Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 41
Found at i:3269897 original size:33 final size:33
Alignment explanation
Indices: 3269858--3269967 Score: 116
Period size: 33 Copynumber: 3.3 Consensus size: 33
3269848 AACAGTAAAT
*
3269858 TAAATAAAAATAAAGAAACGAAAAG-AAAGAAAA
1 TAAATAAAAATAAAGAAACAAAAAGAAAAG-AAA
* * *
3269891 TAAATAAAAATAAATAAATAAAAATAAAAGAAA
1 TAAATAAAAATAAAGAAACAAAAAGAAAAGAAA
**
3269924 TAAATAATAAATAAAG-TCCATAAAAGAAAATGAAA
1 TAAATAA-AAATAAAGAAACA-AAAAGAAAA-GAAA
3269959 TAAATAAAA
1 TAAATAAAA
3269968 TACTAGAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
33 32 0.50
34 21 0.33
35 11 0.17
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (33 bp):
TAAATAAAAATAAAGAAACAAAAAGAAAAGAAA
Found at i:3269905 original size:14 final size:14
Alignment explanation
Indices: 3269888--3269938 Score: 75
Period size: 15 Copynumber: 3.5 Consensus size: 14
3269878 AAAAGAAAGA
3269888 AAATAAATAAAAAT
1 AAATAAATAAAAAT
3269902 AAATAAATAAAAAT
1 AAATAAATAAAAAT
*
3269916 AAAAGAAATAAATAAT
1 -AAATAAATAAA-AAT
3269932 AAATAAA
1 AAATAAA
3269939 GTCCATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 14 0.42
15 16 0.48
16 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:3269919 original size:19 final size:19
Alignment explanation
Indices: 3269888--3269966 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
3269878 AAAAGAAAGA
*
3269888 AAATAAATA-AAAATAAAT
1 AAATAAAAATAAAATAAAT
*
3269906 AAATAAAAATAAAAGAAAT
1 AAATAAAAATAAAATAAAT
* **
3269925 AAATAATAAATAAAGTCCAT
1 AAATAA-AAATAAAATAAAT
*
3269945 AAA-AGAAAATGAAATAAAT
1 AAATA-AAAATAAAATAAAT
3269964 AAA
1 AAA
3269967 ATACTAGAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
18 8 0.17
19 27 0.56
20 13 0.27
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (19 bp):
AAATAAAAATAAAATAAAT
Found at i:3271259 original size:84 final size:85
Alignment explanation
Indices: 3271152--3271309 Score: 201
Period size: 84 Copynumber: 1.9 Consensus size: 85
3271142 ACACTTTTAT
* * * * * *
3271152 TGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATGATGTGCCTTAG-AGCTGAGCATAGT
1 TGACAGATAACCCTTATAGCCTTGAGCTATGCTGTAAATGATATGCCCTAGAAGCTGAGCATAAT
3271216 CGAACTCGAAGGTCTTTTGG
66 CGAACTCGAAGGTCTTTTGG
* * * * **
3271236 TGACATATAACCCTTATAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTATAGCCTTGAGCTATGCTGTAAATGATATGCCCTAGAAGCTGAGCATAAT
3271301 CGAACTCGA
66 CGAACTCGA
3271310 GGGTTTGGTG
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
84 42 0.69
85 19 0.31
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (85 bp):
TGACAGATAACCCTTATAGCCTTGAGCTATGCTGTAAATGATATGCCCTAGAAGCTGAGCATAAT
CGAACTCGAAGGTCTTTTGG
Found at i:3271410 original size:34 final size:34
Alignment explanation
Indices: 3271317--3271399 Score: 141
Period size: 34 Copynumber: 2.5 Consensus size: 34
3271307 CGAGGGTTTG
*
3271317 GTGTTCCAAGAGAAACAATTTCAAAGGTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
*
3271351 TTGTTTCAAGAGAAACAATTTCAAAGG-TTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
3271384 GTGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
3271400 TGTATTCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 21 0.46
34 25 0.54
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (34 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
Found at i:3271540 original size:30 final size:30
Alignment explanation
Indices: 3271504--3271562 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3271494 GTAAAACATA
*
3271504 TTCAAAGATTT-TGTTTCAA-AGGAAACTGTT
1 TTCAAAG-TTTATGCTTCAAGA-GAAACTGTT
3271534 TTCAAAGTTTATGCTTCAAGAGAAACTGT
1 TTCAAAGTTTATGCTTCAAGAGAAACTGT
3271563 CTCAAGGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 22 0.85
31 1 0.04
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (30 bp):
TTCAAAGTTTATGCTTCAAGAGAAACTGTT
Found at i:3271595 original size:36 final size:36
Alignment explanation
Indices: 3271548--3271630 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
3271538 AAGTTTATGC
* * * * *
3271548 TTCAAGAGAAACTGTCTCAAGGGAGATAAAATTTAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
*
3271584 TTCAAGGGAAACTATCTCAAGAGTGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
3271620 TTCAAGGGAAA
1 TTCAAGGGAAA
3271631 TGTTTTCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.25
Consensus pattern (36 bp):
TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
Found at i:3271653 original size:101 final size:99
Alignment explanation
Indices: 3271517--3271885 Score: 367
Period size: 101 Copynumber: 3.7 Consensus size: 99
3271507 AAAGATTTTG
* * * * *
3271517 TTTCAAAGGAAACTGTTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTT
1 TTTCAAGGGAAA-TGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
3271582 ATTTCAAGGGAAACTATCTCAAGAGTGACAAAATTCA
65 ATTTCAA-GGAAACTATCTCAAGAG-GACAAAATTCA
* * *
3271619 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTC-A-AGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTA
*
3271682 TTTCAAGGAACCTATCTCAAGA-GA-AAAATTCA
66 TTTCAAGGAAACTATCTCAAGAGGACAAAATTCA
* * * * *
3271714 TTTTAA-GGAAATGTTTTTAATGTTTA-GTTTCAAGAGAAACTATCTCAAGAGA-AAACAAACTT
1 TTTCAAGGGAAATGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACA-AAATTT
* * * * * * **
3271776 AGTTCCAAAGAAAATGTCTCAAGGGAGACGAAATTTG
65 A-TTTCAAGGAAACTATCTCAAGAG-GACAAAATTCA
** * * * *
3271813 TTTCAAGGGAAACATATTCAAAGATTT-TATTTCAAGAGAAACTATCTTAAGAGAGACAAAATTC
1 TTTCAAGGGAAATGTTTTCAAAG-TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
3271877 ATTTCAAGG
65 ATTTCAAGG
3271886 GAAATGTTTT
Statistics
Matches: 221, Mismatches: 35, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
93 19 0.09
94 22 0.10
95 21 0.10
96 18 0.08
98 17 0.08
99 27 0.12
100 18 0.08
101 66 0.30
102 13 0.06
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.31
Consensus pattern (99 bp):
TTTCAAGGGAAATGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTA
TTTCAAGGAAACTATCTCAAGAGGACAAAATTCA
Found at i:3271702 original size:33 final size:33
Alignment explanation
Indices: 3271648--3271711 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
3271638 AATGTTTATG
*
3271648 TTTCAAGAGAAACTGTCTCAAGAGACAAAATTTT
1 TTTCAAGAGAAACTATCTCAAGAGA-AAAATTTT
*
3271682 TTTCAAG-GAACCTATCTCAAGAGAAAAATT
1 TTTCAAGAGAAACTATCTCAAGAGAAAAATT
3271712 CATTTTAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 6 0.21
33 15 0.54
34 7 0.25
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TTTCAAGAGAAACTATCTCAAGAGAAAAATTTT
Found at i:3271798 original size:194 final size:198
Alignment explanation
