Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008056.1 Hibiscus syriacus cultivar Beakdansim tig00110551_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: 2370532
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 13
Found at i:432418 original size:21 final size:20
Alignment explanation
Indices: 432386--432428 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
432376 GTTTCAAGAG
* *
432386 AAATTGTCTCAATGGATACA
1 AAATTGTCTCAAGGGAAACA
*
432406 AAATCTGTTTCAAGGGAAACA
1 AAAT-TGTCTCAAGGGAAACA
432427 AA
1 AA
432429 TTCAAAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (20 bp):
AAATTGTCTCAAGGGAAACA
Found at i:432462 original size:198 final size:197
Alignment explanation
Indices: 432112--432611 Score: 568
Period size: 198 Copynumber: 2.5 Consensus size: 197
432102 AGGGTTGATG
** * ** *
432112 GTTTCAAGAGAAACCGTCTCAAAAGAGACAAAA--CATGTTTCAAGGGAAAAAATCTCAAAGGTT
1 GTTTCAAG-GAAATTGTCTCAAGAGAGACAAAATTCA--TTTCAAGGGAAACGATCTCAAAGATT
* * * * * *
432175 GGTGTTTGAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGAT
63 TGTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATT-GTTTCAAGGGAAACAATCTCAAAGAT
* * ** *
432240 TTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTGTTTCAAGGGAAACAGAT-TCAAAG
127 TGGTGTTTCAAGAGAAAATGTCTCAAGAAAGAAAAAATTCGTTTCAAGGGAAAC-GATCTCAAAG
432304 A-TTAGT
191 ACTTAGT
* *
432310 GTTTCAAGGGAAATTGTCTTAAGAGAGAGAAAATTCATTTCAAGGGAAACGATCTCAAAGATTTG
1 GTTTCAA-GGAAATTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATTTG
*
432375 TGTTTCAAGAGAAATTGTCTCAATG-GATACAAAATCTGTTTCAAGGGAAACAAAT-TCAAAGAT
65 TGTTTCAAGAGAAATTGTCTCAA-GAGAGACAAAAT-TGTTTCAAGGGAAAC-AATCTCAAAGAT
* * *
432438 TGGTGTTTCAAGGGAAAATGTCTCAAGAAAGACAAAATTCGTTTCAAGGGAAACGATCTCAGAGA
127 TGGTGTTTCAAGAGAAAATGTCTCAAGAAAGAAAAAATTCGTTTCAAGGGAAACGATCTCAAAGA
**
432503 CTTTTT
192 CTTAGT
* ** *
432509 GTTTCAAGGAAATTGTCTCAAGGGAGACAAAATTTGTTCCAAGGGAAACAGA-CTCAAAGATTT-
1 GTTTCAAGGAAATTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAAC-GATCTCAAAGATTTG
*
432572 T-TTTTAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTT
65 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAA-TTGTTT
432612 TGAGTAAAAA
Statistics
Matches: 258, Mismatches: 33, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
195 1 0.00
196 33 0.13
197 5 0.02
198 200 0.78
199 17 0.07
200 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (197 bp):
GTTTCAAGGAAATTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATTTGT
GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTGTTTCAAGGGAAACAATCTCAAAGATTGGT
GTTTCAAGAGAAAATGTCTCAAGAAAGAAAAAATTCGTTTCAAGGGAAACGATCTCAAAGACTTA
GT
Found at i:433105 original size:16 final size:16
Alignment explanation
Indices: 433084--433117 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
433074 TTCATGTATC
433084 ATGTATGTATATGTTG
1 ATGTATGTATATGTTG
433100 ATGTATGTATATGTTG
1 ATGTATGTATATGTTG
433116 AT
1 AT
433118 CTTTGAGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (16 bp):
ATGTATGTATATGTTG
Found at i:434130 original size:2 final size:2
Alignment explanation
Indices: 434123--434159 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
434113 GCTTTATTGT
434123 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
434160 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:434164 original size:2 final size:2
Alignment explanation
Indices: 434159--434190 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
434149 ACACACACAC
434159 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
434191 TATGGGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:440249 original size:30 final size:31
Alignment explanation
Indices: 440179--440253 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
440169 TTGGGGCCTG
* * *
440179 GAGCCTACCAAAGAAAATTCTCGGGGCCACG
1 GAGCCTACCCAAGAAAATTCTCAGGGCCACA
* *
440210 GAGGCCTACCCAAGAAAA-TCTCAGGGTCGCA
1 GA-GCCTACCCAAGAAAATTCTCAGGGCCACA
440241 GAGCCTACCCAAG
1 GAGCCTACCCAAG
440254 GGTCGTCTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 11 0.29
31 13 0.34
32 14 0.37
ACGTcount: A:0.32, C:0.31, G:0.25, T:0.12
Consensus pattern (31 bp):
GAGCCTACCCAAGAAAATTCTCAGGGCCACA
Found at i:442793 original size:3 final size:3
Alignment explanation
Indices: 442785--442849 Score: 105
Period size: 3 Copynumber: 21.3 Consensus size: 3
442775 CATGAAATTC
442785 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA
442832 TTA TTA TTA -TA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
442850 ATAGTTTAAG
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.03
3 51 0.86
4 6 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:446758 original size:3 final size:3
Alignment explanation
Indices: 446745--446865 Score: 226
Period size: 3 Copynumber: 40.7 Consensus size: 3
446735 CTAATGGGCT
*
446745 TTA TGA TTA TTA TTA TTA 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 TTA
446793 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
446840 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
446866 TTAGCTTATG
Statistics
Matches: 115, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 113 0.98
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:447134 original size:54 final size:54
Alignment explanation
Indices: 447017--447134 Score: 130
Period size: 54 Copynumber: 2.2 Consensus size: 54
447007 GAAGTGCTAA
* * * *
447017 ACTCACACCAAACGAAACAAATCACGTAAGGTGGACAAAACCATAGATTCTAAT
1 ACTCACACCAAACGAAACAAATCAAGTAAGGTGGACAAAACCAAAGATCCCAAT
* * * * *
447071 ACTTACACCAACCTAAACAAATCAAGTAAGGTGGACGAACCCGAAAG-TCCCAAT
1 ACTCACACCAAACGAAACAAATCAAGTAAGGTGGACAAAACC-AAAGATCCCAAT
*
447125 ACTCGCACCA
1 ACTCACACCA
447135 TACATAACCA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 49 0.94
55 3 0.06
ACGTcount: A:0.43, C:0.28, G:0.14, T:0.15
Consensus pattern (54 bp):
ACTCACACCAAACGAAACAAATCAAGTAAGGTGGACAAAACCAAAGATCCCAAT
Found at i:454029 original size:15 final size:15
Alignment explanation
Indices: 453993--454035 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
453983 AGTTGGTGTT
* * *
453993 TCAAGGAAAATGATT
1 TCAAGGGAAATAATC
454008 TCAAGGGAAATAATC
1 TCAAGGGAAATAATC
*
454023 TCAAGGGAGATAA
1 TCAAGGGAAATAA
454036 ATTTGGTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (15 bp):
TCAAGGGAAATAATC
Found at i:455888 original size:37 final size:37
Alignment explanation
Indices: 455832--455948 Score: 130
Period size: 37 Copynumber: 3.2 Consensus size: 37
455822 AGAGAAATAA
455832 TTTCAAGTAAAAA--ATCTCAAGTGAGATAAAATTTTG
1 TTTCAAG-AAAAACCATCTCAAGTGAGATAAAATTTTG
** ** * *
455868 TTTTGAGAAAAACTGTCTCAAGTGAAACAAAATTTTG
1 TTTCAAGAAAAACCATCTCAAGTGAGATAAAATTTTG
* * *
455905 TTTCAAGATAAACCATCTTAAGTGAGATAAAAATTTG
1 TTTCAAGAAAAACCATCTCAAGTGAGATAAAATTTTG
455942 TTTCAAG
1 TTTCAAG
455949 GGAACCATTT
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
35 5 0.08
36 5 0.08
37 55 0.85
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (37 bp):
TTTCAAGAAAAACCATCTCAAGTGAGATAAAATTTTG
Found at i:455962 original size:36 final size:37
Alignment explanation
Indices: 455887--455972 Score: 93
Period size: 37 Copynumber: 2.4 Consensus size: 37
455877 AAACTGTCTC
* *
455887 AAGTGAAACAAAATTTTGTTTCAAGATAAACCATCTT
1 AAGTGAAACAAAAATTTGTTTCAAGAGAAACCATCTT
* * * *
455924 AAGTGAGATAAAAATTTGTTTCAAG-GGAACCATTTT
1 AAGTGAAACAAAAATTTGTTTCAAGAGAAACCATCTT
**
455960 AAGAAAAACAAAA
1 AAGTGAAACAAAA
455973 TTTTTTGAAG
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
36 17 0.44
37 22 0.56
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (37 bp):
AAGTGAAACAAAAATTTGTTTCAAGAGAAACCATCTT
Found at i:466936 original size:20 final size:19
Alignment explanation
Indices: 466888--467036 Score: 79
Period size: 20 Copynumber: 7.6 Consensus size: 19
466878 AAATGGCCAA
* *
466888 CAAATTCGTAACGCGATCT
1 CAAATTCGCAACGCGAACT
466907 CAAATTCGCAACGCGAACT
1 CAAATTCGCAACGCGAACT
* * **
466926 CCAATTTCGCAACTC-AGTTT
1 -CAAATTCGCAACGCGA-ACT
*
466946 CCAAATTCGCAACGCGAATT
1 -CAAATTCGCAACGCGAACT
*
466966 GTAAA-TCGCAACGCGAA-T
1 -CAAATTCGCAACGCGAACT
* *
466984 CTATAAATCGCAACGCGAATTT
1 C-A-AATTCGCAACGCGAA-CT
** * *
467006 GTAATTCGCAACACGGAAGT
1 CAAATTCGCAACGC-GAACT
467026 CAAATTCGCAA
1 CAAATTCGCAA
467037 AGCGCATTTA
Statistics
Matches: 102, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
18 2 0.02
19 32 0.31
20 63 0.62
21 4 0.04
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (19 bp):
CAAATTCGCAACGCGAACT
Found at i:467035 original size:40 final size:38
Alignment explanation
Indices: 466947--467045 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 38
