Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 44 of 187
Found at i:12945551 original size:21 final size:22
Alignment explanation
Indices: 12945525--12945568 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
12945515 TTGAAAATGA
*
12945525 TAAGACTTGAATCC-CAACCTT
1 TAAGACTTGAAGCCTCAACCTT
12945546 TAAGACTTGAAGCCTCAACCTT
1 TAAGACTTGAAGCCTCAACCTT
12945568 T
1 T
12945569 TCGATGAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (22 bp):
TAAGACTTGAAGCCTCAACCTT
Found at i:12946436 original size:32 final size:31
Alignment explanation
Indices: 12946394--12946487 Score: 179
Period size: 31 Copynumber: 3.0 Consensus size: 31
12946384 AGATAATTTT
12946394 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
12946425 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
12946457 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
12946488 TAATTTGCCT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
31 31 0.50
32 31 0.50
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:12946800 original size:4 final size:4
Alignment explanation
Indices: 12946791--12946817 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
12946781 ATCTATCATT
12946791 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
12946818 CCTATTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:12951358 original size:32 final size:31
Alignment explanation
Indices: 12951313--12951408 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
12951303 CTTAGATAAT
12951313 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
12951344 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
12951376 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
12951407 TT
1 TT
12951409 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:12951762 original size:4 final size:4
Alignment explanation
Indices: 12951712--12951746 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
12951702 ATCTATCCTT
12951712 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
12951747 ACTAATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:12953001 original size:17 final size:17
Alignment explanation
Indices: 12952975--12953008 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12952965 TTTTGTAAGC
12952975 TTTGTCTGTTTAAGTAA
1 TTTGTCTGTTTAAGTAA
* *
12952992 TTTGTGTGTTTATGTAA
1 TTTGTCTGTTTAAGTAA
12953009 GTTGCGAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.56
Consensus pattern (17 bp):
TTTGTCTGTTTAAGTAA
Found at i:12963231 original size:26 final size:26
Alignment explanation
Indices: 12963200--12963249 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
12963190 AATATTTATG
*
12963200 AGGTTAATATCAAAATATATTAAAAT
1 AGGTTAATATAAAAATATATTAAAAT
12963226 AGGTTAATATAAAAATATATTAAA
1 AGGTTAATATAAAAATATATTAAA
12963250 CAGATAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (26 bp):
AGGTTAATATAAAAATATATTAAAAT
Found at i:12973712 original size:16 final size:17
Alignment explanation
Indices: 12973672--12973711 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
12973662 AAAATTAAAT
*
12973672 AACTAAAATAAATAAAC
1 AACTAAAATAAACAAAC
12973689 AA-TAAAATAAACAAAC
1 AACTAAAATAAACAAAC
12973705 AACTAAA
1 AACTAAA
12973712 TCAATTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.15
Consensus pattern (17 bp):
AACTAAAATAAACAAAC
Found at i:12975032 original size:25 final size:25
Alignment explanation
Indices: 12974989--12975131 Score: 124
Period size: 25 Copynumber: 5.7 Consensus size: 25
12974979 GTCGTTATAG
* * * *
12974989 AATTTACCTCAAAGGCTTTCCAGGT
1 AATTTGCCACAAAGGCTTTTCAGAT
*
12975014 AATATGCCACAAAGGCTTTTCAGAT
1 AATTTGCCACAAAGGCTTTTCAGAT
* * *
12975039 AATTTACCATAAAGGATTTTCAGAT
1 AATTTGCCACAAAGGCTTTTCAGAT
* *
12975064 AATTTGCCACAAATGCTTTTTAGAT
1 AATTTGCCACAAAGGCTTTTCAGAT
** * * * *
12975089 AATTCACCATAAAGGCTTTTTAAAA
1 AATTTGCCACAAAGGCTTTTCAGAT
**
12975114 AATTCACCACAAAGGCTT
1 AATTTGCCACAAAGGCTT
12975132 GGTCTTGTTT
Statistics
Matches: 97, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 97 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (25 bp):
AATTTGCCACAAAGGCTTTTCAGAT
Found at i:12975046 original size:50 final size:50
Alignment explanation
Indices: 12974989--12975107 Score: 159
Period size: 50 Copynumber: 2.4 Consensus size: 50
12974979 GTCGTTATAG
*
12974989 AATTTACC-TCAAAGGCTTTCCAGGTAATATGCCACAAAGGCTTTTCAGAT
1 AATTTACCAT-AAAGGCTTTCCAGATAATATGCCACAAAGGCTTTTCAGAT
* * * * *
12975039 AATTTACCATAAAGGATTTTCAGATAATTTGCCACAAATGCTTTTTAGAT
1 AATTTACCATAAAGGCTTTCCAGATAATATGCCACAAAGGCTTTTCAGAT
*
12975089 AATTCACCATAAAGGCTTT
1 AATTTACCATAAAGGCTTT
12975108 TTAAAAAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 59 0.98
51 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (50 bp):
AATTTACCATAAAGGCTTTCCAGATAATATGCCACAAAGGCTTTTCAGAT
Found at i:12975124 original size:50 final size:50
Alignment explanation
Indices: 12975020--12975131 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 50
12975010 AGGTAATATG
* * * **
12975020 CCACAAAGGCTTTTCAGATAATTTACCATAAAGGATTTTCAGATAATTTG
1 CCACAAAGGCTTTTCAGATAATTCACCATAAAGGATTTTCAAAAAATTCA
* * * *
12975070 CCACAAATGCTTTTTAGATAATTCACCATAAAGGCTTTTTAAAAAATTCA
1 CCACAAAGGCTTTTCAGATAATTCACCATAAAGGATTTTCAAAAAATTCA
12975120 CCACAAAGGCTT
1 CCACAAAGGCTT
12975132 GGTCTTGTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (50 bp):
CCACAAAGGCTTTTCAGATAATTCACCATAAAGGATTTTCAAAAAATTCA
Found at i:12977651 original size:37 final size:37
Alignment explanation
Indices: 12977610--12977752 Score: 133
Period size: 39 Copynumber: 3.8 Consensus size: 37
12977600 TCATTTCGAG
** *
12977610 TAATCAGTGGATATCATTCGTTTGAGAAAATATTCAA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAATATTCAA
* * * * *
12977647 TAATCAATGGGTATCGCTCATTTAAGCAAACATTCAGTA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAATATTCA--A
* *
12977686 TAATCAGTGGATATTGCTCGTTTGAGCAACTATTCAA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAATATTCAA
* * *
12977723 TAGAATTAGTAGATATTGCTCGTTTGAGCA
1 T--AATCAGTGGATATCGCTCGTTTGAGCA
12977753 CTTCAGTAGA
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
37 30 0.35
39 55 0.65
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (37 bp):
TAATCAGTGGATATCGCTCGTTTGAGCAAATATTCAA
Found at i:12977770 original size:36 final size:37
Alignment explanation
Indices: 12977679--12978095 Score: 497
Period size: 36 Copynumber: 11.4 Consensus size: 37
12977669 TAAGCAAACA
* *
12977679 TTCAGTATAATCAGTGGATATTGCTCGTTTGAGCAACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGC-ACT
* *
12977717 ATTCAATAGAATTAGTAGATATTGCTCGTTTGAGCAC-
1 -TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* * * *
12977754 TTCAGTAGAACCAGTAGACATTGCTCTTTTGAGCACG
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* * * *
12977791 TTCAATAGGATCAGTAGATATTGATTG-TTGAGCACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
12977827 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* * *
12977863 TTCAGTAGAATCAATAGACATTGCTCGTTTGAGCACA
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* **
12977900 TTCAGTAGGATCAGTAGATATTGCTCG-TTGAGTGCT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* * *
12977936 TTCAGTAGAATCAATAGATATTGCACGTTTGAGAACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* *
12977973 TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACA
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* * *
12978010 TTCAATAGGATCAGTAGATATTGCTTG-TTGAGCACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* * * *
12978046 TTCAGTAGTATTAGTAGATATTACTC-CTTGAGCACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
12978082 TT-AGTAGAATCAGT
1 TTCAGTAGAATCAGT
12978096 GTTCCCCTTT
Statistics
Matches: 322, Mismatches: 51, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
35 10 0.03
36 166 0.52
37 114 0.35
38 2 0.01
39 30 0.09
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (37 bp):
TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
Found at i:12977831 original size:73 final size:74
Alignment explanation
Indices: 12977679--12978095 Score: 488
Period size: 73 Copynumber: 5.7 Consensus size: 74
12977669 TAAGCAAACA
* * *
12977679 TTCAGTATAATCAGTGGATATTGCTCGTTTGAGCAACTATTCAATAGAATTAGTAGATATTGCTC
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGC-AC-ATTCAATAGAATCAGTAGATATTGCTC
12977744 GTTTGAGCAC-
64 GTTTGAGCACT
* * * * * * *
12977754 TTCAGTAGAACCAGTAGACATTGCTCTTTTGAGCACGTTCAATAGGATCAGTAGATATTGATTG-
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACATTCAATAGAATCAGTAGATATTGCTCGT
12977818 TTGAGCACT
66 TTGAGCACT
* * *
12977827 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTCAGTAGAATCAATAGACATTGCTCGT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACATTCAATAGAATCAGTAGATATTGCTCGT
*
12977891 TTGAGCACA
66 TTGAGCACT
* ** * * * *
12977900 TTCAGTAGGATCAGTAGATATTGCTCG-TTGAGTGCTTTCAGTAGAATCAATAGATATTGCACGT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACATTCAATAGAATCAGTAGATATTGCTCGT
*
12977964 TTGAGAACT
66 TTGAGCACT
* * *
12977973 TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAATAGGATCAGTAGATATTGCTTG-
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACATTCAATAGAATCAGTAGATATTGCTCGT
12978037 TTGAGCACT
66 TTGAGCACT
* * * * * *
12978046 TTCAGTAGTATTAGTAGATATTACTC-CTTGAGCAC-TTTAGTAGAATCAGT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACATTCAATAGAATCAGT
12978096 GTTCCCCTTT
Statistics
Matches: 292, Mismatches: 46, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
71 12 0.04
72 43 0.15
73 178 0.61
74 30 0.10
75 29 0.10
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (74 bp):
TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACATTCAATAGAATCAGTAGATATTGCTCGT
TTGAGCACT
Found at i:12977846 original size:109 final size:109
Alignment explanation
Indices: 12977688--12978095 Score: 584
Period size: 109 Copynumber: 3.7 Consensus size: 109
12977678 ATTCAGTATA
* * *
12977688 ATCAGTGGATATTGCTCGTTTGAGCAACTATTCAATAGAATTAGTAGATATTGCTCGTTTGAGCA
1 ATCAGTAGATATTGCTCG-TTGAGC-ACT-TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCA
* * *
12977753 CTTCAGTAGAACCAGTAGACATTGCTCTTTTGAGCACGTTCAATAGG
