Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004149.1 Hibiscus syriacus cultivar Beakdansim tig00009072_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: 95959
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Found at i:947 original size:65 final size:64
Alignment explanation
Indices: 792--951 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 64
782 AATTACATTG
*
792 AACATCGAATGCATTTCATGCATCGATGCA-CATACCATGCATCGATGCCTGAGGATTTTATAAA
1 AACATCGAATGCATTTGATGCATCGATGCACCATA-CATGCATCGATGCCTGAGGATTTTATAAA
*
856 AACATCGAATGCATTTGATGCATCGATGCACCAGT-CATGCATCGATGCACTCTG-GGCTATTT-
1 AACATCGAATGCATTTGATGCATCGATGCACCA-TACATGCATCGATG--C-CTGAGGAT-TTTA
*
918 T-GA
61 TAAA
*
921 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
952 TCTTAGTGAA
Statistics
Matches: 86, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
64 41 0.48
65 33 0.38
66 6 0.07
67 6 0.07
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACATGCATCGATGCCTGAGGATTTTATAAA
Found at i:5352 original size:232 final size:228
Alignment explanation
Indices: 4955--5421 Score: 726
Period size: 232 Copynumber: 2.0 Consensus size: 228
4945 ATTCATATAT
* * *
4955 TCGGGTCGGTGAAACTTTATTTTGGTCAGGTTGGGTCAGTTTTTTTAAGTGTGATATTCGGGTCG
1 TCGGGTCGGTGAAACTTTAATTTGGTCAGGTCGGGTCAGTTTTTTTAAGTGTGATATTCGAGTCG
* *
5020 GGTCAAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACCCGAAAATATATATAATTTACCTTA
66 GGTCAAGTTCAGGTTTAGGGTGAAAAATACCCGACCAGACCCGAAAATATATATAATTTACCTTA
*
5085 TATATTTAGGAATAATTACAATAATACCTCTCTATATATAATTTTTTCAATTAAGTCACTGTTTT
131 TATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTCAATTAAGTCACTG-TTT
5150 TATTGAATAAAAAT-ATTTTTTTATTATTTCGGG
195 TATTGAATAAAAATAATTTTTTTATTATTTCGGG
* * *
5183 TCGGGTCGGGTGAAACTTTAATTTGGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATATTTGAGT
1 TCGGGTC-GGTGAAACTTTAATTTGGTCAGGTCGGGTCAG-TTTTTTTAAGTGTGATATTCGAGT
**
5248 CGGGTCGGGTTCAGGTTTAGGGTGAAAATACTCGACCCGACCAGACCC-AAAA-A-ATATAATTT
64 CGGGTCAAGTTCAGGTTTAGGGTGAAAA-A-T--ACCCGACCAGACCCGAAAATATATATAA-TT
*
5310 TACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATATTTTTTTCAATTAAGTCA
124 TACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTCAATTAAGTCA
5375 CTGTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGG
189 CTGTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGG
5415 TCGGGTC
1 TCGGGTC
5422 TGGTCGGGTT
Statistics
Matches: 219, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
228 7 0.03
229 28 0.13
230 47 0.21
231 24 0.11
232 96 0.44
233 4 0.02
234 13 0.06
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.39
Consensus pattern (228 bp):
TCGGGTCGGTGAAACTTTAATTTGGTCAGGTCGGGTCAGTTTTTTTAAGTGTGATATTCGAGTCG
GGTCAAGTTCAGGTTTAGGGTGAAAAATACCCGACCAGACCCGAAAATATATATAATTTACCTTA
TATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTCAATTAAGTCACTGTTTT
ATTGAATAAAAATAATTTTTTTATTATTTCGGG
Found at i:6453 original size:19 final size:19
Alignment explanation
Indices: 6392--6458 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
6382 TAAATAAAAG
* *
6392 TTTAATATATTATATTCATA
1 TTTAATATTTTCTATT-ATA
*
6412 TTTAATATTTAATATCTAATATA
1 TTTAATA-TT--T-TCTATTATA
6435 TTTAATATTTTCTATTATA
1 TTTAATATTTTCTATTATA
6454 TTTAA
1 TTTAA
6459 ATTATCATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 13 0.33
20 8 0.21
21 1 0.03
22 2 0.05
23 11 0.28
24 4 0.10
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATATTTTCTATTATA
Found at i:7085 original size:16 final size:15
Alignment explanation
Indices: 7059--7088 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7049 GGTAAATTAT
7059 ACTATTTATCACTCA
1 ACTATTTATCACTCA
7074 ACTATCTTATCACTC
1 ACTAT-TTATCACTC
7089 TTATTTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (15 bp):
ACTATTTATCACTCA
Found at i:7218 original size:22 final size:22
Alignment explanation
Indices: 7190--7241 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
7180 ACATGGAATC
7190 TATTAATAACTCAAATTTATTT
1 TATTAATAACTCAAATTTATTT
*
7212 TATTAATAACTCAAGTTTATTT
1 TATTAATAACTCAAATTTATTT
7234 TATTAATA
1 TATTAATA
7242 TTTTATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (22 bp):
TATTAATAACTCAAATTTATTT
Found at i:7245 original size:33 final size:33
Alignment explanation
Indices: 7207--7278 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
7197 AACTCAAATT
*
7207 TATTTTATTAATAACTCAAGTTTATTTTATTAA
1 TATTTTATTAATAACTCAAATTTATTTTATTAA
*
7240 TATTTTATTAATAACTCAAATTTATTTTATTAT
1 TATTTTATTAATAACTCAAATTTATTTTATTAA
7273 TATTTT
1 TATTTT
7279 GATAACTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (33 bp):
TATTTTATTAATAACTCAAATTTATTTTATTAA
Found at i:7286 original size:30 final size:33
Alignment explanation
Indices: 7211--7291 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
7201 CAAATTTATT
* *
7211 TTATTAATAACTCAAGTTTATTTTATTAATATT
1 TTATTAATAACTCAAATTTATTTTATTAATATA
7244 TTATTAATAACTCAAATTTATTTTATT-AT-TA
1 TTATTAATAACTCAAATTTATTTTATTAATATA
*
7275 TT-TTGATAACTCAAATT
1 TTATTAATAACTCAAATT
7292 CGTTTATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 14 0.31
31 3 0.07
32 2 0.04
33 26 0.58
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (33 bp):
TTATTAATAACTCAAATTTATTTTATTAATATA
Found at i:9559 original size:35 final size:35
Alignment explanation
Indices: 9516--9623 Score: 171
Period size: 35 Copynumber: 3.1 Consensus size: 35
9506 AAAGTTTTTT
* *
9516 TTAAAATATCCTTTGTTATTTTAGTTTTTATTATA
1 TTAAAATATGCTTTGTTATTTTAATTTTTATTATA
* *
9551 TTGAAATATGCTTTGTTATTTTAATTATTATTATA
1 TTAAAATATGCTTTGTTATTTTAATTTTTATTATA
*
