Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 162 of 170
Found at i:48133725 original size:177 final size:177
Alignment explanation
Indices: 48133472--48133861 Score: 629
Period size: 177 Copynumber: 2.2 Consensus size: 177
48133462 TGTATGTAGA
*
48133472 GTTGGTGAAACATACAGCGGAAA-GCCAGAGAAAGCTCCAGCAGATAGGGAAGGCAAACCACAGC
1 GTTGGTGAAACATACAAC-GAAAGGCCAGAGAAAGCTCCAGCAGATAGGGAAGGCAAACCACAGC
* * *
48133536 ACCATAAGAACCGATCCATCACTCTCGGGTCAGTTAAAGAATTCAATTTCGACAATATTAATGGA
65 ACCATAAGAACCGATCCATCACTCTCGGCTCACTTAAAGAATTCAATTTCGACAATATTAATGCA
* *
48133601 GAGATAGAAGAAAATGCTACTAAGTCAGTGGAAACTTATGAAGGTCGT
130 GAGATAGAAGAAAATGCTACCAAGTCAGTGGAAACTCATGAAGGTCGT
* *
48133649 GTTGGTGAAACATGCAACGAAAGGCCAGAGCAAGCTCCAGCAGATAGGGAAGGCAAACCACAGCA
1 GTTGGTGAAACATACAACGAAAGGCCAGAGAAAGCTCCAGCAGATAGGGAAGGCAAACCACAGCA
* * *
48133714 CCATAAGAACCGATCCATCACTCTTGGCTCACTTAAAGAATTCAATTTCGACAATGTTAATGCCG
66 CCATAAGAACCGATCCATCACTCTCGGCTCACTTAAAGAATTCAATTTCGACAATATTAATGCAG
* *
48133779 AGATAGAAGAAAATGCTACCAAGTCGGTGGAAACTCATGAATGTCGT
131 AGATAGAAGAAAATGCTACCAAGTCAGTGGAAACTCATGAAGGTCGT
* *
48133826 GTTGGTGAAACATACAATGAAAGACCAGAGAAAGCT
1 GTTGGTGAAACATACAACGAAAGGCCAGAGAAAGCT
48133862 GAAGTATCTC
Statistics
Matches: 195, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
176 4 0.02
177 191 0.98
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (177 bp):
GTTGGTGAAACATACAACGAAAGGCCAGAGAAAGCTCCAGCAGATAGGGAAGGCAAACCACAGCA
CCATAAGAACCGATCCATCACTCTCGGCTCACTTAAAGAATTCAATTTCGACAATATTAATGCAG
AGATAGAAGAAAATGCTACCAAGTCAGTGGAAACTCATGAAGGTCGT
Found at i:48136218 original size:23 final size:23
Alignment explanation
Indices: 48136178--48136226 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
48136168 TAAGAACTAG
* *
48136178 TTTAGTATTGCTTCTAAGAAACA
1 TTTAGCATTACTTCTAAGAAACA
*
48136201 TTTAGCATTACTTTTAAGAAACA
1 TTTAGCATTACTTCTAAGAAACA
48136224 TTT
1 TTT
48136227 TTAAGACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (23 bp):
TTTAGCATTACTTCTAAGAAACA
Found at i:48136246 original size:18 final size:18
Alignment explanation
Indices: 48136223--48136261 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
48136213 TTTAAGAAAC
*
48136223 ATTTTTAAGACAAAAAGT
1 ATTTTTAAGACAAAAAAT
* *
48136241 ATTTTTGAGATAAAAAAT
1 ATTTTTAAGACAAAAAAT
48136259 ATT
1 ATT
48136262 GTCAAACAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (18 bp):
ATTTTTAAGACAAAAAAT
Found at i:48137018 original size:18 final size:19
Alignment explanation
Indices: 48136989--48137024 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
48136979 TTAATAACAT
48136989 TAAAAAATTATTTTAAAAA
1 TAAAAAATTATTTTAAAAA
48137008 TAAAAAA-TATTTTAAAA
1 TAAAAAATTATTTTAAAA
48137025 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAAATTATTTTAAAAA
Found at i:48137458 original size:30 final size:32
Alignment explanation
Indices: 48137422--48137491 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
48137412 ATTCATCAAA
*
48137422 ACAAAAAAC-AG-ATCTTGTAATAAAATGGTG
1 ACAAAAAACTAGAATCTTGTAATAAAATGATG
*
48137452 ACAAAAAACTCGAATCTTGTAATAAAATGATG
1 ACAAAAAACTAGAATCTTGTAATAAAATGATG
48137484 ACAAAAAA
1 ACAAAAAA
48137492 GTGAAGAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 9 0.25
31 1 0.03
32 26 0.72
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.21
Consensus pattern (32 bp):
ACAAAAAACTAGAATCTTGTAATAAAATGATG
Found at i:48143607 original size:16 final size:16
Alignment explanation
Indices: 48143577--48143611 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
48143567 ATTTTTATTA
48143577 TTTTTAAATTAAAAAT
1 TTTTTAAATTAAAAAT
48143593 TTTTATAAATT-AAAAT
1 TTTT-TAAATTAAAAAT
48143609 TTT
1 TTT
48143612 ACTATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTTAAATTAAAAAT
Found at i:48147151 original size:96 final size:96
Alignment explanation
Indices: 48146984--48147174 Score: 337
Period size: 96 Copynumber: 2.0 Consensus size: 96
48146974 ATCAATTGCA
48146984 TGTCTTGTATAATGTTGGAAAGTTCAAAAACAGTGTAAGGTCGTATCATAAGGATAAGGTTTCAC
1 TGTCTTGTATAATGTTGGAAAGTTCAAAAACAGTGTAAGGTCGTATCATAAGGATAAGGTTTCAC
*
48147049 AGAAGTATCCTGTCATCTGCAATTAATAGGG
66 AAAAGTATCCTGTCATCTGCAATTAATAGGG
* * *
48147080 TGTCTTGTATAATGTTGGAAAGTTTAAAAAGAGTTTAAGGTCGTATCATAAGGATAAGGTTTCAC
1 TGTCTTGTATAATGTTGGAAAGTTCAAAAACAGTGTAAGGTCGTATCATAAGGATAAGGTTTCAC
*
48147145 AAAAGTATCCTGTTATCTGCAATTAATAGG
66 AAAAGTATCCTGTCATCTGCAATTAATAGG
48147175 AAACTTCATA
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (96 bp):
TGTCTTGTATAATGTTGGAAAGTTCAAAAACAGTGTAAGGTCGTATCATAAGGATAAGGTTTCAC
AAAAGTATCCTGTCATCTGCAATTAATAGGG
Found at i:48151586 original size:19 final size:19
Alignment explanation
Indices: 48151562--48151598 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48151552 AGTTTTGGGG
48151562 TTAGGAAAAGATGTGAATC
1 TTAGGAAAAGATGTGAATC
* *
48151581 TTAGGAGAGGATGTGAAT
1 TTAGGAAAAGATGTGAAT
48151599 GGGAATGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.32, T:0.27
Consensus pattern (19 bp):
TTAGGAAAAGATGTGAATC
Found at i:48151863 original size:48 final size:50
Alignment explanation
Indices: 48151775--48151877 Score: 147
Period size: 48 Copynumber: 2.1 Consensus size: 50
48151765 GTTTCTTCAT
48151775 CATCAAACTTAAAAAGCAACCACCAGCTTTTATGTTGTAACGTGGCAATCG
1 CATCAAACTTAAAAAGCAACCACCAGC-TTTATGTTGTAACGTGGCAATCG
* * * *
48151826 CATCAACCTT-AAATGCGACCACCAGC-TTATGTTGTAACGTGGCAATTG
1 CATCAAACTTAAAAAGCAACCACCAGCTTTATGTTGTAACGTGGCAATCG
48151874 CATC
1 CATC
48151878 TTCTTTAGCG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
48 25 0.52
50 14 0.29
51 9 0.19
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
CATCAAACTTAAAAAGCAACCACCAGCTTTATGTTGTAACGTGGCAATCG
Found at i:48152062 original size:12 final size:12
Alignment explanation
Indices: 48152040--48152074 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
48152030 ATTGGTATCA
48152040 AATTG-ATTAAT
1 AATTGAATTAAT
48152051 AATTGAATTAAT
1 AATTGAATTAAT
*
48152063 AGTTGAATTAAT
1 AATTGAATTAAT
48152075 TTTCATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (12 bp):
AATTGAATTAAT
Found at i:48154931 original size:19 final size:19
Alignment explanation
Indices: 48154907--48154943 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48154897 GAAGATTCAT
48154907 TCGAAAAAAAAATATAAAC
1 TCGAAAAAAAAATATAAAC
* *
48154926 TCGAAAAATAAGTATAAA
1 TCGAAAAAAAAATATAAA
48154944 AAATTAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (19 bp):
TCGAAAAAAAAATATAAAC
Found at i:48166699 original size:19 final size:17
Alignment explanation
Indices: 48166653--48166700 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 17
48166643 TTCAATTAAA
48166653 ATTTATTA-AAAATATT
1 ATTTATTACAAAATATT
48166669 ATTTTATATACAAAATAAATT
1 A-TTTAT-TACAAAAT--ATT
48166690 ATTTATTACAA
1 ATTTATTACAA
48166701 GGTTGTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.04
17 5 0.19
18 2 0.07
19 10 0.37
20 5 0.19
21 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTATTACAAAATATT
Found at i:48167108 original size:33 final size:33
Alignment explanation
Indices: 48167036--48167122 Score: 86
Period size: 33 Copynumber: 2.6 Consensus size: 33
48167026 TAATTATTTT
* * * * *
48167036 TCAATATAATTGATATTTAATTAACTTGTGACG
1 TCAATTTAATTAATATTTAATTAACTTCTCACA
*
48167069 TTAATTTAATTAATATTTAATTAA-TTCCTCACA
1 TCAATTTAATTAATATTTAATTAACTT-CTCACA
*
48167102 TCAATTTAATCAATTATTTAA
1 TCAATTTAATTAA-TATTTAA
48167123 GGTTGACTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
32 2 0.05
33 35 0.80
34 7 0.16
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (33 bp):
TCAATTTAATTAATATTTAATTAACTTCTCACA
Found at i:48173573 original size:18 final size:18
Alignment explanation
Indices: 48173550--48173626 Score: 56
Period size: 16 Copynumber: 4.5 Consensus size: 18
48173540 ATGTTGTTTC
48173550 AATTTTTTATTTTTAATT
1 AATTTTTTATTTTTAATT
* *
48173568 AATTTTTTA--ATTAATA
1 AATTTTTTATTTTTAATT
* * *
48173584 AATATATTATTTCT-A--
1 AATTTTTTATTTTTAATT
48173599 AATTTTTTATTTTTAATT
1 AATTTTTTATTTTTAATT
*
48173617 CATCTTTTTA
1 AAT-TTTTTA
48173627 ATTAATAACT
Statistics
Matches: 43, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
15 11 0.26
16 13 0.30
17 1 0.02
18 12 0.28
19 6 0.14
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (18 bp):
AATTTTTTATTTTTAATT
Found at i:48173775 original size:22 final size:20
Alignment explanation
Indices: 48173742--48173789 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
48173732 ACTCCTTCAT
* *
48173742 TTATATAAATAAATTAATAA
1 TTATATAAATAAAATAAAAA
48173762 TTATATAATTATAAAATAAAAA
1 TTATATAA--ATAAAATAAAAA
48173784 -TATATA
1 TTATATA
48173790 TTCTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 6 0.25
22 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTATATAAATAAAATAAAAA
Found at i:48175206 original size:63 final size:63
Alignment explanation
Indices: 48175107--48175235 Score: 258
Period size: 63 Copynumber: 2.0 Consensus size: 63
48175097 CACAAAGATG
48175107 AACCTACCGCCATCTGAATTCACAAGTGTTTATCCGGCTTGGCGAAGTACATTAACATATTTC
1 AACCTACCGCCATCTGAATTCACAAGTGTTTATCCGGCTTGGCGAAGTACATTAACATATTTC
48175170 AACCTACCGCCATCTGAATTCACAAGTGTTTATCCGGCTTGGCGAAGTACATTAACATATTTC
1 AACCTACCGCCATCTGAATTCACAAGTGTTTATCCGGCTTGGCGAAGTACATTAACATATTTC
48175233 AAC
1 AAC
48175236 GCATCTCGGC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (63 bp):