63 CTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAATAGG
* *
12977800 ATCAGTAGATATTGATTGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTT
* *
12977865 CAGTAGAATCAATAGACATTGCTCGTTTGAGCACATTCAGTAGG
66 CAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAATAGG
** * * *
12977909 ATCAGTAGATATTGCTCGTTGAGTGCTTTCAGTAGAATCAATAGATATTGCACGTTTGAGAACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-T
12977974 TCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAATAGG
65 TCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAATAGG
* * * * *
12978019 ATCAGTAGATATTGCTTGTTGAGCACTTTCAGTAGTATTAGTAGATATTACTC-CTTGAGCACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTT
*
12978083 TAGTAGAATCAGT
66 CAGTAGAATCAGT
12978096 GTTCCCCTTT
Statistics
Matches: 265, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
108 14 0.05
109 138 0.52
110 92 0.35
111 6 0.02
112 15 0.06
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (109 bp):
ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTT
CAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAATAGG
Found at i:12981024 original size:35 final size:34
Alignment explanation
Indices: 12980926--12981025 Score: 87
Period size: 34 Copynumber: 2.9 Consensus size: 34
12980916 TTCGTTCAAG
* *
12980926 TAGCGCTGGGCGCAACTTTCGTT-AGTTTATCTGAC
1 TAGCGCTGGGCACAA-ATTCGTTGA-TTTATCTGAC
* * * * *
12980961 TAGTG-TGGGACACACATTCGTTGGTTTATCTTAT
1 TAGCGCTGGG-CACAAATTCGTTGATTTATCTGAC
12980995 TAGCGCTGGGCACAAATATCGTTGATTTATC
1 TAGCGCTGGGCACAAAT-TCGTTGATTTATC
12981026 CAACTAGAGC
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
34 28 0.55
35 23 0.45
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (34 bp):
TAGCGCTGGGCACAAATTCGTTGATTTATCTGAC
Found at i:12981080 original size:75 final size:75
Alignment explanation
Indices: 12980983--12981148 Score: 226
Period size: 75 Copynumber: 2.2 Consensus size: 75
12980973 CACATTCGTT
* *
12980983 GGTTTATCTTATTAGCGCTGGGCACAAATATCGTTGATTTATCCAACTAGAGCTG-GACTCACTA
1 GGTTTATCTGACTAGCGCTGGGCACAAATATCGTTGATTTATCCAACTAGAGCTGTG-CTCACTA
*
12981047 ATTATTTCATC
65 ATGATTTCATC
* * * * *
12981058 GGTTTATCTGACTAGCGTTGGGCACAAATATTGTTGGTTTATCCTACTAGAGTTGTGCTCACTAA
1 GGTTTATCTGACTAGCGCTGGGCACAAATATCGTTGATTTATCCAACTAGAGCTGTGCTCACTAA
*
12981123 TGATTTCGTC
66 TGATTTCATC
*
12981133 GGTTTATCAGACTAGC
1 GGTTTATCTGACTAGC
12981149 ACTAGGTGCA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
75 79 0.99
76 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (75 bp):
GGTTTATCTGACTAGCGCTGGGCACAAATATCGTTGATTTATCCAACTAGAGCTGTGCTCACTAA
TGATTTCATC
Found at i:12981107 original size:35 final size:35
Alignment explanation
Indices: 12980980--12981109 Score: 93
Period size: 35 Copynumber: 3.6 Consensus size: 35
12980970 ACACACATTC
* * * *
12980980 GTTGGTTTATCTTATTAGCGCTGGGCACAAATATC
1 GTTGGTTTATCCTACTAGAGCTGGGCACAAATATT
* * * *
12981015 GTTGATTTATCCAACTAGAGCTGGACTCACTAATTATT
1 GTTGGTTTATCCTACTAGAGCTGG--GCAC-AAATATT
* *
12981053 -TCATCGGTTTAT-CTGACTAGCGTTGGGCACAAATATT
1 GT--T-GGTTTATCCT-ACTAGAGCTGGGCACAAATATT
12981090 GTTGGTTTATCCTACTAGAG
1 GTTGGTTTATCCTACTAGAG
12981110 TTGTGCTCAC
Statistics
Matches: 71, Mismatches: 15, Indels: 18
0.68 0.14 0.17
Matches are distributed among these distances:
35 32 0.45
36 3 0.04
37 10 0.14
38 9 0.13
39 2 0.03
40 15 0.21
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (35 bp):
GTTGGTTTATCCTACTAGAGCTGGGCACAAATATT
Found at i:12981174 original size:75 final size:75
Alignment explanation
Indices: 12981003--12981188 Score: 178
Period size: 75 Copynumber: 2.5 Consensus size: 75
12980993 ATTAGCGCTG
* ** * *
12981003 GGCACAAATATCGTTGATTTATCCAACTAGAGCTGGACTCACTAATTATTTCATCGGTTTATCTG
1 GGCACAAATATTGTCAATTTATCCAACTAGAGCTGGACTCACTAATGATTTCATCGGTTTATCAG
** *
12981068 ACTAGCGTTG
66 ACTAGCACTA
*** * * *
12981078 GGCACAAATATTGTTGGTTTATCCTACTAGAGTTGTG-CTCACTAATGATTTCGTCGGTTTATCA
1 GGCACAAATATTGTCAATTTATCCAACTAGAGCTG-GACTCACTAATGATTTCATCGGTTTATCA
12981142 GACTAGCACTA
65 GACTAGCACTA
** * *
12981153 GGTGCAAAT-TCTGTCAATTTATCTAACTAGTGCTGG
1 GGCACAAATAT-TGTCAATTTATCCAACTAGAGCTGG
12981189 GCACACATTT
Statistics
Matches: 90, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
74 2 0.02
75 87 0.97
76 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (75 bp):
GGCACAAATATTGTCAATTTATCCAACTAGAGCTGGACTCACTAATGATTTCATCGGTTTATCAG
ACTAGCACTA
Found at i:12982327 original size:25 final size:25
Alignment explanation
Indices: 12982293--12982340 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
12982283 ACACGGTCAA
*
12982293 AGACACGGGCGTGTGACTCGGCCAG
1 AGACACGGGCGTATGACTCGGCCAG
12982318 AGACACGGGCGTATGACTCGGCC
1 AGACACGGGCGTATGACTCGGCC
12982341 GTATGAGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.38, T:0.12
Consensus pattern (25 bp):
AGACACGGGCGTATGACTCGGCCAG
Found at i:12985494 original size:41 final size:41
Alignment explanation
Indices: 12985442--12985525 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
12985432 GTATGGGTTA
* *
12985442 TTAGCTTGCTTC-GATAATCATAACCAACTGTCTTTTTGGGT
1 TTAGCTTGCTTCAG-TAATCATAACCAACTGTCTCTTTAGGT
*
12985483 TTAGCTTGCTTCAGTAATCATAATCAACTGTCTCTTTAGGT
1 TTAGCTTGCTTCAGTAATCATAACCAACTGTCTCTTTAGGT
12985524 TT
1 TT
12985526 TCTTGTTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
41 38 0.97
42 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (41 bp):
TTAGCTTGCTTCAGTAATCATAACCAACTGTCTCTTTAGGT
Found at i:12987101 original size:30 final size:35
Alignment explanation
Indices: 12987032--12987104 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 35
12987022 TTATTCCGCA
12987032 AAGAAAAGAACAAAAACTGAAATAAACCTAAAGCCT
1 AAGAAAAGAACAAAAACT-AAATAAACCTAAAGCCT
*
12987068 AAGAAAAGAA-AAAGACT-AA-AAA-CTAAA-CCT
1 AAGAAAAGAACAAAAACTAAATAAACCTAAAGCCT
12987098 AAGAAAA
1 AAGAAAA
12987105 ATTTATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 10 0.28
31 5 0.14
32 3 0.08
33 2 0.06
35 6 0.17
36 10 0.28
ACGTcount: A:0.66, C:0.14, G:0.11, T:0.10
Consensus pattern (35 bp):
AAGAAAAGAACAAAAACTAAATAAACCTAAAGCCT
Found at i:12996475 original size:6 final size:5
Alignment explanation
Indices: 12996466--12996518 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
12996456 ACCTAAACTA
* *
12996466 AAAATG AAAAG AAAACG AAAAG GAAAG AAAAG GAAAG AGAAAG AGAAAG
1 AAAA-G AAAAG AAAA-G AAAAG AAAAG AAAAG AAAAG A-AAAG A-AAAG
12996515 AAAA
1 AAAA
12996519 CCTAACCTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
5 21 0.51
6 20 0.49
ACGTcount: A:0.72, C:0.02, G:0.25, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:12996494 original size:16 final size:16
Alignment explanation
Indices: 12996473--12996518 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
12996463 CTAAAAATGA
12996473 AAAGAAAACGAAAAG-G
1 AAAGAAAA-GAAAAGAG
*
12996489 AAAGAAAAGGAAAGAG
1 AAAGAAAAGAAAAGAG
12996505 AAAGAGAAAGAAAA
1 AAAGA-AAAGAAAA
12996519 CCTAACCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 5 0.19
16 14 0.54
17 7 0.27
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGAAAAGAAAAGAG
Found at i:12996497 original size:10 final size:10
Alignment explanation
Indices: 12996471--12996518 Score: 60
Period size: 11 Copynumber: 4.5 Consensus size: 10
12996461 AACTAAAAAT
*
12996471 GAAAAGAAAA
1 GAAAAGGAAA
12996481 CGAAAAGGAAA
1 -GAAAAGGAAA
12996492 GAAAAGGAAA
1 GAAAAGGAAA
12996502 GAGAAAGAGAAA
1 GA-AAAG-GAAA
12996514 GAAAA
1 GAAAA
12996519 CCTAACCTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
10 12 0.35
11 16 0.47
12 6 0.18
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (10 bp):
GAAAAGGAAA
Found at i:13002541 original size:67 final size:67
Alignment explanation
Indices: 13002433--13002569 Score: 274
Period size: 67 Copynumber: 2.0 Consensus size: 67
13002423 ACTCTGGACG
13002433 TTAGTACGTCCGGAGGCAATCAAGTTGTTGGCACCGTTGTCGGGGAGGCAATGTCACTAGTTTAA
1 TTAGTACGTCCGGAGGCAATCAAGTTGTTGGCACCGTTGTCGGGGAGGCAATGTCACTAGTTTAA
13002498 TT
66 TT
13002500 TTAGTACGTCCGGAGGCAATCAAGTTGTTGGCACCGTTGTCGGGGAGGCAATGTCACTAGTTTAA
1 TTAGTACGTCCGGAGGCAATCAAGTTGTTGGCACCGTTGTCGGGGAGGCAATGTCACTAGTTTAA
13002565 TT
66 TT
13002567 TTA
1 TTA
13002570 ATCTTTGCAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (67 bp):
TTAGTACGTCCGGAGGCAATCAAGTTGTTGGCACCGTTGTCGGGGAGGCAATGTCACTAGTTTAA
TT
Found at i:13004471 original size:22 final size:22
Alignment explanation
Indices: 13004431--13004472 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13004421 ATCTACCAAG
*
13004431 TTTTTAACCTTCAAAACCCTTA
1 TTTTTAACCTTAAAAACCCTTA
13004453 TTTTTAA-CTTAAAACACCCT
1 TTTTTAACCTTAAAA-ACCCT
13004473 AACCTAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTTTAACCTTAAAAACCCTTA
Found at i:13009133 original size:20 final size:20
Alignment explanation
Indices: 13009108--13009149 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
13009098 AACCAGCTGG
*
13009108 TTCATTCTGACTGAACTAGA
1 TTCATTCTAACTGAACTAGA
*
13009128 TTCATTCTAATTGAACTAGA
1 TTCATTCTAACTGAACTAGA
13009148 TT
1 TT
13009150 TAGTTCTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
TTCATTCTAACTGAACTAGA
Found at i:13023238 original size:37 final size:37
Alignment explanation
Indices: 13023194--13023278 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
13023184 TATCACTCTT
13023194 TTCACTCACAATGCTTTTGACACATTCA-A-TGCTTTTA
1 TTCACTCACAATGCTTTT-A-ACATTCACATTGCTTTTA
** * *
13023231 TTCACTCATTATGCTTTTAACCTTCACATTGCTTTTG
1 TTCACTCACAATGCTTTTAACATTCACATTGCTTTTA
13023268 TTCACTCACAA
1 TTCACTCACAA
13023279 AATTTTCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
35 6 0.15
36 2 0.05
37 32 0.80
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.42
Consensus pattern (37 bp):
TTCACTCACAATGCTTTTAACATTCACATTGCTTTTA
Found at i:13025971 original size:22 final size:22
Alignment explanation
Indices: 13025946--13025990 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
13025936 ATTAAACTTG
13025946 AAATTCGAAAATCAAAACCATA
1 AAATTCGAAAATCAAAACCATA
13025968 AAATTCGAAAATCAAAACCATA
1 AAATTCGAAAATCAAAACCATA
13025990 A
1 A
13025991 TTCAAAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (22 bp):