466937 ACTCAGTTTC
*
466947 CAAATTCGCAACGCGAA-TTGTAAATCGCAACGCGAAT
1 CAAATTCGCAACGCGAATTTGTAAATCGCAACACGAAT
* *
466984 CTATAAATCGCAACGCGAATTTGTAATTCGCAACACGGAAGT
1 C-A-AATTCGCAACGCGAATTTGTAAATCGCAACAC-GAA-T
* *
467026 CAAATTCGCAAAGCGCATTT
1 CAAATTCGCAACGCGAATTT
467046 ATTTTCGCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
37 1 0.02
38 1 0.02
39 14 0.27
40 29 0.57
41 4 0.08
42 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (38 bp):
CAAATTCGCAACGCGAATTTGTAAATCGCAACACGAAT
Found at i:467209 original size:22 final size:22
Alignment explanation
Indices: 467184--467256 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
467174 TCACTCTCTA
* *
467184 CGACGACATACGTCCCCATCTC
1 CGACGAAATACATCCCCATCTC
*
467206 CGACGAAATCCATCCCCATCTC
1 CGACGAAATACATCCCCATCTC
*
467228 CAACGAAATACAT--CCATCTC
1 CGACGAAATACATCCCCATCTC
*
467248 CGGCGAAAT
1 CGACGAAAT
467257 CCGTCTATCT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.32
22 30 0.68
ACGTcount: A:0.30, C:0.40, G:0.12, T:0.18
Consensus pattern (22 bp):
CGACGAAATACATCCCCATCTC
Found at i:467746 original size:19 final size:20
Alignment explanation
Indices: 467722--467770 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
467712 CAAATTTGCT
467722 TTGCGATTTTCA-TTTCGCG
1 TTGCGATTTTCATTTTCGCG
467741 TTGCGATTTTCATTTTCGCG
1 TTGCGATTTTCATTTTCGCG
467761 TTGCGATTTT
1 TTGCGATTTT
467771 AAGTTTCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.10, C:0.18, G:0.20, T:0.51
Consensus pattern (20 bp):
TTGCGATTTTCATTTTCGCG
Found at i:469508 original size:21 final size:21
Alignment explanation
Indices: 469484--469533 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
469474 TGGTGCATGG
*
469484 CGTGATGAGGTA-CGGTCTTTA
1 CGTGATGAGGTAGAGGT-TTTA
*
469505 CGTGGTGAGGTAGAGGTTTTA
1 CGTGATGAGGTAGAGGTTTTA
*
469526 CGCGATGA
1 CGTGATGA
469534 CAATGGTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.20, C:0.12, G:0.38, T:0.30
Consensus pattern (21 bp):
CGTGATGAGGTAGAGGTTTTA
Found at i:469882 original size:21 final size:21
Alignment explanation
Indices: 469854--469931 Score: 104
Period size: 21 Copynumber: 3.7 Consensus size: 21
469844 GATTCACCTG
*
469854 TCATCGTTCAAGAGGCCTCT-
1 TCATCGTTCAAGAGGCCCCTA
*
469874 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTA
* *
469896 TCATCATTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTA
469917 TCATCGTTCAAGAGG
1 TCATCGTTCAAGAGG
469932 TCTCTTCCAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 1 0.02
21 48 0.96
22 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:471316 original size:13 final size:14
Alignment explanation
Indices: 471291--471323 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
471281 AAATTGATGT
471291 ATTTGTAAAAGTTA
1 ATTTGTAAAAGTTA
*
471305 ATTTGT-AAAGTTG
1 ATTTGTAAAAGTTA
471318 ATTTGT
1 ATTTGT
471324 TTAATTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (14 bp):
ATTTGTAAAAGTTA
Found at i:471480 original size:20 final size:20
Alignment explanation
Indices: 471447--471528 Score: 92
Period size: 20 Copynumber: 4.1 Consensus size: 20
471437 AAGGTACACT
*
471447 TTCGCAACGCGAAAGTCAAA
1 TTCGCAATGCGAAAGTCAAA
*
471467 TTCACAATGCGAAAGTCAAA
1 TTCGCAATGCGAAAGTCAAA
** * *
471487 TTCGCGTTGTGATAGTCAAA
1 TTCGCAATGCGAAAGTCAAA
* *
471507 TTCGCAACGCGAAAGTTAAA
1 TTCGCAATGCGAAAGTCAAA
471527 TT
1 TT
471529 TGCGTTGCGA
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
TTCGCAATGCGAAAGTCAAA
Found at i:471504 original size:40 final size:40
Alignment explanation
Indices: 471460--471535 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
471450 GCAACGCGAA
*
471460 AGTCAAATTCACAATGCGAAAGTCAAATTCGCGTTGTGAT
1 AGTCAAATTCACAACGCGAAAGTCAAATTCGCGTTGTGAT
* * *
471500 AGTCAAATTCGCAACGCGAAAGTTAAATTTGCGTTG
1 AGTCAAATTCACAACGCGAAAGTCAAATTCGCGTTG
471536 CGATTTTCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (40 bp):
AGTCAAATTCACAACGCGAAAGTCAAATTCGCGTTGTGAT
Found at i:471538 original size:20 final size:20
Alignment explanation
Indices: 471455--471538 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 20
471445 CTTTCGCAAC
* **
471455 GCGAAAGTCAAATTCACAAT
1 GCGAAAGTCAAATTCGCGTT
471475 GCGAAAGTCAAATTCGCGTT
1 GCGAAAGTCAAATTCGCGTT
* * ***
471495 GTGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCGTT
* *
471515 GCGAAAGTTAAATTTGCGTT
1 GCGAAAGTCAAATTCGCGTT
471535 GCGA
1 GCGA
471539 TTTTCGCGTT
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCGTT
Found at i:471611 original size:19 final size:20
Alignment explanation
Indices: 471581--471631 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
471571 TCGTAACGTT
*
471581 AATTTGACTTTCGTGTTGCG
1 AATTTGACTTTCGCGTTGCG
471601 AATTT-ACTTTCGCGTTGCG
1 AATTTGACTTTCGCGTTGCG
471620 AATTTGACTTTC
1 AATTTGACTTTC
471632 TCAACAATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGCG
Found at i:471838 original size:18 final size:18
Alignment explanation
Indices: 471815--471850 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
471805 AAGCCGGTTG
*
471815 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
471833 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
471851 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:474123 original size:24 final size:24
Alignment explanation
Indices: 474072--474123 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
474062 ATCCGAGTAT
** *
474072 TGACCAAGATCAAAGTACGGGTAT
1 TGACCAAGATCAAAGTACGAATAC
* *
474096 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTACGAATAC
474120 TGAC
1 TGAC
474124 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTACGAATAC
Found at i:474256 original size:12 final size:12
Alignment explanation
Indices: 474235--474268 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
474225 GGTTATGGGT
*
474235 TTTGAGATTGTG
1 TTTGATATTGTG
474247 TTTGATATTGTG
1 TTTGATATTGTG
*
474259 TTTGGTATTG
1 TTTGATATTG
474269 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:475099 original size:40 final size:40
Alignment explanation
Indices: 475044--475128 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
475034 ACTAAAACCT
** * *
475044 GTTGCGAAATTAAAATTCGTGTTGTGAATTC-GAAAATCGA
1 GTTGCGAAAACAAAATTCGCGTTGCGAATTCAG-AAATCGA
475084 GTTGCGAAAACAAAATTCGCGTTGCGAATTCAGAAATCGA
1 GTTGCGAAAACAAAATTCGCGTTGCGAATTCAGAAATCGA
475124 GTTGC
1 GTTGC
475129 AAATTTGGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (40 bp):
GTTGCGAAAACAAAATTCGCGTTGCGAATTCAGAAATCGA
Found at i:475109 original size:20 final size:20
Alignment explanation
Indices: 475044--475132 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
475034 ACTAAAACCT
* *
475044 GTTGCGAAATTAAAATTCGT
1 GTTGCGAAATCAAAATTCGA
* *
475064 GTTGTGAATTCGAAAA-TCGA
1 GTTGCGAAATC-AAAATTCGA
* *
475084 GTTGCGAAAACAAAATTCGC
1 GTTGCGAAATCAAAATTCGA
*
475104 GTTGCGAATTCAGAAA-TCGA
1 GTTGCGAAATCA-AAATTCGA
475124 GTTGC-AAAT
1 GTTGCGAAAT
475133 TTGGAAACTG
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
19 7 0.13
20 40 0.74
21 7 0.13
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (20 bp):
GTTGCGAAATCAAAATTCGA
Found at i:476880 original size:22 final size:22
Alignment explanation
Indices: 476855--476897 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
476845 ATTAATCATG
*
476855 TTAGATGAT-AAAAATTTAAACT
1 TTAG-TGATGAAAAATATAAACT
*
476877 TTAGTGTTGAAAAATATAAAC
1 TTAGTGATGAAAAATATAAAC
476898 ATGATGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (22 bp):
TTAGTGATGAAAAATATAAACT
Found at i:477034 original size:2 final size:2
Alignment explanation
Indices: 477027--477051 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
477017 ATGAAACATG
477027 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 T
477052 TCATGGGACT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:477140 original size:72 final size:73
Alignment explanation
Indices: 477063--477258 Score: 186
Period size: 72 Copynumber: 2.7 Consensus size: 73
477053 CATGGGACTA
* * * *
477063 AAATAAAATAAATAGAAAA-TAAAGTGCA-ATAATTAAAGGACTGAAAATAAATTA-TTGAAAAG
1 AAATAAAA-AAACAGAAAATTAAAAT-CATAGAATCAAAGGACTGAAAATAAATTACTTGAAAAG
477125 TAAAGGGCAG
64 TAAAGGGCAG
** * *
477135 AAAT-AAAAGGCAGAAAATTAAAATCATAGAATCCAAGGACTGAAATTAAATTACTTGAAAAGTA
1 AAATAAAAAAACAGAAAATTAAAATCATAGAATCAAAGGACTGAAAATAAATTACTTGAAAAGTA
*
477199 CAGGGCAG
66 AAGGGCAG
* * * * ** *
477207 AAAT-AAAAGACAGCAAATTAAAGTCATAAAATTTTAAGGACTGAAATTAAAT
1 AAATAAAAAAACAGAAAATTAAAATCATAGAA-TCAAAGGACTGAAAATAAAT
477259 AAAGGGCAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
70 9 0.09
71 30 0.29
72 48 0.46
73 18 0.17
