Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005358.1 Hibiscus syriacus cultivar Beakdansim tig00012170_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: 111903
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:12337 original size:17 final size:16
Alignment explanation
Indices: 12272--12334 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 16
12262 GGCTTTTTTT
12272 AAAAAATAATAATAATA
1 AAAAAATAAT-ATAATA
* * *
12289 TAATAATAAT-GAATA
1 AAAAAATAATATAATA
* *
12304 AAAAAACGAAAATAATA
1 AAAAAA-TAATATAATA
12321 AAAAAATAATATAA
1 AAAAAATAATATAA
12335 ATATATAAAG
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
15 8 0.24
16 8 0.24
17 18 0.53
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAAAATAATATAATA
Found at i:12612 original size:18 final size:17
Alignment explanation
Indices: 12589--12631 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
12579 ATATATACAT
12589 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
12607 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
12624 ATAA-AATA
1 ATAATAATA
12632 TTCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:13070 original size:37 final size:37
Alignment explanation
Indices: 12988--13089 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 37
12978 GTGCTTGTGG
* * * * * *
12988 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* * *
13025 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
13062 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
13090 TAGGACGAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:13932 original size:105 final size:105
Alignment explanation
Indices: 13633--14263 Score: 925
Period size: 105 Copynumber: 6.0 Consensus size: 105
13623 GCATTGTTCC
* * *** *
13633 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCAGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * *
13697 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
13739 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACACTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
13799 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
13839 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTATTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
13904 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
13944 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
14009 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
14049 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
14114 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
14154 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* * * * * * *
14219 CCAACCGTCCCTTTGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
14260 GAGT
1 GAGT
14264 GTCACGGTAT
Statistics
Matches: 489, Mismatches: 28, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
99 1 0.00
100 83 0.17
101 1 0.00
102 7 0.01
104 5 0.01
105 309 0.63
106 83 0.17
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:14510 original size:36 final size:36
Alignment explanation
Indices: 14463--14538 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
14453 TGTTTGGAGA
* * * *
14463 GAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGG
1 GAAACTATCTCAAGCGAGAAAAAATTCATTTCAAGG
*
14499 GAAACTATCTCAAGCGAGAAAAAATTTATTTCAAGG
1 GAAACTATCTCAAGCGAGAAAAAATTCATTTCAAGG
14535 GAAA
1 GAAA
14539 TGTTTTCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.22
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGAAAAAATTCATTTCAAGG
Found at i:14711 original size:104 final size:102
Alignment explanation
Indices: 14438--14754 Score: 478
Period size: 101 Copynumber: 3.1 Consensus size: 102
14428 TTCGTTAAAT
* * * *
14438 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA-TTC-GTTTCAAGGGA
1 TGTTTTCAATGTTTATGTTT-CAGAGAAACTGTCTCAAGGGAGAAAAAATTTCTGTTTCGAGGGA
* *
14501 AACTATCTCAAGCGAGAAAAAATTTATTTCAAGGGAAA
65 AACTATCTCAAGAGAGAAAAAATTAATTTCAAGGGAAA
*
14539 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTC-AGAGAAACTGTCTCAAGGGAGA-AAAAATTTCTGTTTCGAGGG
* * *
14604 AAACTATCTTAAGAGAGAAAAAAAAATCATTTCAAGGGAAA
64 AAACTATCTCAAGAGAG--AAAAAATTAATTTCAAGGGAAA
14645 TGTTTTCAATGTTTATGTTTCAGAGAAACTGTCTCAAGGGAGAAAAAATTTCTGTTTCGAGGGAA
1 TGTTTTCAATGTTTATGTTTCAGAGAAACTGTCTCAAGGGAGAAAAAATTTCTGTTTCGAGGGAA
14710 ACTATCTCAAGAGAG-AAAAATTAATTTCAAGGGAAA
66 ACTATCTCAAGAGAGAAAAAATTAATTTCAAGGGAAA
14746 TGTTTTCAA
1 TGTTTTCAA
14755 GAGAAACTGT
Statistics
Matches: 197, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
101 69 0.35
102 3 0.02
103 3 0.02
104 59 0.30
105 22 0.11
106 41 0.21
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.31
Consensus pattern (102 bp):
TGTTTTCAATGTTTATGTTTCAGAGAAACTGTCTCAAGGGAGAAAAAATTTCTGTTTCGAGGGAA
ACTATCTCAAGAGAGAAAAAATTAATTTCAAGGGAAA
Found at i:14911 original size:36 final size:36
Alignment explanation
Indices: 14871--14984 Score: 113
Period size: 36 Copynumber: 3.2 Consensus size: 36
14861 CTTTCGAGTG
* *
14871 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* ** * * * **
14907 AAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
*
14943 AAAACAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAA-TCTTGTTTTAAGA
14979 AAAACA
1 AAAACA
14985 AATTTGAGTG
Statistics
Matches: 58, Mismatches: 19, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
36 57 0.98
37 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
Found at i:14963 original size:72 final size:74
Alignment explanation
Indices: 14825--15000 Score: 216
Period size: 72 Copynumber: 2.4 Consensus size: 74
14815 TAAAATCTTC
* ** * *