AAATTCGAAAATCAAAACCATA
Found at i:13027964 original size:24 final size:24
Alignment explanation
Indices: 13027936--13027984 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13027926 AGTTGATTAT
13027936 GAACTTAAGATTAATGCAAGCACG
1 GAACTTAAGATTAATGCAAGCACG
13027960 GAACTTAAGATTAATGCAAGCACG
1 GAACTTAAGATTAATGCAAGCACG
13027984 G
1 G
13027985 TATAATTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.20
Consensus pattern (24 bp):
GAACTTAAGATTAATGCAAGCACG
Found at i:13030781 original size:21 final size:22
Alignment explanation
Indices: 13030757--13030801 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
13030747 AGAAAAAGAG
13030757 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
13030778 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
13030800 AA
1 AA
13030802 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:13031827 original size:5 final size:5
Alignment explanation
Indices: 13031817--13031847 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
13031807 GTAAAAAAAA
13031817 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
13031848 TCATATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:13032136 original size:11 final size:9
Alignment explanation
Indices: 13032087--13032141 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
13032077 CACATCATGG
13032087 TCTCTCAAT
1 TCTCTCAAT
*
13032096 TCTTTCTAA-
1 TCTCTC-AAT
*
13032105 TCTC-CTAAC
1 TCTCTC-AAT
13032114 TCTCTCAAT
1 TCTCTCAAT
13032123 TCTCTCAAT
1 TCTCTCAAT
*
13032132 TTTCTCAAT
1 TCTCTCAAT
13032141 T
1 T
13032142 TTCACAAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 4 0.10
9 32 0.82
10 3 0.08
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (9 bp):
TCTCTCAAT
Found at i:13037039 original size:22 final size:24
Alignment explanation
Indices: 13037014--13037057 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
13037004 ATTTTGTTAA
13037014 ACTTTAACTTG-TAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
13037036 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
13037058 TATTTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:13037939 original size:17 final size:17
Alignment explanation
Indices: 13037912--13037944 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13037902 TCACTACATT
13037912 TTTATTTCACATATTCAC
1 TTTATTTCACA-ATTCAC
13037930 TTTA-TTCACAATTCA
1 TTTATTTCACAATTCA
13037945 TAAAAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTTCACAATTCAC
Found at i:13040260 original size:21 final size:21
Alignment explanation
Indices: 13040234--13040277 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13040224 CTTTTCTTTC
13040234 TTCCTTCCTTCCTCCTTTT-TT
1 TTCCTTCCTTCC-CCTTTTATT
* *
13040255 TTCCTTTCTTTCCCTTTTATT
1 TTCCTTCCTTCCCCTTTTATT
13040276 TT
1 TT
13040278 TTCTGGCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (21 bp):
TTCCTTCCTTCCCCTTTTATT
Found at i:13045795 original size:14 final size:13
Alignment explanation
Indices: 13045769--13045794 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13045759 TAATGATTTT
13045769 TAATTTTTAAAAA
1 TAATTTTTAAAAA
13045782 TAATTTTTAAAAA
1 TAATTTTTAAAAA
13045795 AACATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTTTTAAAAA
Found at i:13055074 original size:15 final size:15
Alignment explanation
Indices: 13055056--13055110 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
13055046 ATAAAATGAT
*
13055056 AAGAAAAGAAGAAGA
1 AAGAAAAGAAAAAGA
*
13055071 AAG-AACGCAAAAAGA
1 AAGAAAAG-AAAAAGA
*
13055086 AA-TAAAGAAAAAGAA
1 AAGAAAAGAAAAAG-A
13055101 AAGAAAAGAA
1 AAGAAAAGAA
13055111 CGTGTGTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
14 9 0.28
15 17 0.53
16 6 0.19
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.02
Consensus pattern (15 bp):
AAGAAAAGAAAAAGA
Found at i:13057146 original size:71 final size:72
Alignment explanation
Indices: 13057042--13057187 Score: 249
Period size: 72 Copynumber: 2.0 Consensus size: 72
13057032 GTTTAGTAGG
* *
13057042 CCATACATACATATGTCACGGACTTAGA-TTTTTTCCACACAATTCGTGCAGCCTTAGGTAGTTT
1 CCATACATACATATGTCACGGACTTAGATTTTTTTCCACACAATCCGTGCAGCCTTAGGCAGTTT
13057106 ATTCGCT
66 ATTCGCT
*
13057113 CCATACATACATATGTCACGGACTTAGATTTTTTTCCACACGATCCGTGCAGCCTTAGGCAGTTT
1 CCATACATACATATGTCACGGACTTAGATTTTTTTCCACACAATCCGTGCAGCCTTAGGCAGTTT
*
13057178 ATTTGCT
66 ATTCGCT
13057185 CCA
1 CCA
13057188 AAAATGCCTA
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
71 28 0.40
72 42 0.60
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (72 bp):
CCATACATACATATGTCACGGACTTAGATTTTTTTCCACACAATCCGTGCAGCCTTAGGCAGTTT
ATTCGCT
Found at i:13066270 original size:20 final size:20
Alignment explanation
Indices: 13066232--13066274 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
13066222 TTACCCCAAA
*
13066232 CTCTCAAACCTTTTCACTTTC
1 CTCTCAAACATTTTCAC-TTC
*
13066253 CTCTCAAA-ATTTTTACTTC
1 CTCTCAAACATTTTCACTTC
13066272 CTC
1 CTC
13066275 CCACTTCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 8 0.40
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (20 bp):
CTCTCAAACATTTTCACTTC
Found at i:13069095 original size:2 final size:2
Alignment explanation
Indices: 13069088--13069124 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
13069078 TGTAGTACTT
* *
13069088 TC TC TC TC TC TC TC TG TC TC TC TC TC TT TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13069125 TTTAATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.43, G:0.03, T:0.54
Consensus pattern (2 bp):
TC
Found at i:13069123 original size:10 final size:10
Alignment explanation
Indices: 13069085--13069126 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
13069075 AAATGTAGTA
13069085 CTTTCTCTCT
1 CTTTCTCTCT
13069095 C--TCTCTCT
1 CTTTCTCTCT
* *
13069103 GTCTCTCTCT
1 CTTTCTCTCT
13069113 CTTTCTCTCT
1 CTTTCTCTCT
13069123 CTTT
1 CTTT
13069127 TAATATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
8 7 0.26
10 20 0.74
ACGTcount: A:0.00, C:0.40, G:0.02, T:0.57
Consensus pattern (10 bp):
CTTTCTCTCT
Found at i:13069592 original size:14 final size:14
Alignment explanation
Indices: 13069573--13069601 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13069563 TCAGGATGTA
13069573 TGCATCCTTTTAGC
1 TGCATCCTTTTAGC
13069587 TGCATCCTTTTAGC
1 TGCATCCTTTTAGC
13069601 T
1 T
13069602 CCAATTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (14 bp):
TGCATCCTTTTAGC
Found at i:13076809 original size:10 final size:11
Alignment explanation
Indices: 13076796--13076842 Score: 71
Period size: 11 Copynumber: 4.5 Consensus size: 11
13076786 GAAAAGAATG
13076796 GAAAA-TAAAA
1 GAAAATTAAAA
13076806 GAAAATTAAAA
1 GAAAATTAAAA
13076817 GAAAATTAAAA
1 GAAAATTAAAA
*
13076828 GAACA-TAAAA
1 GAAAATTAAAA
13076838 GAAAA
1 GAAAA
13076843 GAATTAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 14 0.41
11 20 0.59
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (11 bp):
GAAAATTAAAA
Found at i:13076822 original size:21 final size:21
Alignment explanation
Indices: 13076796--13076842 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
13076786 GAAAAGAATG
13076796 GAAAA-TAAAAGAAAATTAAAA
1 GAAAATTAAAAGAAAA-TAAAA
*
13076817 GAAAATTAAAAGAACATAAAA
1 GAAAATTAAAAGAAAATAAAA
13076838 GAAAA
1 GAAAA
13076843 GAATTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (21 bp):
GAAAATTAAAAGAAAATAAAA
Found at i:13081874 original size:9 final size:10
Alignment explanation
Indices: 13081836--13081873 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
13081826 AAAATTAAAA
13081836 TAAATAAATAT
1 TAAA-AAATAT
13081847 GTAAAAAATAT
1 -TAAAAAATAT
13081858 TAAAAAATAT
1 TAAAAAATAT
13081868 TAAAAA
1 TAAAAA
13081874 TTTATAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 16 0.62
11 6 0.23
12 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:13081892 original size:20 final size:19
Alignment explanation
Indices: 13081835--13081896 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
13081825 AAAAATTAAA
13081835 ATAAATAAATATGTAAAAAAT
1 ATAAA-AAATAT-TAAAAAAT
*
13081856 ATTAAAAAATATTAAAAATTT
1 A-TAAAAAATATTAAAAA-AT
** *
13081877 ATAAAAGTTATAAAAAAAT
1 ATAAAAAATATTAAAAAAT
13081896 A
1 A
13081897 ATTTAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 2 0.06
20 19 0.56
21 9 0.26
22 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
ATAAAAAATATTAAAAAAT
Found at i:13081907 original size:16 final size:17
Alignment explanation
Indices: 13081886--13081918 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13081876 TATAAAAGTT
13081886 ATAAAAAAAT-AATTTA
1 ATAAAAAAATAAATTTA
*
13081902 ATAAAAATATAAATTTA
1 ATAAAAAAATAAATTTA
13081919 GAATTAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAAAAAATAAATTTA
Found at i:13082973 original size:10 final size:10
Alignment explanation
Indices: 13082946--13083006 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
13082936 AAGGAGAGGG
13082946 AAAAGAGAAGAA
1 AAAAGA-AAG-A
*
13082958 AGAAAGAACGA
1 A-AAAGAAAGA
13082969 AAAAGAAAGA
1 AAAAGAAAGA
* *
13082979 AAAGGAAAGG
1 AAAAGAAAGA
*
13082989 AGAAGAAAGA
1 AAAAGAAAGA
13082999 AAAAGAAA
1 AAAAGAAA
13083007 AGAGAAGAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
10 30 0.75
11 2 0.05
12 3 0.08
13 5 0.12
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:13082996 original size:20 final size:20
Alignment explanation
Indices: 13082944--13083029 Score: 79
Period size: 20 Copynumber: 4.5 Consensus size: 20
13082934 AAAAGGAGAG
*
13082944 GGAAAAGAGAAGAAAG-AAA
1 GGAAAGGAGAAGAAAGAAAA
* * *
13082963 -GAACGAAAAAGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAA
13082982 GGAAAGGAGAAGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAA
* * *
13083002 AGAAAAGAGAAG-AAGAAGA
1 GGAAAGGAGAAGAAAGAAAA
*
13083021 GGGAAGGAG
1 GGAAAGGAG
13083030 GGAAAAAGAA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
18 11 0.21
19 15 0.29
20 26 0.50
ACGTcount: A:0.65, C:0.01, G:0.34, T:0.00
Consensus pattern (20 bp):
GGAAAGGAGAAGAAAGAAAA
Found at i:13083735 original size:157 final size:156
Alignment explanation
Indices: 13083376--13084294 Score: 1175
Period size: 156 Copynumber: 5.9 Consensus size: 156