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.21
Consensus pattern (73 bp):
AAATAAAAAAACAGAAAATTAAAATCATAGAATCAAAGGACTGAAAATAAATTACTTGAAAAGTA
AAGGGCAG
Found at i:477449 original size:21 final size:21
Alignment explanation
Indices: 477423--477477 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
477413 GAACATGAAA
* *
477423 TTAAAAATTAGTGGTTAGTGG
1 TTAAAAATTAGTAGTTAGTCG
* *
477444 TTAAAAGTTAGAAGTTAGTCG
1 TTAAAAATTAGTAGTTAGTCG
*
477465 TTAGAAATTAGTA
1 TTAAAAATTAGTA
477478 AAGACTATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (21 bp):
TTAAAAATTAGTAGTTAGTCG
Found at i:478998 original size:17 final size:17
Alignment explanation
Indices: 478962--479017 Score: 94
Period size: 17 Copynumber: 3.2 Consensus size: 17
478952 GGCCAATTTG
*
478962 ATTTGGGTTGGATATGTA
1 ATTTGGATTGGAT-TGTA
478980 ATTTGGATTGGATTGTA
1 ATTTGGATTGGATTGTA
478997 ATTTGGATTGGATTGTA
1 ATTTGGATTGGATTGTA
479014 ATTT
1 ATTT
479018 TGGGCTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
17 25 0.68
18 12 0.32
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (17 bp):
ATTTGGATTGGATTGTA
Found at i:479169 original size:3 final size:3
Alignment explanation
Indices: 479051--479155 Score: 63
Period size: 3 Copynumber: 34.3 Consensus size: 3
479041 TTTTATAAAG
* * * *
479051 ATA ATA ATA CTA ATA ATA ATA A-A TATAA ATA GTA ATA TTA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA
* * *
479097 AT- ATC A-A ATA ATA ATA ATA ATA GTA ATAA ATA GCATA ATA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA --ATA ATA ATA ATA
**
479143 GCA ATA ATA ATA A
1 ATA ATA ATA ATA A
479156 GGTTAGTAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 16
0.73 0.13 0.15
Matches are distributed among these distances:
2 4 0.05
3 67 0.84
4 5 0.06
5 4 0.05
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:479711 original size:16 final size:16
Alignment explanation
Indices: 479690--479722 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
479680 TAATAAATAA
*
479690 ACGAACTTAAACGAAC
1 ACGAACATAAACGAAC
479706 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
479722 A
1 A
479723 ATTTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.24, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:479812 original size:16 final size:16
Alignment explanation
Indices: 479791--479851 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
479781 TAATAAATAA
479791 ACGAACATAAACAAAC
1 ACGAACATAAACAAAC
*
479807 ACGAACATAAACGAAC
1 ACGAACATAAACAAAC
**
479823 ACGAACATAAAGGAAC
1 ACGAACATAAACAAAC
*
479839 ATGAACATAAACA
1 ACGAACATAAACA
479852 TTGAGACCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.59, C:0.21, G:0.11, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACAAAC
Found at i:480938 original size:14 final size:14
Alignment explanation
Indices: 480921--480961 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
480911 GATTGGGTTA
* *
480921 AACATAAATGAATG
1 AACATAAACGAACG
*
480935 AACATAACCGAACG
1 AACATAAACGAACG
480949 AACATAAACGAAC
1 AACATAAACGAAC
480962 ATAACCGAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.56, C:0.20, G:0.12, T:0.12
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:480972 original size:14 final size:14
Alignment explanation
Indices: 480934--480972 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
480924 ATAAATGAAT
480934 GAACATAACCGAAC
1 GAACATAACCGAAC
480948 GAACAT-A---AAC
1 GAACATAACCGAAC
480958 GAACATAACCGAAC
1 GAACATAACCGAAC
480972 G
1 G
480973 TTCACGAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 8
0.72 0.00 0.28
Matches are distributed among these distances:
10 9 0.43
11 1 0.05
13 1 0.05
14 10 0.48
ACGTcount: A:0.51, C:0.26, G:0.15, T:0.08
Consensus pattern (14 bp):
GAACATAACCGAAC
Found at i:481829 original size:47 final size:47
Alignment explanation
Indices: 481762--481852 Score: 157
Period size: 47 Copynumber: 1.9 Consensus size: 47
481752 TTCTGCTATA
481762 TATTTAGAATGTTCAACAACCACGTGATCATCCAC-TCATAGGATATT
1 TATTTAGAATGTTCAACAACCACGTGATCATCCACTTC-TAGGATATT
*
481809 TATTTAGAATGTTCAGCAACCACGTGATCATCCACTTCTAGGAT
1 TATTTAGAATGTTCAACAACCACGTGATCATCCACTTCTAGGAT
481853 GAGGTGTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
47 40 0.95
48 2 0.05
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (47 bp):
TATTTAGAATGTTCAACAACCACGTGATCATCCACTTCTAGGATATT
Found at i:483644 original size:20 final size:21
Alignment explanation
Indices: 483619--483670 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
483609 TTTTCCCAAT
*
483619 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
483639 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
483660 TCGCAATGCGA
1 TCGCAATGCGA
483671 TAATACAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:483717 original size:20 final size:20
Alignment explanation
Indices: 483681--483733 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
483671 TAATACAAAA
*
483681 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATACTGACTT
* *
483701 TCTCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
483721 TCGCAACGCGATA
1 TCGCAACGCGATA
483734 ATACATAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:483949 original size:22 final size:22
Alignment explanation
Indices: 483921--483964 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
483911 CACTCTCTCA
483921 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
483943 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
483965 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:484257 original size:20 final size:20
Alignment explanation
Indices: 484203--484261 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
484193 CGTGCGATTT
**
484203 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
484223 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
484243 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
484262 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:485601 original size:18 final size:18
Alignment explanation
Indices: 485580--485624 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
485570 TCCACTTCGG
*
485580 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
485598 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
485616 GAGCCATCA
1 GAGCCATCA
485625 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:486154 original size:19 final size:20
Alignment explanation
Indices: 486100--486166 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
486090 TAGTTTACTT
* *
486100 TCGCAACTCGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
486120 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
486140 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
486159 TCGCAACG
1 TCGCAACG
486167 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:486174 original size:14 final size:14
Alignment explanation
Indices: 486155--486212 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
486145 ATGCGAAATG
486155 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
486169 AAAATCGCAATGTGAA
1 AAAATCGCAA--CGAC
486185 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
486201 AAAATCGCAACG
1 AAAATCGCAACG
486213 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 21 0.58
16 6 0.17
18 9 0.25
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:486197 original size:32 final size:33
Alignment explanation
Indices: 486139--486229 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
486129 GGAAATGGCT
486139 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
486172 ATCGCAATGTGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
486204 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
486230 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:486265 original size:14 final size:14
Alignment explanation
Indices: 486246--486303 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
486236 TTGTGTTTCG
486246 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
486260 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
486276 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
486292 CGTTGCGATTTT
1 CGTTGCGATTTT
486304 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:486284 original size:32 final size:33
Alignment explanation
Indices: 486241--486319 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
486231 GCGATTTGTG
*
486241 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
486273 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
486306 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
486320 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 26 0.58