AACCTACCGCCATCTGAATTCACAAGTGTTTATCCGGCTTGGCGAAGTACATTAACATATTTC
Found at i:48182991 original size:8 final size:8
Alignment explanation
Indices: 48182978--48183003 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
48182968 TCCAAAAAGC
48182978 TTCCAAAT
1 TTCCAAAT
48182986 TTCCAAAT
1 TTCCAAAT
48182994 TTCCAAAT
1 TTCCAAAT
48183002 TT
1 TT
48183004 AATAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (8 bp):
TTCCAAAT
Found at i:48186763 original size:10 final size:9
Alignment explanation
Indices: 48186736--48186762 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
48186726 AAAGTATATC
48186736 CAAAAAAAA
1 CAAAAAAAA
48186745 CAAAAAAAA
1 CAAAAAAAA
48186754 CAAAAAAAA
1 CAAAAAAAA
48186763 AACTTGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:48187050 original size:37 final size:37
Alignment explanation
Indices: 48187009--48187153 Score: 191
Period size: 37 Copynumber: 3.9 Consensus size: 37
48186999 TTACTTTTAT
* *
48187009 ATTTAATAACTCTATCTTAATTTAATAAAATATTTTT
1 ATTTAATAACTCTATTTTAATTTAATAAAATATTTTC
* * * *
48187046 ATTTAATAACTTTATTTTAATTAAATAAATTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAAATATTTTC
* * *
48187083 ATTTAATAAATTTATTTTGATTTAATAAAATATTTTC
1 ATTTAATAACTCTATTTTAATTTAATAAAATATTTTC
* *
48187120 ATTTAATATCTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAAATATT
48187154 AAATTAAAAT
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 92 1.00
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAAATATTTTC
Found at i:48187051 original size:18 final size:18
Alignment explanation
Indices: 48187009--48187153 Score: 119
Period size: 19 Copynumber: 7.8 Consensus size: 18
48186999 TTACTTTTAT
* * *
48187009 ATTTAATAACTCTATCTTA
1 ATTTAATAAAT-TATTTTC
* *
48187028 ATTTAATAAAATATTTTT
1 ATTTAATAAATTATTTTC
* *
48187046 ATTTAATAACTTTATTTTA
1 ATTTAATAA-ATTATTTTC
* *
48187065 ATTAAATAAATTATTCTC
1 ATTTAATAAATTATTTTC
*
48187083 ATTTAATAAATTTATTTTG
1 ATTTAATAAA-TTATTTTC
*
48187102 ATTTAATAAAATATTTTC
1 ATTTAATAAATTATTTTC
** *
48187120 ATTTAATATCTCTATTTTA
1 ATTTAATAAAT-TATTTTC
*
48187139 ATTTAATAAACTATT
1 ATTTAATAAATTATT
48187154 AAATTAAAAT
Statistics
Matches: 100, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
18 47 0.47
19 53 0.53
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (18 bp):
ATTTAATAAATTATTTTC
Found at i:48187165 original size:74 final size:73
Alignment explanation
Indices: 48187028--48187169 Score: 187
Period size: 74 Copynumber: 1.9 Consensus size: 73
48187018 CTCTATCTTA
* * * ** *
48187028 ATTTAATAAAATATTTTTATTTAATAACTTTATTTTAATTAAATAAATTATTCTCATTTAATAAA
1 ATTTAATAAAATATTTTCATTTAATAACTCTATTTTAATTAAATAAACTATTCAAATTAAAT-AA
48187093 TTTATTTTG
65 TTTATTTTG
* *
48187102 ATTTAATAAAATATTTTCATTTAATATCTCTATTTTAATTTAATAAACTATT-AAATTAAAATAA
1 ATTTAATAAAATATTTTCATTTAATAACTCTATTTTAATTAAATAAACTATTCAAATT-AAATAA
48187166 TTTA
65 TTTA
48187170 CTTAATTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
73 9 0.15
74 50 0.85
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (73 bp):
ATTTAATAAAATATTTTCATTTAATAACTCTATTTTAATTAAATAAACTATTCAAATTAAATAAT
TTATTTTG
Found at i:48195640 original size:3 final size:3
Alignment explanation
Indices: 48195632--48195670 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
48195622 TTTTAGTACA
48195632 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
48195671 GTAACAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:48196014 original size:14 final size:14
Alignment explanation
Indices: 48195995--48196025 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
48195985 CTTCTTTTTA
48195995 TTATTCAAAAATGC
1 TTATTCAAAAATGC
48196009 TTATTCAAAAATGC
1 TTATTCAAAAATGC
48196023 TTA
1 TTA
48196026 GTTTTAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (14 bp):
TTATTCAAAAATGC
Found at i:48205129 original size:14 final size:15
Alignment explanation
Indices: 48205105--48205137 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
48205095 ACATCTTTTG
48205105 ATAATTGCTTCATCC
1 ATAATTGCTTCATCC
48205120 ATAA-TGCTTCATCC
1 ATAATTGCTTCATCC
48205134 ATAA
1 ATAA
48205138 ATTTGAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (15 bp):
ATAATTGCTTCATCC
Found at i:48210410 original size:17 final size:18
Alignment explanation
Indices: 48210363--48210402 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
48210353 AATGTTTCTT
* *
48210363 AAAAGTGCTTTTGGGACA
1 AAAAGTACTTTTAGGACA
48210381 AAAAGTACTTTTAGGACA
1 AAAAGTACTTTTAGGACA
48210399 AAAA
1 AAAA
48210403 TATTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (18 bp):
AAAAGTACTTTTAGGACA
Found at i:48211420 original size:2 final size:2
Alignment explanation
Indices: 48211415--48211444 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
48211405 AAAGAATGGT
48211415 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
48211445 ACAACACTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:48215512 original size:37 final size:37
Alignment explanation
Indices: 48215470--48215544 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
48215460 AGAATAATTC
*
48215470 TATAATAGCTAAATTGACCAAAAGTGTATACGTGAGG
1 TATAATAGCCAAATTGACCAAAAGTGTATACGTGAGG
**
48215507 TATAATAGCCAAATTGACTGAAAGTGTATACGTGAGG
1 TATAATAGCCAAATTGACCAAAAGTGTATACGTGAGG
48215544 T
1 T
48215545 CCACTAAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.28
Consensus pattern (37 bp):
TATAATAGCCAAATTGACCAAAAGTGTATACGTGAGG
Found at i:48230819 original size:35 final size:35
Alignment explanation
Indices: 48230780--48230880 Score: 103
Period size: 35 Copynumber: 3.1 Consensus size: 35
48230770 TTTAATTTTC
48230780 TATTATATCGATCAAAATTATGTATAATTGATATA
1 TATTATATCGATCAAAATTATGTATAATTGATATA
* * * *
48230815 TATTAAATTGAT----A-TATAT-TAATT--T-TC
1 TATTATATCGATCAAAATTATGTATAATTGATATA
48230841 TATTATATCGATCAAAATTATGTATAATTGATATA
1 TATTATATCGATCAAAATTATGTATAATTGATATA
48230876 TATTA
1 TATTA
48230881 AATTGCTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
26 11 0.22
27 1 0.02
29 5 0.10
30 5 0.10
31 5 0.10
32 5 0.10
34 1 0.02
35 16 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (35 bp):
TATTATATCGATCAAAATTATGTATAATTGATATA
Found at i:48230822 original size:61 final size:63
Alignment explanation
Indices: 48230752--48230883 Score: 213
Period size: 61 Copynumber: 2.2 Consensus size: 63
48230742 GCTTAACAAA
48230752 ATATA-TAAATATTGGA-A-AT-TTAATTTTCTATTATATCGATCAAAATTATGTATAATTGAT
1 ATATATTAAATATT-GATATATATTAATTTTCTATTATATCGATCAAAATTATGTATAATTGAT
48230812 ATATATT-AA-ATTGATATATATTAATTTTCTATTATATCGATCAAAATTATGTATAATTGAT
1 ATATATTAAATATTGATATATATTAATTTTCTATTATATCGATCAAAATTATGTATAATTGAT
48230873 ATATATTAAAT
1 ATATATTAAAT
48230884 TGCTTTGTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 9
0.88 0.00 0.12
Matches are distributed among these distances:
58 2 0.03
59 4 0.06
60 9 0.14
61 49 0.74
62 2 0.03
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (63 bp):
ATATATTAAATATTGATATATATTAATTTTCTATTATATCGATCAAAATTATGTATAATTGAT
Found at i:48230825 original size:15 final size:15
Alignment explanation
Indices: 48230805--48230835 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
48230795 AATTATGTAT
48230805 AATTGATATATATTA
1 AATTGATATATATTA
48230820 AATTGATATATATTA
1 AATTGATATATATTA
48230835 A
1 A
48230836 TTTTCTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
AATTGATATATATTA
Found at i:48230884 original size:61 final size:61
Alignment explanation
Indices: 48230771--48230885 Score: 230
Period size: 61 Copynumber: 1.9 Consensus size: 61
48230761 TATTGGAAAT
48230771 TTAATTTTCTATTATATCGATCAAAATTATGTATAATTGATATATATTAAATTGATATATA
1 TTAATTTTCTATTATATCGATCAAAATTATGTATAATTGATATATATTAAATTGATATATA
48230832 TTAATTTTCTATTATATCGATCAAAATTATGTATAATTGATATATATTAAATTG
1 TTAATTTTCTATTATATCGATCAAAATTATGTATAATTGATATATATTAAATTG
48230886 CTTTGTTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (61 bp):
TTAATTTTCTATTATATCGATCAAAATTATGTATAATTGATATATATTAAATTGATATATA
Found at i:48236894 original size:81 final size:84
Alignment explanation
Indices: 48236744--48236903 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 84
48236734 TATATATACT
* * ** *
48236744 TATACATTTTTTATTTTTGTAAATTTATACACACATACATTTTTTTATCTTTACTTTATTTTCAT
1 TATACATTTTTTATTTCTGTAAATATATACACACATACATTGCTTTATCTTTACTTTATTTTCAC
48236809 GATTTACC-AATACAACACA
66 GATTT-CCAAATACAACACA
** * *
48236828 TATACA-TTTTTA-TTCTGTAAATATATACACATGTACA-TGCTTTATGTTTATTTTATTTTCAC
1 TATACATTTTTTATTTCTGTAAATATATACACACATACATTGCTTTATCTTTACTTTATTTTCAC
48236890 GATTTCCAAATACA
66 GATTTCCAAATACA
48236904 TACATGCATT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
80 2 0.03
81 31 0.47
82 21 0.32
83 6 0.09
84 6 0.09
ACGTcount: A:0.32, C:0.15, G:0.04, T:0.49
Consensus pattern (84 bp):
TATACATTTTTTATTTCTGTAAATATATACACACATACATTGCTTTATCTTTACTTTATTTTCAC
GATTTCCAAATACAACACA
Found at i:48238415 original size:293 final size:293
Alignment explanation
Indices: 48237888--48238775 Score: 1704
Period size: 293 Copynumber: 3.0 Consensus size: 293
48237878 AATGAGAGGA
*
48237888 TATCATTTACCATATCTCGAGTTATGAATTTCACTATTGTGAATGATGCTACGTACTGCAGAAGT
1 TATCATTTACCATATCTCGAGTTATGAATTTCACTATTGTGAATGATGCTACATACTGCAGAAGT
48237953 CGTATACCTGACACACCAGCTTTCAGTTTCTTATCTATTTGAACTCAAGTTTTTACTTACATCAA
66 CGTATACCTGACACACCAGCTTTCAGTTTCTTATCTATTTGAACTCAAGTTTTTACTTACATCAA
