
Indices: 466717--466770 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
466707 GATTTTGTAT
466717 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
466737 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
466757 TATCGCATTGCGAT
1 TATCGCATTGCGAT
466771 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:466772 original size:61 final size:61
Alignment explanation
Indices: 466657--466773 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
466647 CGCTATGTAA
* * * * * *
466657 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGTGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
466718 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
466774 CCCAATTCGC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:466789 original size:61 final size:61
Alignment explanation
Indices: 466657--466791 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
466647 CGCTATGTAA
* * * * * * ** *
466657 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGTGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
466718 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
466780 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
466792 TTACTTATGC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:466878 original size:21 final size:21
Alignment explanation
Indices: 466838--466878 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
466828 ATTGTATACC
**
466838 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
466859 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
466879 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:467022 original size:2 final size:2
Alignment explanation
Indices: 467015--467054 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
467005 TATTTTCTCT
467015 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
467055 CCTTGCAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:476372 original size:177 final size:180
Alignment explanation
Indices: 476045--476711 Score: 855
Period size: 182 Copynumber: 3.7 Consensus size: 180
476035 TGTCGGTTTA
* * * * * *
476045 TGTCG-TTACTTTATAAAAATGTATCGATCTACATCAATATAATAGGAAAAAATATAACAAAATC
1 TGTCGATT-CTTTATAAAAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACC
* * * * *
476109 GGTCACGAAAAGAC-AATCGATAAAGCGCTATCGGTTATATTGCAAGTGTCGATA-TTTGAATAT
65 GGTCTCGAAAAGACAAACCGGTAAAGCGCTACCGGATATATTG-AAGTGTCGATACTTT-AATAT
** *
476172 AAGTATCGACAGATAGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
128 AAGTATCGACACTTTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* *
476225 TGTCGATTCTTTATAAATATGTATCGATCCACAACAATATAACATGTAAAAATATGACAAAACC-
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCG
* * * *
476289 GT-TAGGAGAAGAC-AACCGGTAAAGAGATACCGGATATATT-AAGTGTCGATACTTTAATATAA
66 GTCT-CGAAAAGACAAACCGGTAAAGCGCTACCGGATATATTGAAGTGTCGATACTTTAATATAA
* *
476351 GTATCGACACTTTGTGAATTTAAAGGAGAAACAATTTTAGCGCCTATAAAG
130 GTATCGACACTTTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* * * *
476402 TGTCGATTCTTTATAAATATGTATCGATCCACAACCATATAACATG-ATAAAATATGATAAAACC
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACAATATAACAGGTA-AAAATATGACAAAACC
*
476466 GGTCTCGAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATAATTTAATAT
65 GGTCTCGAAAAGAC-AAACCGGTAAAGCGCTACCGGATATATTG-AAGTGTCGATACTTTAATAT
* * *
476531 AAGTATCGACACTTTGTGAATTTAAAAGATAAGTAGTTTTAGCGCCTATAAAG
128 AAGTATCGACACTTTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* * * * * *
476584 TGTCGGTACTTTATAAAAATGTATCGATCCATAACGATATAAAAGGTAAAAATATGATAAAACCG
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCG
* *
476649 GTCTCTAAATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
66 GTCTCGAAAAGAC-AAACCGGTAAAGCGCTACCGGATATATTG-AAGTGTCGATACTTTAATA
476712 AGTACGCGTA
Statistics
Matches: 432, Mismatches: 44, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
176 1 0.00
177 124 0.29
178 12 0.03
179 31 0.07
180 78 0.18
181 2 0.00
182 183 0.42
183 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (180 bp):
TGTCGATTCTTTATAAAAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCG
GTCTCGAAAAGACAAACCGGTAAAGCGCTACCGGATATATTGAAGTGTCGATACTTTAATATAAG
TATCGACACTTTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:478718 original size:22 final size:23
Alignment explanation
Indices: 478667--478722 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
478657 AACGTTTTTG
*
478667 TTTTTTTATATAAAATGATAATA