33 19 0.42
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:486355 original size:21 final size:20
Alignment explanation
Indices: 486306--486360 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
486296 GCGATTTTCA
*
486306 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
* * *
486326 TTCCGCGTTGCGATGGTCATT
1 TTTCGCGTTGCGATAGCCA-T
486347 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
486361 TTTAAGTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.13, C:0.24, G:0.25, T:0.38
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:488252 original size:14 final size:14
Alignment explanation
Indices: 488233--488268 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
488223 ATTGTTTAAT
488233 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
488247 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
488261 TGATTTGT
1 TGATTTGT
488269 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:488376 original size:20 final size:20
Alignment explanation
Indices: 488351--488389 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
488341 ATGTTGAAGG
488351 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
488371 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
488390 GAGAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:488419 original size:19 final size:19
Alignment explanation
Indices: 488395--488437 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
488385 GCAACGAGAG
488395 AATCGTAATGCGAAATGAA
1 AATCGTAATGCGAAATGAA
488414 AATCGTAATGCGAAATGAA
1 AATCGTAATGCGAAATGAA
488433 AATCG
1 AATCG
488438 CAACGAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.21
Consensus pattern (19 bp):
AATCGTAATGCGAAATGAA
Found at i:488447 original size:19 final size:19
Alignment explanation
Indices: 488406--488447 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
488396 ATCGTAATGC
* * *
488406 GAAATGAAAATCGTAATGC
1 GAAATGAAAATCGCAACGA
488425 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
488444 GAAA
1 GAAA
488448 ATCGCAATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.52, C:0.12, G:0.21, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:488528 original size:20 final size:20
Alignment explanation
Indices: 488485--488554 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
488475 GCGATTTTGT
488485 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAGCCATTTTCG
488504 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
*
488524 TGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
488544 CGTTGCGATAG
1 CGTTGCGATAG
488555 TCAAATGAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 14 0.29
20 34 0.71
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:488532 original size:39 final size:40
Alignment explanation
Indices: 488478--488554 Score: 131
Period size: 39 Copynumber: 1.9 Consensus size: 40
488468 TCGCATTGCG
488478 ATTTTGTCGTTGCGATAGCCA-TTTCGCGTTGCGATAGCC
1 ATTTTGTCGTTGCGATAGCCATTTTCGCGTTGCGATAGCC
488517 ATTTTCGT-GTTGCGATAGCCATTTTCGCGTTGCGATAG
1 ATTTT-GTCGTTGCGATAGCCATTTTCGCGTTGCGATAG
488555 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
39 18 0.50
40 18 0.50
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.38
Consensus pattern (40 bp):
ATTTTGTCGTTGCGATAGCCATTTTCGCGTTGCGATAGCC
Found at i:489008 original size:20 final size:20
Alignment explanation
Indices: 488980--489035 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
488970 GTTGAAGGCA
*
488980 AAACAGACTGTCGCAACACG
1 AAACAGACTATCGCAACACG
* *
489000 AAACTGACTATCGCAACGCG
1 AAACAGACTATCGCAACACG
**
489020 AAA-AGAAAATCGCAAC
1 AAACAGACTATCGCAAC
489036 GATAGAATCG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.11
Consensus pattern (20 bp):
AAACAGACTATCGCAACACG
Found at i:489033 original size:19 final size:19
Alignment explanation
Indices: 489009--489069 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
488999 GAAACTGACT
489009 ATCGCAACGCGAAAAGAAA
1 ATCGCAACGCGAAAAGAAA
*
489028 ATCGCAA--CG-ATAG--A
1 ATCGCAACGCGAAAAGAAA
* *
489042 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAAAGAAA
489061 ATCGCAACG
1 ATCGCAACG
489070 AAAAATTGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 8 0.24
16 5 0.15
17 4 0.12
19 16 0.48
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAAAGAAA
Found at i:489054 original size:33 final size:32
Alignment explanation
Indices: 489009--489100 Score: 114
Period size: 33 Copynumber: 2.9 Consensus size: 32
488999 GAAACTGACT
*
489009 ATCGCAACGCGAAAAGAAAATCGCAACGATAGA
1 ATCGCAACGCGAAAAGAAAATCGCAACGA-AAA
* *
489042 ATCGCAATGCGAAATGAAAATCGCAACGAAAA
1 ATCGCAACGCGAAAAGAAAATCGCAACGAAAA
* **
489074 ATTGCAACGCG-AAACTAAATCGCAACG
1 ATCGCAACGCGAAAAGAAAATCGCAACG
489101 CGAAACTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 13 0.25
32 11 0.22
33 27 0.53
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.12
Consensus pattern (32 bp):
ATCGCAACGCGAAAAGAAAATCGCAACGAAAA
Found at i:489114 original size:19 final size:19
Alignment explanation
Indices: 489071--489115 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
489061 ATCGCAACGA
*
489071 AAAATTGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
489090 -AAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
489108 AAAATCGC
1 AAAATCGC
489116 GTTGCGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.47, C:0.24, G:0.16, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:489174 original size:33 final size:33
Alignment explanation
Indices: 489115--489243 Score: 177
Period size: 33 Copynumber: 3.9 Consensus size: 33
489105 ACTAAAATCG
* * *
489115 CGTTGCGATTTTAATTTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
*
489149 CGTTACGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** *
489182 CGTTGCCTTTTTCATTTCGCATTGCGATTCTAT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
489215 CGTTGCGATTTGCATTTCGCATTGCGATT
1 CGTTGCGATTTTCATTTCGCATTGCGATT
489244 TGTCAAATGA
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 72 0.86
34 12 0.14
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:489241 original size:19 final size:19
Alignment explanation
Indices: 489194--489245 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
489184 TTGCCTTTTT
489194 CATTTCGCATTGCGA-TT-
1 CATTTCGCATTGCGATTTG
*
489211 C-TATCG--TTGCGATTTG
1 CATTTCGCATTGCGATTTG
489227 CATTTCGCATTGCGATTTG
1 CATTTCGCATTGCGATTTG
489246 TCAAATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 6 0.21
15 2 0.07
16 5 0.18
17 5 0.18
19 10 0.36
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.42
Consensus pattern (19 bp):
CATTTCGCATTGCGATTTG
Found at i:489283 original size:20 final size:20
Alignment explanation
Indices: 489258--489308 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
489248 AAATGATTGC
489258 CTTTCGCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
489278 CTTTCGCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
489298 CTTTCGCAACG
1 CTTTCGCAACG
489309 AGATAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (20 bp):
CTTTCGCAACGCGATTCTGA
Found at i:490078 original size:24 final size:24
Alignment explanation
Indices: 490051--490104 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
490041 GTATTCGAAA
*
490051 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
490075 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
490099 TTTGAT
1 TTTGAT
490105 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:490296 original size:12 final size:12
Alignment explanation
Indices: 490279--490303 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
490269 ATATAATCCT
490279 GAAGAAGAAAAA
1 GAAGAAGAAAAA
490291 GAAGAAGAAAAA
1 GAAGAAGAAAAA
490303 G
1 G
490304 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:492602 original size:39 final size:36
Alignment explanation
Indices: 492559--492705 Score: 143
Period size: 33 Copynumber: 4.2 Consensus size: 36
492549 CTTAATGTCT
492559 ATCGCAACGTGAAAATTACTATCGCAATGCGAAATGAAA
1 ATCGCAACGTG-AAA-TA-TATCGCAATGCGAAATGAAA
* *
492598 ATCGCAAC--GAGAGA-ATCGCAATGCGAAATGAAA
1 ATCGCAACGTGAAATATATCGCAATGCGAAATGAAA
492631 ATCGCAACGT--AAT-T-TCGCAATGCGAAATGAAAA
1 ATCGCAACGTGAAATATATCGCAATGCGAAATG-AAA
***
492664 ATCGCAAC--GAGGGA-ATCGCAATGCGAAATGAAA
1 ATCGCAACGTGAAATATATCGCAATGCGAAATGAAA
492697 ATCGCAACG
1 ATCGCAACG
492706 CGAATTTAAT
Statistics
Matches: 92, Mismatches: 7, Indels: 23
0.75 0.06 0.19
Matches are distributed among these distances:
32 15 0.16
33 50 0.54
34 15 0.16
35 1 0.01
36 2 0.02
37 1 0.01
39 8 0.09