14825 TTAAAAAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAGTGAAAT-AAAT-CCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGA
*
14890 CAAA-TCTTGTT
64 CAAAGT-ATGTT
*
14901 TTAAGAAAAACAATCTTGAGTGAAATAAAT-CTTCTTTCGAG-AAAAACAGTCTCAAGTGAGACA
1 TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
14964 AAGTATGTT
66 AAGTATGTT
*
14973 TTAAGAAAAACAAAT-TTGAGTGAGATAA
1 TTAAGAAAAAC-AATCTTGAGTGAAATAA
15001 TCATCTGCAT
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
72 48 0.53
73 15 0.17
75 4 0.04
76 23 0.26
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (74 bp):
TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
AAGTATGTT
Found at i:15567 original size:10 final size:10
Alignment explanation
Indices: 15552--15576 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15542 TCGAATTTTC
15552 AAAATTTTGA
1 AAAATTTTGA
15562 AAAATTTTGA
1 AAAATTTTGA
15572 AAAAT
1 AAAAT
15577 CTCAAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (10 bp):
AAAATTTTGA
Found at i:16633 original size:183 final size:183
Alignment explanation
Indices: 16150--16685 Score: 914
Period size: 182 Copynumber: 2.9 Consensus size: 183
16140 ATCAGGTTTA
*
16150 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* ** *
16215 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGATTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
* *
16279 TTCCTCTATAACCAATTGCCTTAGTGGGATAGATCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
16333 ACTGAAGGGTTCGTCTCATCAC-AAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* *
16397 GCCAAGTGTCCAAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTTGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
16462 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
** * *
16515 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCAAACAAAAGTAGTGGAGTAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
16580 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
16645 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAACTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
16686 CGGATTTAAT
Statistics
Matches: 333, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
182 170 0.51
183 163 0.49
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:22595 original size:28 final size:28
Alignment explanation
Indices: 22560--22616 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
22550 AGATAATTAC
22560 AATATATATATATAGTAATATTAGACTT
1 AATATATATATATAGTAATATTAGACTT
22588 AATATATATATATAGTAATATTAGACTT
1 AATATATATATATAGTAATATTAGACTT
22616 A
1 A
22617 TAAGTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (28 bp):
AATATATATATATAGTAATATTAGACTT
Found at i:22741 original size:17 final size:18
Alignment explanation
Indices: 22708--22743 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22698 ATATATATAC
*
22708 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
22726 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
22743 A
1 A
22744 AATATCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:23166 original size:37 final size:37
Alignment explanation
Indices: 23113--23209 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
23103 GGATCTTATC
* *
23113 TTTAGGAATTTAAATCTTAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTGAATCTTAGTAGAACTCTATCCTATT
* * * *
23150 TTTAGGAGTTTGAATCTTAGCAAAATTTTATCCTATT
1 TTTAGGAGTTTGAATCTTAGTAGAACTCTATCCTATT
*
23187 TTTAGGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTGAATCTTAGTAG
23210 GACGAAAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCTTAGTAGAACTCTATCCTATT
Found at i:27613 original size:20 final size:22
Alignment explanation
Indices: 27584--27629 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
27574 ATAAATTTAT
27584 AAAATAATTA-ATATTAGATTA
1 AAAATAATTATATATTAGATTA
*
27605 AAAAT-ATTATTATATTATATTA
1 AAAATAATTA-TATATTAGATTA
27627 AAA
1 AAA
27630 TCAATTTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 5 0.23
22 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATAATTATATATTAGATTA
Found at i:39346 original size:9 final size:9
Alignment explanation
Indices: 39316--39369 Score: 60
Period size: 8 Copynumber: 6.3 Consensus size: 9
39306 ATATGCAAAA
39316 AAATTAAAT
1 AAATTAAAT
*
39325 -AAGTAAA-
1 AAATTAAAT
*
39332 ATATTAAAT
1 AAATTAAAT
39341 AAATTAAAT
1 AAATTAAAT
*
39350 -ACTTAAAT
1 AAATTAAAT
39358 AAATTAAAT
1 AAATTAAAT
39367 AAA
1 AAA
39370 AAATATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
8 18 0.50
9 18 0.50
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAATTAAAT
Found at i:39366 original size:17 final size:16
Alignment explanation
Indices: 39318--39367 Score: 73
Period size: 17 Copynumber: 3.1 Consensus size: 16
39308 ATGCAAAAAA
* *
39318 ATTAAATAAGTAAAAT
1 ATTAAATAAATTAAAT
39334 ATTAAATAAATTAAAT
1 ATTAAATAAATTAAAT
39350 ACTTAAATAAATTAAAT
1 A-TTAAATAAATTAAAT
39367 A
1 A
39368 AAAAATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 15 0.48
17 16 0.52
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (16 bp):
ATTAAATAAATTAAAT
Found at i:39382 original size:21 final size:23
Alignment explanation
Indices: 39328--39390 Score: 60
Period size: 26 Copynumber: 2.7 Consensus size: 23
39318 ATTAAATAAG
39328 TAAAATATTAAATAAATTAAATACT
1 TAAAA-ATTAAATAAA-TAAATACT
39353 TAAATAAATTAAATAAA-AAATA-T
1 T-AA-AAATTAAATAAATAAATACT
39376 TAAAAA-TATAATAAA
1 TAAAAATTA-AATAAA
39391 GTATACATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 9 0.26
22 2 0.06
23 2 0.06
24 5 0.14
25 1 0.03
26 12 0.34
27 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
TAAAAATTAAATAAATAAATACT