1 TTTTATTATATAAAATGATAATA
* *
478690 TAGTTATTATATAAAATTATAA-A
1 T-TTTATTATATAAAATGATAATA
478713 TTTTATTATA
1 TTTTATTATA
478723 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAATA
Found at i:479124 original size:21 final size:21
Alignment explanation
Indices: 479100--479144 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
479090 AAGACAATCA
479100 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
479121 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
479142 AGA
1 AGA
479145 CATAAGGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.11, G:0.33, T:0.13
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:479415 original size:18 final size:17
Alignment explanation
Indices: 479392--479429 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
479382 GAAAAAATAT
*
479392 GAAGAAGAAAATAGAGAG
1 GAAGAAGAAAAGAG-GAG
479410 GAAGAAGAAAAGAGGAG
1 GAAGAAGAAAAGAGGAG
479427 GAA
1 GAA
479430 ATAAGGAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.03
Consensus pattern (17 bp):
GAAGAAGAAAAGAGGAG
Found at i:481713 original size:200 final size:200
Alignment explanation
Indices: 481359--482715 Score: 1555
Period size: 200 Copynumber: 6.8 Consensus size: 200
481349 GTAATCATAT
* * * *
481359 GTGTCGAAACGTTTATAAAATGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * ** *
481424 GGTAATTTTGT-AATATAACCAATATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATG
66 GATAATTTT-TCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATG
* * * * * * *
481488 TATCAATACTT-TTTCATTATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAAGATGAAC
130 TATCGACACTTGTGTAATT-TGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGTGCAC
*
481552 GCATAAC
194 GCATAAA
** *
481559 GTGTCGATACATTTATTGAAAGTGTCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
481624 GATAATTTTTCAATATAACCGATATAACTAAATCGGTTTTATGAGAGAATAGGTTTACATAATGT
66 GATAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * *
481689 ATCGACACTTCTGAAATTTGTGTCGATA-TTGTTTCTCTAGAAGGAATGCCCAAAAGGGTGCACG
131 ATCGACACTTGTGTAATTTGTGTCGATACTT-TTTGTCCAGAAGGAATGCCCAAAAAGGTGCACG
*
481753 CAAAAA
195 CATAAA
* * * *
481759 GTGCCGATACATTTATAAACAAGTATCAAT-CCAGAAACATCGAAACTCATAATTATAATGTAAT
1 GTGTCGATACATTTATAAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* * *
481823 AGATAATTTTTCAATGTAACCGGTATACATATACCGGTTTTATGAGATAATAGGTGTACA-ATAT
65 AGATAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATA-AT
* *
481887 GTATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAGGGGTGCA
129 GTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAA-AGGTGCA
481952 C-CACT-AA
193 CGCA-TAAA
* * * *
481959 GTGTCGATACATTTATAATAAGTGTCGATCCCAGAAACATTGAAAACCATAATTATAATGTAATT
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* ** * * *
482024 GATAATTTTTCAATGTAACAGGTATACTTATATCGATTTTATGAGAGAATAGGTGTACA-ATATG
66 GATAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATA-ATG
* *
482088 TATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGAAATGCCCAAAAAAGGTGCAC
130 TATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCC-AAAAAGGTGCAC
482153 -CACT-AA
194 GCA-TAAA
* * * *
482159 GTGTCGATACATTTATACAAAGTGTCAATCCTAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
482224 GATAATTTTGT-AATATAACCGGTATAAATATACCAGTTTTATGTGAGAATATGTCTACATAATG
66 GATAATTTT-TCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATG
* * * * * ** *
482288 TATCGACACTTTTTTATTTTGTGTCGATACGTTTTGTCCAGAATGAATGCCCAAAAATATGAACG
130 TATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGTGCACG
482353 CATAAA
195 CATAAA
* * * * *
482359 GTATCGATATATTTATAAAAAAGTGTCAATACCAGAAACATCGAAACCCATAAATATAATGTAAT
1 GTGTCGATACATTTAT-AAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* * * * *
482424 AGGTAAATTTACAATGTAACCGGTATAATTATA-CGATTTTATGAGAGAATAGGTCTACA-ACAT
65 AGATAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATA-AT
* * *
482487 GTATCGACACTTGTGGAATTGGTGTCGATACTTTTTGTCCAGAAGGAATG-CC-AAAGGGTTGCA
129 GTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGG-TGCA
* *
482550 TGTATAAA
193 CGCATAAA
* * * * **
482558 GTGTCAATACTTTTTTAAAAATTGTCGATCCCA-AGAACATCGAAACTGATAATTATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGA-AACATCGAAACCCATAATTATAATGTAAT
* * ** * *
482622 AGGTAAATTTTCAATGTAACCGGTATAAATATA-TTGTTTTATGAGAAAATAGGTC-ATCATAAA
65 AGATAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTA-CATAAT
*