48238018 AATATACGAGTCACGCATATATAGTCTGTCATGATCCACTCAGGATTAAGGTATGTCATACTTTA
131 AATATACGAGTCACGCATATATAGTCTGTCATGATCCACTCAGGATTAAGGTATGTCATACTTTA
* *
48238083 AATGTCATAAGTGAATAAATCCATAAACGGACTCAGGATCTATTCTTCTTGGGTCCAATTCGATA
196 AATGTCATAAGTGAATAAATCCATAAACGGATTCAGGATCTATTCTTCTTGGGTCCAATTCGATG
48238148 TACTATTAGTCCAATTAGTCACATTTATATCTT
261 TACTATTAGTCCAATTAGTCACATTTATATCTT
*
48238181 TATCATTTACTATATCTCGAGTTATGAATTTCACTATTGTGAATGATGCTACATACTGCAGAAGT
1 TATCATTTACCATATCTCGAGTTATGAATTTCACTATTGTGAATGATGCTACATACTGCAGAAGT
*
48238246 CGTATACCTGACACATCAGCTTTCAGTTTCTTATCTATTTGAACTCAAGTTTTTACTTACATCAA
66 CGTATACCTGACACACCAGCTTTCAGTTTCTTATCTATTTGAACTCAAGTTTTTACTTACATCAA
48238311 AATATACGAGTCACGCATATATAGTCTGTCATGATCCACTCAGGATTAAGGTATGTCATACTTTA
131 AATATACGAGTCACGCATATATAGTCTGTCATGATCCACTCAGGATTAAGGTATGTCATACTTTA
48238376 AATGTCATAAGTGAATAAATCCATAAACGGATTCAGGATCTATTCTTCTTGGGTCCAATTCGATG
196 AATGTCATAAGTGAATAAATCCATAAACGGATTCAGGATCTATTCTTCTTGGGTCCAATTCGATG
48238441 TACTATTAGTCCAATTAGTCACATTTATATCTT
261 TACTATTAGTCCAATTAGTCACATTTATATCTT
48238474 TATCATTTACCATATCTCGAGTTATGAATTTCACTATTGTGAATGATGCTACATACTGCAGAAGT
1 TATCATTTACCATATCTCGAGTTATGAATTTCACTATTGTGAATGATGCTACATACTGCAGAAGT
*
48238539 CGTATACTTGACACACCAGCTTTCAGTTTCTTATCTATTTGAACTCAAGTTTTTACTTACATCAA
66 CGTATACCTGACACACCAGCTTTCAGTTTCTTATCTATTTGAACTCAAGTTTTTACTTACATCAA
48238604 AATATACGAGTCACGCATATATAGTCTGTCATGATCCACTCAGGATTAAGGTATGTCATACTTTA
131 AATATACGAGTCACGCATATATAGTCTGTCATGATCCACTCAGGATTAAGGTATGTCATACTTTA
*
48238669 AATGTCATAAGTGAATAAATCCATAAACGGATTCAGGATCTATTCTTCTTGGGTCCAATTCAATG
196 AATGTCATAAGTGAATAAATCCATAAACGGATTCAGGATCTATTCTTCTTGGGTCCAATTCGATG
48238734 TACTATTAGTCCAATTAGTCACATTTATATCTT
261 TACTATTAGTCCAATTAGTCACATTTATATCTT
*
48238767 TATCTTTTA
1 TATCATTTA
48238776 AAAGTCATCC
Statistics
Matches: 585, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
293 585 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (293 bp):
TATCATTTACCATATCTCGAGTTATGAATTTCACTATTGTGAATGATGCTACATACTGCAGAAGT
CGTATACCTGACACACCAGCTTTCAGTTTCTTATCTATTTGAACTCAAGTTTTTACTTACATCAA
AATATACGAGTCACGCATATATAGTCTGTCATGATCCACTCAGGATTAAGGTATGTCATACTTTA
AATGTCATAAGTGAATAAATCCATAAACGGATTCAGGATCTATTCTTCTTGGGTCCAATTCGATG
TACTATTAGTCCAATTAGTCACATTTATATCTT
Found at i:48240376 original size:23 final size:24
Alignment explanation
Indices: 48240332--48240379 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
48240322 AGAAAGTCGG
*
48240332 TAAGGTTGGAGATTTGAGAAAGTT
1 TAAGGTTGGAGATTTGACAAAGTT
48240356 TAAGGTT-GA-ATCTTGACAAAGTT
1 TAAGGTTGGAGAT-TTGACAAAGTT
48240379 T
1 T
48240380 TGACTATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 2 0.09
23 13 0.59
24 7 0.32
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.35
Consensus pattern (24 bp):
TAAGGTTGGAGATTTGACAAAGTT
Found at i:48243289 original size:20 final size:19
Alignment explanation
Indices: 48243264--48243302 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
48243254 CCAATTTTTT
48243264 TGAAAATTTTAATTATACCC
1 TGAAAATTTTAATTA-ACCC
48243284 TGAAAATTTTAATTAACCC
1 TGAAAATTTTAATTAACCC
48243303 CCTCCTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (19 bp):
TGAAAATTTTAATTAACCC
Found at i:48244811 original size:21 final size:20
Alignment explanation
Indices: 48244787--48244826 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
48244777 CTTCCTATTA
48244787 TCTAATAAAAAACCTAAAATT
1 TCTAATAAAAAACC-AAAATT
*
48244808 TCTAATAATAAACCAAAAT
1 TCTAATAAAAAACCAAAAT
48244827 CACCTATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (20 bp):
TCTAATAAAAAACCAAAATT
Found at i:48245246 original size:234 final size:230
Alignment explanation
Indices: 48244703--48245359 Score: 844
Period size: 234 Copynumber: 2.8 Consensus size: 230
48244693 AATACCAAAG
* *
48244703 TAACAAATAAAAAATGAACCCCATTATTATAAATCAAGTTATTAAATATTTCAAACAAATCTTGA
1 TAACAAATAAAAAATGAACCTCATTATTATAAATCAAATTATTAAATATTTCAAACAAATCTTGA
* * * * *
48244768 TATTCGAAACTTCCTATTATCTAATAAAAAACCTAAAATTTCTAATAATAAACCAAAATCAC-CT
66 AATTTGAAACTTCCCATTATCCAAT-AAAAACCTAAGATTTCTAATAATAAACCAAAA-C-CGC-
*
48244832 ATAT-GATTAATTACAAATACTTTTTGACAAGTATTT---A-CG-GAGTCATGTGAACCAAAAAC
127 ATATCGATTAATTACAAATACTTTTTGACAAGTGTTTGCCACCGTGAGTCATGTGAACCAAAAAC
* * * *
48244891 CTATTAATAAATAAGAATACATTTCAATAAAAAACTTAT
192 CTATCAATAAATAAGAATACATTCCAATAAAAAACCTAC
* * **
48244930 TAACAAATAAAAACTGAACCTCAATATTATAAATCAAATTATTAAATATTTTGAACAAATCTTGA
1 TAACAAATAAAAAATGAACCTCATTATTATAAATCAAATTATTAAATATTTCAAACAAATCTTGA
*
48244995 AATTTGAAACTTCCCATTATCCAATAAAAACCTAAGATTTCTAATAATAAACCGAAACCGCATAT
66 AATTTGAAACTTCCCATTATCCAATAAAAACCTAAGATTTCTAATAATAAACCAAAACCGCATAT
*
48245060 CGAATTAGTTACAAATACTTTTTGACAAGTGTTTGCCACCGTGAGTCATGTGAACCAAAAACCTA
131 CG-ATTAATTACAAATACTTTTTGACAAGTGTTTGCCACCGTGAGTCATGTGAACCAAAAACCTA
48245125 TCAATAAATAAGAATACATTCCAAT-AAAAACCTAC
195 TCAATAAATAAGAATACATTCCAATAAAAAACCTAC
* * *
48245160 TAACAAATAAAAAAAAAATAAACCTCATTATTATGAATCAAATTATTAAATATTTCAAACAAATA
1 TAACAAAT----AAAAAATGAACCTCATTATTATAAATCAAATTATTAAATATTTCAAACAAATC
* * * *
48245225 TTGAAATTTAAAATTTCCCATTATCCAATAAAAACCTAAGATTCCTAATAATAACCCAAAACCGC
62 TTGAAATTTGAAACTTCCCATTATCCAATAAAAACCTAAGATTTCTAATAATAAACCAAAACCGC
* * * * * * * * * * *
48245290 CTATCTCATTAATTATATACATTTTTTGACAAGCGTTTGCCACTGTAAGTCACGTGAACCCAAAA
127 ATATC-GATTAATTACAAATACTTTTTGACAAGTGTTTGCCACCGTGAGTCATGTGAACCAAAAA
48245355 CCTAT
191 CCTAT
48245360 GTATTCTCAA
Statistics
Matches: 375, Mismatches: 42, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
224 5 0.01
225 3 0.01
226 59 0.16
227 80 0.21
229 1 0.00
230 18 0.05
231 46 0.12
234 163 0.43
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (230 bp):
TAACAAATAAAAAATGAACCTCATTATTATAAATCAAATTATTAAATATTTCAAACAAATCTTGA
AATTTGAAACTTCCCATTATCCAATAAAAACCTAAGATTTCTAATAATAAACCAAAACCGCATAT
CGATTAATTACAAATACTTTTTGACAAGTGTTTGCCACCGTGAGTCATGTGAACCAAAAACCTAT
CAATAAATAAGAATACATTCCAATAAAAAACCTAC
Found at i:48249599 original size:15 final size:16
Alignment explanation
Indices: 48249544--48249599 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
48249534 AATGCGTTCT
48249544 AAATTATATAATATATAA
1 AAATTATATAAT-T-TAA
* *
48249562 AAATAATATAATATAA
1 AAATTATATAATTTAA
*
48249578 AGTATTATA-AATTTAA
1 A-AATTATATAATTTAA
48249594 AAATTA
1 AAATTA
48249600 GTTGAGCTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 4 0.13
16 11 0.35
17 5 0.16
18 11 0.35
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAATTATATAATTTAA
Found at i:48250258 original size:50 final size:50
Alignment explanation
Indices: 48250165--48250292 Score: 143
Period size: 50 Copynumber: 2.5 Consensus size: 50
48250155 ATATTAACGG
* * *
48250165 GATGTGTAAATGTTACAGG-CTAAATATGTTAAATTAAAATTAAATTAACA
1 GATGTGTAAATGTTA-TGGACTAAATTTATTAAATTAAAATTAAATTAACA
* *
48250215 GAATGTGTAAATGTT-TGGACTAAATTTATTAAATTAAAGTTAAATTGACA
1 G-ATGTGTAAATGTTATGGACTAAATTTATTAAATTAAAATTAAATTAACA
* * *
48250265 CGATGTGTAAATCTTGTGGACTGAATTT
1 -GATGTGTAAATGTTATGGACTAAATTT
48250293 GTTATCATAC
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
49 2 0.03
50 40 0.60
51 25 0.37
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (50 bp):
GATGTGTAAATGTTATGGACTAAATTTATTAAATTAAAATTAAATTAACA
Found at i:48254122 original size:21 final size:23
Alignment explanation
Indices: 48254086--48254128 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
48254076 TATTTTGTTT
48254086 TTTTTATATATTTGAATGATTTC
1 TTTTTATATATTTGAATGATTTC
*
48254109 TTTTTAT-T-TTTGAATTATTT
1 TTTTTATATATTTGAATGATTT
48254129 TTGTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTTTATATATTTGAATGATTTC
Found at i:48255132 original size:26 final size:25
Alignment explanation
Indices: 48255098--48255146 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
48255088 GTTTTAATTC
48255098 AAAAAGTAGAGGG-ACTAAATTCCTA
1 AAAAAGTAG-GGGAACTAAATTCCTA
*
48255123 AAAATAGTAGGGGAACTATATTCC
1 AAAA-AGTAGGGGAACTAAATTCC
48255147 AAATGTACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.22
Consensus pattern (25 bp):
AAAAAGTAGGGGAACTAAATTCCTA
Found at i:48257585 original size:20 final size:20
Alignment explanation
Indices: 48257539--48257586 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
48257529 CAAAACACAG
48257539 CAGCAAAACAATAGAAACAA
1 CAGCAAAACAATAGAAACAA
* * *
48257559 CAACAAAACAGTGGAAACAA
1 CAGCAAAACAATAGAAACAA
*
48257579 TAGCAAAA
1 CAGCAAAA
48257587 TATAGCAGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.62, C:0.19, G:0.12, T:0.06
Consensus pattern (20 bp):
CAGCAAAACAATAGAAACAA
Found at i:48264053 original size:60 final size:60
Alignment explanation
Indices: 48263989--48264101 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
48263979 ACCGAACAAA
* * * *
48263989 CAAAAAGATTAGGCATCAAATTAAGAAAAAG-AGTCAAGTTCATGTACCAAATTGGACACC
1 CAAAAAGATTAAGCACCAAATTAACAAAAAGTA-TCAAGTTCAGGTACCAAATTGGACACC
* * * *
48264049 CAAAAAGTTTAAGTACCAACTTAACAAAAAGTATCAAGTTGAGGTACCAAATT
1 CAAAAAGATTAAGCACCAAATTAACAAAAAGTATCAAGTTCAGGTACCAAATT
48264102 AAGAAAAAGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
60 43 0.98
61 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (60 bp):
CAAAAAGATTAAGCACCAAATTAACAAAAAGTATCAAGTTCAGGTACCAAATTGGACACC
Found at i:48264096 original size:31 final size:31
Alignment explanation
Indices: 48264053--48264131 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