Found at i:39436 original size:10 final size:10
Alignment explanation
Indices: 39420--39458 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
39410 ATAAGAGTAT
39420 TTGAGAGAAG
1 TTGAGAGAAG
*
39430 TTTAGAGAAG
1 TTGAGAGAAG
*
39440 TTGAGAGAAA
1 TTGAGAGAAG
39450 TTGAGAGAA
1 TTGAGAGAA
39459 TTTAGTGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAG
Found at i:39927 original size:2 final size:2
Alignment explanation
Indices: 39920--39948 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
39910 TAGGTGAATT
39920 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
39949 TAAATATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:40710 original size:43 final size:43
Alignment explanation
Indices: 40663--40792 Score: 108
Period size: 44 Copynumber: 3.0 Consensus size: 43
40653 TTCAACACAG
*
40663 AATTTCCATGCATAAAATGGATTGCTCGGCGTCTTCTATGTAA
1 AATTTCCATTCATAAAATGGATTGCTCGGCGTCTTCTATGTAA
* * * *
40706 AATTTGCATTCATTGAGAAT-GA-TGTCTCGGCATCTTC-ATTGAAAA
1 AATTTCCATTCA-T-AAAATGGATTG-CTCGGCGTCTTCTA-TG-TAA
** *
40751 AATTTCC-TTCA-AACTTGGATTGCTTGGCGTCTTCTATGTAA
1 AATTTCCATTCATAAAATGGATTGCTCGGCGTCTTCTATGTAA
40792 A
1 A
40793 TATATGAACG
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
41 5 0.07
42 14 0.21
43 16 0.24
44 20 0.30
45 12 0.18
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (43 bp):
AATTTCCATTCATAAAATGGATTGCTCGGCGTCTTCTATGTAA
Found at i:43212 original size:14 final size:14
Alignment explanation
Indices: 43194--43564 Score: 156
Period size: 14 Copynumber: 26.9 Consensus size: 14
43184 TCGAGTATAT
* *
43194 ATTTAATAATAATT
1 ATTTAATATTAATG
43208 ATTTAA-ATTTAATG
1 ATTTAATA-TTAATG
**
43222 ATTTAA-ATTTAAAA
1 ATTTAATA-TTAATG
* *
43236 ATTTAATAATAATA
1 ATTTAATATTAATG
43250 ATTTAACT-TTAATG
1 ATTTAA-TATTAATG
* *
43264 ATTTAATAATAATT
1 ATTTAATATTAATG
43278 ATTTAACT-TTAATG
1 ATTTAA-TATTAATG
* *
43292 AATTAA-ATTAAATA
1 ATTTAATATT-AATG
* * *
43306 ATTTAATAATCATT
1 ATTTAATATTAATG
*
43320 ACTTAACT-TTAATG
1 ATTTAA-TATTAATG
*
43334 ATTTAACT-TTATTG
1 ATTTAA-TATTAATG
*
43348 ATTTAATAATAA--
1 ATTTAATATTAATG
43360 A--T-AT-TTAACT-
1 ATTTAATATTAA-TG
* * *
43370 ATTTAGTAATAATT
1 ATTTAATATTAATG
43384 ATTTAACT-TTAATG
1 ATTTAA-TATTAATG
*
43398 ATTTAA-ATTAAATA
1 ATTTAATATT-AATG
* * *
43412 ATTTAATAATCATT
1 ATTTAATATTAATG
*
43426 ACTTAACT-TTAATG
1 ATTTAA-TATTAATG
* *
43440 ATTTAATAATAATT
1 ATTTAATATTAATG
43454 ATTTAACT-TTAATG
1 ATTTAA-TATTAATG
*
43468 ATTTAATTTTAATG
1 ATTTAATATTAATG
*
43482 ATTTAATAATAATG
1 ATTTAATATTAATG
43496 ATTTAACT-TTAATG
1 ATTTAA-TATTAATG
*
43510 ATTTAACT-TTAATA
1 ATTTAA-TATTAATG
*
43524 ATTTAACT-TTAATA
1 ATTTAA-TATTAATG
*
43538 ATTTAACT-TTAATA
1 ATTTAA-TATTAATG
*
43552 ATTTAATAATAAT
1 ATTTAATATTAAT
43565 AACCACGCCC
Statistics
Matches: 280, Mismatches: 50, Indels: 54
0.73 0.13 0.14
Matches are distributed among these distances:
8 3 0.01
9 2 0.01
10 2 0.01
12 2 0.01
13 12 0.04
14 247 0.88
15 12 0.04
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.48
Consensus pattern (14 bp):
ATTTAATATTAATG
Found at i:43389 original size:22 final size:22
Alignment explanation
Indices: 43348--43391 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
43338 AACTTTATTG
43348 ATTTAATAATAAATATTTAACT
1 ATTTAATAATAAATATTTAACT
* *
43370 ATTTAGTAATAATTATTTAACT
1 ATTTAATAATAAATATTTAACT
43392 TTAATGATTT
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:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTAATAATAAATATTTAACT
Found at i:43544 original size:28 final size:28
Alignment explanation
Indices: 43203--43557 Score: 216
Period size: 28 Copynumber: 12.9 Consensus size: 28
43193 TATTTAATAA
* * * *
43203 TAATTATTTAAATTTAATGATTTAAATT
1 TAATGATTTAACTTTAATAATTTAACTT
** *
43231 TAAAAATTTAA-TAATAATAATTTAACTT
1 TAATGATTTAACT-TTAATAATTTAACTT
* *
43259 TAATGATTTAA-TAATAATTATTTAACTT
1 TAATGATTTAACT-TTAATAATTTAACTT
* * * *
43287 TAATGAATTAAATTAAATAATTTAA-TAA
1 TAATGATTTAACTTTAATAATTTAACT-T
* * * *
43315 TCATTACTTAACTTTAATGATTTAACTT
1 TAATGATTTAACTTTAATAATTTAACTT
* *
43343 TATTGATTTAA---TAATAA-AT-A-TT
1 TAATGATTTAACTTTAATAATTTAACTT
* * *
43365 TAACT-ATTT-AGTAATAATTATTTAACTT
1 TAA-TGATTTAACT-TTAATAATTTAACTT
* * *
43393 TAATGATTTAAATTAAATAATTTAA-TAA
1 TAATGATTTAACTTTAATAATTTAACT-T
* * * * *
43421 TCATTACTTAACTTTAATGATTTAA-TAA
1 TAATGATTTAACTTTAATAATTTAACT-T
* * *
43449 TAATTATTTAACTTTAATGATTTAATTT
1 TAATGATTTAACTTTAATAATTTAACTT
* *
43477 TAATGATTTAA-TAATAATGATTTAACTT
1 TAATGATTTAACT-TTAATAATTTAACTT
43505 TAATGATTTAACTTTAATAATTTAACTT
1 TAATGATTTAACTTTAATAATTTAACTT
*
43533 TAATAATTTAACTTTAATAATTTAA
1 TAATGATTTAACTTTAATAATTTAA
43558 TAATAATAAC
Statistics
Matches: 260, Mismatches: 49, Indels: 36
0.75 0.14 0.10
Matches are distributed among these distances:
21 1 0.00
22 8 0.03
23 2 0.01
24 1 0.00
25 10 0.04
26 1 0.00
27 6 0.02
28 225 0.87
29 6 0.02
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (28 bp):
TAATGATTTAACTTTAATAATTTAACTT
Found at i:43566 original size:42 final size:42
Alignment explanation
Indices: 43203--43557 Score: 292
Period size: 42 Copynumber: 8.3 Consensus size: 42
43193 TATTTAATAA
* * * * *
43203 TAATTATTTAAATTTAATGATTTAA-ATTTAAAAATTTAA-TAA
1 TAATAATTTAACTTTAATGATTTAATA-ATAATAATTTAACT-T
*
43245 TAATAATTTAACTTTAATGATTTAATAATAATTATTTAACTT
1 TAATAATTTAACTTTAATGATTTAATAATAATAATTTAACTT
* * * * * *
43287 TAATGAA-TTAAATTAAATAATTTAATAATCATTACTTAACTT
1 TAAT-AATTTAACTTTAATGATTTAATAATAATAATTTAACTT
* *
43329 TAATGATTTAACTTTATTGATTTAATAATAA-ATATTTAACTATTT
1 TAATAATTTAACTTTAATGATTTAATAATAATA-ATTTAAC---TT
* *