482685 GTATCGACAATTGT-TAAATTTGTGTCGATAC
129 GTATCGACACTTGTGT-AATTTGTGTCGATAC
482716 CATTTTAAAT
Statistics
Matches: 994, Mismatches: 141, Indels: 46
0.84 0.12 0.04
Matches are distributed among these distances:
197 2 0.00
198 122 0.12
199 46 0.05
200 726 0.73
201 98 0.10
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GATAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
ATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGTGCACGC
ATAAA
Found at i:484130 original size:23 final size:23
Alignment explanation
Indices: 484100--484163 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
484090 CAACTCATAT
*
484100 AATTGCACTGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* **
484123 AATTGCACCGGAGTGCCGTGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
484146 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
484164 TATAATAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:486208 original size:23 final size:23
Alignment explanation
Indices: 486174--486219 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
486164 CATTATTATA
*
486174 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
486197 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
486220 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:486227 original size:149 final size:149
Alignment explanation
Indices: 485744--486196 Score: 870
Period size: 149 Copynumber: 3.0 Consensus size: 149
485734 GGGTAGAGGG
*
485744 TCTACGCGGTCCTTCGGGATATATATATATTCTATGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
*
485809 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTACTA
66 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
485874 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
485893 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
485958 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
486023 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
486042 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACGCAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
*
486107 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
486172 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
486191 TCTACG
1 TCTACG
486197 TGGCACTTCG
Statistics
Matches: 300, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 300 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:493404 original size:23 final size:23
Alignment explanation
Indices: 493370--493415 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
493360 CATTATTATA
*
493370 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
493393 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
493416 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:493423 original size:149 final size:149
Alignment explanation
Indices: 492942--493392 Score: 838
Period size: 149 Copynumber: 3.0 Consensus size: 149
492932 GGGTAGAGGG
*
492942 TCTACGCGGTCCTTCGGG--ATATATATATTATGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
493005 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
493070 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
493089 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
493154 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATA--TGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
493217 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
493236 TCTACGCGGTCCTTCGGGATATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACAC
1 TCTACGCGGTCCTTCGGG--ATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACAC
*
493301 ATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
64 ATACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
493366 TATATGGCACTACGGTGCAAT
129 TATATGGCACTACGGTGCAAT
493387 TCTACG
1 TCTACG
493393 TGGCACTTCG
Statistics
Matches: 296, Mismatches: 2, Indels: 8
0.97 0.01 0.03
Matches are distributed among these distances:
147 76 0.26
149 174 0.59
151 46 0.16
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:494889 original size:64 final size:64
Alignment explanation
Indices: 494777--494997 Score: 245
Period size: 64 Copynumber: 3.5 Consensus size: 64
494767 TAATGAAGGT
* * * * * *
494777 ATGCATCGATGCACTACTGATGCATCAATGCA-TAAAATGTATTAGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTT-TCATTATTAATGG
494840 G
64 G
*
494841 ATGCATCGATGCA-TGACTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
* * **