9586 TTAAAATATGATTTGTTATTTTAATTTTTATTATA
1 TTAAAATATGCTTTGTTATTTTAATTTTTATTATA
9621 TTA
1 TTA
9624 TTAGTAGCAG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (35 bp):
TTAAAATATGCTTTGTTATTTTAATTTTTATTATA
Found at i:9682 original size:30 final size:29
Alignment explanation
Indices: 9648--9725 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 29
9638 ATTAATAGTT
*
9648 GTATTAACTACTATTTAATTAGCT-TTATTA
1 GTATTAATTA-TATTTAATT-GCTCTTATTA
*
9678 GTATTAATTATCATGTAATTGCTCTTATTA
1 GTATTAATTAT-ATTTAATTGCTCTTATTA
9708 GTATTAATTATTATTTAA
1 GTATTAATTA-TATTTAA
9726 GTAATTATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.10
30 37 0.88
31 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (29 bp):
GTATTAATTATATTTAATTGCTCTTATTA
Found at i:9797 original size:18 final size:19
Alignment explanation
Indices: 9770--9809 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
9760 GTTACTTTTT
* *
9770 TTATTTTATT-AATAAGTA
1 TTATTATATTAAATAAATA
9788 TTATTATATTAAATAAATA
1 TTATTATATTAAATAAATA
9807 TTA
1 TTA
9810 AGATATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTATTATATTAAATAAATA
Found at i:12264 original size:215 final size:214
Alignment explanation
Indices: 11881--12285 Score: 688
Period size: 215 Copynumber: 1.9 Consensus size: 214
11871 CAATAAACAA
* *
11881 TAGATTCGATGATCCATAAATCATGAACGATTATATTTTCAGTGAAAACAGGTAACCAGAGAACA
1 TAGATTCCATAATCCATAAATCATGAACGATTATATTTTCAGTGAAAACAGGTAACCAGAGAACA
*
11946 CATACCATGCTGCCATAGTTCATTTAACATTGAATCAAAACATCAGTAAATCCAAAATTTTGAAA
66 CATACCATGCTGCCATAGTTCATTTAACATTGAATCAAAACATCAATAAATCCAAAATTTTGAAA
*
12011 AAATCACGTTTTAAAATAGGTAAAAATTTACATGTCACATAAGGAACACATTAGAGGATCCAAAC
131 AAATCACGTTTTAAAATAGGTAAAAATTTACATGTCACATAAGGAACACACTAGAGGATCCAAAC
12076 ATTCTTTGGAGGTACTCAG
196 ATTCTTTGGAGGTACTCAG
* *
12095 TAGATTCCATAATCTATAAATCATGAACGATTATAGTTTTTAGTGAAAACAGGTAACCAGAGAAC
1 TAGATTCCATAATCCATAAATCATGAACGATTATA-TTTTCAGTGAAAACAGGTAACCAGAGAAC
*
12160 ACATATCATG-TAGCCATAGTTCATTTAACATTGAATCAAAACATCAATAAATCCAAAATTTT-A
65 ACATACCATGCT-GCCATAGTTCATTTAACATTGAATCAAAACATCAATAAATCCAAAATTTTGA
* *
12223 GAAAATCACGTTTTAAAATAGGTAAAACATTTACTTGTCACATAAGGAACACACTAGAGGATC
129 AAAAATCACGTTTTAAAATAGGTAAAA-ATTTACATGTCACATAAGGAACACACTAGAGGATC
12286 GATCATTCAA
Statistics
Matches: 179, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
214 60 0.34
215 119 0.66
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (214 bp):
TAGATTCCATAATCCATAAATCATGAACGATTATATTTTCAGTGAAAACAGGTAACCAGAGAACA
CATACCATGCTGCCATAGTTCATTTAACATTGAATCAAAACATCAATAAATCCAAAATTTTGAAA
AAATCACGTTTTAAAATAGGTAAAAATTTACATGTCACATAAGGAACACACTAGAGGATCCAAAC
ATTCTTTGGAGGTACTCAG
Found at i:12560 original size:22 final size:23
Alignment explanation
Indices: 12535--12593 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
12525 CAAAGTTAAC
*
12535 AGTCAACGGTCAGACCGGTC-AA
1 AGTCAACGGTCAGACCGATCAAA
* *
12557 AGTCAACAGTTAGACCGATCAAA
1 AGTCAACGGTCAGACCGATCAAA
12580 AGTCAACGGGTCAG
1 AGTCAAC-GGTCAG
12594 GTCAAAGTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 17 0.57
23 9 0.30
24 4 0.13
ACGTcount: A:0.36, C:0.24, G:0.25, T:0.15
Consensus pattern (23 bp):
AGTCAACGGTCAGACCGATCAAA
Found at i:19067 original size:20 final size:20
Alignment explanation
Indices: 19044--19081 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19034 GAGAAACTCT
19044 TGACAAAATAAAGAAGTACC
1 TGACAAAATAAAGAAGTACC
*
19064 TGACAAAATAAAGGAGTA
1 TGACAAAATAAAGAAGTA
19082 TGTGATCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.11, G:0.18, T:0.16
Consensus pattern (20 bp):
TGACAAAATAAAGAAGTACC
Found at i:22701 original size:54 final size:54
Alignment explanation
Indices: 22612--22719 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
22602 TATGGAAGAG
22612 TTTGGGAGTCAAAGAAAGAACGAGCCTTTTCGAGAAATATGAAGACCTCGCCTT
1 TTTGGGAGTCAAAGAAAGAACGAGCCTTTTCGAGAAATATGAAGACCTCGCCTT
** * * *
22666 TTTGGGAGTCAAAGAAAGAACGAGTTTTTTTGAGAAATATGGAGACCTTGCCTT
1 TTTGGGAGTCAAAGAAAGAACGAGCCTTTTCGAGAAATATGAAGACCTCGCCTT
22720 ACTCTTTTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (54 bp):
TTTGGGAGTCAAAGAAAGAACGAGCCTTTTCGAGAAATATGAAGACCTCGCCTT
Found at i:23785 original size:15 final size:15
Alignment explanation
Indices: 23765--23798 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
23755 TGAGCGGGAG
23765 ATCATCTTAAAGGAT
1 ATCATCTTAAAGGAT
23780 ATCATCTTAAAGGAT
1 ATCATCTTAAAGGAT
23795 ATCA
1 ATCA
23799 AAGAGTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (15 bp):
ATCATCTTAAAGGAT
Found at i:26802 original size:137 final size:137
Alignment explanation
Indices: 26525--26805 Score: 370
Period size: 137 Copynumber: 2.1 Consensus size: 137
26515 ACCTAAGTGC
* * *
26525 CGAAATAGAAATTCACAAATTCATTATGAATTCCATGGATGCACACATAGAGCCGAAAGTACATA
1 CGAAATGGAAATTCACAAACTCATTATGAATTCCATGGATGCACACATAGAGCCGAAAGTACACA
* ** *
26590 TAGTACTGATACGAAAATGCAACATATACATTAAACAAAATCGATCGATAACTTTTATACACAAT
66 TAGTAATGATACGAAAATGCAACATATACATTAAACAAAATCGATCGATAACCATCATACACAAT
26655 TGTATCT
131 TGTATCT
* * * * *
26662 CGAAATGGTAATTCATAAACTCATTATTAATAT-CATGGTTGCACATC-TAGTGCCGAAAGTACA
1 CGAAATGGAAATTCACAAACTCATTATGAAT-TCCATGGATGCACA-CATAGAGCCGAAAGTACA
* * *
26725 CATAGTAATGATACGAAAATGCAACATTATGCATTACACAAAATCGATCGATAACCATCATATAC
64 CATAGTAATGATACGAAAATGCAACA-TATACATTAAACAAAATCGATCGATAACCATCATACAC
*
26790 AATT-TATGT
128 AATTGTATCT
26799 CGAAATG
1 CGAAATG
26806 CACCTATGAC
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
137 87 0.70
138 38 0.30
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (137 bp):