43374 AGTAATAATTATTTAACTTTAATGATTTAA-ATTAAATAATTTAA-TAA
1 --TAAT-A--ATTTAACTTTAATGATTTAATAAT-AATAATTTAACT-T
* * * *
43421 TCATTACTTAACTTTAATGATTTAATAATAATTATTTAACTT
1 TAATAATTTAACTTTAATGATTTAATAATAATAATTTAACTT
* * *
43463 TAATGATTTAATTTTAATGATTTAATAATAATGATTTAACTT
1 TAATAATTTAACTTTAATGATTTAATAATAATAATTTAACTT
* * *
43505 TAATGATTTAACTTTAATAATTTAACT-TTAATAATTTAACTT
1 TAATAATTTAACTTTAATGATTTAA-TAATAATAATTTAACTT
43547 TAATAATTTAA
1 TAATAATTTAA
43558 TAATAATAAC
Statistics
Matches: 255, Mismatches: 39, Indels: 38
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.00
42 206 0.81
43 8 0.03
45 5 0.02
46 1 0.00
47 4 0.02
49 2 0.01
50 27 0.11
51 1 0.00
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (42 bp):
TAATAATTTAACTTTAATGATTTAATAATAATAATTTAACTT
Found at i:45235 original size:32 final size:32
Alignment explanation
Indices: 45194--45307 Score: 174
Period size: 32 Copynumber: 3.6 Consensus size: 32
45184 CCCCCTTCCA
45194 TGAAGAAGACGCCGAGTACTCCACCCGAAAAG
1 TGAAGAAGACGCCGAGTACTCCACCCGAAAAG
* *
45226 TGAAGAAGACGCAGAGTACTCCACCTGAAAAG
1 TGAAGAAGACGCCGAGTACTCCACCCGAAAAG
* * * *
45258 TGAAGAATACGCCTAGTACTCCACCCCAAATG
1 TGAAGAAGACGCCGAGTACTCCACCCGAAAAG
45290 TGAAGAAGACGCCGAGTA
1 TGAAGAAGACGCCGAGTA
45308 TTCCTCTAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 72 1.00
ACGTcount: A:0.38, C:0.25, G:0.24, T:0.13
Consensus pattern (32 bp):
TGAAGAAGACGCCGAGTACTCCACCCGAAAAG
Found at i:45441 original size:27 final size:28
Alignment explanation
Indices: 45401--45472 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 28
45391 CCCCGTGAAT
*
45401 TCCCAC-GTCGAGCC-CCACATGCAGAGC
1 TCCCACTGTC-AGCCGCCACATACAGAGC
45428 TCCCACTGTCAGCCAGGGCCACATACAGAGC
1 TCCCACTGTCAGCC---GCCACATACAGAGC
45459 TCCCACTGTCAGCC
1 TCCCACTGTCAGCC
45473 AGGGCCACAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 10 0.26
28 3 0.08
31 26 0.67
ACGTcount: A:0.22, C:0.43, G:0.21, T:0.14
Consensus pattern (28 bp):
TCCCACTGTCAGCCGCCACATACAGAGC
Found at i:45457 original size:31 final size:31
Alignment explanation
Indices: 45415--45496 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
45405 ACGTCGAGCC
45415 CCACATGCAGAGCTCCCACTGTCAGCCAGGG
1 CCACATGCAGAGCTCCCACTGTCAGCCAGGG
*
45446 CCACATACAGAGCTCCCACTGTCAGCCAGGG
1 CCACATGCAGAGCTCCCACTGTCAGCCAGGG
* *
45477 CCACATGCACAACTCCCACT
1 CCACATGCAGAGCTCCCACT
45497 CTTAGCAGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.26, C:0.41, G:0.20, T:0.13
Consensus pattern (31 bp):
CCACATGCAGAGCTCCCACTGTCAGCCAGGG
Found at i:46581 original size:73 final size:72
Alignment explanation
Indices: 46469--46610 Score: 180
Period size: 73 Copynumber: 2.0 Consensus size: 72
46459 AAGGTTCGGG
* *
46469 TTTCGAGATTTTTTAAATAAGAATAGGTTTCAAATGTTGAAATTCGAACTTTACACTCGCTTGAT
1 TTTCGAGATTTTTTAAATAAGAATAGGTTTCAAATGTTGAAATTCAAACTTTACACTCGCTAGAT
46534 ACCGGTA
66 ACCGGTA
* * * * *
46541 TTTCGATG-TTTTTTAAAGTAAGAATATGG-TTCAGATGTTGAGATTCAAATTTTACATTGGCTA
1 TTTCGA-GATTTTTTAAA-TAAGAATA-GGTTTCAAATGTTGAAATTCAAACTTTACACTCGCTA
46604 GATACCG
63 GATACCG
46611 AGTTATTAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
72 15 0.25
73 43 0.72
74 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (72 bp):
TTTCGAGATTTTTTAAATAAGAATAGGTTTCAAATGTTGAAATTCAAACTTTACACTCGCTAGAT
ACCGGTA
Found at i:57043 original size:48 final size:44
Alignment explanation
Indices: 56947--57065 Score: 148
Period size: 48 Copynumber: 2.6 Consensus size: 44
56937 GTAACCATGT
*
56947 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGAA
* * * *
56991 AAATAAGCTTACAAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA---T-AATGGCAAGTATATTGGAA
*
57039 AAATAAGCTTACGAGCTTATGGGATAA
1 AAATAAGCTTACGAGCTTATGGAATAA
57066 ATGGTAAGGG
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
44 24 0.38
45 1 0.02
47 1 0.02
48 38 0.59
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGAA
Found at i:63462 original size:48 final size:48
Alignment explanation
Indices: 63364--63528 Score: 257
Period size: 48 Copynumber: 3.5 Consensus size: 48
63354 GTAACCATGT
* ** * *
63364 AAATAAGCTTATGAGCTTATGGAA---T-AATGACAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
63408 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
63456 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
63504 AAATAAGCTTACGAGCTTATGGAAT
1 AAATAAGCTTACGAGCTTATGGAAT
63529 AAATGGTAAG
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
44 23 0.21
47 1 0.01
48 88 0.79
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (48 bp):
AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
Found at i:67269 original size:35 final size:35
Alignment explanation
Indices: 67223--67301 Score: 149
Period size: 35 Copynumber: 2.3 Consensus size: 35
67213 TTCAACAACT
*
67223 ACTTGTTGGATATTATTATGTACAAAATTTTCAGA
1 ACTTGTGGGATATTATTATGTACAAAATTTTCAGA
67258 ACTTGTGGGATATTATTATGTACAAAATTTTCAGA
1 ACTTGTGGGATATTATTATGTACAAAATTTTCAGA
67293 ACTTGTGGG
1 ACTTGTGGG
67302 CTTACAATTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (35 bp):
ACTTGTGGGATATTATTATGTACAAAATTTTCAGA
Found at i:72739 original size:21 final size:20
Alignment explanation
Indices: 72653--72810 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
72643 AAATGACCAA
**
72653 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
72672 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
72692 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
72712 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
72733 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
72754 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