Indices: 3271522--3271885 Score: 427
Period size: 194 Copynumber: 1.9 Consensus size: 198
3271512 TTTTGTTTCA
* * * * *
3271522 AAGGAAACTGTTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTTATTTC
1 AAGGAAACTGTTTTCAAAGTTTATGCTTCAAGAGAAACTATCTCAAGAGAGAAAAAACTTATTCC
* * * ** * * *
3271587 AAGGGAAACTATCTCAAGAGTGACAAAATTCATTTCAAGGGAAATGTTTTCAATG-TTTATGTTT
66 AAGAGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATATTCAAAGATTT-TATTT
* * **
3271651 CAAGAGAAACTGTC-TCA-AGAGACAAAATTTTTTTCAAGGAACCTATCTCAAGAGAAAAATTCA
130 CAAGAGAAACTATCTTAAGAGAGACAAAATTCATTTCAAGGAACCTATCTCAAGAGAAAAATTCA
3271714 TTTT
195 TTTT
* * *
3271718 AAGGAAA-TGTTTTTAATGTTTA-GTTTCAAGAGAAACTATCTCAAGAGA-AAACAAACTTAGTT
1 AAGGAAACTGTTTTCAAAGTTTATGCTTCAAGAGAAACTATCTCAAGAGAGAAA-AAACTTA-TT
* * * **
3271780 CCAA-AGAAAATGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACATATTCAAAGATTTTATT
64 CCAAGAGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATATTCAAAGATTTTATT
3271844 TCAAGAGAAACTATCTTAAGAGAGACAAAATTCATTTCAAGG
129 TCAAGAGAAACTATCTTAAGAGAGACAAAATTCATTTCAAGG
3271886 GAAATGTTTT
Statistics
Matches: 138, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
193 2 0.01
194 86 0.62
195 23 0.17
196 27 0.20
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (198 bp):
AAGGAAACTGTTTTCAAAGTTTATGCTTCAAGAGAAACTATCTCAAGAGAGAAAAAACTTATTCC
AAGAGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATATTCAAAGATTTTATTTC
AAGAGAAACTATCTTAAGAGAGACAAAATTCATTTCAAGGAACCTATCTCAAGAGAAAAATTCAT
TTT
Found at i:3271888 original size:65 final size:65
Alignment explanation
Indices: 3271792--3271934 Score: 171
Period size: 65 Copynumber: 2.2 Consensus size: 65
3271782 AAAGAAAATG
* * **
3271792 TCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACATATTCAAAGATTT-TATTTCAAGAGAAACT
1 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATATTCAAAG-TTTATATTTCAAGAGAAACT
3271856 A
65 A
* ** * * *
3271857 TCTTAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTA
1 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATATTCAAAGTTTATATTTCAAGAGAAACTA
*
3271922 TCTCAATAGAGAC
1 TCTCAAGAGAGAC
3271935 GAAACGTAGT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
64 3 0.05
65 62 0.95
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (65 bp):
TCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATATTCAAAGTTTATATTTCAAGAGAAACTA
Found at i:3271989 original size:19 final size:21
Alignment explanation
Indices: 3271961--3272008 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
3271951 AGAAAATGTC
* *
3271961 TCAAGGGAGACGAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
3271982 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
3272003 TCAAGA
1 TCAAGA
3272009 AAAACAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:3272015 original size:21 final size:21
Alignment explanation
Indices: 3271973--3272015 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3271963 AAGGGAGACG
* *
3271973 AAATTTGTTTCAAGAGAGACA
1 AAATTTGTTTCAAGAAAAACA
3271994 AAATTTGTTTCAAGAAAAACA
1 AAATTTGTTTCAAGAAAAACA
3272015 A
1 A
3272016 TCTTGATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (21 bp):
AAATTTGTTTCAAGAAAAACA
Found at i:3272242 original size:72 final size:72
Alignment explanation
Indices: 3271982--3272234 Score: 346
Period size: 72 Copynumber: 3.5 Consensus size: 72
3271972 GAAATTTGTT
* * * *
3271982 TCAAGAGAGACAAAATTTGTTTCAAGAAAAACAATCTTGATTGAAATAAATCTTTTTTCGAGTGA
1 TCAAGAGAGACAAAGTTTGTTTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGT-A
3272047 AAACAGTC
65 AAACAGTC
* *
3272055 CCAAGAGAGACAAA-TTTGGTTTTAAGAAAAACAATCTTGAGTGGAATAAATCTTCTTTCGAGTA
1 TCAAGAGAGACAAAGTTT-GTTTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTA
*
3272119 AAATAGTC
65 AAACAGTC
* * * *
3272127 TCAAGTGAGACAAAGTTTGTTTTAAGCAAAGCAAACTTGAGTGAAATAAATCTTCTTTCGAGTAA
1 TCAAGAGAGACAAAGTTTGTTTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTAA
*
3272192 AACAATC
66 AACAGTC
* * *
3272199 TCAAGTGAGACAAAGTATGCTTTAAGAAAAACAATC
1 TCAAGAGAGACAAAGTTTGTTTTAAGAAAAACAATC
3272235 ACAAGTGAGA
Statistics
Matches: 159, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
72 102 0.64
73 57 0.36
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (72 bp):
TCAAGAGAGACAAAGTTTGTTTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTAA
AACAGTC
Found at i:3277874 original size:35 final size:36
Alignment explanation
Indices: 3277826--3277893 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
3277816 ACGAAATGAT
*
3277826 AATATGTATATATATA-AAATAAATAAAAACATAAAA
1 AATATGTAAATATATATAAATAAAT-AAAACATAAAA
*
3277862 AATA-GTAAATATATATAAATTAATAAAACATA
1 AATATGTAAATATATATAAATAAATAAAACATA
3277894 TAATGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 18 0.62
36 11 0.38
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (36 bp):
AATATGTAAATATATATAAATAAATAAAACATAAAA
Found at i:3279773 original size:44 final size:44
Alignment explanation
Indices: 3279706--3279820 Score: 191
Period size: 44 Copynumber: 2.7 Consensus size: 44
3279696 TTTTCACTAC
*
3279706 GAAA-CACCATG-A-CCATGACCATCCCAAATAACGTACAAACG
1 GAAAGCACCATGAATCCATGACCATCCCAAATAACCTACAAACG
*
3279747 GAAAGCGCCATGAATCCATGACCATCCCAAATAACCTACAAACG
1 GAAAGCACCATGAATCCATGACCATCCCAAATAACCTACAAACG
3279791 GAAAGCACCATGAATCCATGACCATCCCAA
1 GAAAGCACCATGAATCCATGACCATCCCAA
3279821 TTCTAGATGA
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
41 4 0.06
42 6 0.09
43 1 0.01
44 57 0.84
ACGTcount: A:0.42, C:0.32, G:0.13, T:0.13
Consensus pattern (44 bp):
GAAAGCACCATGAATCCATGACCATCCCAAATAACCTACAAACG
Found at i:3282040 original size:16 final size:18
Alignment explanation
Indices: 3282019--3282057 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
3282009 ATATCTTTTT
3282019 AAAAAT-AATTTTAAGA-
1 AAAAATCAATTTTAAGAC
*
3282035 AAAAATCATTTTTAAGAC
1 AAAAATCAATTTTAAGAC
3282053 AAAAA
1 AAAAA
3282058 ACTGGTCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 9 0.45
18 5 0.25
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAAATCAATTTTAAGAC
Found at i:3282484 original size:2 final size:2
Alignment explanation
Indices: 3282477--3282513 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3282467 GGGTAAATTA
3282477 AT AT AT AT AT 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 AT AT AT AT AT A
3282514 AAAACAGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3284241 original size:3 final size:3
Alignment explanation
Indices: 3284233--3284279 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
3284223 AATATTGTAA
* * *