48264043 GACACCCAAA
* *
48264053 AAGTTTAAGTACCAACTTAACAAAAAGTATC
1 AAGTTCAAGTACCAAATTAACAAAAAGTATC
* * * *
48264084 AAGTTGAGGTACCAAATTAAGAAAAAGTGTC
1 AAGTTCAAGTACCAAATTAACAAAAAGTATC
48264115 AAGTTCAAGTACCAAAT
1 AAGTTCAAGTACCAAAT
48264132 ATTATATTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (31 bp):
AAGTTCAAGTACCAAATTAACAAAAAGTATC
Found at i:48264346 original size:29 final size:31
Alignment explanation
Indices: 48264280--48264347 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 31
48264270 TTTAATGATT
*
48264280 AAAATTTATATAATATAAATTATTACAAAGGA
1 AAAATTTATATAATATAAATTATGACAAA-GA
* *
48264312 ATAAATTTATATAAT-TATATTATGCCAAA-A
1 A-AAATTTATATAATATAAATTATGACAAAGA
48264342 AAAATT
1 AAAATT
48264348 AACACATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 5 0.16
30 2 0.06
32 12 0.38
33 13 0.41
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (31 bp):
AAAATTTATATAATATAAATTATGACAAAGA
Found at i:48267936 original size:31 final size:31
Alignment explanation
Indices: 48267896--48267956 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
48267886 AAATAGTTGC
* *
48267896 TAAATTATTTAAAAATTTTCATTTAAGTCAT
1 TAAACTATTTAAAAATTTTCATTCAAGTCAT
* * *
48267927 TAAACTATTTGAAATTTTTTATTCAAGTCA
1 TAAACTATTTAAAAATTTTCATTCAAGTCA
48267957 CTAGGCTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (31 bp):
TAAACTATTTAAAAATTTTCATTCAAGTCAT
Found at i:48269214 original size:2 final size:2
Alignment explanation
Indices: 48269207--48269233 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48269197 GCTCATCTTC
48269207 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
48269234 AAAGACACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48271229 original size:175 final size:175
Alignment explanation
Indices: 48270932--48271334 Score: 657
Period size: 175 Copynumber: 2.3 Consensus size: 175
48270922 ACCTTGATTA
* * *
48270932 TTACCTGCATGCTGAA-GATGGTGGATCTCATAGTTGAACAGGTGGCAAAAGTGTTTCTCTTTCT
1 TTACCTGCATGCT-AAGGATGGTGGATCTCATAGTCGAACAGGAGGCATAAGTGTTTCTCTTTCT
* * *
48270996 ACTCTTGTCGGTCATGCCATAGGTGGCGGGATCACAACATTTATAGCATCCGACCTAATTCAGTA
65 ACTCTTGACGGTCATGCCATAGGTGGCGGGATCACAACATTGATAGCATCCAACCTAATTCAGTA
* *
48271061 ACCTTGAGTGTAGTTTATCCTTTGAAATACCATGCTTGTCGGGTTC
130 ACCTTAAGTGTAGTTTATCCTTTGAAATACCATGCTTGTCGGCTTC
48271107 TTACCTGCATGCTAAGGATGGTGGATCTCATAGTCGAACAGGAGGCATAAGTGTTTCTCTTTCTA
1 TTACCTGCATGCTAAGGATGGTGGATCTCATAGTCGAACAGGAGGCATAAGTGTTTCTCTTTCTA
* *
48271172 CTCTTGACGGTTATGTCC-TAGGTGGCGGGATCGCAACATTGATAGCATCCAACCTAATTCAGTA
66 CTCTTGACGGTCATG-CCATAGGTGGCGGGATCACAACATTGATAGCATCCAACCTAATTCAGTA
* * *
48271236 ACCTTAAGTGTAGTTTATCCTTTGAAATACTATTCTTGTCGGCTTT
130 ACCTTAAGTGTAGTTTATCCTTTGAAATACCATGCTTGTCGGCTTC
48271282 TTACCTGCATGCTAAGGATGGTGGATCTCATAGTCGAACAGGAGGCATAAGTG
1 TTACCTGCATGCTAAGGATGGTGGATCTCATAGTCGAACAGGAGGCATAAGTG
48271335 GGGGGGGGGT
Statistics
Matches: 213, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
174 2 0.01
175 209 0.98
176 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (175 bp):
TTACCTGCATGCTAAGGATGGTGGATCTCATAGTCGAACAGGAGGCATAAGTGTTTCTCTTTCTA
CTCTTGACGGTCATGCCATAGGTGGCGGGATCACAACATTGATAGCATCCAACCTAATTCAGTAA
CCTTAAGTGTAGTTTATCCTTTGAAATACCATGCTTGTCGGCTTC
Found at i:48277288 original size:45 final size:45
Alignment explanation
Indices: 48277224--48277315 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
48277214 AATATAAACA
* * *
48277224 AGAGCTAACTCTTTAAAAGGAATGGTATACCTTGTAAGCAATCAC
1 AGAGCTAACTCTGTAAAAGGAATGGCAAACCTTGTAAGCAATCAC
48277269 AGAGCTAACTCTGTAAAAGGAATGGCAAACCTTGTAAGCAATCAC
1 AGAGCTAACTCTGTAAAAGGAATGGCAAACCTTGTAAGCAATCAC
48277314 AG
1 AG
48277316 TTCTCGGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (45 bp):
AGAGCTAACTCTGTAAAAGGAATGGCAAACCTTGTAAGCAATCAC
Found at i:48278090 original size:14 final size:14
Alignment explanation
Indices: 48278067--48278106 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
48278057 TTTAATAATG
48278067 TTAAAAATTATACT
1 TTAAAAATTATACT
* * *
48278081 TTAAATATTAAATT
1 TTAAAAATTATACT
48278095 TTAAAAATTATA
1 TTAAAAATTATA
48278107 GGGTCTAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAAAAATTATACT
Found at i:48279547 original size:19 final size:19
Alignment explanation
Indices: 48279519--48279571 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
48279509 AAACATATTT
48279519 TATTTATTTAAAATTTTATA
1 TATTTATTTAAAATTTTA-A
**
48279539 TATTT-TTTAATTTTTTAA
1 TATTTATTTAAAATTTTAA
*
48279557 TATTTAATTAAAATT
1 TATTTATTTAAAATT
48279572 AAATCGATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 6 0.22
19 16 0.59
20 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATTTAAAATTTTAA
Found at i:48288409 original size:19 final size:19
Alignment explanation
Indices: 48288387--48288424 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
48288377 GGAATATTAC
48288387 GAAAATAAGAGAGTGTGAA
1 GAAAATAAGAGAGTGTGAA
48288406 GAAAATAAGAGAGTGTGAA
1 GAAAATAAGAGAGTGTGAA
48288425 ATAAAAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.32, T:0.16
Consensus pattern (19 bp):
GAAAATAAGAGAGTGTGAA
Found at i:48288432 original size:21 final size:19
Alignment explanation
Indices: 48288388--48288430 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
48288378 GAATATTACG
*
48288388 AAAATAAGAGAGTGTGAAG
1 AAAATAAGAGAGTGTGAAA
48288407 AAAATAAGAGAGTGTGAAA
1 AAAATAAGAGAGTGTGAAA
48288426 TAAAA
1 -AAAA
48288431 ATGTGAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (19 bp):
AAAATAAGAGAGTGTGAAA
Found at i:48288975 original size:13 final size:13
Alignment explanation
Indices: 48288957--48288981 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48288947 CGAGGGTCCA
48288957 AGGTCCAAGGTTG
1 AGGTCCAAGGTTG
48288970 AGGTCCAAGGTT
1 AGGTCCAAGGTT
48288982 TAAAATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
AGGTCCAAGGTTG
Found at i:48310386 original size:24 final size:25
Alignment explanation
Indices: 48310356--48310415 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
48310346 ATGTTTTTTT
48310356 TTATTTTTTTTGTT-AATTTGATCC-
1 TTATTTTTTTTGTTAAATTTGA-CCA
*
48310380 TTA-TTTTTTAGTTAAATTTGACCA
1 TTATTTTTTTTGTTAAATTTGACCA
48310404 TTAATTTTTTTT
1 TT-ATTTTTTTT
48310416 AAAAGTCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 11 0.37
24 12 0.40
25 1 0.03
26 6 0.20
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.65
Consensus pattern (25 bp):
TTATTTTTTTTGTTAAATTTGACCA
Found at i:48310393 original size:23 final size:25
Alignment explanation
Indices: 48310360--48310413 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
48310350 TTTTTTTTAT
*
48310360 TTTTTTTGTT-AATTTGATCC-TT-A
1 TTTTTTAGTTAAATTTGA-CCATTAA
48310383 TTTTTTAGTTAAATTTGACCATTAA
1 TTTTTTAGTTAAATTTGACCATTAA
48310408 TTTTTT
1 TTTTTT
48310414 TTAAAAGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 11 0.41
24 9 0.33
25 7 0.26
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (25 bp):
TTTTTTAGTTAAATTTGACCATTAA
Found at i:48318075 original size:22 final size:22
Alignment explanation
Indices: 48318047--48318093 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
48318037 TTTTCAAACA
*
48318047 GATCTGACAT-CTGTATCATATT
1 GATCTGAAATACTGTAT-ATATT
*
48318069 GATCTGAAATACTTTATATATT
1 GATCTGAAATACTGTATATATT
48318091 GAT
1 GAT
48318094 ATATATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (22 bp):
GATCTGAAATACTGTATATATT
Found at i:48323761 original size:3 final size:3
Alignment explanation
Indices: 48323746--48323776 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
48323736 CATTTTTTAC
*
48323746 TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
48323777 TTCGAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:48324351 original size:52 final size:51
Alignment explanation
Indices: 48324269--48324369 Score: 123
Period size: 52 Copynumber: 2.0 Consensus size: 51
48324259 TAATTCTAAA
* ** *
48324269 TAATTCAACAAATTTAATCTTCAATGTTTATATGCTATGTCAATTTAGTAC
1 TAATTCAACAAATTTAATCATCAACATTTATATGCTATATCAATTTAGTAC
* *
48324320 TAATTCTAACAAATTTAA-CAATCAACATTTATATGTTCTATCAATTTAGT
1 TAATTC-AACAAATTTAATC-ATCAACATTTATATGCTATATCAATTTAGT
48324370 CCAGATACTG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 7 0.17
52 35 0.83
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.43
Consensus pattern (51 bp):
TAATTCAACAAATTTAATCATCAACATTTATATGCTATATCAATTTAGTAC
Found at i:48337865 original size:39 final size:40
Alignment explanation
Indices: 48337814--48337902 Score: 119
Period size: 39 Copynumber: 2.2 Consensus size: 40
48337804 TAAAATTATA
* * *
48337814 TTTAATACAATAAAATATTTATTGCATTTATTTGT-GT-TT
1 TTTAATATAATAAAATATTTATTACATTTA-TGGTAGTATT
*
48337853 TTTAATATAATAAAATATTTATTATATTTATGGTAGTATT
1 TTTAATATAATAAAATATTTATTACATTTATGGTAGTATT
48337893 TTTAATATAA
1 TTTAATATAA
48337903 ATATTTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 3 0.07
39 29 0.66
40 12 0.27
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (40 bp):
TTTAATATAATAAAATATTTATTACATTTATGGTAGTATT
Found at i:48338996 original size:17 final size:16
Alignment explanation
Indices: 48338974--48339009 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
48338964 ATGACATCTT
48338974 ATATTTATAATTTTATA
1 ATATTTATAATTTT-TA
*
48338991 ATATTTATACTTTTTA
1 ATATTTATAATTTTTA
48339007 ATA
1 ATA
48339010 ACTTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