13083366 AAAAATTATA
* *
13083376 TATTTAAAAAACATACTAAATTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
1 TATTTAAAAAACACACTAAATTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
*
13083440 AAAATTAGAAAAT-ATGATA-TTTTTT-AAAGTAATAAAATGCGGAGAAAACAATACGAACAAA-
66 AAAATTAGAAAATAAT-ATATTTTTTTAAAAGTAATAAAATTCGG-GAAAA-AATACGAACAAAT
* **
13083501 GGACCGAAGTAAGGG-TTTTTT-ACTAA--
128 GG-CCGAAATAAGGGTTTTTTTAAAAAATT
* * * *
13083527 -A-TTAAAAAA-ACA-GAAATAATTAAAACATTTCAAACATAATATACTAAAATAATGTAAAA-A
1 TATTTAAAAAACACACTAAATTATT-TAA-ATTTCAAACATAATGTACTAAAATAATGTAAAATA
* *
13083587 ATAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAATACGAGCAAA
64 ATAAAATTA-GAAAATAATATATTTTT-TTAAAAGTAATAAAATTCGGGAAAAAATACGAACAAA
13083651 TGGCCGAAATAAGGGTTTTTTTAAAAAATT
127 TGGCCGAAATAAGGGTTTTTTTAAAAAATT
13083681 TATTTAAAAAACACACTAAACTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATTTAAAAAACACACTAAA-TTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* *
13083746 TAAAATTAGAAAATAGTAT-TTTTTTTAAAAGTAATAAAATTCGGGAAAAAATACGAGCAAATGG
65 TAAAATTAGAAAATAATATATTTTTTTAAAAGTAATAAAATTCGGGAAAAAATACGAACAAATGG
13083810 CCGAAATAAGGGTTTTTTTAAAAAATT
130 CCGAAATAAGGGTTTTTTTAAAAAATT
13083837 TATTTAAAAAACACACTAAACTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATTTAAAAAACACACTAAA-TTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* * * * *
13083902 TAAAATTAGAAAATAGTAT-TTTTTTTAAAAGTAATAAAATTCTAGAAAAAAATATGAACAAAGG
65 TAAAATTAGAAAATAATATATTTTTTTAAAAGTAATAAAATTC-GGGAAAAAATACGAACAAATG
* **
13083966 GCCGAAATAAGAGTTTTTTTACTAAATT
129 GCCGAAATAAGGGTTTTTTTAAAAAATT
* * * * * * *
13083994 TTTTTAAAAAA-ATACTTAATTA-ATACATTTCAAACATAATGTACTAAAATAAAGTAAACTAAT
1 TATTTAAAAAACACACTAAATTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
** * * * *
13084057 AAAACAAAAAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAGCAAAG
66 AAAA-TTAGAAAATAATATATTTTT-TTAAAAGTAATAAAATTCGGG-AAAAAATACGAACAAAT
13084122 GGCCGAAATAAGGGTTTTTTT---AAATT
128 GGCCGAAATAAGGGTTTTTTTAAAAAATT
13084148 TATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATTTAAAAAACACACTAAA-TTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* * *
13084213 TAAAATTATAAAATATTATA-TTTTTTAAAAGTAATAAAATTCAGGAAAAAAATACGAACAAATG
65 TAAAATTAGAAAATAATATATTTTTTTAAAAGTAATAAAATTC-GGGAAAAAATACGAACAAATG
*
13084277 GCCAAAATAA-GGTTTTTT
129 GCCGAAATAAGGGTTTTTT
13084295 ACTAGATTTT
Statistics
Matches: 681, Mismatches: 58, Indels: 56
0.86 0.07 0.07
Matches are distributed among these distances:
147 5 0.01
148 4 0.01
149 26 0.04
150 61 0.09
151 15 0.02
152 19 0.03
153 8 0.01
154 98 0.14
155 26 0.04
156 207 0.30
157 184 0.27
158 22 0.03
159 6 0.01
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (156 bp):
TATTTAAAAAACACACTAAATTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
AAAATTAGAAAATAATATATTTTTTTAAAAGTAATAAAATTCGGGAAAAAATACGAACAAATGGC
CGAAATAAGGGTTTTTTTAAAAAATT
Found at i:13084293 original size:467 final size:459
Alignment explanation
Indices: 13083376--13084294 Score: 1407
Period size: 467 Copynumber: 2.0 Consensus size: 459
13083366 AAAAATTATA
*
13083376 TATTTAAAAAACATACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
13083441 AAATTAGAAAATATGATATTTTTTAAAGTAATAAAATGCGGAGAAAACAATACGAACAAAGGACC
66 AAATTAGAAAATATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGACC
*
13083506 GAAGTAAGGGTTTTTTACTAAATTAAAAAAACAGAAATAATTAAAACATTTCAAACATAATATAC
131 GAAATAAGGGTTTTTTACTAAATTAAAAAAACAGAAATAATTAAAACATTTCAAACATAATATAC
* * **
13083571 TAAAATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
196 TAAAATAAAGTAAAAAATAAAAAAAAAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
*
13083636 AAAAATACGAGCAAATGGCCGAAATAAGGGTTTTTTTAAAAAATTTATTTAAAAAACACACTAAA
261 AAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTT--AAAATTTATTTAAAAAACACACTAAA
*
13083701 CTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATT
324 CTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATA
* * *
13083766 TTTTTTAAAAGTAATAAAATTCGGGAAAAAATACGAGCAAATGGCCGAAATAAGGGTTTTTTTAA
389 TTTTTTAAAAGTAATAAAATTCGGAAAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTTAA
13083831 AAAATT
454 AAAATT
*
13083837 TATTTAAAAAACACACTAAACTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATTTAAAAAACACACTAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* * * *
13083902 TAAAATTAGAAAATA-GTATTTTTTTTAAAAGTAATAAAATTC-TAGAAAAAAATATGAACAAAG
64 TAAAATTAGAAAATATG-ATATTTTTT-AAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAG
* * * * ** *
13083965 GGCCGAAATAAGAGTTTTTTTACTAAATTTTTTTAAAAAA-ATACTTAATTAATACATTTCAAAC
127 GACCGAAATAAG-GGTTTTTTACTAAA----TTAAAAAAACAGAAATAATTAAAACATTTCAAAC
* *
13084029 ATAATGTACTAAAATAAAGTAAACTAATAAAACAAAAAAAATAATATATTTTTATTGAAAGTAAT
187 ATAATATACTAAAATAAAGTAAA-AAATAAAA-AAAAAAAATAATATATTTTTATTGAAAGTAAT
13084094 AAAATTCGGGAAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTT-AAATTTATTTAAAAA
250 AAAATTCGGG-AAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAAATTTATTTAAAAA
* *
13084158 ACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTATA
314 ACACACTAAACTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGA
*
13084223 AAATATTATATTTTTTAAAAGTAATAAAATTCAGGAAAAAAATACGAACAAATGGCCAAAATAA-
379 AAATAGTATATTTTTTAAAAGTAATAAAATTC-GGAAAAAAATACGAACAAATGGCCAAAATAAG
13084287 GGTTTTTT
443 GGTTTTTT
13084295 ACTAGATTTT
Statistics
Matches: 416, Mismatches: 29, Indels: 20
0.89 0.06 0.04
Matches are distributed among these distances:
461 19 0.05
462 4 0.01
463 90 0.22
464 27 0.06
467 157 0.38
468 43 0.10
469 39 0.09
470 37 0.09
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (459 bp):
TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
AAATTAGAAAATATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGACC
GAAATAAGGGTTTTTTACTAAATTAAAAAAACAGAAATAATTAAAACATTTCAAACATAATATAC
TAAAATAAAGTAAAAAATAAAAAAAAAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
AAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACACTAAACT
TATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATT
TTTTAAAAGTAATAAAATTCGGAAAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTTAAAA
AATT
Found at i:13089524 original size:23 final size:23
Alignment explanation
Indices: 13089479--13089525 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
13089469 TAAAAATAAT
*
13089479 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
13089502 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
13089525 A
1 A
13089526 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:13089632 original size:7 final size:7
Alignment explanation
Indices: 13089622--13089654 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
13089612 TTATTAATAA
13089622 CTAAACC
1 CTAAACC
13089629 CTAAACC
1 CTAAACC
13089636 CTAAACC
1 CTAAACC
13089643 CTAAACC
1 CTAAACC
13089650 CTAAA
1 CTAAA
13089655 AACTAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:13093166 original size:15 final size:14
Alignment explanation
Indices: 13093147--13093181 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
13093137 ATTGCAATAT
*
13093147 TTGGTATTACAAAA
1 TTGGTAGTACAAAA
13093161 TATGGTAGTACAAAA
1 T-TGGTAGTACAAAA
13093176 TTGGTA
1 TTGGTA
13093182 CTTAAGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (14 bp):
TTGGTAGTACAAAA
Found at i:13093952 original size:32 final size:32
Alignment explanation
Indices: 13093907--13093967 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
13093897 TTACCAGAAA
*
13093907 CATATATCAGATCATAAG-GTCATATTTTCGGG
1 CATATATCAGATCA-AAGTATCATATTTTCGGG
* *
13093939 CATATTTCGGATCAAAGTATCATATTTTC
1 CATATATCAGATCAAAGTATCATATTTTC
13093968 ATAAACATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 3 0.12
32 22 0.88
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (32 bp):
CATATATCAGATCAAAGTATCATATTTTCGGG
Found at i:13093986 original size:34 final size:34
Alignment explanation
Indices: 13093904--13094033 Score: 108
Period size: 34 Copynumber: 3.9 Consensus size: 34
13093894 ATATTACCAG
*
13093904 AAACATATATCAGATCATAAG-GTCATATTTTC-
1 AAACATATATCAGATCAGAAGTGTCATATTTTCA
*** * * *
13093936 GGGCATATTTCGGATCA-AAGTATCATATTTTCA
1 AAACATATATCAGATCAGAAGTGTCATATTTTCA
13093969 TAAACATATATCAGATCAGAA-TGTCATATTTTCAA
1 -AAACATATATCAGATCAGAAGTGTCATATTTTC-A
* *
13094004 AAGCACATACATCATATCAGAA-TGTCATAT
1 AA--ACATATATCAGATCAGAAGTGTCATAT
13094034 CAGACTAGAA
Statistics
Matches: 77, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
31 3 0.04
32 22 0.29
34 25 0.32
35 3 0.04
36 24 0.31
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (34 bp):
AAACATATATCAGATCAGAAGTGTCATATTTTCA
Found at i:13094023 original size:36 final size:34
Alignment explanation
Indices: 13093958--13094033 Score: 107
Period size: 36 Copynumber: 2.2 Consensus size: 34
13093948 GATCAAAGTA
* *
13093958 TCATATTTTCATAAACATATATCAGATCAGAATG
1 TCATATTTTCAAAAACATACATCAGATCAGAATG
*
13093992 TCATATTTTCAAAAGCACATACATCATATCAGAATG
1 TCATATTTTCAAAA--ACATACATCAGATCAGAATG
13094028 TCATAT
1 TCATAT
13094034 CAGACTAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 13 0.35
36 24 0.65
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (34 bp):
TCATATTTTCAAAAACATACATCAGATCAGAATG
Found at i:13101078 original size:5 final size:5
Alignment explanation
Indices: 13101070--13101097 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13101060 AAATAATAAT
13101070 AAAAC AAAAC AAAAC AAAAC AAAAC AAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAA
13101098 TGGGATTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:13103412 original size:29 final size:29
Alignment explanation
Indices: 13103375--13103438 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
13103365 GATAATCACA
13103375 TGTGAGTTAGCAAATCACAACCTATCATT
1 TGTGAGTTAGCAAATCACAACCTATCATT
* * *
13103404 TGTGTGTTAGCAAATCGCAACCTATCGTT
1 TGTGAGTTAGCAAATCACAACCTATCATT
13103433 TGTGAG
1 TGTGAG
13103439 ATTACTTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (29 bp):
TGTGAGTTAGCAAATCACAACCTATCATT
Found at i:13106825 original size:92 final size:95
Alignment explanation
Indices: 13106644--13106844 Score: 232