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (36 bp):
ATCGCAACGTGAAATATATCGCAATGCGAAATGAAA
Found at i:492621 original size:33 final size:33
Alignment explanation
Indices: 492579--492705 Score: 195
Period size: 33 Copynumber: 3.8 Consensus size: 33
492569 GAAAATTACT
492579 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
492612 ATCGCAATGCGAAATGAAAATCGCAACGTA-A-T
1 ATCGCAATGCGAAATGAAAATCGCAACG-AGAGA
* *
492644 TTCGCAATGCGAAATGAAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATG-AAAATCGCAACGAGAGA
492678 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
492706 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
32 16 0.19
33 53 0.62
34 16 0.19
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:492685 original size:66 final size:65
Alignment explanation
Indices: 492580--492705 Score: 234
Period size: 66 Copynumber: 1.9 Consensus size: 65
492570 AAAATTACTA
492580 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGTAATT
*
492645 TCGCAATGCGAAATGAAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACG
1 TCGCAATGCGAAATG-AAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACG
492706 CGAATTTAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
65 15 0.25
66 44 0.75
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (65 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGTAATT
Found at i:492756 original size:33 final size:33
Alignment explanation
Indices: 492705--492786 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
492695 AAATCGCAAC
* * *
492705 GCGAATTTAATTTCGCGTTGTGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
492738 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
492771 GCGATTTTCATTTCGC
1 GCGATTTTCATTTCGC
492787 ATTACGATAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:492758 original size:19 final size:19
Alignment explanation
Indices: 492734--492786 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
492724 GTGATTCTCT
492734 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
492753 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
492767 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
492786 C
1 C
492787 ATTACGATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
14 10 0.37
16 3 0.11
17 3 0.11
19 11 0.41
ACGTcount: A:0.09, C:0.25, G:0.21, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:492772 original size:14 final size:14
Alignment explanation
Indices: 492720--492776 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
492710 TTTAATTTCG
*
492720 CGTTGTGATTCTCT
1 CGTTGCGATTCTCT
*
492734 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
492753 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
492767 CGTTGCGATT
1 CGTTGCGATT
492777 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:492934 original size:14 final size:14
Alignment explanation
Indices: 492901--492936 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
492891 CATCAATTAA
492901 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
492915 AC-AATCACCTTTT
1 ACAAATCAACTTTT
492928 ACAAATCAA
1 ACAAATCAA
492937 TTAAACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:494348 original size:21 final size:21
Alignment explanation
Indices: 494282--494348 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
494272 GTGAATCGGG
*
494282 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
494302 TCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
494324 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
494345 CTCT
1 CTCT
494349 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:494800 original size:91 final size:90
Alignment explanation
Indices: 494630--494807 Score: 268
Period size: 91 Copynumber: 1.9 Consensus size: 90
494620 ACTTTCATCT
* *
494630 AAAAGACAAAACAAAGACAAATACTAACTTCACTGTGTTAAAGAATACACAGTTTAGCAGAATTG
1 AAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGCAGAATTG
494695 GCAGCAACCAAATAAATTTACTTCAACC
63 GCAGCAACCAAATAAATTTACTTCAACC
*
494723 AAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAGTATTGG
1 AAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGG
*
494787 CAGCAACCGAATAAATTTACT
64 CAGCAACCAAATAAATTTACT
494808 AAGCAATCTA
Statistics
Matches: 79, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
91 41 0.52
93 12 0.15
95 26 0.33
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (90 bp):
AAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCA
GCAACCAAATAAATTTACTTCAACC
Found at i:496546 original size:32 final size:33
Alignment explanation
Indices: 496485--496549 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
496475 CAACGAGATA
496485 AGAGATCGCAACGCGGAAATGACTATCGCAACG
1 AGAGATCGCAACGCGGAAATGACTATCGCAACG
496518 AGAGAATCGCAACGC-GAAA-GACTATCGCAACG
1 AGAG-ATCGCAACGCGGAAATGACTATCGCAACG
496550 CGAAATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 13 0.42
33 8 0.26
34 10 0.32
ACGTcount: A:0.38, C:0.25, G:0.26, T:0.11
Consensus pattern (33 bp):
AGAGATCGCAACGCGGAAATGACTATCGCAACG
Found at i:496583 original size:47 final size:50
Alignment explanation
Indices: 496470--496612 Score: 168
Period size: 47 Copynumber: 2.9 Consensus size: 50
496460 TTGAAATGAA
* * *
496470 AATCGCAACGAGATAAG-AGATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGA-AAGAAAATCGCAACGC-GAAATGA-AATCGCAACGAGAG
** *
496522 AATCGCAACGCGAAAGACTATCGCAACGCGAAATGAAATCGCAAC-TGA-
1 AATCGCAACGCGAAAGAAAATCGCAACGCGAAATGAAATCGCAACGAGAG
*
496570 AATCGC-ACGCGAAATAAAATCGCAACGCGAAATGAAATCGCAA
1 AATCGCAACGCGAAAGAAAATCGCAACGCGAAATGAAATCGCAA
496613 TGCGATTTTG
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
47 34 0.41
48 6 0.07
49 2 0.02
50 8 0.10
51 10 0.12
52 22 0.27
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (50 bp):
AATCGCAACGCGAAAGAAAATCGCAACGCGAAATGAAATCGCAACGAGAG
Found at i:496599 original size:18 final size:18
Alignment explanation
Indices: 496462--496617 Score: 113
Period size: 18 Copynumber: 9.1 Consensus size: 18
496452 TCTTTTGGTT
*
496462 GAAATGAAAATCGCAACGA
1 GAAATG-AAATCGCAACGC
*
496481 GATAA-GAGATCGCAACGC
1 GA-AATGAAATCGCAACGC
*
496499 GGAAATGACTATCGCAA--C
1 -GAAATGA-AATCGCAACGC
*
496517 GAGA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
*
496533 GAAA-GACTATCGCAACGC
1 GAAATGA-AATCGCAACGC
496551 GAAATGAAATCGCAA--C
1 GAAATGAAATCGCAACGC
496567 ----TGAAATCGC-ACGC
1 GAAATGAAATCGCAACGC
*
496580 GAAATAAAATCGCAACGC
1 GAAATGAAATCGCAACGC
*
496598 GAAATGAAATCGCAATGC
1 GAAATGAAATCGCAACGC
496616 GA
1 GA
496618 TTTTGGTTTC
Statistics
Matches: 110, Mismatches: 11, Indels: 33
0.71 0.07 0.21
Matches are distributed among these distances:
11 1 0.01
12 9 0.08
13 1 0.01
14 7 0.06
16 7 0.06
17 11 0.10
18 56 0.51
19 9 0.08
20 9 0.08
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (18 bp):
GAAATGAAATCGCAACGC
Found at i:497289 original size:20 final size:20
Alignment explanation
Indices: 497264--497314 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
497254 TTTTTTATTA
497264 CGCATTGCGATAGTAAGTAT
1 CGCATTGCGATAGTAAGTAT
*
497284 CGCATTGCGATAGTCAGTAT
1 CGCATTGCGATAGTAAGTAT
497304 CGCATTGCGAT
1 CGCATTGCGAT
497315 TTTCCCAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (20 bp):
CGCATTGCGATAGTAAGTAT
Found at i:498816 original size:101 final size:101
Alignment explanation
Indices: 498635--498826 Score: 341
Period size: 101 Copynumber: 1.9 Consensus size: 101
498625 ATAAAATTTG
*
498635 TACTTCTAATCAAATTAGGTTTCTTACTCTCTTAAATTTATATATTAATTAATTTGTGTCACTTT
1 TACTTCTAATCAAATTAGGTTTCTTACTATCTTAAATTTATATATTAATTAATTTGTGTCACTTT
*
498700 AAATTCGAGTTAAACTCTTAA-ATTAAATTAGGTTTC
66 AAATTCGAGTCAAACTC-TAACATTAAATTAGGTTTC
498736 TACTTCTAATCAAATTAGGTTTCTTACTATCTTAAATTTATATATTAATTAATTTGTGTCACTTT
1 TACTTCTAATCAAATTAGGTTTCTTACTATCTTAAATTTATATATTAATTAATTTGTGTCACTTT
*
498801 AAATTTGAGTCAAACTCTAACATTAA
66 AAATTCGAGTCAAACTCTAACATTAA
498827 TTATAGTAAT
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
100 3 0.03
101 84 0.97
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (101 bp):
TACTTCTAATCAAATTAGGTTTCTTACTATCTTAAATTTATATATTAATTAATTTGTGTCACTTT
AAATTCGAGTCAAACTCTAACATTAAATTAGGTTTC
Found at i:500542 original size:38 final size:38
Alignment explanation
Indices: 500491--500572 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
500481 ATCAACATAG
* *
500491 AAATAGATTTATTTGAAATTAAATCGAGATAAGATTGA
1 AAATAAATTTATTTGAAATTAAATCGAGATAAAATTGA
500529 AAATAAATTTATTTGAAATTAAATCGAGATAAAATTGA
1 AAATAAATTTATTTGAAATTAAATCGAGATAAAATTGA
500567 AAATAA
1 AAATAA
500573 GTGTACAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (38 bp):