CGAAATGGAAATTCACAAACTCATTATGAATTCCATGGATGCACACATAGAGCCGAAAGTACACA
TAGTAATGATACGAAAATGCAACATATACATTAAACAAAATCGATCGATAACCATCATACACAAT
TGTATCT
Found at i:28437 original size:14 final size:13
Alignment explanation
Indices: 28418--28468 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
28408 CATGTTAGAT
28418 TAAACCCTAAACAC
1 TAAACCCTAAAC-C
*
28432 TAAACCTTAAATCC
1 TAAACCCTAAA-CC
*
28446 -AAACCCTAGACC
1 TAAACCCTAAACC
28458 ATAAACCCTAA
1 -TAAACCCTAA
28469 GTATTAAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 2 0.07
13 8 0.27
14 19 0.63
15 1 0.03
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (13 bp):
TAAACCCTAAACC
Found at i:28578 original size:7 final size:7
Alignment explanation
Indices: 28558--28667 Score: 51
Period size: 7 Copynumber: 15.7 Consensus size: 7
28548 GTTAGATTAT
28558 ACCCTAA
1 ACCCTAA
**
28565 ATTCTAA
1 ACCCTAA
28572 ACCCTAA
1 ACCCTAA
*
28579 ACTCTAA
1 ACCCTAA
***
28586 ATTATAA
1 ACCCTAA
**
28593 ACTATAA
1 ACCCTAA
* *
28600 GCCATAA
1 ACCCTAA
28607 ACCCTAA
1 ACCCTAA
*
28614 ATCCTAA
1 ACCCTAA
*
28621 ACCTTAA
1 ACCCTAA
**
28628 ACTATAA
1 ACCCTAA
28635 ACCCTAA
1 ACCCTAA
*
28642 A-ACTAA
1 ACCCTAA
*
28648 AGACCTAA
1 A-CCCTAA
*
28656 GCCCTAA
1 ACCCTAA
28663 ACCCT
1 ACCCT
28668 TAATATGATT
Statistics
Matches: 77, Mismatches: 24, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
6 5 0.06
7 68 0.88
8 4 0.05
ACGTcount: A:0.45, C:0.29, G:0.03, T:0.23
Consensus pattern (7 bp):
ACCCTAA
Found at i:28621 original size:28 final size:28
Alignment explanation
Indices: 28569--28642 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
28559 CCCTAAATTC
* * *
28569 TAAACCCTAAACTCTAAATTATAAA-CT
1 TAAACCATAAACCCTAAATCATAAACCT
* *
28596 ATAAGCCATAAACCCTAAATCCTAAACCT
1 -TAAACCATAAACCCTAAATCATAAACCT
*
28625 TAAACTATAAACCCTAAA
1 TAAACCATAAACCCTAAA
28643 ACTAAAGACC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (28 bp):
TAAACCATAAACCCTAAATCATAAACCT
Found at i:28626 original size:137 final size:137
Alignment explanation
Indices: 28372--28627 Score: 316
Period size: 137 Copynumber: 1.9 Consensus size: 137
28362 CATTGTATAT
* *
28372 TACTAAAAGAAAAATAAAAGCCCATTTAATTAAGCACATGTTAGATTAAACCCTAAACACTAAAC
1 TACTAAAAGAAAAATAAAAGCCCATTTAATTAAACACACGTTAGATTAAACCCTAAACACTAAAC
* * * * ** *
28437 CTTAAATCCAAACCCTAGACCATAAACCCTAAGTATTAAACCCTAAATCCTTAATCCGATTATAT
66 CCTAAATCCAAACCATAAACCATAAACCATAAACACTAAACCCTAAATCCTTAATCCGATTATAT
28502 GATAAGG
131 GATAAGG
* * **
28509 TACTAAAAGAAAAATAAAAGCCCATTTAATTAAACATACGTTAGATTATACCCTAAATTCTAAAC
1 TACTAAAAGAAAAATAAAAGCCCATTTAATTAAACACACGTTAGATTAAACCCTAAACACTAAAC
* ** * * * *
28574 CCTAAACTCTAAATTATAAACTATAAGCCATAAACCCTAAATCCTAAA-CCTTAA
66 CCTAAA-TCCAAACCATAAACCATAAACCATAAACACTAAACCCTAAATCCTTAA
28628 ACTATAAACC
Statistics
Matches: 98, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
137 70 0.71
138 28 0.29
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.26
Consensus pattern (137 bp):
TACTAAAAGAAAAATAAAAGCCCATTTAATTAAACACACGTTAGATTAAACCCTAAACACTAAAC
CCTAAATCCAAACCATAAACCATAAACCATAAACACTAAACCCTAAATCCTTAATCCGATTATAT
GATAAGG
Found at i:36618 original size:25 final size:24
Alignment explanation
Indices: 36581--36628 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
36571 ATTACTATTT
*
36581 TATGTATGGTATGTACATTTTTATG
1 TATGTATGGTATGCA-ATTTTTATG
*
36606 TATGTATGTTATGCAATTTTTAT
1 TATGTATGGTATGCAATTTTTAT
36629 TTTCAACCTT
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:0.25, C:0.04, G:0.17, T:0.54
Consensus pattern (24 bp):
TATGTATGGTATGCAATTTTTATG
Found at i:48413 original size:163 final size:163
Alignment explanation
Indices: 48122--48487 Score: 533
Period size: 163 Copynumber: 2.2 Consensus size: 163
48112 CCACGTTTGA
* *
48122 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATTTATGAAGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTTATGAAGATTGT
** * *
48187 GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATA
66 AAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATCGATGAAGATTGTTCGAGTCTTATA
* * *
48252 CTCTCTGAAGAAATAGGGGGCAGACGCGATTGT
131 CTCTCTGAAGAAATAGGGAGCAGACACGATTAT
48285 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGT-TGAAGATTG
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATT-TATGAAGATTG
* *
48349 CTCAAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATTGATGAAGATTG-T-GGGTCTT
65 -T-AAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATCGATGAAGATTGTTCGAGTCTT
*
48412 ATACTCTCTGAAGAAATAGGGAGCATACACGATTAT
128 ATACTCTCTGAAGAAATAGGGAGCAGACACGATTAT
* * *
48448 TGAAGATTGTCCGAGT-TCTATACTCTCTAAAGAAAGAGGG
1 TGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGG
48488 AGCGAACCCG
Statistics
Matches: 184, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
162 1 0.01
163 133 0.72
164 3 0.02
165 47 0.26
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (163 bp):
TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTTATGAAGATTGT
AAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATCGATGAAGATTGTTCGAGTCTTATA
CTCTCTGAAGAAATAGGGAGCAGACACGATTAT
Found at i:48471 original size:108 final size:108
Alignment explanation
Indices: 48113--48487 Score: 547
Period size: 108 Copynumber: 3.5 Consensus size: 108
48103 ATAGGTTCCC
* * * * *
48113 CACGTTTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATTTAT
1 CACGATTGTTGAAGATTGTCCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
48178 GAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGA
66 GAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGA
* * * *