Period size: 92 Copynumber: 2.1 Consensus size: 95
13106634 TACCCTTAAC
* ** *
13106644 AAAGTATTGATA-CTTTGCAAAAATTATTGATACCCTTACCTGGTATCGATACCAATTTGAGCTT
1 AAAGTATCGATACCTTTGCAAAAATTATCAATACCCTTA-CTGGTATCGATACCAATTTAAGCTT
* ** *
13106708 CAATGTTTTGGAAAATTGAATAAAAA-T-CA
65 CAATGCTTTGGAAAATCAAAAAAAAATTGCA
* * *
13106737 AAAGTATCGATACCTTT-CAAAATTTATCAATACCCTGT-CTGGTATCGATACCGATTTAAGGTT
1 AAAGTATCGATACCTTTGCAAAAATTATCAATACCCT-TACTGGTATCGATACCAATTTAAGCTT
*
13106800 CAATGCTTTGGAAAATCAAAAAAAAATTGCC
65 CAATGCTTTGGAAAATCAAAAAAAAATTGCA
*
13106831 TAAGTATCGATACC
1 AAAGTATCGATACC
13106845 CTTCCCAATG
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
92 44 0.48
93 28 0.31
94 19 0.21
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (95 bp):
AAAGTATCGATACCTTTGCAAAAATTATCAATACCCTTACTGGTATCGATACCAATTTAAGCTTC
AATGCTTTGGAAAATCAAAAAAAAATTGCA
Found at i:13112895 original size:37 final size:37
Alignment explanation
Indices: 13112835--13112913 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
13112825 GACGCTAAGA
*
13112835 GGTGTGTAGGGTTAGATGAGTATTTAATACCCTAAAT
1 GGTGTGCAGGGTTAGATGAGTATTTAATACCCTAAAT
* * *
13112872 GGTGTGCAGGGTTGGATGTGTATTTAATACCCTATAT
1 GGTGTGCAGGGTTAGATGAGTATTTAATACCCTAAAT
13112909 GGTGT
1 GGTGT
13112914 ATAGGGATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.09, G:0.30, T:0.37
Consensus pattern (37 bp):
GGTGTGCAGGGTTAGATGAGTATTTAATACCCTAAAT
Found at i:13119017 original size:23 final size:23
Alignment explanation
Indices: 13118998--13119042 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
13118988 CCACACTGGT
13118998 ATGTAGCCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
13119021 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
13119043 TCAATAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:13136808 original size:7 final size:7
Alignment explanation
Indices: 13136796--13136839 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
13136786 TATATAGCCG
13136796 AAAATAC
1 AAAATAC
*
13136803 AAAATAT
1 AAAATAC
13136810 AAAAT--
1 AAAATAC
13136815 AAAATA-
1 AAAATAC
13136821 AAAATAC
1 AAAATAC
13136828 AAAATAC
1 AAAATAC
13136835 AAAAT
1 AAAAT
13136840 CCTCTCTGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
5 5 0.15
6 6 0.18
7 23 0.68
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAATAC
Found at i:13136826 original size:18 final size:19
Alignment explanation
Indices: 13136796--13136833 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
13136786 TATATAGCCG
*
13136796 AAAATACAAAATATAAAAT
1 AAAATACAAAATACAAAAT
13136815 AAAATA-AAAATACAAAAT
1 AAAATACAAAATACAAAAT
13136833 A
1 A
13136834 CAAAATCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAATACAAAATACAAAAT
Found at i:13137217 original size:45 final size:44
Alignment explanation
Indices: 13137161--13137263 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
13137151 ACTGCACTGC
* * * *
13137161 CAGGGAAATAAGA-TTCGCTGTTCCCAGTTTGCCCCACTGGAACTT
1 CAGGGAGATAAGACTT-GCT-TACCCAGTCTGCCCCACTGCAACTT
* * * *
13137206 CAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCGCTGCAACTT
1 CAGGGAGATAAGACTTGCTTACCCAGTCTGCCCCACTGCAACTT
13137250 CAGGGAGATAAGAC
1 CAGGGAGATAAGAC
13137264 CTAATGCGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 32 0.67
45 14 0.29
46 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (44 bp):
CAGGGAGATAAGACTTGCTTACCCAGTCTGCCCCACTGCAACTT
Found at i:13137646 original size:157 final size:156
Alignment explanation
Indices: 13137342--13137655 Score: 484
Period size: 157 Copynumber: 2.0 Consensus size: 156
13137332 CTTTAGGGAG
13137342 ATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGAT
1 ATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGAT
* *
13137407 CTGCCCCCTGCAATCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGG
66 CTGCCCCCTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGAG
13137472 AGATAAGAACTAATGCGATCCACTCT
131 AGATAAGAACTAATGCGATCCACTCT
* * * *
13137498 ATAGGATTATCGTCTTCAATCTGCTTCACTGCAACCTCAGGGAGATAAGATTTATCATCTTTGAT
1 ATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGAT
* * * * * *
13137563 TTTCCCCACTGCAACCTCTGGGGGATAAGACCTGCTTACTCAGTGTGCTCCCCTTCAACCTCAGA
66 CTGCCCC-CTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGA
* * *
13137628 GAGATAAGACCTACTGCGATCCATTCT
130 GAGATAAGAACTAATGCGATCCACTCT
13137655 A
1 A
13137656 CTGCAACTTC
Statistics
Matches: 142, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
156 66 0.46
157 76 0.54
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (156 bp):
ATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGAT
CTGCCCCCTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGAG
AGATAAGAACTAATGCGATCCACTCT
Found at i:13137785 original size:129 final size:129
Alignment explanation
Indices: 13137608--13137895 Score: 459
Period size: 129 Copynumber: 2.2 Consensus size: 129
13137598 TTACTCAGTG
* * * * * *
13137608 TGCTCCCCTTCAACCTCAGAGAGATAAGACCTACTGCGATCCATTCTACTGCAACTTCAAAGAGA
1 TGCTCCACTACAACCTCAGGGAGATAAGATCTACTACGATCCACTCTACTGCAACTTCAAAGAGA
13137673 TAAGATCTATTACTTTAATCCACTCCACTAAAACTTCAGGGAGATAGGATTATCGTCTTCGATC
66 TAAGATCTATTACTTTAATCCACTCCACTAAAACTTCAGGGAGATAGGATTATCGTCTTCGATC
* * * * *
13137737 TGCTCCACTGCAACCTCAGGGAGATAAGATCTGCTATGTTCCACTCTACTGCAACTTCAGAGAGA
1 TGCTCCACTACAACCTCAGGGAGATAAGATCTACTACGATCCACTCTACTGCAACTTCAAAGAGA
* *
13137802 TAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGTCTTCGATC
66 TAAGATCTATTACTTTAATCCACTCCACTAAAACTTCAGGGAGATAGGATTATCGTCTTCGATC
13137866 TGCTCCACTACAACCTCAGGGAGATAAGAT
1 TGCTCCACTACAACCTCAGGGAGATAAGAT
13137896 TTATCATCTT
Statistics
Matches: 146, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 146 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (129 bp):
TGCTCCACTACAACCTCAGGGAGATAAGATCTACTACGATCCACTCTACTGCAACTTCAAAGAGA
TAAGATCTATTACTTTAATCCACTCCACTAAAACTTCAGGGAGATAGGATTATCGTCTTCGATC
Found at i:13137966 original size:218 final size:217
Alignment explanation
Indices: 13137735--13138506 Score: 1339
Period size: 218 Copynumber: 3.5 Consensus size: 217
13137725 TCGTCTTCGA
* * ** *
13137735 TCTGCTCCACTGCAACCTCAGGGAGATAAGATCTGCTATGTTCCACTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACCTC-GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGA
* *
13137800 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGTCTTCGAT
65 GATAAGATCTATTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCATCTTCGAT
* *
13137865 CTGCTCCACTACAACCTCAGGGAGATAAGATTTATCATCTTCGATCTGCCCCACTGCAACCTCAA
130 CTGCTCCACTGCAACCTCAGGGAGATAACATTTATCATCTTCGATCTGCCCCACTGCAACCT-AA
13137930 -GGGGATAAGACCTGCTTACTCAG
194 GGGGGATAAGACCTGCTTACTCAG
*
13137953 TCTGCTCCACTGCAACCTCTGGGAGATAAGACCTGCTGCGATCCACTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACCTC-GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGA
*
13138018 GATAAGATCTATTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTAGCATCTTCGAT
65 GATAAGATCTATTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCATCTTCGAT
13138083 CTGCTCCACTGCAACCTCAGGGAGATAACATTTATCATCTTCGATCTGCCCCACTGCAACCTAAG
130 CTGCTCCACTGCAACCTCAGGGAGATAACATTTATCATCTTCGATCTGCCCCACTGCAACCTAAG
13138148 GGGGATAAGACCTGCTTACTCAG
195 GGGGATAAGACCTGCTTACTCAG
*
13138171 TCTGCTCCACTGCAACCTCGGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACCTC-GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGA
*
13138236 GATAAGATCTATTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGAATATCATCTTCGAT
65 GATAAGATCTATTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCATCTTCGAT
13138301 CTGCTCCACTGCAACCTCAGGGAGATAACATTTATCATCTTCGATCTGCCCCACTGCAACCTAAG
130 CTGCTCCACTGCAACCTCAGGGAGATAACATTTATCATCTTCGATCTGCCCCACTGCAACCTAAG
13138366 GGGGATAAGACCTGCTTACTCAG
195 GGGGATAAGACCTGCTTACTCAG
*
13138389 TCTGCTCCACTGCAACCTCGGAGAGATAAGACCTGATGCGATCCACTCTACTCCAACTTCAGAGA
1 TCTGCTCCACTGCAACCTCGG-GAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGA
* * *
13138454 GATAAGATCTATTACTTTAATCCGCTTCACTACAACTTTAGGGAGATAGGATT
65 GATAAGATCTATTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATT
13138507 TGTAATATTC
Statistics
Matches: 531, Mismatches: 21, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
217 4 0.01
218 527 0.99
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (217 bp):
TCTGCTCCACTGCAACCTCGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAG
ATAAGATCTATTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCATCTTCGATC
TGCTCCACTGCAACCTCAGGGAGATAACATTTATCATCTTCGATCTGCCCCACTGCAACCTAAGG
GGGATAAGACCTGCTTACTCAG
Found at i:13138090 original size:44 final size:44
Alignment explanation
Indices: 13137502--13138375 Score: 456
Period size: 44 Copynumber: 20.0 Consensus size: 44
13137492 CACTCTATAG
* * *
13137502 GATTATCGTCTTCAATCTGCTTCACTGCAACCTCAGGGAGATAA
1 GATTATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
* * * * * *
13137546 GATTTATCATCTTTGATTTTCCCCACTGCAACCTCTGGGGGATAA
1 GA-TTATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
* * * * * * *
13137591 GACCT-GCTTAC-TC-AGTGTGCTCCCCTTCAACCTCAGAGAGATAA
1 GA-TTATCAT-CTTCGA-TCTGCTCCACTGCAACCTCAGGGAGATAA
** * *** * * **
13137635 GA-CCT-A-CTGCGATCCATTCTACTGCAACTTCAAAGAGATAA
1 GATTATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
* ** ** ** * *
13137676 GATCTATTA-CTTTAATCCACTCCACTAAAACTTCAGGGAGATAG
1 GAT-TATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
*
13137720 GATTATCGTCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
1 GATTATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
* * * * *
13137764 GATCT-GCTATGTTCCA-CT-CT--ACTGCAACTTCAGAGAGATAA
1 GAT-TATC-ATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
* ** * * * *
13137805 GATCTATTA-CTTTAATCCGCTCCACTACAACTTCAGGGAGATAG
1 GAT-TATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
* *
13137849 GATTATCGTCTTCGATCTGCTCCACTACAACCTCAGGGAGATAA
1 GATTATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
*
13137893 GATTTATCATCTTCGATCTGCCCCACTGCAACCTCAAGGG-GATAA
1 GA-TTATCATCTTCGATCTGCTCCACTGCAACCTC-AGGGAGATAA
* * * *
13137938 GACCT-GCTTAC-TC-AGTCTGCTCCACTGCAACCTCTGGGAGATAA
1 GA-TTATCAT-CTTCGA-TCTGCTCCACTGCAACCTCAGGGAGATAA