AAATAAATTTATTTGAAATTAAATCGAGATAAAATTGA
Found at i:506740 original size:15 final size:15
Alignment explanation
Indices: 506722--506750 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
506712 ATCACTATCA
506722 TCATCGTAGTCGTCG
1 TCATCGTAGTCGTCG
506737 TCATCGTAGTCGTC
1 TCATCGTAGTCGTC
506751 ATGAGCAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.28, G:0.24, T:0.34
Consensus pattern (15 bp):
TCATCGTAGTCGTCG
Found at i:508808 original size:21 final size:21
Alignment explanation
Indices: 508773--508838 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
508763 ATAACTGCAA
*
508773 AAAATTAATTAAATAAAATATT
1 AAAA-TAATTTAATAAAATATT
** *
508795 AAAATAATTTAATAATTTAAT
1 AAAATAATTTAATAAAATATT
*
508816 AAAAT-A-CTAATAAAATATT
1 AAAATAATTTAATAAAATATT
508835 AAAA
1 AAAA
508839 AAATAAAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 13 0.36
20 1 0.03
21 18 0.50
22 4 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATAATTTAATAAAATATT
Found at i:510930 original size:108 final size:107
Alignment explanation
Indices: 510567--511051 Score: 416
Period size: 108 Copynumber: 4.4 Consensus size: 107
510557 TTTTTAAAGT
* * *
510567 TGATGGGGCCTTA-AAATCTGACGATAACAAAATAGGTTAATTACTTGATTTGCTATCAATATTA
1 TGATGGGGCCTTAGAAATCCGACGATAACAAAATA-GTTAATTACTTAATTTGTTATCAATATTA
*
510631 TCAACATATTAGGTAGCGCCTAAAATGTTATCAAAGTTTAAGC
65 TCAACATATTAGGTAGCGCCTAAAATATTATCAAAGTTTAAGC
* * * * * **** * * *
510674 TGGTGGAGTCTTAAAAATCCGACGATAACAAAATAGATTAATTACTGAAAACATCATCAACCATA
1 TGATGGGGCCTTAGAAATCCGACGATAACAAAATAG-TTAATTACTTAATTTGTTATCAA-TATT
** ** * * * * ***** *
510739 AT-AGTATAACAAGTATCGCTTAATGTAATAGGTAGTGTCTTTTTAAAGT
64 ATCAACATATTAGGTAGCGCCTAA---AATA-TTA-TCAAAGTTT-AAGC
* * * *
510788 TGATGGGACCTTAGAATTCCAATGATAACAAAATATGTTAATTACTTAATTTGTTATCAATATTA
1 TGATGGGGCCTTAGAAATCCGACGATAACAAAATA-GTTAATTACTTAATTTGTTATCAATATTA
**
510853 TCAACATATTAGGTAGCGTTTAAAATATTATCAAAGTTTAAGC
65 TCAACATATTAGGTAGCGCCTAAAATATTATCAAAGTTTAAGC
* * * *
510896 TGATGGGGCCTTAGAAATCTGACAATAACAAAATAGATTAATTACTTATTTTGTTATTAATATTA
1 TGATGGGGCCTTAGAAATCCGACGATAACAAAATAG-TTAATTACTTAATTTGTTATCAATATTA
* * * *
510961 TCAACATATTAGGTAGCGTCTAAAATGTTACCAAAGTTTAAGA
65 TCAACATATTAGGTAGCGCCTAAAATATTATCAAAGTTTAAGC
* * * *
511004 TGATGGGGCCTTCGAAATCCCACGACAACAAAATATGTTAATTTCTTA
1 TGATGGGGCCTTAGAAATCCGACGATAACAAAATA-GTTAATTACTTA
511052 TTTTATTAGA
Statistics
Matches: 288, Mismatches: 77, Indels: 25
0.74 0.20 0.06
Matches are distributed among these distances:
107 12 0.04
108 186 0.65
109 9 0.03
110 2 0.01
111 7 0.02
112 2 0.01
113 8 0.03
114 61 0.21
115 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (107 bp):
TGATGGGGCCTTAGAAATCCGACGATAACAAAATAGTTAATTACTTAATTTGTTATCAATATTAT
CAACATATTAGGTAGCGCCTAAAATATTATCAAAGTTTAAGC
Found at i:511604 original size:23 final size:23
Alignment explanation
Indices: 511577--511648 Score: 117
Period size: 23 Copynumber: 3.1 Consensus size: 23
511567 CGGTAGCTAG
*
511577 TTTAACATAATAGGTAGTGCTTA
1 TTTAACGTAATAGGTAGTGCTTA
*
511600 TTTAACGTAATAGGTAGTGTTTA
1 TTTAACGTAATAGGTAGTGCTTA
*
511623 TTTAACGTAATATGTAGTGCTTA
1 TTTAACGTAATAGGTAGTGCTTA
511646 TTT
1 TTT
511649 TATTTTACCG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (23 bp):
TTTAACGTAATAGGTAGTGCTTA
Found at i:516634 original size:21 final size:22
Alignment explanation
Indices: 516625--516696 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 22
516615 TTATATTGTT
516625 AAAATATATTGTTTAATTATTA
1 AAAATATATTGTTTAATTATTA
*
516647 AAAATATA--G--AAATTATTA
1 AAAATATATTGTTTAATTATTA
* * *
516665 GAAAATATATTATTTTAATTGTTT
1 -AAAATATATT-GTTTAATTATTA
516689 AAAATATA
1 AAAATATA
516697 ATAATGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
18 8 0.21
19 8 0.21
20 1 0.03
22 8 0.21
23 8 0.21
24 6 0.15
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (22 bp):
AAAATATATTGTTTAATTATTA
Found at i:516639 original size:22 final size:21
Alignment explanation
Indices: 516610--516696 Score: 56
Period size: 22 Copynumber: 4.1 Consensus size: 21
516600 ATTTTTTTTT
*
516610 TATTTTTATATTGTT-AAAATA
1 TATTTTTA-ATTATTAAAAATA
516631 TATTGTTTAATTATTAAAAATA
1 TATT-TTTAATTATTAAAAATA
**
516653 TA---GAAATTATTAGAAAATA
1 TATTTTTAATTATTA-AAAATA
* *
516672 TATTATTTTAATTGTTTAAAATA
1 TA-T-TTTTAATTATTAAAAATA
516695 TA
1 TA
516697 ATAATGATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
18 8 0.16
19 8 0.16
21 9 0.18
22 12 0.24
23 8 0.16
24 6 0.12
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (21 bp):
TATTTTTAATTATTAAAAATA
Found at i:516712 original size:41 final size:42
Alignment explanation
Indices: 516625--516728 Score: 124
Period size: 41 Copynumber: 2.5 Consensus size: 42
516615 TTATATTGTT
* *
516625 AAAATATATT-GTTTAATTATTAAAAATATAGAAATTATTAG
1 AAAATATATTATTTTAATTATTAAAAATATAGAAATGATTAG
* *
516666 AAAATATATTATTTTAATTGTTTAAAATATA-ATAATGATTA-
1 AAAATATATTATTTTAATTATTAAAAATATAGA-AATGATTAG
* *
516707 TAAATATATTATTTTAACTATT
1 AAAATATATTATTTTAATTATT
516729 TTAAATTATG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 30 0.56
42 24 0.44
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (42 bp):
AAAATATATTATTTTAATTATTAAAAATATAGAAATGATTAG
Found at i:520185 original size:154 final size:153
Alignment explanation
Indices: 519977--520292 Score: 476
Period size: 154 Copynumber: 2.1 Consensus size: 153
519967 TCACCAAATT
* * *
519977 TAAGTTACGATGACCCATCAAAAGAGAAACAGAAGATGCTAGTAACATCCAGAACCAAAAATGTC
1 TAAGTTACAATGACCCATCAAAAGAAAAACAGAAGATGCTAATAACATCCAGAACCAAAAATGTC
*
520042 CAAATGTACAATTTCCTTCTTTTATGGGGAAAGAAATTTGGAAATATAAG-CACATATGTCTTTC
66 CAAATGTACAATTTACTTCTTTTATGGGGAAAGAAATTTGGAAATATAAGTC-C--ATGTCTTTC
*
520106 ACTAAA-AAAAATAGTACTC-TCTCCA
128 AATAAAGAAAAATAGTAC-CGTCTCCA
* *
520131 TAAGTTACAATGACCCATCGAAAGAAAAACAGAAGATGCTAATAACATCCAGAACCACAAATGTC
1 TAAGTTACAATGACCCATCAAAAGAAAAACAGAAGATGCTAATAACATCCAGAACCAAAAATGTC
*
520196 CAAATGTACAATTTACTTCTTTTATGGGGAAAGAAATTTGGCAATATAAGTCCATGTCTTTCAAT
66 CAAATGTACAATTTACTTCTTTTATGGGGAAAGAAATTTGGAAATATAAGTCCATGTCTTTCAAT
* *
520261 AAAGCAAAATAGTACCGTCTCCT
131 AAAGAAAAATAGTACCGTCTCCA
*
520284 TAAATTACA
1 TAAGTTACA
520293 TGTCCAACTT
Statistics
Matches: 148, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
152 15 0.10
153 23 0.16
154 109 0.74
155 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.26
Consensus pattern (153 bp):
TAAGTTACAATGACCCATCAAAAGAAAAACAGAAGATGCTAATAACATCCAGAACCAAAAATGTC
CAAATGTACAATTTACTTCTTTTATGGGGAAAGAAATTTGGAAATATAAGTCCATGTCTTTCAAT
AAAGAAAAATAGTACCGTCTCCA
Found at i:533679 original size:23 final size:22
Alignment explanation
Indices: 533655--533775 Score: 90
Period size: 23 Copynumber: 5.5 Consensus size: 22
533645 GAATTAAAAT
533655 TTTTAAAAATTAAATAATATTA
1 TTTTAAAAATTAAATAATATTA
* *
533677 TTTTAAATGAA-TAAATTATATGA
1 TTTTAAA--AATTAAATAATATTA
533700 TTTT-AAAATTAAATAA-A-TA
1 TTTTAAAAATTAAATAATATTA
* *
533719 TTTTAAAATTTTGAA-AATATTA
1 TTTTAAAA-ATTAAATAATATTA
** * **
533741 TTGCAAATAAATAAATAATACGA
1 TTTTAAA-AATTAAATAATATTA
533764 TTTTAAAAATTA
1 TTTTAAAAATTA
533776 TAGTGAAAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
19 5 0.07
20 8 0.11
21 11 0.15
22 23 0.31
23 25 0.34
24 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (22 bp):
TTTTAAAAATTAAATAATATTA
Found at i:534616 original size:7 final size:7
Alignment explanation
Indices: 534604--534634 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
534594 TATTTAAATG
*
534604 ATTCTAT
1 ATTCTAA
534611 ATTCTAA
1 ATTCTAA
534618 ATTCTAA
1 ATTCTAA
534625 ATTCTAA
1 ATTCTAA
534632 ATT
1 ATT
534635 ATAATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTCTAA
Found at i:535133 original size:26 final size:23
Alignment explanation
Indices: 535077--535133 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 23
535067 TATATATTAC
535077 TAAAAATTTATTTTTTAAAATTT
1 TAAAAATTTATTTTTTAAAATTT
**
535100 TATGAATTTATTGTCTCTTAAAATTT
1 TAAAAATTTATT-T-T-TTAAAATTT
535126 TAAAAATT
1 TAAAAATT
535134 CGTTCTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 10 0.37
24 1 0.04
25 1 0.04
26 15 0.56
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (23 bp):
TAAAAATTTATTTTTTAAAATTT
Found at i:536158 original size:37 final size:38
Alignment explanation
Indices: 536073--536162 Score: 146
Period size: 38 Copynumber: 2.4 Consensus size: 38
536063 CCCTAAACCC
536073 AAACCCGACCCGACCCGACCCGAATATCACACTTAAAA
1 AAACCCGACCCGACCCGACCCGAATATCACACTTAAAA
* * *
536111 AAACCTGACCCGACTCGACCCTAATATCACACTT-AAA
1 AAACCCGACCCGACCCGACCCGAATATCACACTTAAAA
536148 AAACCCGACCCGACC
1 AAACCCGACCCGACC