ATATTTATAATTTTTA
Found at i:48341805 original size:27 final size:29
Alignment explanation
Indices: 48341769--48341840 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 29
48341759 AAATTATACT
*
48341769 TTTTTTAATAACTTTAAT-G-ATTTTAAA
1 TTTTTAAATAACTTTAATAGTATTTTAAA
* * *
48341796 TTTTTAAATAAAATTT-ATAGTTTTTTTAA
1 TTTTTAAAT-AACTTTAATAGTATTTTAAA
48341825 TTTTTAAA-AACTTTAA
1 TTTTTAAATAACTTTAA
48341841 AATTAATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
27 15 0.42
28 7 0.19
29 14 0.39
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (29 bp):
TTTTTAAATAACTTTAATAGTATTTTAAA
Found at i:48341844 original size:47 final size:44
Alignment explanation
Indices: 48341729--48341844 Score: 115
Period size: 46 Copynumber: 2.5 Consensus size: 44
48341719 CAACATTTAA
* *
48341729 TTAATTTTTTAAAATTTAAAAATGTTAAAAAAATTATACTTTTT
1 TTAATTTTTAAAAATTTAAAATTGTTAAAAAAATTATACTTTTT
* ** * * *
48341773 TTAATAACTTTAATGATTTTAAATTTTTAAATAAAATTTATAGTTTTT
1 TTAAT--TTTTAAAAATTTAAAATTGTTAAA-AAAA-TTATACTTTTT
48341821 TTAATTTTTAAAAACTTTAAAATT
1 TTAATTTTTAAAAA-TTTAAAATT
48341845 AATTAAAAGC
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
44 5 0.09
46 23 0.42
47 12 0.22
48 15 0.27
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (44 bp):
TTAATTTTTAAAAATTTAAAATTGTTAAAAAAATTATACTTTTT
Found at i:48345096 original size:17 final size:18
Alignment explanation
Indices: 48345059--48345096 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
48345049 AATAAAAATT
*
48345059 TATTTTCTAATGAAATAA
1 TATTTTATAATGAAATAA
*
48345077 TATTTTATAAT-AATTAA
1 TATTTTATAATGAAATAA
48345094 TAT
1 TAT
48345097 CATATAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
TATTTTATAATGAAATAA
Found at i:48345612 original size:21 final size:17
Alignment explanation
Indices: 48345571--48345624 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 17
48345561 AACCCACCGT
48345571 AATTTGTATTTTTTATA
1 AATTTGTATTTTTTATA
48345588 AATTTGGTGATTTTTATACTA
1 AATTT-GT-ATTTTT-TA-TA
48345609 AATTT-TCATTTTTTAT
1 AATTTGT-ATTTTTTAT
48345625 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 6 0.19
18 4 0.12
19 13 0.41
20 2 0.06
21 7 0.22
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (17 bp):
AATTTGTATTTTTTATA
Found at i:48349655 original size:34 final size:34
Alignment explanation
Indices: 48349612--48349677 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
48349602 TCAACTCTGT
** *
48349612 CATTATATATACATAAGTTATATATGAACACCGG
1 CATTATATATACATAAACTATATATAAACACCGG
48349646 CATTATATATACATAAACTATATATAAACACC
1 CATTATATATACATAAACTATATATAAACACC
48349678 CACACTCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (34 bp):
CATTATATATACATAAACTATATATAAACACCGG
Found at i:48356726 original size:3 final size:3
Alignment explanation
Indices: 48356718--48356754 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
48356708 TCAGATAGTC
*
48356718 CCT CCT CCT TCT CCT CCT CCT CCT CCT CCT CCT CCT C
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT C
48356755 TTGAATTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
CCT
Found at i:48366646 original size:19 final size:19
Alignment explanation
Indices: 48366622--48366659 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
48366612 AATACTCAAG
48366622 TAACTAATTGCCAATTGAC
1 TAACTAATTGCCAATTGAC
* *
48366641 TAACTAATTTCTAATTGAC
1 TAACTAATTGCCAATTGAC
48366660 GATGGACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (19 bp):
TAACTAATTGCCAATTGAC
Found at i:48374315 original size:42 final size:43
Alignment explanation
Indices: 48374236--48374344 Score: 123
Period size: 43 Copynumber: 2.5 Consensus size: 43
48374226 ATCATTTTGA
* * *
48374236 GATTTACGTGTAAGACCATGTTTGGGACATTAGCATCG-TATAT
1 GATTT-CGTGTAAGACCATGTCTGAGACAGTAGCATCGATATAT
* *
48374279 GATTTCGTGTAAGACCCTGTCTGAGACAGT-GTCATCGATATTT
1 GATTTCGTGTAAGACCATGTCTGAGACAGTAG-CATCGATATAT
* *
48374322 GATTTCATGTAAGACCACGTCTG
1 GATTTCGTGTAAGACCATGTCTG
48374345 GGACGTTGGC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 26 0.46
43 29 0.52
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGAGACAGTAGCATCGATATAT
Found at i:48383589 original size:44 final size:44
Alignment explanation
Indices: 48383526--48384109 Score: 530
Period size: 44 Copynumber: 13.1 Consensus size: 44
48383516 CATCATGGTG
* **
48383526 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
48383570 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * *
48383615 AATCTTATCTCCCTGAAATTGCAATGGAGCAAATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * *
48383660 AATCTTATCTCTCTGAAGTTACAGTGGAGCAGATT-AAAACTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACA
* * *
48383704 AATCTTATCTCCCTGAAGTTGCAGTGGAACATATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
48383748 AGTCTCATCTCCCTGAAGTTGTAGTGGAACAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
48383792 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
48383836 AATCTTATCTCCCTGAAGTTGCAGTGGAGC-GAATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAGATA-CA
* * * ** * *
48383881 AATCTTTTTTCCCTGAAGTTGAAGTGGAATAGATTAAAGCTACAAGTTACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGATACA
* * * * **
48383932 AATCTTATCTCCCTGAAATTACAATGGAGCAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *
48383976 AATC--ATCTCCCTAAAATTGCAGTGGAGGAGATTGAAGATACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * ** * * * * * * *
48384018 AGTCTCATCTCTTTGAAGTTGTAGTAGAGTATATTAAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
48384062 AGTCTAATCTCCCCGAAGTTGCAGTGGAGTAGATTTAAG-TAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
48384106 AATC
1 AATC
48384110 CCATACCTCT
Statistics
Matches: 443, Mismatches: 81, Indels: 32
0.80 0.15 0.06
Matches are distributed among these distances:
42 33 0.07
43 2 0.00
44 268 0.60
45 105 0.24
46 1 0.00
48 1 0.00
51 28 0.06
52 5 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:48384371 original size:28 final size:27
Alignment explanation
Indices: 48384315--48384371 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
48384305 CAAATAATAA
* * *
48384315 AAATAAAATAAAATCCAAAAACAGTCC
1 AAATAAAAAAAAACCCAAAAACAGACC
48384342 AAATACAAAAAAAACCCAAAATACA-ACC
1 AAATA-AAAAAAAACCCAAAA-ACAGACC
48384370 AA
1 AA
48384372 CCCCTAACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 5 0.20
28 17 0.68
29 3 0.12
ACGTcount: A:0.67, C:0.21, G:0.02, T:0.11
Consensus pattern (27 bp):
AAATAAAAAAAAACCCAAAAACAGACC
Found at i:48384848 original size:13 final size:13
Alignment explanation
Indices: 48384830--48384854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48384820 TAATTTTTTT
48384830 AAAAAAAAAAGGC
1 AAAAAAAAAAGGC
48384843 AAAAAAAAAAGG
1 AAAAAAAAAAGG
48384855 ATTTTTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGGC
Found at i:48385550 original size:69 final size:63
Alignment explanation
Indices: 48385463--48385675 Score: 197
Period size: 69 Copynumber: 3.3 Consensus size: 63
48385453 TATATTTGTT
* *
48385463 TTATTTA--TTTATTATTCTTTTACTTTTTAAATACCAAATTTTAATATTATTTATATTTCATC
1 TTATTTATTTTTATTATTCTTTTACATTTTAAATACCAAATTTTAATATTATTTATATTT-AGC
* *
48385525 TATTTATTTATTTGTTCATTATTCTTTTACCTTTTAAATACTTAAA-TTTAATATTATTTATATT
1 ---TTATTTATTT-TT-ATTATTCTTTTACATTTTAAATAC-CAAATTTTAATATTATTTATATT
*
48385589 TGGC
60 TAGC
* * * *
48385593 TTATTTA--TTTATTATCCTTTTACATTTTAAGTACCTAATTTTACTATTATTTATATTT-G-
1 TTATTTATTTTTATTATTCTTTTACATTTTAAATACCAAATTTTAATATTATTTATATTTAGC
48385652 TTATATCTATTTATTTATTATTCT
1 TTAT-T-TA-TT-TTTATTATTCT
48385676 CGATTAACTT
Statistics
Matches: 125, Mismatches: 11, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
59 4 0.03
60 4 0.03
61 41 0.33
62 2 0.02
63 1 0.01
65 24 0.19
67 1 0.01
68 3 0.02
69 42 0.34
70 3 0.02
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (63 bp):
TTATTTATTTTTATTATTCTTTTACATTTTAAATACCAAATTTTAATATTATTTATATTTAGC
Found at i:48385607 original size:61 final size:60
Alignment explanation
Indices: 48385532--48385666 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 60
48385522 ATCTATTTAT
* * * *
48385532 TTATTTGTTCATTATTCTTTTACCTTTTAAATACTTAAATTTAATATTATTTATATTTGGC
1 TTATTTATTTATTATTCTTTTACATTTTAAATAC-TAAATTTAATATTATTTATATTTGTC
* * * *
48385593 TTATTTATTTATTATCCTTTTACATTTTAAGTACCTAATTTTACTATTATTTATATTTGT-
1 TTATTTATTTATTATTCTTTTACATTTTAAATA-CTAAATTTAATATTATTTATATTTGTC
*
48385653 TATATCTATTTATT
1 T-TATTTATTTATT
48385667 TATTATTCTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
60 1 0.02
61 61 0.97
62 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.59
Consensus pattern (60 bp):
TTATTTATTTATTATTCTTTTACATTTTAAATACTAAATTTAATATTATTTATATTTGTC
Found at i:48398134 original size:30 final size:30
Alignment explanation
Indices: 48398100--48398159 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
48398090 CTGCTTGGAG
48398100 GAAAAATTGTCATTAGATATACATAAGCTT
1 GAAAAATTGTCATTAGATATACATAAGCTT
48398130 GAAAAATTGTCATTAGATATACATAAGCTT
1 GAAAAATTGTCATTAGATATACATAAGCTT
48398160 CATCCTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (30 bp):
GAAAAATTGTCATTAGATATACATAAGCTT
Found at i:48411166 original size:12 final size:11
Alignment explanation
Indices: 48411149--48411178 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
48411139 TAAAAGAGGG
48411149 ATTAAATCTAA
1 ATTAAATCTAA