494905 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGT-TTCATTATTAATGGG
**
494968 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
494998 ACACCTTCAA
Statistics
Matches: 137, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
63 4 0.03
64 127 0.93
65 6 0.04
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:499599 original size:22 final size:23
Alignment explanation
Indices: 499551--499613 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 23
499541 CACAGCTCAT
499551 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
499574 AATTGCACCGGAGTGCCGC-TAG
1 AATTGCACCGAAGTGCCACGTAG
*
499596 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
499614 TATAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 19 0.53
23 17 0.47
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:499800 original size:100 final size:101
Alignment explanation
Indices: 499629--499842 Score: 369
Period size: 100 Copynumber: 2.1 Consensus size: 101
499619 TAATGTCCAT
* *
499629 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCA-ATACATATACCAAGGATCAAGTATGTGTCTCACCA
499694 GACTTCACACATGTTCCAAA-AATACATATATGTCCCG
65 GACTTCACACATGTTCCAAAGAATACATATATGT-CCG
*
499731 AAGGACCACATATCATTCCTTAAGAATC-ATACATATGCCAAGGATCAAGTATGTGTCTCACCAG
1 AAGGACCACATATCATTCCTTAAGAATCAATACATATACCAAGGATCAAGTATGTGTCTCACCAG
499795 ACTTCACACATGTTCCAAAGAATACATATATGTCCG
66 ACTTCACACATGTTCCAAAGAATACATATATGTCCG
499831 AAGGACCACATA
1 AAGGACCACATA
499843 GATCCTCGAC
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
100 67 0.62
101 13 0.12
102 28 0.26
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.26
Consensus pattern (101 bp):
AAGGACCACATATCATTCCTTAAGAATCAATACATATACCAAGGATCAAGTATGTGTCTCACCAG
ACTTCACACATGTTCCAAAGAATACATATATGTCCG
Found at i:500681 original size:64 final size:61
Alignment explanation
Indices: 500592--500745 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 61
500582 CCACTACTGA
* * * * *
500592 TGCATCGGTGCATAAAATGTATTCGATGTTGT-ATTATTACTGGGATACATCGATGCA-TGAC
1 TGCATCGATGCACAAATTGCATTCGATGTT-TCATTATTAATGGGATACATCGATGCACT-AC
* * *
500653 TTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGGATGCATCGATGCACTAC
1 ---TGCATCGATGCACAAATTGCATTCGATGTTTCATTATTAATGGGATACATCGATGCACTAC
500717 TGCATCGATGCACAAATTGCATTCGATGT
1 TGCATCGATGCACAAATTGCATTCGATGT
500746 ATTTATTTTA
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
61 28 0.35
63 1 0.01
64 49 0.62
65 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (61 bp):
TGCATCGATGCACAAATTGCATTCGATGTTTCATTATTAATGGGATACATCGATGCACTAC
Found at i:500766 original size:61 final size:61
Alignment explanation
Indices: 500572--500777 Score: 159
Period size: 64 Copynumber: 3.3 Consensus size: 61
500562 TAATGAAGGT
* * * * * ** *
500572 ATGCATCGATCCACTACTGATGCATCGGTGCATAAAATGTATTCGATGTTGT-ATTATTACTGGG
1 ATGCATCGATGCACTAC---TGCATCGATGCACAAATTGCATTCGATGTT-TCATTATTAAAGAG
* * * * *
500636 ATACATCGATGCA-TGACTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-AC---TGCATCGATGCACAAATTGCATTCGATGTTTCATTATTAAAGAG
*
500700 ATGCATCGATGCACTACTGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAAA-AG
1 ATGCATCGATGCACTACTGCATCGATGCACAAATTGCATTCGATGT-TTCATTATTAAAGAG
*
500760 AGTGCATCGATTCACTAC
1 A-TGCATCGATGCACTAC
500778 CAATGCATCA
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
60 2 0.02
61 47 0.39
62 4 0.03
63 2 0.02
64 64 0.53
65 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (61 bp):
ATGCATCGATGCACTACTGCATCGATGCACAAATTGCATTCGATGTTTCATTATTAAAGAG
Found at i:503592 original size:25 final size:25
Alignment explanation
Indices: 503564--503616 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
503554 TTGTGGATAC
503564 ATTATTTGAACATTGTTATGTATAA
1 ATTATTTGAACATTGTTATGTATAA
503589 ATTATTTGAACATTGTTATGTATAA
1 ATTATTTGAACATTGTTATGTATAA
503614 ATT
1 ATT
503617 TCTTGTGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (25 bp):
ATTATTTGAACATTGTTATGTATAA
Found at i:504274 original size:200 final size:195
Alignment explanation
Indices: 503911--504586 Score: 741
Period size: 200 Copynumber: 3.4 Consensus size: 195
503901 CTTAAAGTTT
* * * * *
503911 CCCATAAAGTGTCGATGCAGTTTTAAAAAGTATCGATCTCAGAAACATCGAAATCTATAAATATA
1 CCCATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAAATATA
* * *
503976 ATGTAATAGGTAAATTTACAATGTAACCGGTATAACTAAATCGGTTTTATGAGAGAATAGGTCCA
65 ATGTAATAGGTAAATTTACAATATAACCGGTATAAAT-AATCGGTTTTATGAGA-AATAGGTCTA