48221 CGCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTT
1 CACGATTGTTGAAGATTGTCCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
*
48286 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA
66 GAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGA
* *
48331 CACGATTGTTGAAGATTG-CTCAAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATTGA
1 CACGATTGTTGAAGATTGTC-CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
* *
48395 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCATA
65 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGA
* * *
48439 CACGATTATTGAAGATTGTCCGAGT-TCTATACTCTCTAAAGAAAGAGGG
1 CACGATTGTTGAAGATTGTCCGAGTCT-TATACTCTCTGAAGAAATAGGG
48488 AGCGAACCCG
Statistics
Matches: 241, Mismatches: 21, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
107 1 0.00
108 138 0.57
109 3 0.01
110 99 0.41
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (108 bp):
CACGATTGTTGAAGATTGTCCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
GAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGA
Found at i:48490 original size:55 final size:55
Alignment explanation
Indices: 48122--48487 Score: 528
Period size: 55 Copynumber: 6.7 Consensus size: 55
48112 CCACGTTTGA
*
48122 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATT-T
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT
* *
48176 ATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
1 -TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT
48230 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT
*
48285 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT
* * * *
48340 TGAAGATTGCTCAAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATTGA
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT
* * * * *
48395 TGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGAGCATACACGATTAT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT
* * *
48448 TGAAGATTGTCCGAGT-TCTATACTCTCTAAAGAAAGAGGG
1 TGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGG
48488 AGCGAACCCG
Statistics
Matches: 282, Mismatches: 23, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
53 91 0.32
54 5 0.02
55 186 0.66
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (55 bp):
TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT
Found at i:50621 original size:25 final size:24
Alignment explanation
Indices: 50584--50631 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
50574 ATTACTATTT
*
50584 TATGTATGGTATGTACATTTTTATG
1 TATGTATGGTATGCA-ATTTTTATG
*
50609 TATGTATGTTATGCAATTTTTAT
1 TATGTATGGTATGCAATTTTTAT
50632 TTTCAACCTT
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:0.25, C:0.04, G:0.17, T:0.54
Consensus pattern (24 bp):
TATGTATGGTATGCAATTTTTATG
Found at i:54059 original size:71 final size:70
Alignment explanation
Indices: 53935--54244 Score: 239
Period size: 71 Copynumber: 4.4 Consensus size: 70
53925 GAAAATCACA
* * * * * * * * *
53935 AGCCTTAGTCATAGATGACAACTCGTTAGTAGGTGAACCCTTAACCATAGAGGAAGTTGAACGTA
1 AGCCTCAGTCATAGAGGAC-ACTCATTAGTAGATGAACCCTCAGCAATGGAGGAAGTTGAACGCA
54000 ACCTCG
65 ACCTCG
** * * *
54006 AGCCTCAACCATAGAGGATAGCTCATTAGTAGGA-GAACCCTCAGCTATGGAGGAAGATGAACGC
1 AGCCTCAGTCATAGAGGACA-CTCATTAGTA-GATGAACCCTCAGCAATGGAGGAAGTTGAACGC
*
54070 AACCCCG
64 AACCTCG
* * * * * *
54077 AGTCTCAGTCATGGAAGACACCCCATTAGTATATGAACCCTCAGCAATGGAGGAAGTTAAACGCA
1 AGCCTCAGTCATAGAGGACA-CTCATTAGTAGATGAACCCTCAGCAATGGAGGAAGTTGAACGCA
*
54142 A-CTCAA
65 ACCTC-G
* * * * * * * *
54148 AACCTCAGTCATAGAGGACACATCATTAGTAGATGAACCCTCATCCATAGAGGAAATCGAGCGTA
1 AGCCTCAGTCATAGAGGACAC-TCATTAGTAGATGAACCCTCAGCAATGGAGGAAGTTGAACGCA
*
54213 ATCC-CA
65 A-CCTCG
* *
54219 AGCCTCAGTCATTGAGGACCCTCATT
1 AGCCTCAGTCATAGAGGACACTCATT
54245 CAATTTCTAT
Statistics
Matches: 187, Mismatches: 45, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
70 10 0.05
71 174 0.93
72 2 0.01
73 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (70 bp):
AGCCTCAGTCATAGAGGACACTCATTAGTAGATGAACCCTCAGCAATGGAGGAAGTTGAACGCAA
CCTCG
Found at i:54428 original size:35 final size:35
Alignment explanation
Indices: 54381--54472 Score: 148
Period size: 35 Copynumber: 2.6 Consensus size: 35
54371 TGTGCATTGC
* * *
54381 TATTTTAGTTATTATTATATTAAATTATTCTTTGT
1 TATTTTAATTATTATTATATTAAAATATGCTTTGT
54416 TATTTTAATTATTATTATATTAAAATATGCTTTGT
1 TATTTTAATTATTATTATATTAAAATATGCTTTGT
*
54451 TATTTTAATTGTTATTATATTA
1 TATTTTAATTATTATTATATTA
54473 TTAGTAGTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (35 bp):
TATTTTAATTATTATTATATTAAAATATGCTTTGT
Found at i:62080 original size:3 final size:3
Alignment explanation
Indices: 62072--62191 Score: 107
Period size: 3 Copynumber: 39.0 Consensus size: 3
62062 ACCCTATTCC
* * * * *
62072 ATT ATT ATT TTT ACT ATT ATT ATT ATT ATT -TT AAT ACAT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
* *
62117 ATAT ATT ATT ATT TTT ATTT ATT ATT ATT ATT ATT ATT ATT AACT ATT
1 AT-T ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
* * *
62165 ATT ATT ATT ATA ACT ATT TTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
62192 TCAAAATACA
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.02
3 81 0.86
4 11 0.12
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:62166 original size:28 final size:26
Alignment explanation
Indices: 62086--62191 Score: 110
Period size: 28 Copynumber: 4.0 Consensus size: 26
62076 TTATTTTTAC
*
62086 TATTATTATTATTATTTTAATACATAT
1 TATTATTATTATTATTTTAATA-TTAT
* *
62113 TACTATATATTATTATTTTTAT-TTAT
1 TATTAT-TATTATTATTTTAATATTAT
62139 TATTATTATTATTATTATTAACTATTAT