48411160 ATCTAAATCTAA
1 AT-TAAATCTAA
48411172 ATTAAAT
1 ATTAAAT
48411179 AATAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (11 bp):
ATTAAATCTAA
Found at i:48411223 original size:25 final size:24
Alignment explanation
Indices: 48411158--48411231 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 24
48411148 GATTAAATCT
*
48411158 AAATCTAAATCTAAATTAAATAATAA
1 AAAT-TAAATCTAAA-TAAATAAAAA
* ** *
48411184 AAATTAGATAAAAATAAGTAAAACA
1 AAATTAAATCTAAATAAATAAAA-A
48411209 AAATTAAATCTAAATAAAATAAA
1 AAATTAAATCTAAAT-AAATAAA
48411232 TAAATGAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
24 7 0.19
25 20 0.54
26 10 0.27
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (24 bp):
AAATTAAATCTAAATAAATAAAAA
Found at i:48411493 original size:14 final size:14
Alignment explanation
Indices: 48411453--48411498 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
48411443 TCTAAATCTA
48411453 AAATAAATAAT-AT
1 AAATAAATAATAAT
48411466 AAATTAAATAATAAT
1 AAA-TAAATAATAAT
48411481 GAAATAAA-AATAAGT
1 -AAATAAATAATAA-T
48411496 AAA
1 AAA
48411499 ACAAAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.10
14 16 0.55
15 7 0.24
16 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (14 bp):
AAATAAATAATAAT
Found at i:48411509 original size:21 final size:21
Alignment explanation
Indices: 48411485--48411524 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48411475 AATAATGAAA
*
48411485 TAAAAATAAGTAAAACAAAAT
1 TAAAAATAAATAAAACAAAAT
**
48411506 TAAATCTAAATAAAACAAA
1 TAAAAATAAATAAAACAAA
48411525 TAAATGAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (21 bp):
TAAAAATAAATAAAACAAAAT
Found at i:48411594 original size:293 final size:288
Alignment explanation
Indices: 48411030--48411600 Score: 673
Period size: 293 Copynumber: 2.0 Consensus size: 288
48411020 GCTTAAACCG
* * * * *
48411030 AAATTAAATTAAATTTGCAGTATAGTGAGTAGGGTCGATCACACAAAAACTGAACTGGTTAATTT
1 AAATTAAATTAAATTTACAGAATAGTAAGTAGGATCGATCACACAAAAACTGAACTGATTAATTT
* * * * **
48411095 TACGATTTCTTATGACCAAGATTAGACAAATTTTCAAAAACAAATAAAAGAGGGATTAAATCTAA
66 TACAATTTCTTATGACCAAGAGTAGACAAATCTGCAAAAACAAATAAAAGAAAGATTAAATCTAA
** * *
48411160 ATCTAAATCTAAATTAAATAATAAAAATTAGATAAAAATAAGTAAAACAAAATTAAATCTAAATA
131 ATCTAAATAAAAATTAAATAATAAAAATGAAATAAAAATAAGTAAAACAAAATTAAATCTAAATA
* *** * * **
48411225 AAATAAATAAATGAAAACTCTAACCTCAAGTGTGATTTTGACTCCGACTACAAACTGATCTTAGA
196 AAACAAATAAATGAAAACTCTAACCTCAAGCACGATTTTAACTCCGACTACAAACTGACCCGAGA
*
48411290 CAATGGATTTTCTCTTTCGCCTAAATCA
261 CAATAGATTTTCTCTTTCGCCTAAATCA
* ** * *
48411318 AAATTAAATTAAATTTACAGAATAGTAAGTAGGATCGATCCCACTGAGATTGAACTGATTAATTT
1 AAATTAAATTAAATTTACAGAATAGTAAGTAGGATCGATCACACAAAAACTGAACTGATTAATTT
* * * * *
48411383 TACAATTTCTTATGGCC-AGAAGTAGACAAATCTGCTAAATA-AAATAAAATAAATATTAGATCT
66 TACAATTTCTTATGACCAAG-AGTAGACAAATCTGC-AAAAACAAATAAAAGAAAGATTAAATCT
*
48411446 AAATCTAAAATAAATAATATAAATTAAATAATAATGAAATAAAAATAAGTAAAACAAAATTAAAT
129 AAATCT-AAATAAA-AAT-TAAA-T-AATAAAAATGAAATAAAAATAAGTAAAACAAAATTAAAT
* * ** *
48411511 CTAAATAAAACAAATAAATGAAAACTCTAACTTTAAGCACGATTTTAACTCC-AGCTATGAATTG
189 CTAAATAAAACAAATAAATGAAAACTCTAACCTCAAGCACGATTTTAACTCCGA-CTACAAACTG
48411575 AGCCCGA-ACAATAGATTTTCTCTTTC
253 A-CCCGAGACAATAGATTTTCTCTTTC
48411601 AATTGATAAA
Statistics
Matches: 234, Mismatches: 40, Indels: 13
0.82 0.14 0.05
Matches are distributed among these distances:
287 2 0.01
288 105 0.45
289 9 0.04
290 3 0.01
291 4 0.02
292 2 0.01
293 107 0.46
294 2 0.01
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.30
Consensus pattern (288 bp):
AAATTAAATTAAATTTACAGAATAGTAAGTAGGATCGATCACACAAAAACTGAACTGATTAATTT
TACAATTTCTTATGACCAAGAGTAGACAAATCTGCAAAAACAAATAAAAGAAAGATTAAATCTAA
ATCTAAATAAAAATTAAATAATAAAAATGAAATAAAAATAAGTAAAACAAAATTAAATCTAAATA
AAACAAATAAATGAAAACTCTAACCTCAAGCACGATTTTAACTCCGACTACAAACTGACCCGAGA
CAATAGATTTTCTCTTTCGCCTAAATCA
Found at i:48414383 original size:16 final size:16
Alignment explanation
Indices: 48414358--48414392 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
48414348 TTTCTATTGA
*
48414358 TCTGTTCTTCCAATTT
1 TCTGTCCTTCCAATTT
*
48414374 TCTGTCCTTCCTATTT
1 TCTGTCCTTCCAATTT
48414390 TCT
1 TCT
48414393 TTTCACTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.29, G:0.06, T:0.57
Consensus pattern (16 bp):
TCTGTCCTTCCAATTT
Found at i:48426252 original size:22 final size:22
Alignment explanation
Indices: 48426227--48426319 Score: 73
Period size: 22 Copynumber: 4.3 Consensus size: 22
48426217 TGCACTTTGG
**
48426227 TGCTCTCTATTTAGCACTTCAA
1 TGCTCTCTGCTTAGCACTTCAA
* * **
48426249 TGCTATTTGCTTAGCA--TCTGG
1 TGCTCTCTGCTTAGCACTTC-AA
* *
48426270 TGCTCTCTGCTTGGCACTTCAG
1 TGCTCTCTGCTTAGCACTTCAA
* *
48426292 TGCTCTCTGTTTAGCACTACAA
1 TGCTCTCTGCTTAGCACTTCAA
48426314 TGCTCT
1 TGCTCT
48426320 TTGGTGTGGT
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
20 2 0.04
21 13 0.24
22 37 0.69
23 2 0.04
ACGTcount: A:0.16, C:0.27, G:0.17, T:0.40
Consensus pattern (22 bp):
TGCTCTCTGCTTAGCACTTCAA
Found at i:48426306 original size:43 final size:43
Alignment explanation
Indices: 48426224--48426307 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
48426214 TTTTGCACTT
* *
48426224 TGGTGCTCTCTATTTAGCACTTCAATGCTATTTGCTTAGCATC
1 TGGTGCTCTCTACTTAGCACTTCAATGCTATCTGCTTAGCATC
* * * * *
48426267 TGGTGCTCTCTGCTTGGCACTTCAGTGCTCTCTGTTTAGCA
1 TGGTGCTCTCTACTTAGCACTTCAATGCTATCTGCTTAGCA
48426308 CTACAATGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.40
Consensus pattern (43 bp):
TGGTGCTCTCTACTTAGCACTTCAATGCTATCTGCTTAGCATC
Found at i:48430645 original size:20 final size:20
Alignment explanation
Indices: 48430611--48430652 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48430601 AACTATTTAA
** *
48430611 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
48430631 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
48430651 AT
1 AT
48430653 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:48438445 original size:14 final size:15
Alignment explanation
Indices: 48438417--48438447 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
48438407 CGAATATCAA
48438417 ATTTCTATGTATTTC
1 ATTTCTATGTATTTC
48438432 ATTTCTAT-TATTTC
1 ATTTCTATGTATTTC
48438446 AT
1 AT
48438448 CTACATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTTCTATGTATTTC
Found at i:48439782 original size:31 final size:31
Alignment explanation
Indices: 48439744--48439802 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
48439734 CATTTGAGTT
*
48439744 AATTAAGTTATTCGGATAAACTCGAATAAAA
1 AATTAAGTTATTCAGATAAACTCGAATAAAA
* * *
48439775 AATTAAGTTTTTCAGCTTAACTCGAATA
1 AATTAAGTTATTCAGATAAACTCGAATA
48439803 TGAATTACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (31 bp):
AATTAAGTTATTCAGATAAACTCGAATAAAA
Found at i:48450313 original size:55 final size:55
Alignment explanation
Indices: 48450130--48450315 Score: 219
Period size: 55 Copynumber: 3.3 Consensus size: 55
48450120 GGGCAATGGT
* *
48450130 AACAATCGATTCAAAATAAGCAATATTCCAACATAACAATCCATTTAAACATATA
1 AACAATCGATTCAAAAGAAGCAATATTCCAACATAACAATCGATTTAAACATATA
* * * * *
48450185 AACAATCAATTCAAAAAAAAAGTAGTATTCCATCATAACAATCGATTTAAACATATA
1 AACAATCGATTC--AAAAGAAGCAATATTCCAACATAACAATCGATTTAAACATATA
* * * * * *
48450242 AATAATCTATTCAAAAGAAGCAATATTCCAACATGACAATTGATTTAAGCATAAA
1 AACAATCGATTCAAAAGAAGCAATATTCCAACATAACAATCGATTTAAACATATA
* *
48450297 AACAACCGATTGAAAAGAA
1 AACAATCGATTCAAAAGAA
48450316 TATTCTAGCA
Statistics
Matches: 109, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
55 61 0.56
57 48 0.44
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.25
Consensus pattern (55 bp):
AACAATCGATTCAAAAGAAGCAATATTCCAACATAACAATCGATTTAAACATATA
Found at i:48463480 original size:33 final size:33
Alignment explanation
Indices: 48463437--48463512 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
48463427 TCATCTCCAT
* *
48463437 AAAAAGTCATACAAAGTCACTT-TGGTTACTTTAG
1 AAAAA-TCATACAAAATCA-TTAGGGTTACTTTAG
48463471 AAAAATCATACAAAATCATTAGGGTTACTTTAG
1 AAAAATCATACAAAATCATTAGGGTTACTTTAG
*
48463504 ATAAA-CATA
1 AAAAATCATA
48463513 AACATTTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 6 0.16
33 27 0.71
34 5 0.13
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (33 bp):
AAAAATCATACAAAATCATTAGGGTTACTTTAG
Found at i:48475937 original size:87 final size:87
Alignment explanation
Indices: 48475832--48476201 Score: 233
Period size: 87 Copynumber: 4.3 Consensus size: 87
48475822 GACCTACTCT
* * * * * *
48475832 GCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCTC-TGACTTCAATCCACTCCACTGTAACCTCAGGGAGATA
* *
48475896 GGATAGTG-TCTTTGATCTGCTCC
65 AGAT-CTGATCTTTGATCTGCTCC
* **
48475919 GCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACTGTAACCTCAGGGAGATAA
* *
48475984 GATCTGAAATTCTTTGGTCTGTTCC
66 GATCTG--A-TCTTTGATCTGCTCC
* * ** * * *
48476009 ACTGTAATCTCAGGGAGATAAGA-C-CTGA-TGT-GATCTTCTCTACTGTAACTTCAGAGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGACT-TCAATCCACTCCACTGTAACCTCAGGGAGATA
* *
48476070 AGATC----CTTTAATCCGCTCC
65 AGATCTGATCTTTGATCTGCTCC
** * * ** * * *
48476089 ATTGTAATCTCAAGGAGATAGGAT-TACT-ATCTTTGATCCGCTCCGCTGTAATCTCAGGGAGAT
1 GCTGTAATCTCAGGGAGATAAGATCT-CTGA-CTTCAATCCACTCCACTGTAACCTCAGGGAGAT
* * *
48476152 AAGATCTGAAATTTTTTGGTCTGTTCC
64 AAGATCTG--A-TCTTTGATCTGCTCC
* *
48476179 ACTGTAATCTTAGGGAGATAAGA