3284233 AAT AAT AAT AAT AAT AAT AAT AAT CAT ACT -AT AGT ATAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
3284278 AA
1 AA
3284280 ATATAATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 1 0.03
3 33 0.92
4 2 0.06
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:3284625 original size:91 final size:91
Alignment explanation
Indices: 3284490--3284694 Score: 376
Period size: 91 Copynumber: 2.3 Consensus size: 91
3284480 ATGGTTACCT
* *
3284490 GAAGGACTTAAAAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCC
1 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCC
3284555 TGCACTGAAGGTCTTACGGATGGCCC
66 TGCACTGAAGGTCTTACGGATGGCCC
3284581 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCC
1 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCC
*
3284646 TGCACTGAAGGTCTTATGGATGGCCC
66 TGCACTGAAGGTCTTACGGATGGCCC
3284672 GAAGGACTT-AAAAATCAAGAAAC
1 GAAGGACTTAAAAAATCAAGAAAC
3284695 TCTTGAAAAT
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
90 14 0.13
91 97 0.87
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (91 bp):
GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCC
TGCACTGAAGGTCTTACGGATGGCCC
Found at i:3284836 original size:43 final size:43
Alignment explanation
Indices: 3284783--3285142 Score: 364
Period size: 43 Copynumber: 8.1 Consensus size: 43
3284773 AAATTTGTCT
* * *
3284783 TCAAGGAACCCCTACATATCACGATGATCCCTCAAACTTTTCA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
** *
3284826 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* *
3284869 TCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTTA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* ** * *
3284912 TCAAGAAACCCCTACATATCATGATGGTTTCTCAAGCTTGTCC
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* *
3284955 TCAA-AGAACCCCTACATATCACGATGGTCCTTCAAGCTTGTCATTAAATTTGTCG
1 TCAAGA-AACCCCTACATATCACGATGGTCCCTCAA----G-C------TTT-TCA
* **
3285010 TCAAGGAACCCCTACATATCACGACAGTCCCTCAAGCTTTTCA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* ** *
3285053 TCAAGAAACCCCTACATATCGCGATGGTTTCTCAAGCTTTTCC
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* *
3285096 TCAA-AGAACCCCTACATATCACGATGGTCCTTCAAGCTTGTCA
1 TCAAGA-AACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
3285139 TCAA
1 TCAA
3285143 ATTTGTAATC
Statistics
Matches: 260, Mismatches: 42, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
42 2 0.01
43 217 0.83
44 3 0.01
47 1 0.00
48 1 0.00
50 1 0.00
51 1 0.00
54 2 0.01
55 32 0.12
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (43 bp):
TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
Found at i:3284922 original size:86 final size:86
Alignment explanation
Indices: 3284777--3285142 Score: 403
Period size: 86 Copynumber: 4.1 Consensus size: 86
3284767 CTCATCAAAT
* * *
3284777 TTGTCTTCAAGGAACCCCTACATATCACGATGATCCCTCAAACTTTTCATCAAGAAACCCCTACA
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACA
*
3284842 TATCACGATGGTTTCTCAAGC
66 TATCACGATGGTTCCTCAAGC
*
3284863 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTTATCAAGAAACCCCTACA
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACA
* *
3284928 TATCATGATGGTTTCTCAAGC
66 TATCACGATGGTTCCTCAAGC
* * * *
3284949 TTGTCCTCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCTTGTCATTAAATTTGTCGTCAA
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAA----G-C------TTT-TCATCAA
* ** *
3285014 GGAACCCCTACATATCACGACAGTCCCTCAAGC
54 GAAACCCCTACATATCACGATGGTTCCTCAAGC
* * * ** *
3285047 TTTTCATCAAGAAACCCCTACATATCGCGATGGTTTCTCAAGCTTTTCCTCAA-AGAACCCCTAC
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGA-AACCCCTAC
3285111 ATATCACGATGG-TCCTTCAAGC
65 ATATCACGATGGTTCC-TCAAGC
3285133 TTGTCATCAA
1 TTGTCATCAA
3285143 ATTTGTAATC
Statistics
Matches: 236, Mismatches: 30, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
85 2 0.01
86 159 0.67
87 3 0.01
90 1 0.00
91 1 0.00
93 1 0.00
94 1 0.00
97 3 0.01
98 65 0.28
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (86 bp):
TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACA
TATCACGATGGTTCCTCAAGC
Found at i:3285023 original size:141 final size:141
Alignment explanation
Indices: 3284863--3285206 Score: 555
Period size: 141 Copynumber: 2.4 Consensus size: 141
3284853 TTTCTCAAGC
3284863 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTTATCAAGAAACCCCTACA
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTTATCAAGAAACCCCTACA
*
3284928 TATCATGATGGTTTCTCAAGCTTGTCCTCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCT
66 TATCACGATGGTTTCTCAAGCTTGTCCTCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCT
*
3284993 TGTCATTAAAT
131 TGTCATCAAAT
* ** *
3285004 TTGTCGTCAAGGAACCCCTACATATCACGACAGTCCCTCAAGCTTTTCATCAAGAAACCCCTACA
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTTATCAAGAAACCCCTACA
* *
3285069 TATCGCGATGGTTTCTCAAGCTTTTCCTCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCT
66 TATCACGATGGTTTCTCAAGCTTGTCCTCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCT
3285134 TGTCATCAAAT
131 TGTCATCAAAT
* * * **
3285145 TTGTAATCAAGGAACCTCTACATATCACAATGGTTTCTCAAGCTTTTCT-TCAAGAAACCCCT
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTT-TATCAAGAAACCCCT
3285207 GAAAATCAGG
Statistics
Matches: 185, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
141 185 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (141 bp):
TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTTATCAAGAAACCCCTACA
TATCACGATGGTTTCTCAAGCTTGTCCTCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCT
TGTCATCAAAT
Found at i:3285033 original size:55 final size:55
Alignment explanation
Indices: 3284949--3285053 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 55
3284939 TTTCTCAAGC
** *
3284949 TTGTCCTCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCTTGTCATTAAAT
1 TTGTCCTCAAAGAACCCCTACATATCACGACAGTCCCTCAAGCTTGTCATTAAAT
* * *
3285004 TTGTCGTCAAGGAACCCCTACATATCACGACAGTCCCTCAAGCTTTTCAT
1 TTGTCCTCAAAGAACCCCTACATATCACGACAGTCCCTCAAGCTTGTCAT
3285054 CAAGAAACCC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.30
Consensus pattern (55 bp):
TTGTCCTCAAAGAACCCCTACATATCACGACAGTCCCTCAAGCTTGTCATTAAAT
Found at i:3285318 original size:35 final size:35
Alignment explanation
Indices: 3285277--3285389 Score: 156
Period size: 35 Copynumber: 3.2 Consensus size: 35
3285267 AAATCTTTTA
*
3285277 TTTCAAGTGAATTGTCTCAAGGGAGACAAAATGTG
1 TTTCAAGTGAACTGTCTCAAGGGAGACAAAATGTG
* * * *
3285312 TTTCAAGGGAACCGTCTCAAGAGAGACAAAATTTG
1 TTTCAAGTGAACTGTCTCAAGGGAGACAAAATGTG
3285347 TTTCAA-TGGAAACTGTCTCAAGGGAGACAAAATGTG