* * *
504041 CAAAATTTATCGACACTTCTGGAATTTGTGTCGATACTCTTTCTCCAGAAGGAATGCCCATAAAG
128 CATAATATATCGACACTTCTGGAATTTGTGTCGATACT-TTTGTCCAGAAGGAATGCCCA-AAAG
504106 GAAT-CA
191 G--TGCA
* * *
504112 CTCATAAAGTGTCGAAACATTTTAAAACA-TATCGATCCCAAAAACATCGAAACCAATAATTATA
1 CCCATAAAGTGTCGATACATTTTAAAA-AGTATCGATCCCAAAAACATCGAAACCAATAAATATA
* * ** * *
504176 ATGTAATATGTAATTTTGTAATATAACCGATATAAATATATCGGTTTTATGTGATAATAGGTCTA
65 ATGTAATAGGTAAATTTACAATATAACCGGTATAAATA-ATCGGTTTTATGAGA-AATAGGTCTA
* ** * *
504241 CATAATATGTCGACACTT-TTTAATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAT
128 CATAATATATCGACACTTCTGGAAT-TTGTGTCGATAC-TTTTGTCCAGAAGGAATGCCCAAAA-
*
504305 GGTGAA
190 GGTGCA
* *
504311 CGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATA
1 CCCATAAAGTGTCGATACATTT-TAAAAAGTATCGATCCCAAAAACATCGAAACCAATAAATATA
* * ** * * *
504376 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCATTTTTTGAGAAACTAGATGTAC
65 ATGTAATAGGTAAATTTACAATATAACCGGTATAAATAATCGGTTTTATGAGAAA-TAGGTCTAC
* * * * *
504441 ATAATGTATCGACACTTGTGGAATTTGTTTCGATACTTTTGGTCCACAAGGAAAAT-CCAAAAAG
129 ATAATATATCGACACTTCTGGAATTTGTGTCGATACTTTT-GTCCAGAAGG--AATGCCCAAAA-
504505 GGTGCA
190 GGTGCA
* * *
504511 CCCATAAAGTGTCGATACATTTTTAAACAGTATCGATCTCTAAAACATCGAAACTC-ATAAATAT
1 CCCATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCCAAAAACATCGAAAC-CAATAAATAT
504575 AATGTAATAGGT
64 AATGTAATAGGT
504587 TATTTTGTAA
Statistics
Matches: 402, Mismatches: 58, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
198 7 0.02
199 80 0.20
200 290 0.72
201 25 0.06
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (195 bp):
CCCATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAAATATAA
TGTAATAGGTAAATTTACAATATAACCGGTATAAATAATCGGTTTTATGAGAAATAGGTCTACAT
AATATATCGACACTTCTGGAATTTGTGTCGATACTTTTGTCCAGAAGGAATGCCCAAAAGGTGCA
Found at i:504924 original size:346 final size:345
Alignment explanation
Indices: 504262--504929 Score: 970
Period size: 346 Copynumber: 1.9 Consensus size: 345
504252 GACACTTTTT
* * *
504262 AATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAATGGTGAACGCATAAAGTGTCGAT
1 AATGATGTGTCGATACTTATTGTACAGAATGAATGCCCAAAAGGGTGAACGCATAAAGTGTCGAT
504327 ACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATT
66 ACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATT
* * *
504392 TACAATGTAACCGGTATAAATAAACCATTTTTTGAGAAACTAGATGTACATAATGTATCGACACT
131 TACAATGTAACCGGTATAAATAAACCATTTTATGAGAAAATAGATGAACATAATGTATCGACACT
* * * *
504457 TGTGGAATTTGTTTCGATACTTTTGGTCCACAAGGAAAATCCAAAAAGGGTGCACCCATAAAGTG
196 TGTAGAATTTGTGTCGATACTTTTGGTCCAAAAGG-AAATCCAAAAAGGGTGCACCCATAAAGTA
* * *
504522 TCGATACATTTTTAAACAGTATCGATCTCTAAAACATCGAAACTCATAAATATAATGTAATAGGT
260 TCGATACATTTTTAAAAAGTATCGATCTCAAAAAAATCGAAACTCATAAATATAATGTAATAGGT
504587 TATTTTGTAATATAACGTTTG
325 TATTTTGTAATATAACGTTTG
*
504608 AATGATGTGTCGATACTTATTGTCCAGAATGAATGCCCAAAAGGGTGAACGCATAAAGTGTCGAT
1 AATGATGTGTCGATACTTATTGTACAGAATGAATGCCCAAAAGGGTGAACGCATAAAGTGTCGAT
* *
504673 ATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATT
66 ACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATT
* * ** **
504738 TACAATGTAATCGGTATAAATATATCGGTTTTATGTTAAAATATG-TGAACATAATGTATCGACA
131 TACAATGTAACCGGTATAAATA-AACCATTTTATGAGAAAATA-GATGAACATAATGTATCGACA
* * * *
504802 CATTTTAG-ATTTGTGTCGATACTTTTTGTCCAAAATG-AATGCC-AAAAGGGTTGCACGCATAA
194 C-TTGTAGAATTTGTGTCGATACTTTTGGTCCAAAAGGAAAT-CCAAAAAGGG-TGCACCCATAA
* *
504864 AGTATCGATACATGTTTTAAAAAGTATCGAT-TCAAAAAAATTGAAAC-CGATAATTATAATGTA
256 AGTATCGATACAT-TTTTAAAAAGTATCGATCTCAAAAAAATCGAAACTC-ATAAATATAATGTA
504927 ATA
319 ATA
504930 AGTAAATTTA
Statistics
Matches: 287, Mismatches: 28, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
345 11 0.04
346 198 0.69
347 73 0.25
348 5 0.02
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (345 bp):
AATGATGTGTCGATACTTATTGTACAGAATGAATGCCCAAAAGGGTGAACGCATAAAGTGTCGAT
ACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATT
TACAATGTAACCGGTATAAATAAACCATTTTATGAGAAAATAGATGAACATAATGTATCGACACT
TGTAGAATTTGTGTCGATACTTTTGGTCCAAAAGGAAATCCAAAAAGGGTGCACCCATAAAGTAT
CGATACATTTTTAAAAAGTATCGATCTCAAAAAAATCGAAACTCATAAATATAATGTAATAGGTT
ATTTTGTAATATAACGTTTG
Found at i:504956 original size:200 final size:200
Alignment explanation
Indices: 504613--505027 Score: 638
Period size: 200 Copynumber: 2.1 Consensus size: 200
504603 GTTTGAATGA
* * *