72774 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
72795 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
72811 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:72826 original size:40 final size:40
Alignment explanation
Indices: 72777--72931 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
72767 CGATTTTCCA
* ** *
72777 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
72817 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
72857 TAATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
72897 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
72932 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:72839 original size:20 final size:20
Alignment explanation
Indices: 72777--72930 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
72767 CGATTTTCCA
* ** *
72777 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
72797 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
72817 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
72837 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
72857 TAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
72877 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
72897 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
72918 AAATCGCAACGCG
1 AAATCGCAACGCG
72931 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:73352 original size:33 final size:33
Alignment explanation
Indices: 73313--73383 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
73303 TTCACTTAGA
*
73313 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
73346 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
73379 TTTCA
1 TTTCA
73384 AGTTAGTATT
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:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:73506 original size:20 final size:20
Alignment explanation
Indices: 73462--73571 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
73452 TGCAGAAGAG
*
73462 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
73483 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
73503 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
73524 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
73538 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
73557 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
73572 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:73519 original size:41 final size:38
Alignment explanation
Indices: 73455--73571 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
73445 TTCAATTTGC
* *
73455 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
73493 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
73534 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
73567 AGAAT
1 AGAAT
73572 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:73541 original size:14 final size:14
Alignment explanation
Indices: 73522--73578 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
73512 GAGAAATGAA
73522 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
73536 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
73555 AATCGCAACGAGAG
1 AATCGCAACGAGAG
73569 AATCGCAACG
1 AATCGCAACG
73579 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:73554 original size:33 final size:33
Alignment explanation
Indices: 73514--73594 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
73504 CGCAACGAGA
73514 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
73547 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
73580 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
73595 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:73612 original size:19 final size:19
Alignment explanation
Indices: 73590--73673 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
73580 GAAACCAAAA
*
73590 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
73609 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
73623 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
73642 TCGCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
73661 TCGCGTTGCGATT
1 TCGCGTTGCGATT
73674 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.18
16 3 0.05
17 3 0.05
19 40 0.71
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:73673 original size:52 final size:52
Alignment explanation
Indices: 73590--73695 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
73580 GAAACCAAAA
*
73590 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
*
73642 TCGCGTTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
73694 TC
1 TC
73696 AACCAAAAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:75551 original size:93 final size:93
Alignment explanation
Indices: 75392--75859 Score: 895
Period size: 93 Copynumber: 5.1 Consensus size: 93
75382 TAGATTGCTT
*
75392 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
75457 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
75485 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
75550 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
75578 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
75643 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
75671 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
75736 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
75764 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACATTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
75828 TTTGTCTTTGTTTTGTCTATTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
75855 AGTAA
1 AGTAA
75860 TGCAATCCAT
Statistics
Matches: 372, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