1 TTTCAAGT-G-AACTGTCTCAAGGGAGACAAAATGTG
3285383 TTTCAAG
1 TTTCAAG
3285390 GGAGACAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
35 37 0.56
36 29 0.44
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (35 bp):
TTTCAAGTGAACTGTCTCAAGGGAGACAAAATGTG
Found at i:3285374 original size:36 final size:35
Alignment explanation
Indices: 3285289--3285390 Score: 159
Period size: 36 Copynumber: 2.9 Consensus size: 35
3285279 TCAAGTGAAT
*
3285289 TGTCTCAAGGGAGACAAAATGTGTTTCAAGGGAAC
1 TGTCTCAAGGGAGACAAAATGTGTTTCAAGGAAAC
* * *
3285324 CGTCTCAAGAGAGACAAAATTTGTTTCAATGGAAAC
1 TGTCTCAAGGGAGACAAAATGTGTTTCAA-GGAAAC
3285360 TGTCTCAAGGGAGACAAAATGTGTTTCAAGG
1 TGTCTCAAGGGAGACAAAATGTGTTTCAAGG
3285391 GAGACAAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 28 0.47
36 31 0.53
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (35 bp):
TGTCTCAAGGGAGACAAAATGTGTTTCAAGGAAAC
Found at i:3285390 original size:21 final size:20
Alignment explanation
Indices: 3285364--3285485 Score: 93
Period size: 21 Copynumber: 6.4 Consensus size: 20
3285354 GGAAACTGTC
3285364 TCAAGGGAGACAAAATGTGTT
1 TCAAGGGAGACAAAAT-TGTT
3285385 TCAAGGGAGACAAAACTTGTT
1 TCAAGGGAGACAAAA-TTGTT
* * *
3285406 TC----GAGA-GAAACTGTC
1 TCAAGGGAGACAAAATTGTT
3285421 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAA-TTGTT
*
3285442 TCAA-GG-G---AAATTGTC
1 TCAAGGGAGACAAAATTGTT
*
3285457 TCAAGGGAGACAAAATTTATT
1 TCAAGGGAGACAAAA-TTGTT
3285478 TCAAGGGA
1 TCAAGGGA
3285486 AACCGTCTCA
Statistics
Matches: 79, Mismatches: 9, Indels: 26
0.69 0.08 0.23
Matches are distributed among these distances:
15 13 0.16
16 8 0.10
17 5 0.06
19 5 0.06
20 8 0.10
21 39 0.49
22 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (20 bp):
TCAAGGGAGACAAAATTGTT
Found at i:3285416 original size:57 final size:57
Alignment explanation
Indices: 3285328--3285449 Score: 192
Period size: 57 Copynumber: 2.1 Consensus size: 57
3285318 GGGAACCGTC
* *
3285328 TCAAGAGAGACAAAATTTGTTTCAATGGAAACTGTCTCAAGGGAGACAAAATGTGTT
1 TCAAGGGAGACAAAACTTGTTTCAATGGAAACTGTCTCAAGGGAGACAAAATGTGTT
* *
3285385 TCAAGGGAGACAAAACTTGTTTCGA-GAGAAACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAACTTGTTTCAATG-GAAACTGTCTCAAGGGAGACAAAATGTGTT
3285442 TCAAGGGA
1 TCAAGGGA
3285450 AATTGTCTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 1 0.02
57 59 0.98
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.25
Consensus pattern (57 bp):
TCAAGGGAGACAAAACTTGTTTCAATGGAAACTGTCTCAAGGGAGACAAAATGTGTT
Found at i:3285432 original size:36 final size:36
Alignment explanation
Indices: 3285385--3285527 Score: 209
Period size: 36 Copynumber: 4.0 Consensus size: 36
3285375 AAAATGTGTT
* * *
3285385 TCAAGGGAGACAAAACTTGTTTCGAGAGAAACTGTC
1 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
*
3285421 TCAAGGGAGACAAAATTTGTTTCAAGGGAAATTGTC
1 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
* *
3285457 TCAAGGGAGACAAAATTTATTTCAAGGGAAACCGTC
1 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
*
3285493 TC-AGGGAGACAATA-TTGTTTCAAGGGAAACTGTC
1 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
3285527 T
1 T
3285528 ACAAATTTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
34 19 0.20
35 11 0.11
36 67 0.69
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (36 bp):
TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
Found at i:3285451 original size:93 final size:92
Alignment explanation
Indices: 3285293--3285485 Score: 289
Period size: 93 Copynumber: 2.1 Consensus size: 92
3285283 GTGAATTGTC
* *
3285293 TCAAGGGAGACAAAATGTGTTTCAAGGGAACCGTCTCAAGAGAGACAAAATTTGTTTCAATGGAA
1 TCAAGGGAGACAAAATGTGTTTCAAGGAAACCGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAA
*
3285358 ACTGTCTCAAGGGAGACAAAATGTGTT
66 ACTGTCTCAAGGGAGACAAAATGTATT
* * *
3285385 TCAAGGGAGACAAAACT-TGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGG
1 TCAAGGGAGACAAAA-TGTGTTTCAAG-GAAACCGTCTCAAGAGAGACAAAATTTGTTTCAAGGG
* *
3285449 AAATTGTCTCAAGGGAGACAAAATTTATT
64 AAACTGTCTCAAGGGAGACAAAATGTATT
3285478 TCAAGGGA
1 TCAAGGGA
3285486 AACCGTCTCA
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
92 23 0.25
93 68 0.75
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (92 bp):
TCAAGGGAGACAAAATGTGTTTCAAGGAAACCGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAA
ACTGTCTCAAGGGAGACAAAATGTATT
Found at i:3285906 original size:33 final size:33
Alignment explanation
Indices: 3285842--3285927 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
3285832 ATCTCAGAGA
* **
3285842 AAATTGTCTCAAGCGAGACGGAATTTGTTTGAG
1 AAATTGTCTCAAGTGAGACAAAATTTGTTTGAG
3285875 AAATTGTCTCAAGTGAGACAAAA-TTGTTTTGAG
1 AAATTGTCTCAAGTGAGACAAAATTTG-TTTGAG
* *
3285908 GAATTATCTC-AGTGAGACAA
1 AAATTGTCTCAAGTGAGACAA
3285928 TTTTTTTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
32 13 0.28
33 34 0.72
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (33 bp):
AAATTGTCTCAAGTGAGACAAAATTTGTTTGAG
Found at i:3286094 original size:33 final size:32
Alignment explanation
Indices: 3286031--3286164 Score: 166
Period size: 33 Copynumber: 4.2 Consensus size: 32
3286021 AGGATATTGA
* * *
3286031 ATGCCCCAATATTCGATATTGAATCACCAAAG
1 ATGCCCCAATATTTGATGTTGAATCTCCAAAG
3286063 ATGCCCCAATATTTTGATGTTGAATCTCCAAAG
1 ATGCCCCAATA-TTTGATGTTGAATCTCCAAAG
*
3286096 ATGCCCCAACATTTG-TGTTGAATCTCCAAAG
1 ATGCCCCAATATTTGATGTTGAATCTCCAAAG
* *
3286127 ATCCCCCAA-ACCTTTGATGTTGAATCTTC-AAG
1 ATGCCCCAATA--TTTGATGTTGAATCTCCAAAG
3286159 ATGCCC
1 ATGCCC
3286165 TCTATTGCTT
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
30 1 0.01
31 24 0.26
32 27 0.30
33 39 0.43
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (32 bp):
ATGCCCCAATATTTGATGTTGAATCTCCAAAG
Found at i:3286125 original size:64 final size:64
Alignment explanation
Indices: 3286031--3286164 Score: 173
Period size: 64 Copynumber: 2.1 Consensus size: 64
3286021 AGGATATTGA
* * *
3286031 ATGCCCCAATATTCGATATTGAATCACCAAAGATGCCCCAATA-TTTTGATGTTGAATCTCCAAA
1 ATGCCCCAACATTCGATATTGAATCACCAAAGATCCCCCAA-ACCTTTGATGTTGAATCTCC-AA
3286095 G
64 G
* * * *
3286096 ATGCCCCAACATTTG-TGTTGAATCTCCAAAGATCCCCCAAACCTTTGATGTTGAATCTTCAAG
1 ATGCCCCAACATTCGATATTGAATCACCAAAGATCCCCCAAACCTTTGATGTTGAATCTCCAAG
3286159 ATGCCC
1 ATGCCC
3286165 TCTATTGCTT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
63 10 0.16
64 38 0.62
65 13 0.21
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (64 bp):
ATGCCCCAACATTCGATATTGAATCACCAAAGATCCCCCAAACCTTTGATGTTGAATCTCCAAG
Found at i:3292057 original size:16 final size:17
Alignment explanation