1 TATTATTATTATTATT-TTAA-TATTAT
* *
62167 TATTATTATAACTATTTT--TATTAT
1 TATTATTATTATTATTTTAATATTAT
62191 T
1 T
62192 TCAAAATACA
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
24 7 0.10
25 10 0.15
26 11 0.16
27 8 0.12
28 32 0.47
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
TATTATTATTATTATTTTAATATTAT
Found at i:62266 original size:29 final size:29
Alignment explanation
Indices: 62233--62303 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
62223 ATGTAAATGC
62233 AACCCATCAATCAACCCATATCCATTACA
1 AACCCATCAATCAACCCATATCCATTACA
*
62262 AACCCATCAATCAGCCCATATCCATTACA
1 AACCCATCAATCAACCCATATCCATTACA
62291 AACCCATC-ATCAA
1 AACCCATCAATCAA
62304 ACCGAAAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 4 0.10
29 36 0.90
ACGTcount: A:0.41, C:0.38, G:0.01, T:0.20
Consensus pattern (29 bp):
AACCCATCAATCAACCCATATCCATTACA
Found at i:62267 original size:17 final size:17
Alignment explanation
Indices: 62245--62297 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
62235 CCCATCAATC
62245 AACCCATATCCATTACA
1 AACCCATATCCATTACA
*
62262 AACCC--AT-CAAT-C-
1 AACCCATATCCATTACA
*
62274 AGCCCATATCCATTACA
1 AACCCATATCCATTACA
62291 AACCCAT
1 AACCCAT
62298 CATCAAACCG
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
12 4 0.15
13 1 0.04
14 5 0.19
15 5 0.19
16 1 0.04
17 11 0.41
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.21
Consensus pattern (17 bp):
AACCCATATCCATTACA
Found at i:67018 original size:40 final size:40
Alignment explanation
Indices: 66939--67075 Score: 152
Period size: 40 Copynumber: 3.5 Consensus size: 40
66929 TATACACATG
* ***
66939 GAAGACGCCGAGAGATCCAAG-CAACATGGAAATTGTGTT
1 GAAGACGCTGAGAGATCCAAGTTTGCATGGAAATTGTGTT
* *
66978 GAAGATGCTGAGAGCTCCAAGTTTGCATGGAAATTGTGTT
1 GAAGACGCTGAGAGATCCAAGTTTGCATGGAAATTGTGTT
* * * *
67018 GAAGACG-TCAAGAGATCCTATTTTGCATGGAAATTATGTT
1 GAAGACGCT-GAGAGATCCAAGTTTGCATGGAAATTGTGTT
*
67058 GAAGACGCCGAGAGATCC
1 GAAGACGCTGAGAGATCC
67076 CTCGAACGAA
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 19 0.23
40 62 0.77
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (40 bp):
GAAGACGCTGAGAGATCCAAGTTTGCATGGAAATTGTGTT
Found at i:72854 original size:3 final size:3
Alignment explanation
Indices: 72846--72912 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
72836 GCCCGGACCC
72846 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
72894 ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
72913 ACTACTTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:79935 original size:19 final size:19
Alignment explanation
Indices: 79911--79955 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
79901 GATAAAATAT
*
79911 AGAAAAAGAA-GAAAAATG
1 AGAAAAAAAATGAAAAATG
79929 AGAAAAAAAATGAAAAATG
1 AGAAAAAAAATGAAAAATG
79948 AGAAAAAA
1 AGAAAAAA
79956 TAAATCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (19 bp):
AGAAAAAAAATGAAAAATG
Found at i:79955 original size:18 final size:17
Alignment explanation
Indices: 79897--79955 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 17
79887 GGAAAAAGAG
*
79897 AAAAGATAAAATATAGAAA
1 AAAAGA-AAAAT-GAGAAA
79916 AAGAAGAAAAATGAGAAAA
1 AA-AAGAAAAATGAG-AAA
79935 AAAATGAAAAATGAGAAA
1 AAAA-GAAAAATGAGAAA
79953 AAA
1 AAA
79956 TAAATCAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 10 0.28
19 22 0.61
20 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (17 bp):
AAAAGAAAAATGAGAAA
Found at i:81872 original size:38 final size:38
Alignment explanation
Indices: 81817--82386 Score: 624
Period size: 38 Copynumber: 14.7 Consensus size: 38
81807 AGCTTCAACC
* *
81817 TGACTTCCTCGTAAAGAGAAGTCGAT-TTATGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTT-TGTTATTCT
* *
81855 TGACTTCCTCGTGAAGAGAAATCGATCTTTGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
*
81893 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTTT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* * *** * *
81931 TGACTTCCTTGTGAAGATAAGTTGGTCTTTGTTGTTAT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
*
81969 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTCATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* * *
82007 TGACTTCCTCGTGAAGAGAGGAT-AATCATTGTTATTTT
1 TGACTTCCTCGTGAAGAGAAG-TCAATCTTTGTTATTCT
* * *
82045 TAACTACCTCGTGAAGAGAATTCAATCTTTGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* * * *
82083 TGACTCCCTCATGAAGAGGAGTCAATCTTTCTTTGTTATTCC
1 TGACTTCCTCGTGAAGAGAAGTCAA----TCTTTGTTATTCT
*
82125 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTCATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* *
82163 TGACTTCCTCGTGAAGAGAGGTCAATCTTTGTTATTTT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* * * * *
82201 TTACTACCTCGTGAAGAGAAGTCAATTTTTATTATTCA
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* *
82239 TGACTTCCTCATGAAGAGAAGTCAATCTTTCAATATTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCT
* *
82281 TGACTTCCTCATGAAGAGAAGTCGATCTTTGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
** *
82319 TGACCCCCTCGTGAAGATG-AGCCAATCTTTCAGTGTTATTCT
1 TGACTTCCTCGTGAAGA-GAAGTCAATC-TT---TGTTATTCT
* *
82361 TGACTTTCTCGTGAAGAGGAGTCAAT
1 TGACTTCCTCGTGAAGAGAAGTCAAT
82387 ATTTCAGTGT
Statistics
Matches: 448, Mismatches: 67, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.00
38 339 0.76
39 8 0.02
41 3 0.01
42 97 0.22
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (38 bp):
TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
Found at i:82129 original size:42 final size:42
Alignment explanation
Indices: 81817--82467 Score: 417