504613 TGTGTCGATACTTATTGTCCAGAATGAATGCCCAAAAGGGTGAACGCATAAAGTGTCGATATATT
1 TGTGTCGATACTTATTGTCCAAAATGAATGCCCAAAAGGGTGAACGCATAAAGTATCGATACATT
* *
504678 TATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAA
66 TATAAAAAGTATCGATCCCAAAAAAATCGAAACCGATAATTATAATGTAATAAGTAAATTTACAA
* * * ** *
504743 TGTAATCGGTATAAATATATCGGTTTTATGTTAAAATATGTGAACATAATGTATCGACACA-TTT
131 TGAAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACATAATGTATCGACA-AGTTT
504807 TAGATT
195 TAGATT
* *
504813 TGTGTCGATACTTTTTGTCCAAAATGAATG-CCAAAAGGGTTGCACGCATAAAGTATCGATACAT
1 TGTGTCGATACTTATTGTCCAAAATGAATGCCCAAAAGGG-TGAACGCATAAAGTATCGATACAT
* * *
504877 GTTTTAAAAAGTATCGAT-TCAAAAAAATTGAAACCGATAATTATAATGTAATAAGTAAATTTAC
65 -TTATAAAAAGTATCGATCCCAAAAAAATCGAAACCGATAATTATAATGTAATAAGTAAATTTAC
504941 AATGAAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACATAATGTATCGACAAGTT
129 AATGAAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACATAATGTATCGACAAGTT
505006 TTAGATT
194 TTAGATT
505013 TGTGTCGATACTTAT
1 TGTGTCGATACTTAT
505028 AAATAACGTG
Statistics
Matches: 195, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
199 10 0.05
200 169 0.87
201 16 0.08
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (200 bp):
TGTGTCGATACTTATTGTCCAAAATGAATGCCCAAAAGGGTGAACGCATAAAGTATCGATACATT
TATAAAAAGTATCGATCCCAAAAAAATCGAAACCGATAATTATAATGTAATAAGTAAATTTACAA
TGAAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACATAATGTATCGACAAGTTTT
AGATT
Found at i:507828 original size:40 final size:40
Alignment explanation
Indices: 507773--507852 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
507763 CCTCTTTGAA
507773 GTGCATTGTAGAGGTCTTTATGTGTAAATTCAACATTATT
1 GTGCATTGTAGAGGTCTTTATGTGTAAATTCAACATTATT
507813 GTGCATTGTAGAGGTCTTTATGTGTAAATTCAACATTATT
1 GTGCATTGTAGAGGTCTTTATGTGTAAATTCAACATTATT
507853 ATAGTCCCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (40 bp):
GTGCATTGTAGAGGTCTTTATGTGTAAATTCAACATTATT
Found at i:509290 original size:203 final size:197
Alignment explanation
Indices: 508488--509414 Score: 1013
Period size: 202 Copynumber: 4.6 Consensus size: 197
508478 CCTAAATATG
* * *
508488 GTCGATACATTT-TCTAAAAGTATCGATCCAAAAAATATCGAAACCAATAATTATAATGTAATAG
1 GTCGATACATTTAT-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* ** * * *
508552 GTAAATTAACAATGTAACCGGTATAAATATACCGGTTAATTAAAAACA-A-GTCAAATAATGTAT
65 GTAAATTTACAATGTAACCGGTATAAATATACCATTTTATGAAAAAAATAGGTCAAATAATGTAT
*
508615 CGACACTTGTGTAATTTGTGTCGATACTTATTGTCC-GAATGAATGCTCAAACGAGGTGCACGCA
130 CGACACTTAT-TAATTTGTGTCGATACTT-TTGTCCAGAATGAATGC-CAAACGAGGTGCACGCA
508679 TAAAGT
192 TAAAGT
* *
508685 GTCGATACAATTATTAAAAGTATCGATCCCAATAAA-ATCGAAACTGATAATTATAATGTAATAG
1 GTCGATACATTTATTAAAAGTATCGATCCCAA-AAACATCGAAACCGATAATTATAATGTAATAG
* * * ** ** *
508749 ATAAATTTACAATGTAATCAGTATAAATATACTGGTTTTATGTTAAAAATAGGTGAACATAATGT
65 GTAAATTTACAATGTAACCGGTATAAATATAC-CATTTTATGAAAAAAATAGGTCAA-ATAATGT
* *
508814 ATCGACACGTT-TTATATTTGTGTCGATACTTTTTGTCCAAAATGAATTCCAAA--AGGATTGCA
128 ATCGACAC-TTATTA-ATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCAAACGAGG--TGCA
508876 CGCATAAAGT
188 CGCATAAAGT
* *
508886 GTCGATACATGTT-TTAAAAAGTATCGAT-TCAAAAAGCATCAAAAACCGATAATTATAATGTAA
1 GTCGATACAT-TTATT-AAAAGTATCGATCCCAAAAA-CATC-GAAACCGATAATTATAATGTAA
* * * *
508949 TATGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATG-AGAAAATAAGTCATCATAA
62 TAGGTAAATTTACAATGTAACCGGTATAAATATACC-ATTTTATGAAAAAAATAGGTCA-AATAA
* * * * *
509013 AGTATCGACCCTTATTAAATTTGCGTCGATACATTTTGTCCATAATGAATGTCAAACGA-GTGCA
125 TGTATCGACACTTATT-AATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCAAACGAGGTGCA
509077 CGCATAAAGT
188 CGCATAAAGT
* * * *
509087 GTCGATACATTTATTAAAACTATCGATCCCAAAAACATCGAAACCAATAATTACAATGTGATAGG
1 GTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGG
* *
509152 TAAATTTACAATGT-ACCAGATAGAAATATACCATTTTAATGAAGAAAAAAATAGGTCTAAATAA
66 TAAATTTACAATGTAACC-GGTATAAATATACCATTTT-AT---GAAAAAAATAGGTC-AAATAA
* * *
509216 TGTATCGACAC-TATTTAAGTTTATGTCGATACTTTTTTCCAGAATGAATGCCCAACGAGGTGCA
125 TGTATCGACACTTA-TTAA-TTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAACGAGGTGCA
509280 CGCATAAAGT
188 CGCATAAAGT
* * *
509290 GTCGATACATTTA--AAATTGTATTGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAG
1 GTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * * *
509353 GTAAATTTACAATGTTATCGGTATAAATATACCAGTTTACTTATAAAAATAGGTCAATATAA
65 GTAAATTTACAATGTAACCGGTATAAATATACCATTTTA-TGAAAAAAATAGGTCAA-ATAA