91 6 0.02
92 82 0.22
93 284 0.76
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:75931 original size:19 final size:19
Alignment explanation
Indices: 75907--76034 Score: 107
Period size: 19 Copynumber: 7.3 Consensus size: 19
75897 TAGTTTACTT
* *
75907 TCGCAACACGAAACTTAAA
1 TCGCAACGCGAAACTAAAA
*
75926 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
75945 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
*
75964 TCGCAA--CG--AC-AGAA
1 TCGCAACGCGAAACTAAAA
*
75978 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
*
75997 TCGCAA--CG--AC-AAGA
1 TCGCAACGCGAAACTAAAA
*
76011 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
76030 TCGCA
1 TCGCA
76035 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
14 18 0.20
15 3 0.03
16 4 0.04
17 4 0.04
18 4 0.04
19 56 0.63
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:75985 original size:33 final size:32
Alignment explanation
Indices: 75942--76034 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
75932 CGCGAAACCA
**
75942 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
75974 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
76007 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
76035 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:76032 original size:52 final size:51
Alignment explanation
Indices: 75907--76034 Score: 136
Period size: 52 Copynumber: 2.5 Consensus size: 51
75897 TAGTTTACTT
**
75907 TCGCAACACGAAACTTAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
75958 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC--CAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
76011 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACACGAAACCAAAATCGCA
76035 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
49 3 0.05
50 6 0.10
51 1 0.02
52 40 0.66
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (51 bp):
TCGCAACACGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:76052 original size:19 final size:19
Alignment explanation
Indices: 76030--76094 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
76020 GAAACCAAAA
76030 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
76049 TCGCGTTGCGA--TTC-TT
1 TCGCATTGCGATTTTCATT
76065 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
76082 TCGCATTGCGATT
1 TCGCATTGCGATT
76095 CCGTCGTTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 6 0.15
16 8 0.20
17 8 0.20
19 18 0.45
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:76077 original size:33 final size:33
Alignment explanation
Indices: 76035--76127 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
76025 CAAAATCGCA
**
76035 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCCGTCG
*
76068 TTGCGATTTTCATTTCGCATTGCGATTCCGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCCGTCG
*
76101 TTGCAATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
76128 TTAAGTTTCG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCCGTCG
Found at i:76142 original size:20 final size:19
Alignment explanation
Indices: 76099--76145 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
76089 GCGATTCCGT
* *
76099 CGTTGCAATTTTCATTTCG
1 CGTTGCGATTTTAATTTCG
76118 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTAA-TTTCG
*
76138 TGTTGCGA
1 CGTTGCGA
76146 AAGTAAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTAATTTCG
Found at i:78088 original size:14 final size:14
Alignment explanation
Indices: 78069--78104 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
78059 ATTGTTTAAT
78069 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
78083 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
78097 TGATTTGT
1 TGATTTGT
78105 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:78235 original size:19 final size:19
Alignment explanation
Indices: 78211--78289 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
78201 AAAATTGACT
78211 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
78230 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
78249 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
78263 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
78283 ATCGCAA
1 ATCGCAA
78290 CGGGAGAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 1 0.02
17 3 0.06
19 27 0.52
20 10 0.19
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:78283 original size:34 final size:34
Alignment explanation
Indices: 78229--78307 Score: 142
Period size: 34 Copynumber: 2.4 Consensus size: 34
78219 GCGAAATGAA
78229 AATCGCAATGC-GAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
*
78262 AATCGCAATGCGGAAATGAAAATCGCAACGGGAG
1 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
78296 AATCGCAATGCG
1 AATCGCAATGCG
78308 ATTTTAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 11 0.25
34 33 0.75
ACGTcount: A:0.42, C:0.19, G:0.27, T:0.13
Consensus pattern (34 bp):
AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
Found at i:78326 original size:19 final size:19
Alignment explanation
Indices: 78298--78538 Score: 279
Period size: 19 Copynumber: 13.7 Consensus size: 19
78288 AACGGGAGAA
* *
78298 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
78317 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
78333 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
78350 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
78369 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
78388 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
78407 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