Period size: 38 Copynumber: 16.4 Consensus size: 42
81807 AGCTTCAACC
* * *
81817 TGACTTCCTCGTAAAGAGAAGTCGA---TT-TATGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
**
81855 TGACTTCCTCGTGAAGAG-A---AATCGATCTTTGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
*
81893 TGACTTCCTCGTGAAGAGAAGTCAA----TCTTTGTTATTTT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
* * ** * *
81931 TGACTTCCTTGTGAAGATAAGT---T-GGTCTTTGTTGTTAT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
*
81969 TGACTTCCTCGTGAAGAGAAGTCAA----TCTTTGTCATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
* * *
82007 TGACTTCCTCGTGAAGAGAGGAT-AA----TCATTGTTATTTT
1 TGACTTCCTCGTGAAGAGAAG-TCAATCTTTCTTTGTTATTCT
* * *
82045 TAACTACCTCGTGAAGAGAATTCAA----TCTTTGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
* * * *
82083 TGACTCCCTCATGAAGAGGAGTCAATCTTTCTTTGTTATTCC
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
*
82125 TGACTTCCTCGTGAAGAGAAGTCAA----TCTTTGTCATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
* *
82163 TGACTTCCTCGTGAAGAGAGGTCAA----TCTTTGTTATTTT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
* * * *
82201 TTACTACCTCGTGAAGAGAAGTCAA---TT-TTTATTATTCA
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
* ** *
82239 TGACTTCCTCATGAAGAGAAGTCAATCTTTCAATATTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
* *
82281 TGACTTCCTCATGAAGAGAAGTCGA----TCTTTGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
** * **
82319 TGACCCCCTCGTGAAGATG-AGCCAATCTTTCAGTGTTATTCT
1 TGACTTCCTCGTGAAGA-GAAGTCAATCTTTCTTTGTTATTCT
* * *
82361 TGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTGTTGTT-TTCCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTC--T-TTGTTATT-CT
* * * * **
82406 TGTCTTTCTCGTGAAGATG-AGTCAATATTTTAGTGTTGTCCTTCT
1 TGACTTCCTCGTGAAGA-GAAGTCAAT-CTTT-CT-TTGTTATTCT
*
82451 TGACTTTCTCGTGAAGA
1 TGACTTCCTCGTGAAGA
82468 TGAGACAATA
Statistics
Matches: 501, Mismatches: 73, Indels: 71
0.78 0.11 0.11
Matches are distributed among these distances:
34 1 0.00
37 3 0.01
38 326 0.65
39 4 0.01
41 3 0.01
42 103 0.21
44 2 0.00
45 53 0.11
46 6 0.01
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (42 bp):
TGACTTCCTCGTGAAGAGAAGTCAATCTTTCTTTGTTATTCT
Found at i:82177 original size:156 final size:157
Alignment explanation
Indices: 81815--82335 Score: 680
Period size: 156 Copynumber: 3.4 Consensus size: 157
81805 GAAGCTTCAA
* * * *
81815 CCTGACTTCCTCGTAAAGAGAAGTCGAT-TTATGTTATTCTTGACTTCCTCGTGAAGAGA-AATC
1 CCTGACTTCCTCGTGAAGAGAAGTCAATCTT-TGTCATTCTTGACTTCCTCGTGAAGAGAGGATC
* * * * * **
81878 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTTTTGACTTCCTTGT
65 AATCTTTGTTATTTTTAACTACCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCAT
* *** *
81943 GAAGATAAGTTGGTCTTT-GTTGTTA-T
130 GAAGAGAAGTCAATCTTTCATTGTTATT
81969 --TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTCATTCTTGACTTCCTCGTGAAGAGAGGAT-A
1 CCTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTCATTCTTGACTTCCTCGTGAAGAGAGGATCA
* * *
82031 ATCATTGTTATTTTTAACTACCTCGTGAAGAGAATTCAATCTTTGTTATTCTTGACTCCCTCATG
66 ATCTTTGTTATTTTTAACTACCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCATG
* *
82096 AAGAGGAGTCAATCTTTCTTTGTTATT
131 AAGAGAAGTCAATCTTTCATTGTTATT
82123 CCTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTCATTCTTGACTTCCTCGTGAAGAGAGG-TCA
1 CCTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTCATTCTTGACTTCCTCGTGAAGAGAGGATCA
* * * *
82187 ATCTTTGTTATTTTTTACTACCTCGTGAAGAGAAGTCAATTTTTATTATTCATGACTTCCTCATG
66 ATCTTTGTTATTTTTAACTACCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCATG
* *
82252 AAGAGAAGTCAATCTTTCAATATTATT
131 AAGAGAAGTCAATCTTTCATTGTTATT
* * * * **
82279 CTTGACTTCCTCATGAAGAGAAGTCGATCTTTGTTATTCTTGACCCCCTCGTGAAGA
1 CCTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTCATTCTTGACTTCCTCGTGAAGA
82336 TGAGCCAATC
Statistics
Matches: 323, Mismatches: 37, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
152 119 0.37
153 10 0.03
154 1 0.00
155 1 0.00
156 192 0.59
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (157 bp):
CCTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTCATTCTTGACTTCCTCGTGAAGAGAGGATCA
ATCTTTGTTATTTTTAACTACCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCATG
AAGAGAAGTCAATCTTTCATTGTTATT
Found at i:82428 original size:45 final size:44
Alignment explanation
Indices: 82326--82550 Score: 274
Period size: 45 Copynumber: 5.1 Consensus size: 44
82316 TCTTGACCCC
* * * *
82326 CTCGTGAAGATGAGCCAATCTTTCAGTG-T-TATTCTTGACTTT
1 CTCGTGAAGATGAGTCAATATTTTAGTGTTGTCTTCTTGACTTT
* * * *
82368 CTCGTGAAGAGGAGTCAATATTTCAGTGTTGTTTTCCTTGTCTTT
1 CTCGTGAAGATGAGTCAATATTTTAGTGTTGTCTT-CTTGACTTT
82413 CTCGTGAAGATGAGTCAATATTTTAGTGTTGTCCTTCTTGACTTT
1 CTCGTGAAGATGAGTCAATATTTTAGTGTTGT-CTTCTTGACTTT
* *
82458 CTCGTGAAGATGAGACAATATTTTAGTGTTGCCCTTCTTGACTTT
1 CTCGTGAAGATGAGTCAATATTTTAGTGTTG-TCTTCTTGACTTT
* * * *
82503 TTTGGGAAGATAAGTCAATATTTTAGTGTTGTCCTTCTTGACTTT
1 CTCGTGAAGATGAGTCAATATTTTAGTGTTGT-CTTCTTGACTTT
82548 CTC
1 CTC
82551 ACTAAGAGAA
Statistics
Matches: 158, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
42 25 0.16
43 1 0.01
44 3 0.02
45 127 0.80
46 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (44 bp):
CTCGTGAAGATGAGTCAATATTTTAGTGTTGTCTTCTTGACTTT
Found at i:82563 original size:45 final size:44
Alignment explanation
Indices: 82357--82609 Score: 269
Period size: 45 Copynumber: 5.6 Consensus size: 44
82347 TTCAGTGTTA
* *
82357 TTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTGTTGT-T