536163 TGAACAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 16 0.34
38 31 0.66
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (38 bp):
AAACCCGACCCGACCCGACCCGAATATCACACTTAAAA
Found at i:537833 original size:3 final size:3
Alignment explanation
Indices: 537825--537864 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
537815 TCTACAAAAA
537825 TAT TAT TA- TAT TA- TAT TA- TAT TA- TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
537865 ATTTATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.24
3 25 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:537838 original size:5 final size:5
Alignment explanation
Indices: 537828--537873 Score: 58
Period size: 5 Copynumber: 8.8 Consensus size: 5
537818 ACAAAAATAT
537828 TATTA TATTA TATTA TATTA TATTA TTATTA TTATTA -ATTTA TATT
1 TATTA TATTA TATTA TATTA TATTA -TATTA -TATTA TA-TTA TATT
537874 TTTGCAGGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 1 0.03
5 25 0.66
6 12 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TATTA
Found at i:545702 original size:23 final size:23
Alignment explanation
Indices: 545665--545728 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
545655 CAGCTCGTAT
545665 AAATGCACCGAAGTGCCACCTAG
1 AAATGCACCGAAGTGCCACCTAG
* * * *
545688 AATTGCACCGTAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACCTAG
545711 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
545729 TATAAGGTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACCTAG
Found at i:545968 original size:23 final size:22
Alignment explanation
Indices: 545941--546003 Score: 99
Period size: 23 Copynumber: 2.8 Consensus size: 22
545931 CATTTCACAT
545941 TTTCACATACACACGTAGTTCAC
1 TTTCACATA-ACACGTAGTTCAC
545964 TTTCACATAAACACGTAGTTCAC
1 TTTCACAT-AACACGTAGTTCAC
*
545987 TTTCACATAGCACGTAG
1 TTTCACATAACACGTAG
546004 ATTATGTCAC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
22 8 0.21
23 29 0.76
24 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (22 bp):
TTTCACATAACACGTAGTTCAC
Found at i:552877 original size:47 final size:48
Alignment explanation
Indices: 552813--552905 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 48
552803 GTGTCACCCC
*
552813 AGATAACCAGCAGTCCTCATCACGTAGGAACCGTGTTATCA-CCCTTT
1 AGATAACCAGCAGTCCTCATCACGTAGGAACCGTATTATCATCCCTTT
* * *
552860 AGATAACCAGCTA-TCCTCATCGCGTGGGAACTGTATTATCATCCCT
1 AGATAACCAGC-AGTCCTCATCACGTAGGAACCGTATTATCATCCCT
552906 AAAGATGGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 35 0.88
48 5 0.12
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
AGATAACCAGCAGTCCTCATCACGTAGGAACCGTATTATCATCCCTTT
Found at i:553201 original size:5 final size:5
Alignment explanation
Indices: 553189--553259 Score: 115
Period size: 5 Copynumber: 14.2 Consensus size: 5
553179 GGTCTACAAA
* * *
553189 ACATT ATATT ATATT ATATT ACATT ACATT ACATT ACATT ACATT ACATT
1 ACATT ACATT ACATT ACATT ACATT ACATT ACATT ACATT ACATT ACATT
553239 ACATT ACATT ACATT ACATT A
1 ACATT ACATT ACATT ACATT A
553260 TTATTATTAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 64 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (5 bp):
ACATT
Found at i:553264 original size:3 final size:3
Alignment explanation
Indices: 553256--553283 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
553246 ATTACATTAC
553256 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
553284 ACTTATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:554768 original size:21 final size:20
Alignment explanation
Indices: 554721--554770 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
554711 CCGAGTGACG
* *
554721 TTTTATAATATTATTATAAA
1 TTTTATTATATAATTATAAA
**
554741 TAATATTATATAATCTATAAA
1 TTTTATTATATAAT-TATAAA
554762 TTTTATTAT
1 TTTTATTAT
554771 TATATTATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTATTATATAATTATAAA
Found at i:560382 original size:22 final size:22
Alignment explanation
Indices: 560357--560411 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
560347 ATTTTGTAAG
560357 GATGATAGATTATCTTTTCAAA
1 GATGATAGATTATCTTTTCAAA
*
560379 GATGATAGATTCTCTTTTCAAA
1 GATGATAGATTATCTTTTCAAA
*
560401 GATGAAAGATT
1 GATGATAGATT
560412 TATCAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATGATAGATTATCTTTTCAAA
Found at i:560999 original size:20 final size:20
Alignment explanation
Indices: 560973--561102 Score: 179
Period size: 20 Copynumber: 6.5 Consensus size: 20
560963 ATTTTCCACG
*
560973 AATTTGTAAAACCTTCGGGT
1 AATTTGTAAAGCCTTCGGGT
*
560993 CATTTGTAAAGCCTTCGGGT
1 AATTTGTAAAGCCTTCGGGT
* * *
561013 CATTTGTAAAGTCTTCAGGT
1 AATTTGTAAAGCCTTCGGGT
*
561033 CATTTGTAAAGCCTTCGGGT
1 AATTTGTAAAGCCTTCGGGT
*
561053 AATTTGTAAATCCTTCGGGT
1 AATTTGTAAAGCCTTCGGGT
* *
561073 AATTTGTAAATCCTTTGGGT
1 AATTTGTAAAGCCTTCGGGT
561093 AATTTGTAAA
1 AATTTGTAAA
561103 TATTTTGGGT
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 101 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (20 bp):
AATTTGTAAAGCCTTCGGGT
Found at i:561459 original size:95 final size:96
Alignment explanation
Indices: 561256--561468 Score: 279
Period size: 96 Copynumber: 2.2 Consensus size: 96
561246 TCATTTTTAG
* * * * *
561256 TCTTTACAGAAGAGTAGTGAAGCTAGAGCAGAAGCAAGATCAAAAATCGAACTCCACGAAAGAGT
1 TCTTCACAGAAGAGTAGTGAAGCAAAAGCAGAAGCAAGAACAAAAATCGAACTCCACGAAAGAAT
*
561321 AGTGGAAAGGATTTTTCAACAAAATATGAGA
66 AGTGGAAAGGATTTTTCAACAAAATATGAAA
* * **
561352 TCTTCACGGAAGAGTAGTGAAGCAAAAGCAAGAA-CAAGAACAAAATTCGCTCTCCAC-AGAAGA
1 TCTTCACAGAAGAGTAGTGAAGCAAAAGC-AGAAGCAAGAACAAAAATCGAACTCCACGA-AAGA
* *
561415 ATAGT-GAAAGGATTTTTCAGCAAAGTATGAAA
64 ATAGTGGAAAGGATTTTTCAACAAAATATGAAA
561447 TCTTCACAGAAGAGTAGTGAAG
1 TCTTCACAGAAGAGTAGTGAAG
561469 TAATCCAATT
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
95 46 0.45
96 52 0.51
97 4 0.04
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.20
Consensus pattern (96 bp):
TCTTCACAGAAGAGTAGTGAAGCAAAAGCAGAAGCAAGAACAAAAATCGAACTCCACGAAAGAAT
AGTGGAAAGGATTTTTCAACAAAATATGAAA
Found at i:563232 original size:29 final size:30
Alignment explanation
Indices: 563190--563253 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
563180 TGCAAACCAA
* *
563190 ACAGAATATGGAATTGGATTTCAATT-TTG
1 ACAGAATATGGAATTGGATTCCAATTCCTG
563219 ACAGAATATGGAATTGGATTCCAATTCCTG
1 ACAGAATATGGAATTGGATTCCAATTCCTG
563249 ACAGA
1 ACAGA
563254 TTTCAATTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (30 bp):
ACAGAATATGGAATTGGATTCCAATTCCTG
Found at i:563260 original size:17 final size:18
Alignment explanation
Indices: 563235--563281 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
563225 TATGGAATTG
*
563235 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
*
563252 GATTTCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
563270 GATTCCAATTCC
1 GATTCCAATTCC
563282 CTCAGAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:566592 original size:3 final size:3
Alignment explanation
Indices: 566482--566581 Score: 149
Period size: 3 Copynumber: 35.0 Consensus size: 3
566472 AAGGAAACTG
566482 ATA ATA A-A ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
566528 ATA ATA ATA A-A ATA ATA ATA ATA ATA A-A AT- ATA AT- ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
566570 ATA ATA ATA ATA
1 ATA ATA ATA ATA
566582 GTGAAATAAT
Statistics
Matches: 90, Mismatches: 0, Indels: 14
0.87 0.00 0.13
Matches are distributed among these distances:
2 12 0.13
3 75 0.83
4 3 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:571967 original size:237 final size:229
Alignment explanation
Indices: 571547--572012 Score: 828
Period size: 236 Copynumber: 2.0 Consensus size: 229
571537 CTCCCTTGGT
571547 GTTATGACCAAAGAACTTTCTCTTCTTTCCAGTTTCATTCAGTGTCAGACTTAGATTAGATTAGA
1 GTTATGACCAAAGAACTTTCTCTTCTTTCCAGTTTCATTCAGTGTCAGACTTAGATTAGATTAGA
571612 TCTATGTTTAAAATCCAAAATTTGTTTTCTATGTTTATAAAATCTGGGTATATCATTTCCCTTGC
66 TCTATGTTTAAAATCCAAAATTTGTTTTCTATGTTTATAAAATCTGGGTATATCATTTCCCTTGC
571677 ATCCAAGTTTTTGCCATGTGGGGATTGTATTAAGGTGAGCAAAACTCGTTCACTTGAC-AACTA-
131 ATCCAAGTTTTTGCCATGTGGGGATTGTATTAAGGTGAGCAAAACTCGTTCACTTGACTAACTAT
571740 TTTTTTATTCGATCTACCATAAATGTTTGTAGTA
196 TTTTTTATTCGATCTACCATAAATGTTTGTAGTA
571774 GTTATGACCAAAGGAACTTTCTCTCTTCTTTCCAGTTTCATTTCAGTGTCAGACTTAGATTTAGA
1 GTTATGACCAAA-GAAC-TT-TCTCTTCTTTCCAGTTTCA-TTCAGTGTCAGACTTAGA-TTAGA
571839 TTTAGATTCTATGTTTAAAATCCAAAATTTTGTTTTCTATGTTTATAAAATCTGGGTTATATCAT
61 -TTAGA-TCTATGTTTAAAATCCAAAA-TTTGTTTTCTATGTTTATAAAATCTGGG-TATATCAT
571904 TTCCCTTGCATCCAAGTTTTTGCCATGTGGGTGATTGTATTAAGGTGAGCAAAACTCGTTCACTT
122 TTCCCTTGCATCCAAGTTTTTGCCATGTGGG-GATTGTATTAAGGTGAGCAAAACTCGTTCACTT