* * ** * * *
13137982 G---A-CCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAA
1 GATTATCAT-CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
* ** ** * * *
13138023 GATCTATTA-CTTTAATCCACTCCACTACAACTTCAGGGAGATAG
1 GAT-TATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
*
13138067 GATTAGCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
1 GATTATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
* * * *
13138111 CATTTATCATCTTCGATCTGCCCCACTGCAACCTAAGGGGGATAA
1 GA-TTATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
* * * *
13138156 GACCT-GCTTAC-TC-AGTCTGCTCCACTGCAACCTCGGGGAGATAA
1 GA-TTATCAT-CTTCGA-TCTGCTCCACTGCAACCTCAGGGAGATAA
** * * * * * *
13138200 GA-CCTGA--TGCGATCTACTCTACTGCAACTTCAGAGAGATAA
1 GATTATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
* ** ** * * *
13138241 GATCTATTA-CTTTAATCCACTCCACTACAACTTCAGGGAGATAG
1 GAT-TATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
*
13138285 GAATATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
1 GATTATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
* * * *
13138329 CATTTATCATCTTCGATCTGCCCCACTGCAACCTAAGGGGGATAA
1 GA-TTATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
13138374 GA
1 GA
13138376 CCTGCTTACT
Statistics
Matches: 622, Mismatches: 165, Indels: 85
0.71 0.19 0.10
Matches are distributed among these distances:
40 7 0.01
41 101 0.16
42 5 0.01
43 24 0.04
44 319 0.51
45 162 0.26
46 4 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
GATTATCATCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAA
Found at i:13139760 original size:7 final size:7
Alignment explanation
Indices: 13139741--13139796 Score: 64
Period size: 7 Copynumber: 8.0 Consensus size: 7
13139731 TTAGCCTCTC
13139741 CATTTTT
1 CATTTTT
13139748 -ACTTTTT
1 CA-TTTTT
13139755 CATTTTT
1 CATTTTT
13139762 CA-TTTT
1 CATTTTT
13139768 CA-TTTT
1 CATTTTT
13139774 CACTTTTT
1 CA-TTTTT
13139782 CATTTTT
1 CATTTTT
13139789 CATATTTT
1 CAT-TTTT
13139797 TTTACTCAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
6 13 0.30
7 20 0.45
8 11 0.25
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:13139760 original size:14 final size:14
Alignment explanation
Indices: 13139741--13139788 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
13139731 TTAGCCTCTC
13139741 CATTTTTACTTTTT
1 CATTTTTACTTTTT
*
13139755 CATTTTT-CATTTT
1 CATTTTTACTTTTT
*
13139768 CATTTTCACTTTTT
1 CATTTTTACTTTTT
13139782 CATTTTT
1 CATTTTT
13139789 CATATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (14 bp):
CATTTTTACTTTTT
Found at i:13140667 original size:20 final size:20
Alignment explanation
Indices: 13140618--13140667 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
13140608 TCATTTTCTC
*
13140618 TTTTTTT-TTTCATTTTCAT
1 TTTTTTTCTTTCATTTTAAT
** *
13140637 TTTTTGACTTTGATTTTAAT
1 TTTTTTTCTTTCATTTTAAT
13140657 TTTTTTTCTTT
1 TTTTTTTCTTT
13140668 TTGCTTTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.12, C:0.08, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTTTTTCTTTCATTTTAAT
Found at i:13145036 original size:13 final size:15
Alignment explanation
Indices: 13145001--13145041 Score: 61
Period size: 13 Copynumber: 2.9 Consensus size: 15
13144991 ATAGATTTGA
13145001 AATAATAAT-TATTG
1 AATAATAATATATTG
13145015 AATAATAATATATT-
1 AATAATAATATATTG
13145029 AA-AATAATATATT
1 AATAATAATATATT
13145042 TGAAACAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.42
14 11 0.42
15 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
AATAATAATATATTG
Found at i:13146473 original size:7 final size:7
Alignment explanation
Indices: 13146461--13146504 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
13146451 TATATAGCCG
13146461 AAAATAC
1 AAAATAC
*
13146468 AAAATAT
1 AAAATAC
13146475 AAAAT--
1 AAAATAC
13146480 AAAATA-
1 AAAATAC
13146486 AAAATAC
1 AAAATAC
13146493 AAAATAC
1 AAAATAC
13146500 AAAAT
1 AAAAT
13146505 CCTCTCTGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
5 5 0.15
6 6 0.18
7 23 0.68
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAATAC
Found at i:13146491 original size:18 final size:19
Alignment explanation
Indices: 13146461--13146498 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
13146451 TATATAGCCG
*
13146461 AAAATACAAAATATAAAAT
1 AAAATACAAAATACAAAAT
13146480 AAAATA-AAAATACAAAAT
1 AAAATACAAAATACAAAAT
13146498 A
1 A
13146499 CAAAATCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAATACAAAATACAAAAT
Found at i:13148452 original size:24 final size:24
Alignment explanation
Indices: 13148416--13148471 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
13148406 AGATTTTGTA
* * *
13148416 TTGATGAGTATAATATATTTAGCAT
1 TTGATTAGCATAATAAATTTAGC-T
13148441 TT-ATTAGCATAATAAATTTAGCT
1 TTGATTAGCATAATAAATTTAGCT
13148464 TTGATTAG
1 TTGATTAG
13148472 AATTAAGTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 22 0.81
25 2 0.07
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (24 bp):
TTGATTAGCATAATAAATTTAGCT
Found at i:13148956 original size:27 final size:28
Alignment explanation
Indices: 13148926--13148992 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 28
13148916 CGCCAATGGG
13148926 ATTGGCGGCACCAAAT-GTGCCAAAACC
1 ATTGGCGGCACCAAATGGTGCCAAAACC
*
13148953 ATTGGCGGCACC-AATGGTGCCAATACC
1 ATTGGCGGCACCAAATGGTGCCAAAACC
*
13148980 ATTGGCGACACCA
1 ATTGGCGGCACCA
13148993 GTTAATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 3 0.08
27 33 0.92
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (28 bp):
ATTGGCGGCACCAAATGGTGCCAAAACC
Found at i:13149043 original size:4 final size:4
Alignment explanation
Indices: 13149034--13149183 Score: 112
Period size: 4 Copynumber: 36.0 Consensus size: 4
13149024 GAAGGAGAGG
*
13149034 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA TGAGAG GAAA GAAA GAAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA G-AAA
* * *
13149085 GGAAG GAAA GAAA GAAAA GGAAA G-GA GAAAA GAAA AAAA GAAA GAAA
1 -GAAA GAAA GAAA G-AAA -GAAA GAAA G-AAA GAAA GAAA GAAA GAAA
* *
13149132 G-AA G-AA G-AA GAAAA GGAAAA GAGAA GAAA -AAG GAAA GAAA GAAG
1 GAAA GAAA GAAA G-AAA -G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA
13149176 GAAA GAAA
1 GAAA GAAA
13149184 AGGAAAGGAG
Statistics
Matches: 121, Mismatches: 12, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
3 13 0.11
4 76 0.63
5 24 0.20
6 8 0.07
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:13149128 original size:52 final size:51
Alignment explanation
Indices: 13149033--13149211 Score: 133
Period size: 52 Copynumber: 3.5 Consensus size: 51
13149023 AGAAGGAGAG
* * * *
13149033 GGAAAGAAAGAAAG-AAAGA-AAGAAAGAAAGAAATGAGAGGAAAGAAAGAAAA
1 GGAAGGAAAGAAAGAAAAGAGAAGAAA-AAGGAAA--AAAAGAAAGAAAGAAAA
13149085 GGAAGGAAAGAAAGAAAAG-GAAAGGAGAAAA-GAAAAAAAGAAAGAAAGAAGAA
1 GGAAGGAAAGAAAGAAAAGAG-AA-GA-AAAAGGAAAAAAAGAAAGAAAGAA-AA
* * *
13149138 -GAA-G-AA-AAGGAAAAGAGAAGAAAAAGGAAAGAAAGAAGGAAAGAAAA
1 GGAAGGAAAGAAAGAAAAGAGAAGAAAAAGGAAAAAAAGAAAGAAAGAAAA
*
13149185 GGAAAGGAGAAGAGA-AAAAGAAGAAGA
1 GG-AAGGA-AAGAAAGAAAAG-AGAAGA
13149212 GGGAAGGAAG
Statistics
Matches: 104, Mismatches: 8, Indels: 29
0.74 0.06 0.21
Matches are distributed among these distances:
47 6 0.06
48 20 0.19
49 12 0.12
50 4 0.04
51 1 0.01
52 36 0.35
53 13 0.12
54 6 0.06
55 4 0.04
56 2 0.02
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (51 bp):
GGAAGGAAAGAAAGAAAAGAGAAGAAAAAGGAAAAAAAGAAAGAAAGAAAA
Found at i:13149184 original size:22 final size:22
Alignment explanation
Indices: 13149038--13149190 Score: 114
Period size: 22 Copynumber: 7.2 Consensus size: 22
13149028 GAGAGGGAAA
*
13149038 GAAAGAAAGAAAGAAAG-AAA-
1 GAAAGAAAGAAGGAAAGAAAAG
13149058 GAAAGAAATGAGAGGAAAG-AAAG
1 GAAAGAAA-GA-AGGAAAGAAAAG
* * *
13149081 AAAAGGAAGGAAAGAAAGAAAAG
1 GAAA-GAAAGAAGGAAAGAAAAG
13149104 GAAAGGAGAA-AA-GAAA-AAAA-
1 GAAA-GA-AAGAAGGAAAGAAAAG
*
13149124 GAAAGAAAGAAGAAGAAGAAAAG
1 GAAAGAAAGAAGGA-AAGAAAAG
*
13149147 GAAA-AGAGAA-G--A-AAAAG
1 GAAAGAAAGAAGGAAAGAAAAG
13149164 GAAAGAAAGAAGGAAAGAAAAG
1 GAAAGAAAGAAGGAAAGAAAAG
13149186 GAAAG
1 GAAAG
13149191 GAGAAGAGAA
Statistics
Matches: 107, Mismatches: 10, Indels: 30
0.73 0.07 0.20
Matches are distributed among these distances:
17 9 0.08
18 8 0.07
19 5 0.05
20 13 0.12
21 9 0.08
22 38 0.36
23 21 0.20
24 4 0.04
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (22 bp):
GAAAGAAAGAAGGAAAGAAAAG
Found at i:13149191 original size:44 final size:43
Alignment explanation
Indices: 13149046--13149200 Score: 154
Period size: 38 Copynumber: 3.8 Consensus size: 43
13149036 AAGAAAGAAA
* *
13149046 GAAAGAAAGAAAGAAAGAAATGAGAGG-AAAGA-AAG-AAAAG
1 GAAAGAAAGAAAGAAAGAAAGGAAAGGAAAAGAGAAGAAAAAG
*
13149086 GAAGGAAAGAAAG--A-AAAGGAAAGGAGAAA-AGAA-AAAAA-
1 GAAAGAAAGAAAGAAAGAAAGGAAAGGA-AAAGAGAAGAAAAAG
*
13149124 GAAAGAAAG-AAG-AAG-AAGAAAAGGAAAAGAGAAGAAAAAG
1 GAAAGAAAGAAAGAAAGAAAGGAAAGGAAAAGAGAAGAAAAAG
* *
13149164 GAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAA
1 GAAAGAAAGAAAGAAAG-AAAGGAAAGGAAAAGAGAA
13149201 AAAGAAGAAG
Statistics
Matches: 94, Mismatches: 8, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
37 14 0.15
38 24 0.26
39 14 0.15
40 21 0.22
41 2 0.02
42 3 0.03
44 16 0.17
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (43 bp):
GAAAGAAAGAAAGAAAGAAAGGAAAGGAAAAGAGAAGAAAAAG
Found at i:13149191 original size:82 final size:86
Alignment explanation
Indices: 13149035--13149209 Score: 227
Period size: 82 Copynumber: 2.1 Consensus size: 86
13149025 AAGGAGAGGG
* * *
13149035 AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAATGAGAGGAAAGAAAGAAAAGGAAGGAAAGAAAGA
1 AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAAGAGAAGAAAGAAAGAAAAGGAAAGAAAGAAAGA
13149100 AAAGGAAAGGAGAAAAGAAAA
66 AAAGGAAAGGAGAAAAGAAAA
* *
13149121 AAAGAAAGAAAG-AAG-AAG-AAGAAAAGGAAAAGAGAAG-AA-AAAGGAAA-GAAAGAAGGAAA
1 AAAGAAAGAAAGAAAGAAAGAAAG-AAA-GAAAAGAGAAGAAAGAAAGAAAAGGAAAGAAAGAAA
*
13149180 GAAAAGGAAAGGAGAAGAGAAAA
64 GAAAAGGAAAGGAGAAAAGAAAA
13149203 AGAAGAA
1 A-AAGAA
13149210 GAGGGAAGGA
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
82 33 0.41
83 15 0.19
84 8 0.10