1 TTCTTGACTTTCTCGTGAAGA-GAGTCAATATTTTAGTGTTGTCC
*
82401 TTCCTTGTCTTTCTCGTGAAGATGAGTCAATATTTTAGTGTTGTCC
1 TT-CTTGACTTTCTCGTGAAGA-GAGTCAATATTTTAGTGTTGTCC
* *
82447 TTCTTGACTTTCTCGTGAAGATGAGACAATATTTTAGTGTTGCCC
1 TTCTTGACTTTCTCGTGAAGA-GAGTCAATATTTTAGTGTTGTCC
* * * *
82492 TTCTTGACTTTTTTGGGAAGATAAGTCAATATTTTAGTGTTGTCC
1 TTCTTGACTTTCTCGTGAAGA-GAGTCAATATTTTAGTGTTGTCC
* * * * *
82537 TTCTTGACTTTCTCACT-AAGAGAAGTCGATCTTTTGGTGTTTTCC
1 TTCTTGACTTTCTC-GTGAAGAG-AGTCAATATTTTAGTGTTGTCC
* *
82582 TT-TTGACTTTCTCGCGGAGAAGAGTCAA
1 TTCTTGACTTTCTCGTGAAG-AGAGTCAA
82610 CTTTTAAGTA
Statistics
Matches: 177, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
44 20 0.11
45 155 0.88
46 2 0.01
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (44 bp):
TTCTTGACTTTCTCGTGAAGAGAGTCAATATTTTAGTGTTGTCC
Found at i:82577 original size:135 final size:131
Alignment explanation
Indices: 82326--82595 Score: 303
Period size: 135 Copynumber: 2.0 Consensus size: 131
82316 TCTTGACCCC
* * * *
82326 CTCGTGAAGATGAGCCAATCTTTCAGTGTTATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTT
1 CTCGTGAAGATGAGACAATATTTCAGTGTTATTCTTGACTTTCTCGGGAAGAGAAGTCAATATTT
* * *
82391 CAGTGTTGTTTTCCTTGTCTTTCTCGTGAAGATGAGTCAATATTTTAGTGTTGTCCTTCTTGACT
66 CAGTGTTGTCTTCCTTGACTTTCTCCTGAAGATGAGTCAATATTTTAGTGTTGTCCTT-TTGACT
82456 TT
130 TT
* * * * *
82458 CTCGTGAAGATGAGACAATATTTTAGTGTTGCCCTTCTTGACTTTTTTGGGAAGATAAGTCAATA
1 CTCGTGAAGATGAGACAATATTTCAGTGTT---ATTCTTGACTTTCTCGGGAAGAGAAGTCAATA
* * * * *
82523 TTTTAGTGTTGTCCTT-CTTGACTTTCTCACT-AAGA-GAAGTCGATCTTTTGGTGTTTTCCTTT
63 TTTCAGTGTTGT-CTTCCTTGACTTTCTC-CTGAAGATG-AGTCAATATTTTAGTGTTGTCCTTT
82585 TGACTTT
125 TGACTTT
82592 CTCG
1 CTCG
82596 CGGAGAAGAG
Statistics
Matches: 115, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
132 27 0.23
134 13 0.11
135 72 0.63
136 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (131 bp):
CTCGTGAAGATGAGACAATATTTCAGTGTTATTCTTGACTTTCTCGGGAAGAGAAGTCAATATTT
CAGTGTTGTCTTCCTTGACTTTCTCCTGAAGATGAGTCAATATTTTAGTGTTGTCCTTTTGACTT
T
Found at i:83412 original size:134 final size:134
Alignment explanation
Indices: 83172--83776 Score: 811
Period size: 134 Copynumber: 4.5 Consensus size: 134
83162 ACTGTTTTAT
* * * * * * * *
83172 TTTCAGATTCGATCTTCTTGAAGACAAGAGAAGCAAATCAATTATGATTCAATCTTCCCTAAAGA
1 TTTCAGATTTGGTATTCCTGAAGAGAAGTGAAGCAAATCGATTATGATTCAATCTTCCCTGAAGA
*
83237 GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTTTT
66 GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTT
83302 CTTC
131 CTTC
* * *
83306 TTTCAGATTTGGTCTTCCTGAAGAGAAGTGAAGTAAATCGATTCTGATTCAATCTTCCCTGAAGA
1 TTTCAGATTTGGTATTCCTGAAGAGAAGTGAAGCAAATCGATTATGATTCAATCTTCCCTGAAGA
* *
83371 GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGTAGCATATTCTT
66 GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTT
*
83436 GTTC
131 CTTC
* * *
83440 TTTCAGATTTGGTATTCTTGAAGA-ACAGTAAAGCAAATCGATTATGATTCAATCTTCCTTGAAG
1 TTTCAGATTTGGTATTCCTGAAGAGA-AGTGAAGCAAATCGATTATGATTCAATCTTCCCTGAAG
* * *
83504 AGCAGTGAAGTGGATCAAAG-TTTC-CTAGTCTGATCTCCCCTAAAGAGTAGTGGAGAAGATTTT
65 AGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCT
83567 TCTTC
130 TCTTC
* * * * * *
83572 TTTCAGATTTAGTTTTCCTAAAGAGCAGTGAAACAAATCGATTATAATTCAATCTTCCCTGAAGA
1 TTTCAGATTTGGTATTCCTGAAGAGAAGTGAAGCAAATCGATTATGATTCAATCTTCCCTGAAGA
** * * * * *
83637 ATAGTGAAGTAGTTTAAAGTTTTCTCGAGTCTGATCTCCCCTAAATAGTAGTGGAGTAGATTCTT
66 GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTT
83702 CTTC
131 CTTC
* * * * * *
83706 ATTCAGATTTAGTATTCCTGAAGAGTAGTGAAGCAAATCGATTCTGATTCAATATTCCATGAAGA
1 TTTCAGATTTGGTATTCCTGAAGAGAAGTGAAGCAAATCGATTATGATTCAATCTTCCCTGAAGA
*
83771 ACAGTG
66 GCAGTG
83777 GAATGAATCA
Statistics
Matches: 414, Mismatches: 53, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
132 107 0.26
133 9 0.02
134 298 0.72
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (134 bp):
TTTCAGATTTGGTATTCCTGAAGAGAAGTGAAGCAAATCGATTATGATTCAATCTTCCCTGAAGA
GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTT
CTTC
Found at i:83658 original size:266 final size:268
Alignment explanation
Indices: 83172--83776 Score: 840
Period size: 266 Copynumber: 2.3 Consensus size: 268
83162 ACTGTTTTAT
* * * * * *
83172 TTTCAGATTCGATCTTCTTGAAG-ACAAG-AGAAGCAAATCAATTATGATTCAATCTTCCCTAAA
1 TTTCAGATTTGGTATTCTTGAAGAAC-AGTA-AAGCAAATCGATTATGATTCAATCTTCCATGAA
*
83235 GAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTT
64 GAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGAAGATTT
* * ** * *
83300 TTCTTCTTTCAGATTTGGTCTTCCTGAAGAGAAGTGAAGTAAATCGATTCTGATTCAATCTTCCC
129 TTCTTCTTTCAGATTTAGTCTTCCTAAAGAGAAGTGAAACAAATCGATTATAATTCAATCTTCCC
* * * *
83365 TGAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGTAGCAT
194 TGAAGAACAGTGAAGTAGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAG
*
83430 ATTCTTGTTC
259 ATTCTTCTTC
*
83440 TTTCAGATTTGGTATTCTTGAAGAACAGTAAAGCAAATCGATTATGATTCAATCTTCCTTGAAGA
1 TTTCAGATTTGGTATTCTTGAAGAACAGTAAAGCAAATCGATTATGATTCAATCTTCCATGAAGA
*
83505 GCAGTGAAGTGGATCAAAG-TTTC-CTAGTCTGATCTCCCCTAAAGAGTAGTGGAGAAGATTTTT
66 GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGAAGATTTTT
* *
83568 CTTCTTTCAGATTTAGTTTTCCTAAAGAGCAGTGAAACAAATCGATTATAATTCAATCTTCCCTG
131 CTTCTTTCAGATTTAGTCTTCCTAAAGAGAAGTGAAACAAATCGATTATAATTCAATCTTCCCTG
* * * * *
83633 AAGAATAGTGAAGTAGTTTAAAGTTTTCTCGAGTCTGATCTCCCCTAAATAGTAGTGGAGTAGAT
196 AAGAACAGTGAAGTAGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGAT
83698 TCTTCTTC
261 TCTTCTTC
* * * ** * * *
83706 ATTCAGATTTAGTATTCCTGAAGAGTAGTGAAGCAAATCGATTCTGATTCAATATTCCATGAAGA