571969 GACTAACTATTTTTTTATTCGATCTACCATAAATGTTTGTAGTA
186 GACTAACTATTTTTTTATTCGATCTACCATAAATGTTTGTAGTA
572013 ACAAGGCGTA
Statistics
Matches: 227, Mismatches: 0, Indels: 12
0.95 0.00 0.05
Matches are distributed among these distances:
227 12 0.05
228 4 0.02
229 2 0.01
230 19 0.08
231 18 0.08
232 5 0.02
233 5 0.02
234 20 0.09
235 28 0.12
236 39 0.17
237 36 0.16
238 5 0.02
239 34 0.15
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (229 bp):
GTTATGACCAAAGAACTTTCTCTTCTTTCCAGTTTCATTCAGTGTCAGACTTAGATTAGATTAGA
TCTATGTTTAAAATCCAAAATTTGTTTTCTATGTTTATAAAATCTGGGTATATCATTTCCCTTGC
ATCCAAGTTTTTGCCATGTGGGGATTGTATTAAGGTGAGCAAAACTCGTTCACTTGACTAACTAT
TTTTTTATTCGATCTACCATAAATGTTTGTAGTA
Found at i:573285 original size:35 final size:34
Alignment explanation
Indices: 573216--573327 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 34
573206 AAAACAATCC
* *
573216 TCAATTTCATTCTAAACACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
*
573250 TCAATTTCATTATAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCCAAAATAAT
* * *
573285 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
573320 TCAATTTC
1 TCAATTTC
573328 TGTCTTTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
34 17 0.25
35 45 0.66
36 6 0.09
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.34
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:573438 original size:29 final size:30
Alignment explanation
Indices: 573381--573438 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
573371 TTACTTTTTA
* * *
573381 TATTTAAAAACATATGATATTTTTTAATAT
1 TATTTAAAAACATATAAAATTTTTCAATAT
*
573411 TATTTAAAGACA-ATAAAATTTTTCAATA
1 TATTTAAAAACATATAAAATTTTTCAATA
573439 GTAGAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (30 bp):
TATTTAAAAACATATAAAATTTTTCAATAT
Found at i:574403 original size:35 final size:35
Alignment explanation
Indices: 574355--574462 Score: 134
Period size: 35 Copynumber: 3.2 Consensus size: 35
574345 ATTCATCCTT
* *
574355 AAATTGAAATATTTTAGAATTTGAGTTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGAGGTTTAGAATG
* * *
574390 TAATTGAATTATTTTGGAATTT-AGGGTT---ATG
1 AAATTGAATTATTTTAGAATTTGAGGTTTAGAATG
*
574421 AAATTGAATTATTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGAGGTTTAGAATG
574456 AAATTGA
1 AAATTGA
574463 GGAATGTTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
31 23 0.38
32 4 0.07
34 4 0.07
35 29 0.48
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATTTGAGGTTTAGAATG
Found at i:578656 original size:179 final size:178
Alignment explanation
Indices: 578357--578710 Score: 636
Period size: 179 Copynumber: 2.0 Consensus size: 178
578347 GGCTAGGGTA
* *
578357 CTGTTGGTGATATTTTTATTAAATATATAATATATATGTAACACCTCCGACTCGTACCCGACCCA
1 CTGTTGGTGATATTTTTATTAAATATATAATATATATGCAACACCTCCGACTCGTACCCGACACA
*
578422 GATACGACTCTGAGATGTCACATTGACTTTCCAACTCTTTGACTCTTTGAAAATTTGACTAAAAT
66 GATACGACTCTGAGATATCACATTGACTTTCCAACTCTTTGACTCTTTGAAAATTTGACTAAAAT
*
578487 TTAACTTTTATTAGACAAATGAAAATATTTTTAAAAAATATATCAAAG
131 TTAACTTTTATTAGACAAATGAAAATATTTTTAAAAAACATATCAAAG
*
578535 CTGTTGGTGATATTTTTATTAAATTATATAATATATATGCAACACCTCCGACTCGTACCTGACAC
1 CTGTTGGTGATATTTTTATTAAA-TATATAATATATATGCAACACCTCCGACTCGTACCCGACAC
*
578600 AGATACGACTCTGAGGTATCACATTGACTTTCCAACTCTTTGACTCTTTGAAAATTTGACTAAAA
65 AGATACGACTCTGAGATATCACATTGACTTTCCAACTCTTTGACTCTTTGAAAATTTGACTAAAA
*
578665 TTTAACTTTTATTAGACAAATGAAAATATTTTTACAAAACATATCA
130 TTTAACTTTTATTAGACAAATGAAAATATTTTTAAAAAACATATCA
578711 GAGCATCTAC
Statistics
Matches: 168, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
178 23 0.14
179 145 0.86
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (178 bp):
CTGTTGGTGATATTTTTATTAAATATATAATATATATGCAACACCTCCGACTCGTACCCGACACA
GATACGACTCTGAGATATCACATTGACTTTCCAACTCTTTGACTCTTTGAAAATTTGACTAAAAT
TTAACTTTTATTAGACAAATGAAAATATTTTTAAAAAACATATCAAAG
Found at i:579281 original size:23 final size:22
Alignment explanation
Indices: 579232--579314 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 22
579222 ATAATTTACA
579232 CCGAAGTG-CCACATA-TTTGTC
1 CCGAAG-GACCACATAGTTTGTC
579253 CCGAAGGACCACATAGGTTTGTC
1 CCGAAGGACCACATA-GTTTGTC
*
579276 CTGAAGGACCACATAGATTTGTC
1 CCGAAGGACCACATAG-TTTGTC
* *
579299 CCGAATGACTACATAG
1 CCGAAGGACCACATAG
579315 AACCCTCGAC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
20 1 0.02
21 13 0.24
22 1 0.02
23 39 0.72
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (22 bp):
CCGAAGGACCACATAGTTTGTC
Found at i:579315 original size:23 final size:23
Alignment explanation
Indices: 579246--579315 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
579236 AGTGCCACAT
579246 ATTTGTCCCGAAGGACCACATAG
1 ATTTGTCCCGAAGGACCACATAG
* *
579269 GTTTGTCCTGAAGGACCACATAG
1 ATTTGTCCCGAAGGACCACATAG
* *
579292 ATTTGTCCCGAATGACTACATAG
1 ATTTGTCCCGAAGGACCACATAG
579315 A
1 A
579316 ACCCTCGACT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (23 bp):
ATTTGTCCCGAAGGACCACATAG
Found at i:582322 original size:20 final size:21
Alignment explanation
Indices: 582299--582339 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
582289 TAGTTTATTT
582299 TAAAC-TTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
582319 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
582340 AACTTGGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (21 bp):
TAAACTTTGTTTCAATTATCG
Found at i:582380 original size:33 final size:32
Alignment explanation
Indices: 582328--582404 Score: 118
Period size: 33 Copynumber: 2.4 Consensus size: 32
582318 GTAAACTTTG
*
582328 TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTGGAAGTATTTAAGTA
* *
582360 TTTGAATTTATCGAATTTGGAAGTATTTAAGTA
1 TTTCAA-TTATCGAACTTGGAAGTATTTAAGTA
582393 TTTCAATTATCG
1 TTTCAATTATCG
582405 TAAACTTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 11 0.28
33 29 0.73
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (32 bp):
TTTCAATTATCGAACTTGGAAGTATTTAAGTA
Found at i:583859 original size:8 final size:8
Alignment explanation
Indices: 583846--583877 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
583836 GCATACGATG
583846 GAAGAGAA
1 GAAGAGAA
583854 GAAGAGAA
1 GAAGAGAA
583862 GAAGAGAA
1 GAAGAGAA
583870 GAAGAGAA
1 GAAGAGAA
583878 AGTCAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (8 bp):
GAAGAGAA
Found at i:592513 original size:28 final size:28
Alignment explanation
Indices: 592473--592529 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
592463 AGTGTTAAAG
592473 TAAGGGGGAGTAATTTCAAAACTTGATT
1 TAAGGGGGAGTAATTTCAAAACTTGATT
592501 TAAGGGGGAGTAATTTCAAAACTTGATT
1 TAAGGGGGAGTAATTTCAAAACTTGATT
592529 T
1 T
592530 CAAAATCTTA
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:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (28 bp):
TAAGGGGGAGTAATTTCAAAACTTGATT
Found at i:597829 original size:86 final size:86
Alignment explanation
Indices: 597684--597856 Score: 346
Period size: 86 Copynumber: 2.0 Consensus size: 86
597674 TCAAACATTT
597684 GACAATGAACGCTCAATCACCCTTGCAGTCATTGGTGATCAAACCCATGAACTCTAGAAACAATA
1 GACAATGAACGCTCAATCACCCTTGCAGTCATTGGTGATCAAACCCATGAACTCTAGAAACAATA
597749 ACATTTCCTTTAACCACTGGG
66 ACATTTCCTTTAACCACTGGG
597770 GACAATGAACGCTCAATCACCCTTGCAGTCATTGGTGATCAAACCCATGAACTCTAGAAACAATA
1 GACAATGAACGCTCAATCACCCTTGCAGTCATTGGTGATCAAACCCATGAACTCTAGAAACAATA
597835 ACATTTCCTTTAACCACTGGG
66 ACATTTCCTTTAACCACTGGG
597856 G
1 G
597857 TAAGTTAGTT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (86 bp):
GACAATGAACGCTCAATCACCCTTGCAGTCATTGGTGATCAAACCCATGAACTCTAGAAACAATA
ACATTTCCTTTAACCACTGGG
Found at i:598714 original size:11 final size:11
Alignment explanation
Indices: 598694--598729 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
598684 ACCTAAACCC
598694 TAAACCAAAAT
1 TAAACCAAAAT
*
598705 TAACCCAAAAT
1 TAAACCAAAAT
*
598716 AAAACCAAAAT
1 TAAACCAAAAT
598727 TAA
1 TAA
598730 TCTGGACCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.64, C:0.19, G:0.00, T:0.17
Consensus pattern (11 bp):
TAAACCAAAAT
Found at i:598738 original size:16 final size:16
Alignment explanation
Indices: 598718--598784 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
598708 CCCAAAATAA
*
598718 AACCAAAATTAATCTG
1 AACCAAAATTAACCTG
* *
598734 GACCAAAAGTAACCTG
1 AACCAAAATTAACCTG
*
598750 AACCGAAATTAA-CTCG
1 AACCAAAATTAACCT-G
* **
598766 AATCAAAAGCAACCTG
1 AACCAAAATTAACCTG
598782 AAC
1 AAC
598785 TGAAAGAAAC
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
15 2 0.05
16 34 0.89
17 2 0.05
ACGTcount: A:0.48, C:0.24, G:0.12, T:0.16
Consensus pattern (16 bp):
AACCAAAATTAACCTG
Done.