85 12 0.15
86 12 0.15
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.01
Consensus pattern (86 bp):
AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAAGAGAAGAAAGAAAGAAAAGGAAAGAAAGAAAGA
AAAGGAAAGGAGAAAAGAAAA
Found at i:13155647 original size:15 final size:12
Alignment explanation
Indices: 13155610--13155639 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13155600 AAAAAAATTT
*
13155610 ATACTCAAAATA
1 ATACACAAAATA
13155622 ATACACAAAATA
1 ATACACAAAATA
13155634 ATACAC
1 ATACAC
13155640 GCTAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (12 bp):
ATACACAAAATA
Found at i:13155668 original size:36 final size:35
Alignment explanation
Indices: 13155622--13155732 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 35
13155612 ACTCAAAATA
*
13155622 ATACACAAAATAATACACGCTAAAATTATTAATTTT
1 ATACTCAAAATAATACAC-CTAAAATTATTAATTTT
*
13155658 ATACTC--AA-AATA-A--T---ATTAATAATTTT
1 ATACTCAAAATAATACACCTAAAATTATTAATTTT
*
13155684 ATACTCAAAACAATACACACTAAAATTATTAA-TTT
1 ATACTCAAAATAATACAC-CTAAAATTATTAATTTT
*
13155719 -TACTAAAAATAATA
1 ATACTCAAAATAATA
13155733 ACTAACTAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
26 17 0.28
28 2 0.03
29 5 0.08
30 1 0.02
32 1 0.02
33 5 0.08
34 14 0.23
35 3 0.05
36 12 0.20
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (35 bp):
ATACTCAAAATAATACACCTAAAATTATTAATTTT
Found at i:13155896 original size:3 final size:3
Alignment explanation
Indices: 13155888--13155928 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
13155878 TCTTAATACT
13155888 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
13155929 TAATAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:13155933 original size:3 final size:3
Alignment explanation
Indices: 13155927--13155970 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
13155917 CAACAACAAC
*
13155927 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AACT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT A
13155971 CTATTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13156040 original size:19 final size:21
Alignment explanation
Indices: 13156016--13156054 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
13156006 ACTAAAACTA
*
13156016 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
13156035 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
13156055 ATCCATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:13156238 original size:27 final size:27
Alignment explanation
Indices: 13156208--13156292 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
13156198 CCAATTAGTA
13156208 TGGCACCATTGGTGCCGCCAATGGCAT
1 TGGCACCATTGGTGCCGCCAATGGCAT
**
13156235 TGGCACCATTGGTGCCGCCAATGGTTT
1 TGGCACCATTGGTGCCGCCAATGGCAT
* **
13156262 TGGCACCTTTGGTGCCGCCAATCCCAT
1 TGGCACCATTGGTGCCGCCAATGGCAT
13156289 TGGC
1 TGGC
13156293 GTGACCAGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.15, C:0.31, G:0.28, T:0.26
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATGGCAT
Found at i:13156410 original size:28 final size:26
Alignment explanation
Indices: 13156347--13156417 Score: 90
Period size: 25 Copynumber: 2.7 Consensus size: 26
13156337 TTTTTGTTTT
* *
13156347 TTATATATTTTGGTAAATAAAAAATA
1 TTATATATTTTGATAAATAAAAAAAA
*
13156373 -TATATTTTTTGATAAATAAAAAAAA
1 TTATATATTTTGATAAATAAAAAAAA
13156398 GTTATAATATTTTGATAAAT
1 -TTAT-ATATTTTGATAAAT
13156418 TTTTATTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 22 0.58
27 3 0.08
28 13 0.34
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (26 bp):
TTATATATTTTGATAAATAAAAAAAA
Found at i:13161916 original size:30 final size:30
Alignment explanation
Indices: 13161881--13161940 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
13161871 CTTTTTGTTT
13161881 CTTTTAGGTTTGCCTTGCTTTATATATATA
1 CTTTTAGGTTTGCCTTGCTTTATATATATA
*
13161911 CTTTTAGGTTTGCCTTTCTTTATATATATA
1 CTTTTAGGTTTGCCTTGCTTTATATATATA
13161941 TATATATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.13, G:0.12, T:0.55
Consensus pattern (30 bp):
CTTTTAGGTTTGCCTTGCTTTATATATATA
Found at i:13161938 original size:2 final size:2
Alignment explanation
Indices: 13161931--13161967 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
13161921 TGCCTTTCTT
13161931 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13161968 AAGAAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13163994 original size:23 final size:22
Alignment explanation
Indices: 13163968--13164018 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
13163958 ATTTCAACTA
*
13163968 GAAATAA-ATTTTATTTATTTTTT
1 GAAATAATATTTT-TTT-TTGTTT
13163991 GAAA-AATATTTTTTTTTGTTT
1 GAAATAATATTTTTTTTTGTTT
13164012 -AAATAAT
1 GAAATAAT
13164019 GTCTGACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 3 0.12
21 8 0.32
22 5 0.20
23 9 0.36
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (22 bp):
GAAATAATATTTTTTTTTGTTT
Found at i:13171965 original size:50 final size:50
Alignment explanation
Indices: 13171856--13172153 Score: 339
Period size: 50 Copynumber: 5.9 Consensus size: 50
13171846 ATTTGGGTAA
*
13171856 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT-C--GAG---ATG
*
13171912 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
* * * *
13171962 AGAGGTCTCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
* * * *
13172012 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
** * * * *
13172062 AGAACTCCCATGTAAGATCATATCTGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG-AGATG
* ** *
13172111 AAATATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
13172154 GTTATTATCA
Statistics
Matches: 212, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
48 1 0.00
49 39 0.18
50 126 0.59
53 3 0.01
55 1 0.00
56 42 0.20
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
Found at i:13189271 original size:9 final size:9
Alignment explanation
Indices: 13189259--13189340 Score: 51
Period size: 10 Copynumber: 8.7 Consensus size: 9
13189249 TTAAGATTTT
13189259 TTTTTATAA
1 TTTTTATAA
13189268 TTTTTATAAA
1 TTTTTAT-AA
*
13189278 TTTATATCAA
1 TTTTTAT-AA
* *
13189288 TTTTAATAC
1 TTTTTATAA
*
13189297 TTTTATAATATT
1 TTTT-T-ATA-A
13189309 TTTTTATAA
1 TTTTTATAA
13189318 TATTTTA-AA
1 T-TTTTATAA
*
13189327 TTTTT-TTA
1 TTTTTATAA
13189335 TTTTTA
1 TTTTTA
13189341 AAGAAAATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
8 10 0.18
9 16 0.28
10 23 0.40
11 4 0.07
12 4 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:13189315 original size:13 final size:13
Alignment explanation
Indices: 13189297--13189323 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13189287 ATTTTAATAC
13189297 TTTTATAATATTT
1 TTTTATAATATTT
13189310 TTTTATAATATTT
1 TTTTATAATATTT
13189323 T
1 T
13189324 AAATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATAATATTT
Found at i:13189510 original size:17 final size:17
Alignment explanation
Indices: 13189490--13189523 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13189480 TTTTTATAAT
* *
13189490 TTTTTTGATTTTTTATG
1 TTTTTTAATATTTTATG
13189507 TTTTTTAATATTTTATG
1 TTTTTTAATATTTTATG
13189524 GGAAAATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (17 bp):
TTTTTTAATATTTTATG
Found at i:13192466 original size:16 final size:15
Alignment explanation
Indices: 13192438--13192497 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 15
13192428 GGGAAATTTA
13192438 ATTATTTTATATTTTT
1 ATTATTTT-TATTTTT
13192454 ATTAGTTTTTATTATTT
1 ATTA-TTTTTATT-TTT
* *
13192471 AATTATATATTATTTTA
1 -ATTAT-TTTTATTTTT
13192488 ATTATTTTTA
1 ATTATTTTTA
13192498 GCATGTTAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.11
16 13 0.35
17 10 0.27
18 10 0.27
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
ATTATTTTTATTTTT
Found at i:13192476 original size:34 final size:33
Alignment explanation
Indices: 13192433--13192497 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
13192423 AATATGGGAA
* *
13192433 ATTTAATTAT-TTTATATTTTTATTAGTTTTTATT
1 ATTTAATTATATAT-TATTTTAATTA-TTTTTATT
13192467 ATTTAATTATATATTATTTTAATTATTTTTA
1 ATTTAATTATATATTATTTTAATTATTTTTA
13192498 GCATGTTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 20 0.71
35 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (33 bp):
ATTTAATTATATATTATTTTAATTATTTTTATT
Found at i:13198008 original size:19 final size:17
Alignment explanation
Indices: 13197958--13198002 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
13197948 TTATGCGTGT
13197958 ATATGTAT-T-TATAAA
1 ATATGTATATATATAAA
13197973 ATATGTATATATATAAA
1 ATATGTATATATATAAA
13197990 AGTATG-ATATATA
1 A-TATGTATATATA
13198003 AGTAAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.30
16 1 0.04
17 14 0.52
18 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
ATATGTATATATATAAA
Found at i:13199490 original size:34 final size:34
Alignment explanation
Indices: 13199452--13199523 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
13199442 ACAATTATCA
*
13199452 TAAGCATTTTAAATTTGATGCATTATTTTTCTTT
1 TAAGCATTTTAAATGTGATGCATTATTTTTCTTT
13199486 TAAGCATTTTAAATGTGATGCATTATTTTTCTTT
1 TAAGCATTTTAAATGTGATGCATTATTTTTCTTT
13199520 TAAG
1 TAAG
13199524 TATGGTGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (34 bp):
TAAGCATTTTAAATGTGATGCATTATTTTTCTTT
Found at i:13201154 original size:3 final size:3
Alignment explanation
Indices: 13201123--13201200 Score: 74
Period size: 3 Copynumber: 27.3 Consensus size: 3
13201113 ATACATGGTT
* * * * *
13201123 ATA ATA AAA ATA A-A ATA AAA ATT ATA ATA ATA AAA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
13201170 AT- ATA ATA ATA A-A ATA ATA ATA TTA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13201201 AAAGAAAACC
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
2 8 0.14
3 51 0.86
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:13201159 original size:26 final size:25
Alignment explanation
Indices: 13201123--13201191 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 25
13201113 ATACATGGTT
13201123 ATAATAAAAATAAAATAAAAATTATA
1 ATAATAAAAATAAAATAAAAA-TATA
*
13201149 ATAATAAAAATAAAAATAATAATATA
1 ATAATAAAAAT-AAAATAAAAATATA
13201175 ATAAT-AAAATAATAATA