1 TTTCAGATTTGGTATTCTTGAAGAACAGTAAAGCAAATCGATTATGATTCAATCTTCCATGAAGA
*
83771 ACAGTG
66 GCAGTG
83777 GAATGAATCA
Statistics
Matches: 299, Mismatches: 36, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
266 219 0.73
267 4 0.01
268 73 0.24
269 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (268 bp):
TTTCAGATTTGGTATTCTTGAAGAACAGTAAAGCAAATCGATTATGATTCAATCTTCCATGAAGA
GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGAAGATTTTT
CTTCTTTCAGATTTAGTCTTCCTAAAGAGAAGTGAAACAAATCGATTATAATTCAATCTTCCCTG
AAGAACAGTGAAGTAGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGAT
TCTTCTTC
Found at i:83985 original size:3 final size:3
Alignment explanation
Indices: 83964--84008 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
83954 CCATACCCTT
* *
83964 TTA TTT TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
84009 ACCTATTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:86732 original size:7 final size:7
Alignment explanation
Indices: 86720--86753 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
86710 CTACATTTTT
86720 ATTCTTC
1 ATTCTTC
86727 ATTCTTC
1 ATTCTTC
*
86734 ATTATTC
1 ATTCTTC
86741 ATTCTTC
1 ATTCTTC
86748 ATTCTT
1 ATTCTT
86754 TACATTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTCTTC
Found at i:91373 original size:139 final size:136
Alignment explanation
Indices: 91008--91422 Score: 472
Period size: 137 Copynumber: 3.0 Consensus size: 136
90998 GACAGGTTAA
* * * * *
91008 AATTATTTGATTCCATAATTGGTTAAAATTGAATAGGTTAATAATTTGAACCTTCATTTTAGGCT
1 AATTATTAGATT-AATAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCA-TTTAGGCT
* * * * * *
91073 TTATTTCATACTTAGTACTTTAATTTAAGAGAATGTTTAATTTGGTCCTCACTTTTGCTCGAGGT
64 TAATTTCATACTTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCCTCACTTTTACTCAAGGT
*
91138 TCCATTTT
129 TTCATTTT
* * * * * * * *
91146 AATTATTTGATTCATGATTGGTTAGAATTGAATAGGTTAATAACTAAAGCCTCTACTTTGGGCTT
1 AATTATTAGATTAATAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCA-TTTAGGCTT
* * *
91211 AATTTCATACTTAGACCTTTAATTTAGGAGAATTTTTAATTTGGTTCTCACTTTTAATCAAGGTT
65 AATTTCATACTTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCCTCACTTTTACTCAAGGTT
91276 TCATTTT
130 TCATTTT
91283 AATTATTAGATTTAATAAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCATTCTAGGC
1 AATTATTAGA-TTAAT-AATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCATT-TAGGC
* * * * * **
91348 TTAATTTCATA-TCTATTCCTCTAATTTAGAAGAATTTTTTACTTGGTCCTTGCTTTTATGCTCA
63 TTAATTTCATACT-TAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCCTCACTTTTA--CTCA
91412 AGGTTTCATTT
125 AGGTTTCATTT
91423 GGTTATTCGA
Statistics
Matches: 233, Mismatches: 38, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
137 114 0.49
138 19 0.08
139 86 0.37
141 14 0.06
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (136 bp):
AATTATTAGATTAATAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCATTTAGGCTTA
ATTTCATACTTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCCTCACTTTTACTCAAGGTTT
CATTTT
Found at i:91449 original size:139 final size:139
Alignment explanation
Indices: 91008--91475 Score: 477
Period size: 139 Copynumber: 3.4 Consensus size: 139
90998 GACAGGTTAA
* * * * *
91008 AATTATTTGATTCCATAATTGGTTAAAATTGAATAGGTTAATAATTTGAACCTTCATTTTAGGCT
1 AATTATTAGATTCAATAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCA-TTTAGGCT
* * * *
91073 TTATTTCATACTTAGTACTTTAATTTA-AGAGAATGTTTAATTTGGTCCTCAC-TTT-TGCTCGA
65 TAATTTCATACTTAGTCCTTTAATTTAGA-AGAATTTTTAATTTGGTCCTCACTTTTATGCTCAA
*
91135 GGTTCCATTTT
129 GGTTTCATTTT
* * * * * * *
91146 AATTATTTGATTC-ATGATTGGTTAGAATTGAATAGGTTAATAACTAAAGCCTCTACTTTGGGCT
1 AATTATTAGATTCAATAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCA-TTTAGGCT
* * * *
91210 TAATTTCATACTTAGACCTTTAATTTAGGAGAATTTTTAATTTGGTTCTCACTTTTA--ATCAAG
65 TAATTTCATACTTAGTCCTTTAATTTAGAAGAATTTTTAATTTGGTCCTCACTTTTATGCTCAAG
91273 GTTTCATTTT
130 GTTTCATTTT
*
91283 AATTATTAGATTTAATAAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCATTCTAGGC
1 AATTATTAGATTCAAT-AATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCATT-TAGGC
* * * * **
91348 TTAATTTCATA-TCTATTCCTCTAATTTAGAAGAATTTTTTACTTGGTCCTTGCTTTTATGCTCA
64 TTAATTTCATACT-TAGTCCTTTAATTTAGAAGAATTTTTAATTTGGTCCTCACTTTTATGCTCA
91412 AGGTTTCA-TTT
128 AGGTTTCATTTT
** * * ** * * *
91423 GGTTATTCGACTCAATAATTTATTAAAAATGATTTGGATTAAT-ATTAGAGCCT
1 AATTATTAGATTCAATAATTGGTTAAAATTGAATAGG-TTAATAATTAGAGCCT
91476 ACATGTTTTT
Statistics
Matches: 273, Mismatches: 47, Indels: 19
0.81 0.14 0.06
Matches are distributed among these distances:
137 110 0.40
138 21 0.08
139 112 0.41
140 19 0.07
141 11 0.04
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (139 bp):
AATTATTAGATTCAATAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCATTTAGGCTT
AATTTCATACTTAGTCCTTTAATTTAGAAGAATTTTTAATTTGGTCCTCACTTTTATGCTCAAGG
TTTCATTTT
Found at i:93673 original size:17 final size:17
Alignment explanation
Indices: 93659--93691 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
93649 AAGTAAAATG
93659 AAAATATAAGAAAAAGT
1 AAAATATAAGAAAAAGT
93676 AAAATA-AAGACAAAAG
1 AAAATATAAGA-AAAAG
93692 AATGGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.73, C:0.03, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAATATAAGAAAAAGT
Found at i:93857 original size:2 final size:2
Alignment explanation
Indices: 93850--93874 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93840 AAGAAAAATA
93850 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
93875 ATACATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.