1 GCTGTAATCTCAGGGAGATAAGA
48476202 CCTGTATAAT
Statistics
Matches: 221, Mismatches: 43, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
80 30 0.14
81 1 0.00
82 3 0.01
83 29 0.13
86 2 0.01
87 87 0.39
88 5 0.02
89 1 0.00
90 63 0.29
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (87 bp):
GCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACTGTAACCTCAGGGAGATAA
GATCTGATCTTTGATCTGCTCC
Found at i:48476024 original size:46 final size:43
Alignment explanation
Indices: 48475872--48476201 Score: 225
Period size: 44 Copynumber: 7.6 Consensus size: 43
48475862 TTTTAATCCA
*
48475872 CTCCACTGTAA-CTTCAGGGAGATAGGA--TAGTGTCTTTGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTA-T-TCTTTGATCTG
* * * **
48475915 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAT-TCTTTGATCTG
* *
48475959 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---ATTCTTTGATCTG
* * * *
48476005 TTCCACTGTAATCTCAGGGAGATAAGACCTGA---TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ATTCTTTGATCTG
* * * *
48476046 CTCTACTGTAA-CTTCAGAGAGATAAGATC----CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTATTCTTTGATCTG
* * * *
48476085 CTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCCG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTA-T-TCTTTGATCTG
* * *
48476129 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTTTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---ATTCTTTGATCTG
* *
48476175 TTCCACTGTAATCTTAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
48476202 CCTGTATAAT
Statistics
Matches: 224, Mismatches: 44, Indels: 35
0.74 0.15 0.12
Matches are distributed among these distances:
39 26 0.12
40 2 0.01
41 29 0.13
43 23 0.10
44 73 0.33
45 2 0.01
46 66 0.29
47 2 0.01
48 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (43 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTATTCTTTGATCTG
Found at i:48488159 original size:16 final size:17
Alignment explanation
Indices: 48488129--48488161 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48488119 CATGGTAAAT
*
48488129 AATAAAAAGTCAACAAA
1 AATAAAAAGTAAACAAA
48488146 AATAAAAA-TAAACAAA
1 AATAAAAAGTAAACAAA
48488162 TAAGAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAGTAAACAAA
Found at i:48488620 original size:14 final size:13
Alignment explanation
Indices: 48488603--48488652 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
48488593 TATATTATAG
*
48488603 TATATAAGTACATA
1 TATATAAATA-ATA
48488617 TATATAAATAATA
1 TATATAAATAATA
48488630 -ATAT-AATAATAA
1 TATATAAATAAT-A
*
48488642 TAAATAAATAA
1 TATATAAATAA
48488653 ATGAGCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 6 0.19
12 5 0.16
13 6 0.19
14 14 0.45
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (13 bp):
TATATAAATAATA
Found at i:48494779 original size:18 final size:19
Alignment explanation
Indices: 48494746--48494781 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
48494736 ATAAAAATAA
*
48494746 TTTAAATATTAATAATTTT
1 TTTAAATATAAATAATTTT
48494765 TTTAAAT-TAAATAATTT
1 TTTAAATATAAATAATTT
48494782 AGAATGTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAAATATAAATAATTTT
Found at i:48494888 original size:16 final size:17
Alignment explanation
Indices: 48494862--48494895 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
48494852 TTTTAGTGAT
*
48494862 TATTTTATTTAGATAAA
1 TATTTTATTTAGAAAAA
48494879 TATTTT-TTTAGAAAAA
1 TATTTTATTTAGAAAAA
48494895 T
1 T
48494896 TAAATTATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TATTTTATTTAGAAAAA
Found at i:48499424 original size:32 final size:32
Alignment explanation
Indices: 48499373--48499452 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
48499363 ATCATACATT
* * * *
48499373 TTAAATAAACATAATTATTCAAGTAATATATC
1 TTAAATAAATATAACTATTCAAATAACATATC
* *
48499405 TTAAATAGATATAACTATTCAAATAACATTTC
1 TTAAATAAATATAACTATTCAAATAACATATC
*
48499437 ATAAATAAATATAACT
1 TTAAATAAATATAACT
48499453 CCAAGTAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (32 bp):
TTAAATAAATATAACTATTCAAATAACATATC
Found at i:48501781 original size:42 final size:42
Alignment explanation
Indices: 48501667--48501819 Score: 150
Period size: 42 Copynumber: 3.6 Consensus size: 42
48501657 CTGACATTGC
*
48501667 AGTGTATCA-TCAGATAAACCGAAGTAAATACACTAGCACACATA
1 AGTGTATCATTC-GATAAACCGAAGTAAATATACTA--ACACATA
* * *
48501711 A-TGCATCATTGGATAAATCGAAGTAAATATACTAACACATA
1 AGTGTATCATTCGATAAACCGAAGTAAATATACTAACACATA
* * * * **
48501752 AGTGTATCATTCGATGAACCAAAGCAAATATATTGGCACATA
1 AGTGTATCATTCGATAAACCGAAGTAAATATACTAACACATA
*
48501794 AGTGTATCA-TCAGATAAACTGAAGTA
1 AGTGTATCATTC-GATAAACCGAAGTA
48501820 TAAACCCATA
Statistics
Matches: 89, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 10 0.11
42 50 0.56
43 27 0.30
44 2 0.02
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (42 bp):
AGTGTATCATTCGATAAACCGAAGTAAATATACTAACACATA
Found at i:48520278 original size:20 final size:20
Alignment explanation
Indices: 48520233--48520284 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
48520223 ATATTAAAAT
48520233 AAAAAATAAA-AATACTTAA
1 AAAAAATAAATAATACTTAA
*
48520252 AATAAAATAAATAA-AGTTATA
1 AA-AAAATAAATAATACTTA-A
48520273 AAAAAATAAATA
1 AAAAAATAAATA
48520285 CCACATATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.07
20 22 0.76
21 5 0.17
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAAATAAATAATACTTAA
Found at i:48520779 original size:19 final size:20
Alignment explanation
Indices: 48520757--48520797 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
48520747 TAGTTTAAAG
48520757 TTTA-TTTTATTTTTAAATA
1 TTTATTTTTATTTTTAAATA
48520776 TTTATTTTTTATTTTTAAATA
1 TTTA-TTTTTATTTTTAAATA
48520797 T
1 T
48520798 ATCTTAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
21 16 0.80
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATTTTTATTTTTAAATA
Found at i:48523256 original size:28 final size:28
Alignment explanation
Indices: 48523223--48523291 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
48523213 ATAAAAAAGC
*
48523223 ATATATATAGATA-TAAAATAATAATATT
1 ATATATATAGATATTAAAATAATAA-AAT
* * **
48523251 TTATATATACATATTTTAATAATAAAAT
1 ATATATATAGATATTAAAATAATAAAAT
48523279 ATATATATAGATA
1 ATATATATAGATA
48523292 GATATGTATA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
28 24 0.73
29 9 0.27
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (28 bp):
ATATATATAGATATTAAAATAATAAAAT
Found at i:48523458 original size:3 final size:3
Alignment explanation
Indices: 48523431--48523549 Score: 84
Period size: 3 Copynumber: 39.7 Consensus size: 3
48523421 AAATAAAAAC
* * * * *
48523431 ATA ACA ATA ATA TTA ATA A-A TATA ATA ATA ACA ATA GTA A-A GATG
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA
*
48523476 ATA ATA ATA ATA A-A TATA ATA ATA ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
48523521 A-A GAAA ATG ATA ATA ATA TTA AAA ATA AT
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA AT
48523550 GAACAAAATA
Statistics
Matches: 89, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
2 4 0.04
3 82 0.92
4 3 0.03
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:48523460 original size:21 final size:20
Alignment explanation
Indices: 48523419--48523521 Score: 72
Period size: 21 Copynumber: 5.2 Consensus size: 20
48523409 ATAAGTGAAT
* *
48523419 ATAA-ATAA-AAACATAACA
1 ATAATATAATAAATATAATA
48523437 ATAATATTAATAAATATAATA
1 ATAATA-TAATAAATATAATA
* * * *
48523458 ATAACAATAGTAAAGATGATA
1 ATAA-TATAATAAATATAATA
48523479 AT-A-ATAATAAATATAATA
1 ATAATATAATAAATATAATA
*
48523497 ATAACAATAAT-AATAATAATA
1 ATAA-TATAATAAAT-ATAATA
48523518 ATAA
1 ATAA
48523522 AGAAAATGAT
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
18 18 0.26
19 2 0.03
20 7 0.10
21 40 0.59
22 1 0.01
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (20 bp):
ATAATATAATAAATATAATA
Found at i:48523461 original size:12 final size:12
Alignment explanation
Indices: 48523416--48523521 Score: 57
Period size: 12 Copynumber: 8.8 Consensus size: 12
48523406 TACATAAGTG
48523416 AATATAAATAA-A
1 AATAT-AATAATA
* *
48523428 AACATAACAAT-
1 AATATAATAATA
48523439 AATAT--TAATA
1 AATATAATAATA
48523449 AATATAATAATAA
1 AATATAATAAT-A
48523462 CAATAGTAA-AGAT-
1 -AATA-TAATA-ATA
*
48523475 GATAATAATAATA
1 AAT-ATAATAATA
48523488 AATATAATAATA
1 AATATAATAATA
48523500 ACA-ATAATAAT-
1 A-ATATAATAATA
48523511 AATAATAATAA
1 AAT-ATAATAA
48523522 AGAAAATGAT
Statistics
Matches: 74, Mismatches: 6, Indels: 28
0.69 0.06 0.26
Matches are distributed among these distances:
9 3 0.04
10 6 0.08
11 9 0.12
12 40 0.54
13 6 0.08
14 5 0.07
15 5 0.07
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (12 bp):
AATATAATAATA
Found at i:48535677 original size:16 final size:16
Alignment explanation
Indices: 48535656--48535688 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48535646 TCCAAGTACC
*
48535656 AAAATTAAATGAAAAA
1 AAAATTAAAAGAAAAA
48535672 AAAATTAAAAGAAAAA
1 AAAATTAAAAGAAAAA
48535688 A
1 A
48535689 GCAATGATAG
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:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (16 bp):
AAAATTAAAAGAAAAA
Found at i:48542728 original size:20 final size:21
Alignment explanation
Indices: 48542703--48542741 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48542693 ATGATGTGAT
48542703 TAAAAATA-AATAAAATTTAG