Indices: 3292036--3292073 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
3292026 ATATATTTTT
3292036 AAAAAT-AATTTTAAGA
1 AAAAATCAATTTTAAGA
*
3292052 AAAAATCATTTTTAAGA
1 AAAAATCAATTTTAAGA
3292069 AAAAA
1 AAAAA
3292074 AGCTGGTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (17 bp):
AAAAATCAATTTTAAGA
Found at i:3292500 original size:2 final size:2
Alignment explanation
Indices: 3292493--3292525 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3292483 CAAGGGTAAA
3292493 AT AT AT 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 AT AT AT A
3292526 AACAGTAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3292676 original size:25 final size:23
Alignment explanation
Indices: 3292648--3292701 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
3292638 AAACATAACT
3292648 TATATATTTTCATAATATTTACATA
1 TATATATTTT-AT-ATATTTACATA
*
3292673 TATACATATTTTATATATTTACGTA
1 TAT--ATATTTTATATATTTACATA
3292698 TATA
1 TATA
3292702 AGTTGTATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.04
25 16 0.62
26 2 0.08
27 7 0.27
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (23 bp):
TATATATTTTATATATTTACATA
Found at i:3294321 original size:3 final size:3
Alignment explanation
Indices: 3294313--3294353 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
3294303 AATATTGTAA
*
3294313 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AGT ATAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AA
3294354 ATATAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:3294357 original size:9 final size:8
Alignment explanation
Indices: 3294314--3294365 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 8
3294304 ATATTGTAAA
3294314 ATAATAAT
1 ATAATAAT
3294322 AATAATAAT
1 -ATAATAAT
3294331 AATAATAAT
1 -ATAATAAT
*
3294340 ATAGT-AT
1 ATAATAAT
3294347 ATAATAAAT
1 ATAAT-AAT
3294356 ATAAT-AT
1 ATAATAAT
3294363 ATA
1 ATA
3294366 TTTTAATCCC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
7 11 0.28
8 4 0.10
9 24 0.62
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (8 bp):
ATAATAAT
Found at i:3294358 original size:16 final size:15
Alignment explanation
Indices: 3294313--3294365 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
3294303 AATATTGTAA
3294313 AATA-ATAATAATAAT
1 AATATATAATAAT-AT
3294328 AATA-ATAATAATAT
1 AATATATAATAATAT
*
3294342 AGTATATAATAAATAT
1 AATATATAAT-AATAT
3294358 AATATATA
1 AATATATA
3294366 TTTTAATCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 5 0.15
15 17 0.50
16 12 0.35
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
AATATATAATAATAT
Found at i:3303648 original size:2 final size:2
Alignment explanation
Indices: 3303641--3303673 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
3303631 CACATTAAAC
3303641 TA TA TA TA TA -A T- TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3303674 TCATCTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3305300 original size:10 final size:9
Alignment explanation
Indices: 3305275--3305308 Score: 52
Period size: 10 Copynumber: 3.8 Consensus size: 9
3305265 TTTCCAATTT
3305275 TATAAAAAA
1 TATAAAAAA
3305284 T-TAAAAAA
1 TATAAAAAA
3305292 TATATAAAAA
1 TATA-AAAAA
3305302 TATAAAA
1 TATAAAA
3305309 CAACATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.35
9 6 0.26
10 9 0.39
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
TATAAAAAA
Found at i:3306386 original size:23 final size:24
Alignment explanation
Indices: 3306360--3306414 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
3306350 TTTGAATAAT
3306360 TTAATTTATCATATATTTA-AA-TA
1 TTAATTTAT-ATATATTTATAATTA
*
3306383 TTAATTT-TTTATATTTATAATTA
1 TTAATTTATATATATTTATAATTA
*
3306406 ATAATTTAT
1 TTAATTTAT
3306415 TTTCATCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 8 0.30
22 3 0.11
23 15 0.56
24 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TTAATTTATATATATTTATAATTA
Found at i:3308892 original size:76 final size:76
Alignment explanation
Indices: 3308756--3309021 Score: 279
Period size: 76 Copynumber: 3.5 Consensus size: 76
3308746 CCTGCACACC
* * * * * * *
3308756 CAGTAAGAACTTACCCT--GCACAAAGCAGAGGAGCATTCAGTAAGGTCTTATCTTGTGCACAAA
1 CAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCAGTAAGGACTTACCTTGAGCACAAA
* *
3308819 GCAGAGGCCTA
66 GCAGAGGCATG
* * *
3308830 CAGTAAGGACTTACCCTGAGCATAAAGCTGAGGAGCCTGCAGTAAGGACTTACCCTGAGCACAAA
1 CAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCAGTAAGGACTTACCTTGAGCACAAA
* *
3308895 GTAGTGGATCATG
66 GCAGAGG--CATG
* * * * *
3308908 CAGTAAGGACTTACTCTGAGCACAAAGCCAAGGA-CCTGCAATTAGGA-TTACCTTGAGCATAAA
1 CAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCAGTAAGGACTTACCTTGAGCACAAA
*
3308971 GCAAAGGAGCATG
66 GCAGA-G-GCATG
*
3308984 CAGTAACGACTTACCCTGAGCACAAAGCCGAGGAGCCT
1 CAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCT
3309022 ACAGAAACGA
Statistics
Matches: 158, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
74 16 0.10
76 94 0.59
77 15 0.09
78 33 0.21
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (76 bp):
CAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCAGTAAGGACTTACCTTGAGCACAAA
GCAGAGGCATG
Found at i:3308959 original size:115 final size:115
Alignment explanation
Indices: 3308756--3309019 Score: 322
Period size: 115 Copynumber: 2.3 Consensus size: 115
3308746 CCTGCACACC
* * * *
3308756 CAGTAAGAACTTACCCT--GCACAAAGCAGAGGAGCATTCAGTAAGGTCTTATCTTGTGCACAAA
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCATGCAGTAAGGACTTATCTTGAGCACAAA
* ** *
3308819 GCAGAGGCCTACAGTAAGGACTTACCCTGAGCATAAAGCTGAGGAGCCTG
66 GCAGAGGCCTACAATAAGGACTTACCCTGAGCATAAAGCAAAGGAGCATG
* * *
3308869 CAGTAAGGACTTACCCTGAGCACAAAGTAGTGGATCATGCAGTAAGGACTTA-CTCTGAGCACAA
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCATGCAGTAAGGACTTATCT-TGAGCACAA
* * *
3308933 AGCCA-AGGACCTGCAATTAGGA-TTACCTTGAGCATAAAGCAAAGGAGCATG
65 AG-CAGAGG-CCTACAATAAGGACTTACCCTGAGCATAAAGCAAAGGAGCATG
* *
3308984 CAGTAACGACTTACCCTGAGCACAAAGCCGAGGAGC
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGC
3309020 CTACAGAAAC
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
113 16 0.13
114 2 0.02
115 97 0.76
116 12 0.09
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (115 bp):
CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCATGCAGTAAGGACTTATCTTGAGCACAAA
GCAGAGGCCTACAATAAGGACTTACCCTGAGCATAAAGCAAAGGAGCATG
Found at i:3309031 original size:39 final size:39
Alignment explanation
Indices: 3308756--3309021 Score: 267
Period size: 39 Copynumber: 7.0 Consensus size: 39
3308746 CCTGCACACC
* * *
3308756 CAGTAAGAACTTACCCT--GCACAAAGCAGAGGAGCATT