509415 GAGCTACCTA
Statistics
Matches: 618, Mismatches: 73, Indels: 76
0.81 0.10 0.10
Matches are distributed among these distances:
197 82 0.13
198 23 0.04
199 69 0.11
200 26 0.04
201 106 0.17
202 184 0.30
203 126 0.20
204 2 0.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (197 bp):
GTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGG
TAAATTTACAATGTAACCGGTATAAATATACCATTTTATGAAAAAAATAGGTCAAATAATGTATC
GACACTTATTAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAA
GT
Found at i:509543 original size:23 final size:23
Alignment explanation
Indices: 509493--509537 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
509483 TGTTTATTTT
* *
509493 ATTATATAAACGTTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
*
509516 ATTATATAAGCGCTACCTAATA
1 ATTATATAAACGCTACCTAATA
509538 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:514731 original size:43 final size:43
Alignment explanation
Indices: 514678--514763 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
514668 TATATATTTT
* * *
514678 AAGAAATATATTCAATTAGATAATATAATAAAATTATTTCTAA
1 AAGAAATATATTCAATTAAATAAAATAATAAAATAATTTCTAA
*
514721 AAGAAGTATATTCAATTAAATAAAATAATAAAATAATTTCTAA
1 AAGAAATATATTCAATTAAATAAAATAATAAAATAATTTCTAA
514764 GAGTTGTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (43 bp):
AAGAAATATATTCAATTAAATAAAATAATAAAATAATTTCTAA
Found at i:516899 original size:21 final size:21
Alignment explanation
Indices: 516875--516914 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
516865 AATACAATAT
516875 TTGTA-AATAATTATAAAAAAA
1 TTGTACAA-AATTATAAAAAAA
*
516896 TTGTACAAAATTATGAAAA
1 TTGTACAAAATTATAAAAA
516915 CATGAACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (21 bp):
TTGTACAAAATTATAAAAAAA
Found at i:517173 original size:22 final size:19
Alignment explanation
Indices: 517145--517192 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 19
517135 GTTATGATTA
517145 TTTAAGTCTTTGTTGATGTTT
1 TTTAAGTCTTTGTTG-T-TTT
517166 TTTCAAGTCTTTGTTGTTTT
1 TTT-AAGTCTTTGTTGTTTT
517186 TTTAAGT
1 TTTAAGT
517193 AACACGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 6 0.23
21 4 0.15
22 12 0.46
ACGTcount: A:0.15, C:0.06, G:0.17, T:0.62
Consensus pattern (19 bp):
TTTAAGTCTTTGTTGTTTT
Found at i:518688 original size:35 final size:35
Alignment explanation
Indices: 518612--518694 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 35
518602 TCTAGTATAT
* *
518612 TCTATTAAAATAAAAATATGAAATTATATTGAATA
1 TCTATAAAAATAAAAATATGAAATTATATTGAAAA
* * *
518647 TCTATAAAAATAAAAATATTATATTATATTTTAAAA
1 TCTATAAAAATAAAAATATGAAATTATA-TTGAAAA
518683 T-TATAATAAATA
1 TCTATAA-AAATA
518695 TATTTTAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 30 0.73
36 11 0.27
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (35 bp):
TCTATAAAAATAAAAATATGAAATTATATTGAAAA
Found at i:518910 original size:17 final size:17
Alignment explanation
Indices: 518888--518922 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
518878 ATAATTGAGT
*
518888 ATATTATTGTAATAATA
1 ATATTATTATAATAATA
*
518905 ATATTATTATATTAATA
1 ATATTATTATAATAATA
518922 A
1 A
518923 ATATATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
ATATTATTATAATAATA
Found at i:519655 original size:50 final size:51
Alignment explanation
Indices: 519582--519714 Score: 144
Period size: 50 Copynumber: 2.6 Consensus size: 51
519572 CACCCGTAGC
* * * * * *
519582 AGTAAAGCGCGCCCCCTGAACCGCGCTATATGATGATTTGGCGGCACGTGG
1 AGTATAGCGCGCCCCCTGTACCGCGCTATACGATGACTGGGCGACACGTGG
* * **
519633 AGTATAGCGC-CCCCCTGTACCGCACTATACGCTGACTGGGTTACACGTGG
1 AGTATAGCGCGCCCCCTGTACCGCGCTATACGATGACTGGGCGACACGTGG
*
519683 GGTATAGCGCGCCCCCTGCT-CCGCGCTATACG
1 AGTATAGCGCGCCCCCTG-TACCGCGCTATACG
519715 CCACGTAGGG
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 40 0.59
51 27 0.40
52 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.29, T:0.20
Consensus pattern (51 bp):
AGTATAGCGCGCCCCCTGTACCGCGCTATACGATGACTGGGCGACACGTGG
Found at i:523397 original size:35 final size:34
Alignment explanation
Indices: 523312--523398 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
523302 ATTTGGTATT
*
523312 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
523346 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
523384 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
523399 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:523517 original size:45 final size:49