1 TAAAAATACAATAAAATTTAG
*
48542723 TAAAAATACAATAATATTT
1 TAAAAATACAATAAAATTT
48542742 CATATTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
TAAAAATACAATAAAATTTAG
Found at i:48546046 original size:13 final size:13
Alignment explanation
Indices: 48546026--48546059 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
48546016 TAAAATGTTA
48546026 ATAATTTAATAATT
1 ATAATTTAA-AATT
48546040 A-AATTTAAAATT
1 ATAATTTAAAATT
48546052 ATAATTTA
1 ATAATTTA
48546060 TACCCTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.26
13 13 0.68
14 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATAATTTAAAATT
Found at i:48550258 original size:19 final size:19
Alignment explanation
Indices: 48550231--48550267 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
48550221 GATCCATAAT
*
48550231 TTAATTTAAATTATAAAAA
1 TTAAATTAAATTATAAAAA
48550250 TTAAATTAAATTATAAAA
1 TTAAATTAAATTATAAAA
48550268 TATATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAAATTAAATTATAAAAA
Found at i:48551950 original size:8 final size:8
Alignment explanation
Indices: 48551939--48551984 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
48551929 TAAAAATATA
48551939 ATTTTATT
1 ATTTTATT
48551947 ATTTTATT
1 ATTTTATT
48551955 ATTTTA-T
1 ATTTTATT
48551962 ATATTTA-T
1 AT-TTTATT
*
48551970 ATATTTATA
1 AT-TTTATT
48551979 ATTTTA
1 ATTTTA
48551985 AAAAATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
7 3 0.09
8 30 0.86
9 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
ATTTTATT
Found at i:48555534 original size:16 final size:17
Alignment explanation
Indices: 48555490--48555539 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 17
48555480 TTATATTAAC
*
48555490 TTAA-AATTTAAGTGATT
1 TTAATAATTTAACT-ATT
48555507 TTACATAA-TTAA-TATT
1 TTA-ATAATTTAACTATT
48555523 TTAATAATTTAACTATT
1 TTAATAATTTAACTATT
48555540 ATATTTCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.14
16 10 0.34
17 8 0.28
18 5 0.17
19 2 0.07
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (17 bp):
TTAATAATTTAACTATT
Found at i:48558095 original size:34 final size:35
Alignment explanation
Indices: 48558035--48558101 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
48558025 CAAACACCAG
* *
48558035 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATAATTTTACAGAAAAGT
* *
48558070 AAAACATTTTCCCG-AAATAATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATAATTTTACAGAAAA
48558102 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATAATTTTACAGAAAAGT
Found at i:48562762 original size:5 final size:5
Alignment explanation
Indices: 48562752--48562778 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
48562742 TATATGAGAA
48562752 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
48562779 TTAAATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:48565318 original size:4 final size:4
Alignment explanation
Indices: 48565311--48565338 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
48565301 TATCTATACA
48565311 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
48565339 AAATGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:48572228 original size:41 final size:41
Alignment explanation
Indices: 48572144--48572235 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
48572134 GGCTATGTGC
* * *
48572144 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGATGAAACAATTCAGACTATACGT
* * * * *
48572185 CTAGTAGGCTTAATGCCGATGATACATTTCGGACTATAGGT
1 CTAGCAGGCTTAATGCCGATGAAACAATTCAGACTATACGT
48572226 CTAGCAGGCT
1 CTAGCAGGCT
48572236 AAGAGCCGGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGATGAAACAATTCAGACTATACGT
Found at i:48574219 original size:18 final size:18
Alignment explanation
Indices: 48574193--48574254 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
48574183 GGTGGTAGGG
*
48574193 TTTGGGTTTATTGTTGAT
1 TTTGAGTTTATTGTTGAT
* * * *
48574211 TTTGAGTTT-CTGGTAAGG
1 TTTGAGTTTATTGTTGA-T
*
48574229 TTTGGGTTTATTGTTGAT
1 TTTGAGTTTATTGTTGAT
48574247 TTTGAGTT
1 TTTGAGTT
48574255 CCTTCTTCTG
Statistics
Matches: 31, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
17 4 0.13
18 23 0.74
19 4 0.13
ACGTcount: A:0.13, C:0.02, G:0.29, T:0.56
Consensus pattern (18 bp):
TTTGAGTTTATTGTTGAT
Found at i:48574231 original size:36 final size:36
Alignment explanation
Indices: 48574185--48574254 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
48574175 GAGTTTAAGG
*
48574185 TGGTAGGGTTTGGGTTTATTGTTGATTTTGAGTTTC
1 TGGTAAGGTTTGGGTTTATTGTTGATTTTGAGTTTC
48574221 TGGTAAGGTTTGGGTTTATTGTTGATTTTGAGTT
1 TGGTAAGGTTTGGGTTTATTGTTGATTTTGAGTT
48574255 CCTTCTTCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.13, C:0.01, G:0.33, T:0.53
Consensus pattern (36 bp):
TGGTAAGGTTTGGGTTTATTGTTGATTTTGAGTTTC
Found at i:48582632 original size:22 final size:22
Alignment explanation
Indices: 48582604--48582646 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
48582594 CTCTAATCCT
48582604 CTCAATTTCCTTCCAAAATTCC
1 CTCAATTTCCTTCCAAAATTCC
48582626 CTCAATTTCCTTCCAAAATTC
1 CTCAATTTCCTTCCAAAATTC
48582647 TCTGAAACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.35, G:0.00, T:0.37
Consensus pattern (22 bp):
CTCAATTTCCTTCCAAAATTCC
Found at i:48582724 original size:51 final size:50
Alignment explanation
Indices: 48582622--48582724 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 50
48582612 CCTTCCAAAA
* **
48582622 TTCCCTCAATTTCCTTCCAAAATTCTCTGAAACCCATATTTAATTTCAAT
1 TTCCCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAAAATCAAT
* * *
48582672 TTCCTCTCAATTTCCTTCGAAAATTCTCTCAAATCCATTTTTTAAAAT-AAT
1 TTCC-CTCAATTTCCTTCCAAAATTCTCTCAAACCCA-TATTTAAAATCAAT
48582723 TT
1 TT
48582725 TAAATTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 4 0.09
51 34 0.76
52 7 0.16
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.43
Consensus pattern (50 bp):
TTCCCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAAAATCAAT
Found at i:48584942 original size:21 final size:21
Alignment explanation
Indices: 48584918--48584965 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
48584908 GATGCCGAAT
* *
48584918 CGGAAGAACCACAATCACCAC
1 CGGAAGAACAACAACCACCAC
* * *
48584939 CGGAGGAAGAACAACCACCGC
1 CGGAAGAACAACAACCACCAC
48584960 CGGAAG
1 CGGAAG
48584966 CTAGAGAAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.33, G:0.25, T:0.02
Consensus pattern (21 bp):
CGGAAGAACAACAACCACCAC
Found at i:48585191 original size:29 final size:29
Alignment explanation
Indices: 48585149--48585339 Score: 332
Period size: 29 Copynumber: 6.7 Consensus size: 29
48585139 TATAATAAAA
48585149 TAAAAACCCTAACCCTAACCTAACTTAAT
1 TAAAAACCCTAACCCTAACCTAACTTAAT
48585178 TAAAAACCCTAACCCTAACCTAACTTAAT
1 TAAAAACCCTAACCCTAACCTAACTTAAT
*
48585207 TAAAAACCCTAACTCTAACCTAACTTAAT
1 TAAAAACCCTAACCCTAACCTAACTTAAT
* *
48585236 TAAAAACCCTAACCCTAACCTAA-TAAAA
1 TAAAAACCCTAACCCTAACCTAACTTAAT
*
48585264 TAAAAACCTTAACCCTAACCTAACTTAAT
1 TAAAAACCCTAACCCTAACCTAACTTAAT
48585293 TAAAAACCCTAACCCTAACCTAACTTAAT
1 TAAAAACCCTAACCCTAACCTAACTTAAT
48585322 TAAAAACCCTAA-CCTAAC
1 TAAAAACCCTAACCCTAAC
48585340 ATATTTTGAT
Statistics
Matches: 153, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
28 31 0.20
29 122 0.80
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.24
Consensus pattern (29 bp):
TAAAAACCCTAACCCTAACCTAACTTAAT
Found at i:48585295 original size:86 final size:87
Alignment explanation
Indices: 48585149--48585339 Score: 332
Period size: 86 Copynumber: 2.2 Consensus size: 87
48585139 TATAATAAAA
* *
48585149 TAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
1 TAAAAACCCTAACCCTAACCTAACTAAAATAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
*
48585214 CCTAACTCTAACCTAACTTAAT
66 CCTAACCCTAACCTAACTTAAT
*
48585236 TAAAAACCCTAACCCTAACCTAA-TAAAATAAAAACCTTAACCCTAACCTAACTTAATTAAAAAC
1 TAAAAACCCTAACCCTAACCTAACTAAAATAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
48585300 CCTAACCCTAACCTAACTTAAT
66 CCTAACCCTAACCTAACTTAAT
48585322 TAAAAACCCTAA-CCTAAC
1 TAAAAACCCTAACCCTAAC
48585340 ATATTTTGAT
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
85 6 0.06
86 71 0.71
87 23 0.23
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.24
Consensus pattern (87 bp):
TAAAAACCCTAACCCTAACCTAACTAAAATAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
CCTAACCCTAACCTAACTTAAT
Found at i:48588741 original size:126 final size:126
Alignment explanation
Indices: 48588516--48588868 Score: 602
Period size: 125 Copynumber: 2.8 Consensus size: 126
48588506 CCCAAACTTG
48588516 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
48588581 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAATAAAAAAATTATTTCTTACGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGAAAAAAATTATTTCTTACATGAC
* *
48588642 CTACTGTAGCAAAATCGCGTCCACGAGGGGGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* * *
48588707 TAGAAACGATTTTATACTATTTGCTCAAAAACGTC-AGAACAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGAAAAAAATTATTTCTTACATGAC
*
48588767 CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
48588832 TAGAAGCAATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
48588869 CTCGAAATAA
Statistics
Matches: 212, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
125 114 0.54
126 98 0.46
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGAAAAAAATTATTTCTTACATGAC
Done.