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTG
* * * * *
3308793 CAGTAAGGTCTTATCTTGTGCACAAAGCAGA-G-GCCTA
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTG
* *
3308830 CAGTAAGGACTTACCCTGAGCATAAAGCTGAGGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTG
* * * *
3308869 CAGTAAGGACTTACCCTGAGCACAAAGTAGTGGATCATG
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTG
*
3308908 CAGTAAGGACTTACTCTGAGCACAAAGCCA-AGGA-CCTG
1 CAGTAAGGACTTACCCTGAGCACAAAG-CAGAGGAGCCTG
* * * * * *
3308946 CAATTAGGA-TTACCTTGAGCATAAAGCAAAGGAGCATG
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTG
* *
3308984 CAGTAACGACTTACCCTGAGCACAAAGCCGAGGAGCCT
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCT
3309022 ACAGAAACGA
Statistics
Matches: 184, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
36 2 0.01
37 59 0.32
38 21 0.11
39 101 0.55
40 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (39 bp):
CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTG
Found at i:3310364 original size:29 final size:29
Alignment explanation
Indices: 3310321--3310402 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
3310311 GGATCTAAAT
* *
3310321 TTAATCAAAATTTCACTTTGGTTCCCAAAA
1 TTAATCAAAA-TTCAATTTAGTTCCCAAAA
* *
3310351 TTAATCAAAATTCAATTTAATTCCTAAAA
1 TTAATCAAAATTCAATTTAGTTCCCAAAA
3310380 TTAATCAAAATTCAATTTAGTTC
1 TTAATCAAAATTCAATTTAGTTC
3310403 TCGTAAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 37 0.79
30 10 0.21
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (29 bp):
TTAATCAAAATTCAATTTAGTTCCCAAAA
Found at i:3311718 original size:16 final size:16
Alignment explanation
Indices: 3311697--3311737 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
3311687 CAAACTGCTA
3311697 AAATAAACTAAAATAT
1 AAATAAACTAAAATAT
* *
3311713 AAATAAAATGAAATAT
1 AAATAAACTAAAATAT
3311729 AAATAAACT
1 AAATAAACT
3311738 GATTTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (16 bp):
AAATAAACTAAAATAT
Found at i:3311793 original size:31 final size:31
Alignment explanation
Indices: 3311757--3311816 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
3311747 AACTTAAAAG
* *
3311757 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
3311788 AGTTTTATAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
3311817 CATACAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:3312316 original size:17 final size:16
Alignment explanation
Indices: 3312273--3312316 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
3312263 CAATCAAAAT
3312273 AATTAAAATAAATATAA
1 AATT-AAATAAATATAA
*
3312290 AATTTTAATAATATATAA
1 AA-TTAAATAA-ATATAA
3312308 AATTAAATA
1 AATTAAATA
3312317 TCTATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATTAAATAAATATAA
Found at i:3312422 original size:62 final size:62
Alignment explanation
Indices: 3312296--3312457 Score: 258
Period size: 61 Copynumber: 2.6 Consensus size: 62
3312286 ATAAAATTTT
*
3312296 AATAATATATAAAATTAAATATCTATAATATAATATTAAAAAATAATATTTAATTTATTTAAAA
1 AATAATAT-TAAAATT-AATATCTATAATATAATATAAAAAAATAATATTTAATTTATTTAAAA
3312360 AATAATATTAAAATTAATATCTATAATATAAT-TAAAAAAATAATATTTAATTTATTTAAAA
1 AATAATATTAAAATTAATATCTATAATATAATATAAAAAAATAATATTTAATTTATTTAAAA
*
3312421 AAGTAATATTAAAATTAAAATC-A-AATATAATATAAAA
1 AA-TAATATTAAAATTAATATCTATAATATAATATAAAA
3312458 TTAAATATAA
Statistics
Matches: 94, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
60 8 0.09
61 36 0.38
62 35 0.37
63 7 0.07
64 8 0.09
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (62 bp):
AATAATATTAAAATTAATATCTATAATATAATATAAAAAAATAATATTTAATTTATTTAAAA
Found at i:3313161 original size:14 final size:15
Alignment explanation
Indices: 3313141--3313176 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
3313131 AAAGAATAAA
3313141 AATTAAATT-AAAAG
1 AATTAAATTGAAAAG
*
3313155 GATTAAATTGAAAAG
1 AATTAAATTGAAAAG
3313170 AATTAAA
1 AATTAAA
3313177 ACCAAGGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (15 bp):
AATTAAATTGAAAAG
Found at i:3313456 original size:10 final size:9
Alignment explanation
Indices: 3313441--3313468 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
3313431 CCTAAATCAC
3313441 AAAAAAAAT
1 AAAAAAAAT
3313450 AAAAAAAAT
1 AAAAAAAAT
3313459 AAAAAAAAT
1 AAAAAAAAT
3313468 A
1 A
3313469 TCTCCCTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:3314422 original size:2 final size:2
Alignment explanation
Indices: 3314374--3314403 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3314364 AAAATAAATA
3314374 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3314404 TAAAAAATGA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3314442 original size:25 final size:26
Alignment explanation
Indices: 3314386--3314445 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
3314376 ATATATATAT
*
3314386 ATATATATATATATATATTAAAAAATG
1 ATATA-ATATATATATATTAAAAAATC
**
3314413 A-ATAATATAT-TATATTTCAAAATC
1 ATATAATATATATATATTAAAAAATC
3314437 ATATAATAT
1 ATATAATAT
3314446 GTTTTCAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 12 0.41
25 13 0.45
26 3 0.10
27 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (26 bp):
ATATAATATATATATATTAAAAAATC
Found at i:3314500 original size:27 final size:26
Alignment explanation
Indices: 3314437--3314590 Score: 121
Period size: 29 Copynumber: 6.1 Consensus size: 26
3314427 TTTCAAAATC
* *
3314437 ATATAATATGTTTTCAAAAAGTATAT
1 ATATTATATGTTTTCAAAAACTATAT
3314463 ATATTACATATGTTTTTCAAAAACTATAT
1 ATATT--ATATG-TTTTCAAAAACTATAT
3314492 ATATTATATGTTTTC-AAAACTATAT
1 ATATTATATGTTTTCAAAAACTATAT
** *
3314517 A-ACAATATGTTTTTTTAAAAACTATA-
1 ATATTATATG--TTTTCAAAAACTATAT
*
3314543 CTA-TATA--TTTTCAAAAAC--TAT
1 ATATTATATGTTTTCAAAAACTATAT
*
3314564 ATATTAT-T-TTTTGACAAAACTATAT
1 ATATTATATGTTTTCA-AAAACTATAT
3314589 AT
1 AT
3314591 TATATATTAT
Statistics
Matches: 105, Mismatches: 10, Indels: 27
0.74 0.07 0.19
Matches are distributed among these distances:
20 2 0.02
21 2 0.02
22 18 0.17
23 5 0.05
24 6 0.06
25 16 0.15
26 16 0.15
27 15 0.14
28 5 0.05
29 20 0.19
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (26 bp):
ATATTATATGTTTTCAAAAACTATAT
Found at i:3314506 original size:55 final size:53
Alignment explanation
Indices: 3314437--3314567 Score: 148
Period size: 52 Copynumber: 2.5 Consensus size: 53
3314427 TTTCAAAATC
* * *
3314437 ATATAATATGTTTTCAAAAAGTATATATATTACATATG-TTTTTCAAAAACTATA
1 ATATTATATGTTTTCAAAAACTATATATA-CA-ATATGTTTTTTCAAAAACTATA
*
3314491 TATATTATATGTTTTC-AAAACTATATA-ACAATATGTTTTTTTAAAAACTATA
1 -ATATTATATGTTTTCAAAAACTATATATACAATATGTTTTTTCAAAAACTATA
*