1 ATAATAAAAATAA-AATA
13201192 TTAAAATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
24 2 0.05
25 9 0.22
26 20 0.50
27 9 0.22
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (25 bp):
ATAATAAAAATAAAATAAAAATATA
Found at i:13204222 original size:30 final size:28
Alignment explanation
Indices: 13204176--13204236 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 28
13204166 CCCCCGACCC
* *
13204176 ATTTTTTTTAATTTAAAA-ATAAATTTAT
1 ATTTTTTTTAAATTAAAATA-AAATTAAT
13204204 ATTTTATTATTAAATTAAAATAAAATTAAT
1 ATTTT-TT-TTAAATTAAAATAAAATTAAT
13204234 ATT
1 ATT
13204237 ATGATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 5 0.18
29 2 0.07
30 20 0.71
31 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTTTTTTTAAATTAAAATAAAATTAAT
Found at i:13207966 original size:21 final size:21
Alignment explanation
Indices: 13207940--13207984 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
13207930 CGATGTTGCA
* *
13207940 ACACAGATTGAGGGTTTCACG
1 ACACAGACTGAGGGTGTCACG
13207961 ACACAGACTGAGGGTGTCACG
1 ACACAGACTGAGGGTGTCACG
13207982 ACA
1 ACA
13207985 TACCCTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.18
Consensus pattern (21 bp):
ACACAGACTGAGGGTGTCACG
Found at i:13237727 original size:13 final size:13
Alignment explanation
Indices: 13237709--13237735 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13237699 AGGAAACTGT
13237709 AAGATCACTTATA
1 AAGATCACTTATA
13237722 AAGATCACTTATA
1 AAGATCACTTATA
13237735 A
1 A
13237736 TATAGGCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (13 bp):
AAGATCACTTATA
Found at i:13252303 original size:6 final size:6
Alignment explanation
Indices: 13252292--13252321 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
13252282 AAAAATGCTG
13252292 AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA
13252322 GGGGGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:13252414 original size:14 final size:15
Alignment explanation
Indices: 13252395--13252427 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
13252385 CGAAAATGCA
*
13252395 AAAATAAATTAAA-G
1 AAAATAAAATAAATG
13252409 AAAATAAAATAAATG
1 AAAATAAAATAAATG
13252424 AAAA
1 AAAA
13252428 AATAAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (15 bp):
AAAATAAAATAAATG
Found at i:13252431 original size:17 final size:16
Alignment explanation
Indices: 13252388--13252436 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
13252378 ATAGATTCGA
*
13252388 AAATGCAAAAATAAATT
1 AAATG-AAAAATAAAAT
13252405 AAA-G-AAAATAAAAT
1 AAATGAAAAATAAAAT
13252419 AAATGAAAAAATAAAAT
1 AAATG-AAAAATAAAAT
13252436 A
1 A
13252437 CTTTATAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 12 0.43
15 1 0.04
16 1 0.04
17 14 0.50
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.18
Consensus pattern (16 bp):
AAATGAAAAATAAAAT
Found at i:13253291 original size:23 final size:23
Alignment explanation
Indices: 13253242--13253289 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
13253232 GATTTTCTCG
*
13253242 AAATATTATTACTAAATAATCTT
1 AAATATTATCACTAAATAATCTT
13253265 AAATATTATCACTAAATAAT-TT
1 AAATATTATCACTAAATAATCTT
13253287 AAA
1 AAA
13253290 ATTTAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCTT
Found at i:13257961 original size:25 final size:25
Alignment explanation
Indices: 13257930--13257992 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
13257920 TTTTGAACTT
13257930 TATATTATTCATTTTAAATTGTTCAA
1 TATATTATTCATTTTAAATT-TTCAA
* * *
13257956 TA-ATTATTTATTTTAAGTTTTCCA
1 TATATTATTCATTTTAAATTTTCAA
13257980 TATATTA-TCATTT
1 TATATTATTCATTT
13257993 CATTTCCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.34
25 19 0.59
26 2 0.06
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (25 bp):
TATATTATTCATTTTAAATTTTCAA
Found at i:13258266 original size:11 final size:12
Alignment explanation
Indices: 13258239--13258273 Score: 63
Period size: 11 Copynumber: 3.0 Consensus size: 12
13258229 CAACTTTTAC
13258239 ATATATTATTAT
1 ATATATTATTAT
13258251 ATATATTATT-T
1 ATATATTATTAT
13258262 ATATATTATTAT
1 ATATATTATTAT
13258274 TGTGTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATATATTATTAT
Found at i:13258281 original size:15 final size:15
Alignment explanation
Indices: 13258248--13258290 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
13258238 CATATATTAT
13258248 TATATA-TATTATT-
1 TATATATTATTATTG
13258261 TATATATTATTATTG
1 TATATATTATTATTG
*
13258276 TGTATATTATT-TTG
1 TATATATTATTATTG
13258290 T
1 T
13258291 TTTCTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 6 0.22
14 11 0.41
15 10 0.37
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TATATATTATTATTG
Found at i:13258281 original size:26 final size:25
Alignment explanation
Indices: 13258234--13258287 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
13258224 TCCTTCAACT
13258234 TTTACATATATTATTATATATATTA
1 TTTACATATATTATTATATATATTA
* * *
13258259 TTTATATATTATTATTGTGTATATTA
1 TTTACATA-TATTATTATATATATTA
13258285 TTT
1 TTT
13258288 TGTTTTCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTACATATATTATTATATATATTA
Found at i:13260038 original size:16 final size:16
Alignment explanation
Indices: 13260013--13260047 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13260003 TTGTGTTTTG
*
13260013 TTTTGGCTGCATGACA
1 TTTTGACTGCATGACA
*
13260029 TTTTGACTGCATGGCA
1 TTTTGACTGCATGACA
13260045 TTT
1 TTT
13260048 CATCATAGAA
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:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (16 bp):
TTTTGACTGCATGACA
Found at i:13260533 original size:19 final size:19
Alignment explanation
Indices: 13260509--13260555 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
13260499 TCAACACATT
* *
13260509 TTTGCATT-CATTTCATGTA
1 TTTGCATTACATTACAT-CA
13260528 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
13260547 TTTGCATTA
1 TTTGCATTA
13260556 AAGTCTACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:13262589 original size:34 final size:34
Alignment explanation
Indices: 13262551--13262620 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
13262541 GTACAAATAG
13262551 TTATTCATAAATTCATATATTCTTTGTATATTCT
1 TTATTCATAAATTCATATATTCTTTGTATATTCT
13262585 TTATTCATAAATTCATATATTCTTTGTATATTCT
1 TTATTCATAAATTCATATATTCTTTGTATATTCT
13262619 TT
1 TT
13262621 GGTACCCACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.57
Consensus pattern (34 bp):
TTATTCATAAATTCATATATTCTTTGTATATTCT
Found at i:13266600 original size:50 final size:50
Alignment explanation
Indices: 13266546--13267028 Score: 380
Period size: 50 Copynumber: 9.7 Consensus size: 50
13266536 TATCACAGTA
* * * * *
13266546 AATCTTATTTCCCTGGTGGTGTAGTGGAACGGATTAAAGCTACGACAGCG
1 AATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTACAACAGCG
* *** ** * * *
13266596 AATCTTACTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAACAGTG
1 AATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTACAACAGCG
* *
13266646 AATCTTACTTCCCTGGTGTTGCAGTGGAATAGATTAAAGCTACAACAACG
1 AATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTACAACAGCG
* *** ** * *
13266696 AATCTTACTTCCCCGACATTGCAGTTAAACAAATTACAGCTACAACAGCG
1 AATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTACAACAGCG
* * * * *
13266746 AATCTTATTTCTCTGGTGGTGCAGTGGAACAGATTAAAGCTACAACGGTG
1 AATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTACAACAGCG
**** ** * * * *
13266796 AATCTTACTT-CCTCAACATTGCAGTTAAACAAATTGAAGCTACAATAGCA
1 AATCTTACTTCCCT-GGTGTTGCAGTGGAACAGATTAAAGCTACAACAGCG
* * * * * *
13266846 AATCTTACTT-CCTCGGCGTTGCGGCGAAACAGA-TAAAGCTACAACAACA
1 AATCTTACTTCCCT-GGTGTTGCAGTGGAACAGATTAAAGCTACAACAGCG
* * * * * *
13266895 AATCTTACTTCCCCGGTGCTGCAGTGAAATAGATTAAAGCTACAAGAACG
1 AATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTACAACAGCG
* * * *
13266945 AATCTTACTTCTCC-AGTGTTACAGTGGAACAGATTAAAGCAACAACAGTG
1 AATCTTACTTC-CCTGGTGTTGCAGTGGAACAGATTAAAGCTACAACAGCG
* ** *
13266995 AATCTTACTTCCCTAGCATTGCAGTGGAGCAGAT
1 AATCTTACTTCCCTGGTGTTGCAGTGGAACAGAT
13267029 CGAAGCCACC
Statistics
Matches: 336, Mismatches: 92, Indels: 10
0.77 0.21 0.02
Matches are distributed among these distances:
49 41 0.12
50 293 0.87
51 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (50 bp):
AATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTACAACAGCG
Found at i:13266698 original size:100 final size:100
Alignment explanation
Indices: 13266524--13267007 Score: 519
Period size: 100 Copynumber: 4.8 Consensus size: 100
13266514 TTGTAGTGGG
* ** * * * *
13266524 ATAGATTGAAGTTATC-ACAGTAAATCTTATTTCCCTGGTGGTGTAGTGGAACGGATTAAAGCTA
1 ATAGATTGAAGCTA-CAACAGCGAATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTA
*
13266588 CGACAGCGAATCTTACTTCCCCGACATTGCAGTTAA
65 CAACAGCGAATCTTACTTCCCCGACATTGCAGTTAA
* *
13266624 ATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGTGTTGCAGTGGAATAGATTAAAGCTAC
1 ATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAC
*
13266689 AACAACGAATCTTACTTCCCCGACATTGCAGTTAA
66 AACAGCGAATCTTACTTCCCCGACATTGCAGTTAA
* * * * *
13266724 ACAAATT-ACAGCTACAACAGCGAATCTTATTTCTCTGGTGGTGCAGTGGAACAGATTAAAGCTA
1 ATAGATTGA-AGCTACAACAGCGAATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTA
* * * *
13266788 CAACGGTGAATCTTACTTCCTCAACATTGCAGTTAA
65 CAACAGCGAATCTTACTTCCCCGACATTGCAGTTAA
* * * * * * * *
13266824 ACAAATTGAAGCTACAATAGCAAATCTTACTT-CCTCGGCGTTGCGGCGAAACAGA-TAAAGCTA
1 ATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GGTGTTGCAGTGGAACAGATTAAAGCTA
* * **** *
13266887 CAACAACAAATCTTACTTCCCCGGTGCTGCAGTGAA
65 CAACAGCGAATCTTACTTCCCCGACATTGCAGTTAA
* * * * * *
13266923 ATAGATTAAAGCTACAAGAACGAATCTTACTTCTCC-AGTGTTACAGTGGAACAGATTAAAGCAA
1 ATAGATTGAAGCTACAACAGCGAATCTTACTTC-CCTGGTGTTGCAGTGGAACAGATTAAAGCTA
*
13266987 CAACAGTGAATCTTACTTCCC
65 CAACAGCGAATCTTACTTCCC
13267008 TAGCATTGCA
Statistics
Matches: 320, Mismatches: 57, Indels: 14
0.82 0.15 0.04
Matches are distributed among these distances:
99 76 0.24
100 241 0.75
101 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (100 bp):
ATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAC
AACAGCGAATCTTACTTCCCCGACATTGCAGTTAA
Done.