78423 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
78440 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
78459 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
78475 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
78492 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
78510 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
78526 TCGCATTGCGATT
1 TCGCATTGCGATT
78539 CTCTCGTTGC
Statistics
Matches: 191, Mismatches: 10, Indels: 42
0.79 0.04 0.17
Matches are distributed among these distances:
14 29 0.15
16 23 0.12
17 19 0.10
18 3 0.02
19 105 0.55
20 12 0.06
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:78361 original size:52 final size:52
Alignment explanation
Indices: 78298--78552 Score: 201
Period size: 52 Copynumber: 4.9 Consensus size: 52
78288 AACGGGAGAA
* *
78298 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
78350 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATT
* * * * *
78407 TCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATT
1 TCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATT
* * *
78459 TCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TC-CGCATTGCGATTTTCA--
1 TCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG--TTGCGATTTTCATT
*
78510 T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
78553 GTAATTTCCA
Statistics
Matches: 175, Mismatches: 14, Indels: 33
0.79 0.06 0.15
Matches are distributed among these distances:
46 9 0.05
47 13 0.07
48 9 0.05
49 2 0.01
50 1 0.01
51 2 0.01
52 77 0.44
53 12 0.07
54 5 0.03
55 4 0.02
56 2 0.01
57 27 0.15
58 3 0.02
59 9 0.05
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:78560 original size:33 final size:33
Alignment explanation
Indices: 78304--78552 Score: 245
Period size: 33 Copynumber: 7.2 Consensus size: 33
78294 AGAATCGCAA
*
78304 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
78337 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
*
78375 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
78413 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
78446 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
78479 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
78513 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
78546 TGCGATT
1 TGCGATT
78553 GTAATTTCCA
Statistics
Matches: 185, Mismatches: 17, Indels: 28
0.80 0.07 0.12
Matches are distributed among these distances:
31 9 0.05
32 6 0.03
33 71 0.38
34 29 0.16
35 6 0.03
36 4 0.02
37 2 0.01
38 46 0.25
39 3 0.02
40 9 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:81788 original size:20 final size:20
Alignment explanation
Indices: 81760--82030 Score: 292
Period size: 20 Copynumber: 13.5 Consensus size: 20
81750 AAATTTCAGT
* *
81760 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
81780 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
81800 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
81820 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
81840 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
81860 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
81880 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
81900 GTTGCGATTTTATGTATTATC
1 GTTGCGA-TTTACGGATTCTC
* *
81921 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
81941 GTTGCGATTAACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
81961 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
81981 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
82001 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
82021 GTTGCGATTT
1 GTTGCGATTT
82031 TGGAAAATCG
Statistics
Matches: 214, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
20 198 0.93
21 16 0.07
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:81820 original size:40 final size:40
Alignment explanation
Indices: 81760--82030 Score: 330
Period size: 40 Copynumber: 6.8 Consensus size: 40
81750 AAATTTCAGT
* *
81760 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
81800 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
81840 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
* * * *
81880 GTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGA-TTTACGGATTATC
* * * *
81921 GTTGCGATTTACGGATACGCGTTGCGATTAACGGA-TACAC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTA-TC
* * * **
81961 GTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACG-GATTATC
* *
82001 GTTGCGATTTTCATATTCGCGTTGCGATTT
1 GTTGCGATTTACAGATTCGCGTTGCGATTT
82031 TGGAAAATCG
Statistics
Matches: 209, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
39 2 0.01
40 167 0.80
41 40 0.19
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (40 bp):
GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
Found at i:82047 original size:21 final size:21
Alignment explanation
Indices: 82017--82099 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
82007 ATTTTCATAT
*
82017 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
82038 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
82059 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
82080 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
82100 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:82090 original size:42 final size:43
Alignment explanation
Indices: 81997--82095 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
81987 ATTTATGTGT
* *
81997 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
82038 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
82080 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