3314543 CTA-TATA--TTTTCAAAAACTATATAT
1 ATATTATATGTTTTCAAAAACTATATAT
3314568 TATTTTTTGA
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
48 5 0.07
49 11 0.16
50 4 0.06
51 7 0.10
52 16 0.24
53 1 0.01
54 10 0.15
55 14 0.21
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (53 bp):
ATATTATATGTTTTCAAAAACTATATATACAATATGTTTTTTCAAAAACTATA
Found at i:3314530 original size:25 final size:25
Alignment explanation
Indices: 3314462--3314566 Score: 87
Period size: 25 Copynumber: 4.2 Consensus size: 25
3314452 AAAAAGTATA
*
3314462 TATATTACATATGTTTTTCAAAAAC
1 TATATAACATATGTTTTTCAAAAAC
*
3314487 TATATATATTATATG-TTTTC-AAAAC
1 TATATA-A-CATATGTTTTTCAAAAAC
*
3314512 TATATAACAATATGTTTTTTTAAAAAC
1 TATATAAC-ATATG-TTTTTCAAAAAC
*
3314539 --TAT-ACTATAT-ATTTTCAAAAAC
1 TATATAAC-ATATGTTTTTCAAAAAC
3314561 TATATA
1 TATATA
3314567 TTATTTTTTG
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
22 10 0.16
24 15 0.23
25 19 0.30
26 10 0.16
27 10 0.16
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.45
Consensus pattern (25 bp):
TATATAACATATGTTTTTCAAAAAC
Found at i:3314586 original size:23 final size:22
Alignment explanation
Indices: 3314475--3314593 Score: 89
Period size: 22 Copynumber: 5.0 Consensus size: 22
3314465 ATTACATATG
3314475 TTTTTCAAAAACTATATATATTAT
1 TTTTTCAAAAAC--TATATATTAT
*
3314499 ATGTTTTC-AAAACTATATAACAATATGT
1 -T-TTTTCAAAAACTATAT----AT-TAT
*
3314527 TTTTTTAAAAACTATACTA-TAT
1 TTTTTCAAAAACTATA-TATTAT
*
3314549 ATTTTCAAAAACTATATATTAT
1 TTTTTCAAAAACTATATATTAT
*
3314571 TTTTTGACAAAACTATATATTAT
1 TTTTTCA-AAAACTATATATTAT
3314594 ATATTATCCT
Statistics
Matches: 77, Mismatches: 7, Indels: 22
0.73 0.07 0.21
Matches are distributed among these distances:
21 2 0.03
22 24 0.31
23 20 0.26
24 1 0.01
25 6 0.08
26 9 0.12
27 12 0.16
28 3 0.04
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (22 bp):
TTTTTCAAAAACTATATATTAT
Found at i:3320636 original size:22 final size:23
Alignment explanation
Indices: 3320608--3320657 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
3320598 GGAATCGATA
3320608 CCCCTTT-AAGGGGAACCGATTC
1 CCCCTTTGAAGGGGAACCGATTC
*
3320630 CCCCTTTGAATGGGAACCGATTC
1 CCCCTTTGAAGGGGAACCGATTC
3320653 CCCCT
1 CCCCT
3320658 AGGGGAATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.24
Consensus pattern (23 bp):
CCCCTTTGAAGGGGAACCGATTC
Found at i:3333356 original size:17 final size:17
Alignment explanation
Indices: 3333334--3333367 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3333324 AGGATCAAAT
3333334 AGGGCCACTCTCATGCG
1 AGGGCCACTCTCATGCG
3333351 AGGGCCACTCTCATGCG
1 AGGGCCACTCTCATGCG
3333368 TCCCATCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (17 bp):
AGGGCCACTCTCATGCG
Found at i:3335838 original size:35 final size:35
Alignment explanation
Indices: 3335772--3335838 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
3335762 CTATGCATAT
* **
3335772 TCGAACAAGGATGCATTGGGAAAGTGGAACCATTA
1 TCGAACAAGGATACATTGGGAAAGTAAAACCATTA
*
3335807 TCGAACATGGATACATTGGGAAAGTAAAACCA
1 TCGAACAAGGATACATTGGGAAAGTAAAACCA
3335839 GCGAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.19
Consensus pattern (35 bp):
TCGAACAAGGATACATTGGGAAAGTAAAACCATTA
Found at i:3339251 original size:37 final size:36
Alignment explanation
Indices: 3339192--3339311 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
3339182 ATCCCATTAT
* *
3339192 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
3339228 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
3339264 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
3339299 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
3339312 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:3339267 original size:21 final size:21
Alignment explanation
Indices: 3339243--3339303 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
3339233 TTCAAAGAAA
3339243 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
3339264 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
3339278 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
3339299 CATTT
1 CATTT
3339304 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:3339320 original size:35 final size:36
Alignment explanation
Indices: 3339194--3339338 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
3339184 CCCATTATCA
*
3339194 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
3339229 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
3339266 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
3339302 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
3339336 TTT
1 TTT
3339339 AATACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:3343405 original size:16 final size:16
Alignment explanation
Indices: 3343381--3343414 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3343371 TATCGCCGAC
*
3343381 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
3343397 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
3343413 CG
1 CG
3343415 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:3343895 original size:36 final size:36
Alignment explanation
Indices: 3343825--3343937 Score: 176
Period size: 35 Copynumber: 3.2 Consensus size: 36
3343815 TCCCATTATC
* *
3343825 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACT
3343861 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
*
3343897 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
3343932 ATTTTT
1 ATTTTT
3343938 TTTAAAGTTG
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
35 34 0.47
36 18 0.25
37 20 0.28
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (36 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
Found at i:3346524 original size:2 final size:2
Alignment explanation
Indices: 3346473--3346510 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3346463 ATGTAATACG
3346473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3346511 TAAAAACCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3352373 original size:26 final size:27
Alignment explanation
Indices: 3352331--3352381 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
3352321 AAAGTCAATA
3352331 AATTTTTTAAAAATATATAAA-ATTTAT
1 AATTTTTTAAAAATATA-AAATATTTAT
*
3352358 AATTTTTT-AAATTATAAAATATTT
1 AATTTTTTAAAAATATAAAATATTT
3352382 CTCATCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 3 0.14
26 11 0.50
27 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AATTTTTTAAAAATATAAAATATTTAT
Found at i:3355384 original size:22 final size:23
Alignment explanation
Indices: 3355339--3355384 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