Alignment explanation
Indices: 523427--523517 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
523417 AAGTCCAACA
* * *
523427 AATTTAACAAAATAAAGTAAGTATTAAATGATAAATAATAAAAAATTAC
1 AATTAAACAAAATAAAGTAAATATCAAATGATAAATAATAAAAAATTAC
523476 AATTAAACAAAATAAAGTAAATA-CAAAT-AT-AATAA-AAAAAAT
1 AATTAAACAAAATAAAGTAAATATCAAATGATAAATAATAAAAAAT
523518 CTGTCGATGC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
45 7 0.18
46 5 0.13
47 2 0.05
48 4 0.10
49 21 0.54
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.25
Consensus pattern (49 bp):
AATTAAACAAAATAAAGTAAATATCAAATGATAAATAATAAAAAATTAC
Found at i:523632 original size:18 final size:18
Alignment explanation
Indices: 523606--523667 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
523596 TTCTGACTCC
*
523606 TCGCTGTCATCATCATCG
1 TCGCCGTCATCATCATCG
*
523624 TCGCCGTCACCATCATCG
1 TCGCCGTCATCATCATCG
* * *
523642 TCGTCGTCATCGTCGTCG
1 TCGCCGTCATCATCATCG
*
523660 TCGTCGTC
1 TCGCCGTC
523668 CTGAGCAGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.11, C:0.37, G:0.21, T:0.31
Consensus pattern (18 bp):
TCGCCGTCATCATCATCG
Found at i:523651 original size:12 final size:12
Alignment explanation
Indices: 523636--523667 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
523626 GCCGTCACCA
523636 TCATCGTCGTCG
1 TCATCGTCGTCG
523648 TCATCGTCGTCG
1 TCATCGTCGTCG
*
523660 TCGTCGTC
1 TCATCGTC
523668 CTGAGCAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.34, G:0.25, T:0.34
Consensus pattern (12 bp):
TCATCGTCGTCG
Found at i:523662 original size:15 final size:15
Alignment explanation
Indices: 523618--523664 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
523608 GCTGTCATCA
* *
523618 TCATCGTCGCCGTCA
1 TCATCGTCGTCGTCG
* *
523633 CCATCATCGTCGTCG
1 TCATCGTCGTCGTCG
523648 TCATCGTCGTCGTCG
1 TCATCGTCGTCGTCG
523663 TC
1 TC
523665 GTCCTGAGCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.11, C:0.38, G:0.21, T:0.30
Consensus pattern (15 bp):
TCATCGTCGTCGTCG
Found at i:524027 original size:18 final size:18
Alignment explanation
Indices: 524004--524038 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
523994 GCGATGGCGG
524004 CATCATATATGGATGCGA
1 CATCATATATGGATGCGA
*
524022 CATCATATATGGCTGCG
1 CATCATATATGGATGCG
524039 GTGGCTGCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (18 bp):
CATCATATATGGATGCGA
Found at i:525696 original size:100 final size:106
Alignment explanation
Indices: 525533--525954 Score: 649
Period size: 111 Copynumber: 3.9 Consensus size: 106
525523 ATTACAAAAA
* *
525533 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTATTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
525598 AATTAAAACGTTAAAATGTTACCGTATTA-C-AA-A-A-A-
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGAGATAT
*
525633 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
525698 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAA-----GAGATAT
*
525744 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAAATAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
525809 AATTATAACGTTAAAATGTTACCGTATCAGCAAAGTGTCCAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAA--G---AGATAT
*
525855 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
525920 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAG
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAG
525955 TGTAGAGATA
Statistics
Matches: 298, Mismatches: 10, Indels: 19
0.91 0.03 0.06
Matches are distributed among these distances:
100 92 0.31
101 1 0.00
102 2 0.01
108 2 0.01
109 2 0.01
110 1 0.00
111 198 0.66
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (106 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGAGATAT
Found at i:526304 original size:50 final size:49
Alignment explanation
Indices: 526245--526353 Score: 128
Period size: 50 Copynumber: 2.2 Consensus size: 49
526235 GATACTCAGA
* * * * * * *
526245 TATAGCGTGGATCAGGGGGCGCGCTATACTCACGTGGCGCCAGATCACCG
1 TATAACGTGGA-CAGGAGGCGCGCTATACCCACGTAGCACCAAATCAACG
*
526295 TATATCGTGGGACAGGAGGCGCGCTATACCCACGTAGCACCAAATCAACG
1 TATAACGT-GGACAGGAGGCGCGCTATACCCACGTAGCACCAAATCAACG
526345 TATAACGTG
1 TATAACGTG
526354 ATTCAGGAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
49 1 0.02
50 46 0.92
51 3 0.06
ACGTcount: A:0.26, C:0.27, G:0.29, T:0.18
Consensus pattern (49 bp):
TATAACGTGGACAGGAGGCGCGCTATACCCACGTAGCACCAAATCAACG
Done.