82096 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:86558 original size:32 final size:32
Alignment explanation
Indices: 86482--86565 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 32
86472 ATTTTTTATC
86482 AAAAATTTTAATTTTATTATCTAATTTGTGAT
1 AAAAATTTTAATTTTATTATCTAATTTGTGAT
*
86514 -AACATTTTAATTTTATTATCTAATTTGTGAT
1 AAAAATTTTAATTTTATTATCTAATTTGTGAT
86545 AAAAATTTTAATTTTATTATC
1 AAAAATTTTAATTTTATTATC
86566 GAATATTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 30 0.61
32 19 0.39
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (32 bp):
AAAAATTTTAATTTTATTATCTAATTTGTGAT
Found at i:86984 original size:64 final size:64
Alignment explanation
Indices: 86915--87071 Score: 155
Period size: 64 Copynumber: 2.5 Consensus size: 64
86905 TTGAAGGTGT
** *
86915 ATCGATGCACTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAAGATCGAATGCA-ATTAGT
1 ATCGATGCACTGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATATTA-T
86977 GC
63 GC
* *
86979 ATCGATGCA-TAAGGCA-TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATTTTATG
1 ATCGATGCACT--GGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATG
87042 C
64 C
**
87043 A-CTGATGCACAAGTAGTGCATCGATGCAT
1 ATC-GATGCACTGGTAGTGCATCGATGCAT
87072 ACCTTCATTA
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
63 4 0.05
64 63 0.82
65 10 0.13
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (64 bp):
ATCGATGCACTGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:87444 original size:12 final size:12
Alignment explanation
Indices: 87427--87451 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87417 ATTCAAATAC
87427 ACATGTGATATG
1 ACATGTGATATG
87439 ACATGTGATATG
1 ACATGTGATATG
87451 A
1 A
87452 GAACATGACA
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:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (12 bp):
ACATGTGATATG
Found at i:87472 original size:29 final size:29
Alignment explanation
Indices: 87450--87588 Score: 244
Period size: 29 Copynumber: 4.8 Consensus size: 29
87440 CATGTGATAT
87450 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
*
87480 GAGAAATAACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
87509 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
87538 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
87567 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
87589 ACATATGAAA
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
28 7 0.07
29 93 0.89
30 5 0.05
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:89557 original size:24 final size:23
Alignment explanation
Indices: 89506--89573 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
89496 TTTAAGATAT
*
89506 ATTTTATTATATTTAATATTTTA
1 ATTTTATTATATTTAATATTTAA
*
89529 TTTTTAATT-TATTTAAGTATTTAA
1 ATTTT-ATTATATTTAA-TATTTAA
89553 ATTTT-TTAATATTT--TATTTAA
1 ATTTTATT-ATATTTAATATTTAA
89574 TTAATTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
21 7 0.18
22 2 0.05
23 11 0.29
24 18 0.47
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (23 bp):
ATTTTATTATATTTAATATTTAA
Found at i:89567 original size:8 final size:8
Alignment explanation
Indices: 89504--89568 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
89494 TGTTTAAGAT
89504 ATATTTTA
1 ATATTTTA
*
89512 TTATATTTA
1 ATAT-TTTA
89521 ATATTTT-
1 ATATTTTA
89528 AT-TTTTA
1 ATATTTTA
*
89535 ATTTATTTA
1 ATAT-TTTA
*
89544 AGTATTTAA
1 A-TATTTTA
*
89553 ATTTTTTA
1 ATATTTTA
89561 ATATTTTA
1 ATATTTTA
89569 TTTAATTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
6 4 0.09
7 4 0.09
8 19 0.42
9 16 0.36
10 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (8 bp):
ATATTTTA
Found at i:89568 original size:17 final size:19
Alignment explanation
Indices: 89527--89568 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
89517 TTTAATATTT
*
89527 TATTTTTAATTTATTTAAG
1 TATTTTAAATTTATTTAAG
89546 TA-TTTAAATTT-TTTAA-
1 TATTTTAAATTTATTTAAG
89562 TATTTTA
1 TATTTTA
89569 TTTAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 9 0.43
18 8 0.38
19 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTTAAATTTATTTAAG
Found at i:103953 original size:14 final size:14
Alignment explanation
Indices: 103934--103972 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
103924 TAATGGGGAG
103934 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
103948 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
103962 GAATCTCTGCA
1 TAATCCCTGCA
103973 TATAGACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:104306 original size:3 final size:3
Alignment explanation
Indices: 104298--104349 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
104288 ATGACATGAC
104298 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
104346 ATT A
1 ATT A
104350 ATTTCAATGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:107848 original size:12 final size:14
Alignment explanation
Indices: 107819--107850 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
107809 ATTATATATC
107819 ATATTTTCATTATT
1 ATATTTTCATTATT
107833 ATATTTT-ATT-TT
1 ATATTTTCATTATT
107845 ATATTT
1 ATATTT
107851 ATATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 3 0.17
14 7 0.39
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
ATATTTTCATTATT
Found at i:108011 original size:18 final size:19
Alignment explanation
Indices: 107983--108018 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
107973 TACCATCATT
*
107983 TTATGTATATATTTATTTA
1 TTATGTATATATATATTTA
108002 TTAT-TATATATATATTT
1 TTATGTATATATATATTT
108019 TTCTTCCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTATGTATATATATATTTA
Done.