3355329 TCTCAATAAA
3355339 TGGTTCATAATTTAACTTTATATT
1 TGGTTCATAATTT-ACTTTATATT
* *
3355363 TGGTTCATCATTT-CTTTCTATT
1 TGGTTCATAATTTACTTTATATT
3355385 ATTTACGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.57
Consensus pattern (23 bp):
TGGTTCATAATTTACTTTATATT
Found at i:3356254 original size:17 final size:18
Alignment explanation
Indices: 3356234--3356267 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3356224 TTTATAAGGT
3356234 ATATTTTATTA-TATTTA
1 ATATTTTATTAGTATTTA
*
3356251 ATATTTTGTTAGTATTT
1 ATATTTTATTAGTATTT
3356268 TATTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTTATTAGTATTTA
Found at i:3356304 original size:37 final size:39
Alignment explanation
Indices: 3356245--3356326 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 39
3356235 TATTTTATTA
* *
3356245 TATTTAATATTTTGTTAGTATTTTATTTAATTATTGTAT
1 TATTTAATATTTTGTTACTATTTTATTTAAATATTGTAT
*
3356284 TATTTAAT-TTTT-TTACTATTTTATTTAAATATTTTAT
1 TATTTAATATTTTGTTACTATTTTATTTAAATATTGTAT
*
3356321 TTTTTA
1 TATTTA
3356327 CAGTTATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 27 0.69
38 4 0.10
39 8 0.21
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (39 bp):
TATTTAATATTTTGTTACTATTTTATTTAAATATTGTAT
Found at i:3356415 original size:104 final size:104
Alignment explanation
Indices: 3356302--3356506 Score: 383
Period size: 104 Copynumber: 2.0 Consensus size: 104
3356292 TTTTTTACTA
* *
3356302 TTTTATTTAAATATTTTATTTTTTACAGTTATAAAATGGAAAGCGGTCTGCTTTGTTATATTTAA
1 TTTTATTTAAATATTTTATTTTTTACAGTTATAAAATAGAAAGCGGTCTGCTTCGTTATATTTAA
*
3356367 TATTTTGTTAGTATTTTATTTAGTTATTGTATTATTATT
66 TATTTTGTTAGTATTTTATTTAATTATTGTATTATTATT
3356406 TTTTATTTAAATATTTTATTTTTTACAGTTATAAAATAGAAAGCGGTCTGCTTCGTTATATTTAA
1 TTTTATTTAAATATTTTATTTTTTACAGTTATAAAATAGAAAGCGGTCTGCTTCGTTATATTTAA
3356471 TATTTTGTTAGTATTTTATTTAATTATTGTATTATT
66 TATTTTGTTAGTATTTTATTTAATTATTGTATTATT
3356507 TAATTTAATT
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 98 1.00
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.56
Consensus pattern (104 bp):
TTTTATTTAAATATTTTATTTTTTACAGTTATAAAATAGAAAGCGGTCTGCTTCGTTATATTTAA
TATTTTGTTAGTATTTTATTTAATTATTGTATTATTATT
Found at i:3356486 original size:115 final size:115
Alignment explanation
Indices: 3356367--3356577 Score: 263
Period size: 115 Copynumber: 1.8 Consensus size: 115
3356357 TTATATTTAA
*
3356367 TATTTT-GTT-AGTATTTTATTTAGTT-ATTGT-A-TTATTATT-TTTTATTTAAATATTTTATT
1 TATTTTAGTTAAGTATTGTA-TTAGTTAATT-TAATTTATT-TTATTTTATTTAAATA--TT-TT
*
3356426 TTTTACAGTTATAAAATAGAAAGCGGTCTGCTTCGTTATATTTAATATTTTGTTAG
60 TTTTACAGTTATAAAATAGAAAGCGGTATGCTTCGTTATATTTAATATTTTGTTAG
* * * *
3356482 TATTTTATTTAATTATTGTATTATTTAATTTAATTTATTTTATTTTATTTAAATATTTTTTTTGC
1 TATTTTAGTTAAGTATTGTATTAGTTAATTTAATTTATTTTATTTTATTTAAATATTTTTTTTAC
*
3356547 AGTTATAAAATGGAAAGCGGTATGCTTCGTT
66 AGTTATAAAATAGAAAGCGGTATGCTTCGTT
3356578 TGGATGAAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
115 42 0.51
116 10 0.12
117 13 0.16
118 18 0.22
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.56
Consensus pattern (115 bp):
TATTTTAGTTAAGTATTGTATTAGTTAATTTAATTTATTTTATTTTATTTAAATATTTTTTTTAC
AGTTATAAAATAGAAAGCGGTATGCTTCGTTATATTTAATATTTTGTTAG
Found at i:3356512 original size:21 final size:22
Alignment explanation
Indices: 3356465--3356525 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
3356455 GCTTCGTTAT
* *
3356465 ATTTAATATT-TTGTTAGTATTTT
1 ATTTAAT-TTATTG-TATTATTTA
3356488 ATTTAA-TTATTGTATTATTTA
1 ATTTAATTTATTGTATTATTTA
*
3356509 ATTTAATTTATTTTATT
1 ATTTAATTTATTGTATT
3356526 TTATTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 15 0.45
22 12 0.36
23 6 0.18
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
ATTTAATTTATTGTATTATTTA
Found at i:3357534 original size:22 final size:22
Alignment explanation
Indices: 3357508--3357581 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 22
3357498 GAAAACTGGT
*
3357508 TGGTCAATGTAAAACATTTTCC
1 TGGTCAACGTAAAACATTTTCC
*
3357530 TGGTCAACGTAAAACATTTTTC
1 TGGTCAACGTAAAACATTTTCC
*
3357552 TGGTCAACATAAAACATTTTCC
1 TGGTCAACGTAAAACATTTTCC
*
3357574 TTGTCAAC
1 TGGTCAAC
3357582 AGAATTTCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (22 bp):
TGGTCAACGTAAAACATTTTCC
Found at i:3357680 original size:70 final size:70
Alignment explanation
Indices: 3357566--3357713 Score: 206
Period size: 70 Copynumber: 2.1 Consensus size: 70
3357556 CAACATAAAA
* * * ** *
3357566 CATTTTCCTTGTCAACAGAATTTCCTTTGTATTTTCTGAAAAATGACTTATTGTCTGATTTTCCG
1 CATTTTCCTGGTCAACAAAATTTCCTTTGTATTTTATGAAAAATGACTTACGGCCTGATTTTCCG
3357631 TAAGT
66 TAAGT
* * *
3357636 TATTTTCCTGGTCAACAAAATTTCCTTTGTATTTTATGGAAAATGACTTACGGCCTGATTTTTCG
1 CATTTTCCTGGTCAACAAAATTTCCTTTGTATTTTATGAAAAATGACTTACGGCCTGATTTTCCG
*
3357701 TAGGT
66 TAAGT
3357706 CATTTTCC
1 CATTTTCC
3357714 GAACTTTTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.45
Consensus pattern (70 bp):
CATTTTCCTGGTCAACAAAATTTCCTTTGTATTTTATGAAAAATGACTTACGGCCTGATTTTCCG
TAAGT
Found at i:3357848 original size:12 final size:12
Alignment explanation
Indices: 3357819--3357856 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
3357809 AATTATTAAA
3357819 ATATTTAA-AAT
1 ATATTTAATAAT
*
3357830 ATATTTATTAAT
1 ATATTTAATAAT
*
3357842 ATTTTTAATAAT
1 ATATTTAATAAT
3357854 ATA
1 ATA
3357857 ATAAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:3357848 original size:23 final size:23
Alignment explanation
Indices: 3357801--3357858 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
3357791 CATTTTAATC
3357801 AAAATATCAATTATTAAAATATTT
1 AAAATAT-AATTATTAAAATATTT
* * *
3357825 AAAATATATTTATTAATATTTTT
1 AAAATATAATTATTAAAATATTT
3357848 AATAATATAAT
1 AA-AATATAAT
3357859 AAATTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAATATAATTATTAAAATATTT
Found at i:3357851 original size:21 final size:21
Alignment explanation
Indices: 3357818--3357879 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 21
3357808 CAATTATTAA
** * *
3357818 AATATTTAAAATATATTTATT
1 AATATTTTTAATATATATAAT
3357839 AATATTTTTAATA-ATATAAT
1 AATATTTTTAATATATATAAT
3357859 AA-ATTTTTAATAT-TATAAT
1 AATATTTTTAATATATATAAT
3357878 AA
1 AA
3357880 ATAATCAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 18 0.50
20 7 0.19
21 11 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATTTTTAATATATATAAT
Found at i:3357866 original size:19 final size:19
Alignment explanation
Indices: 3357842--3357881 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
3357832 ATTTATTAAT
3357842 ATTTTTAATAATATAATAA
1 ATTTTTAATAATATAATAA
*
3357861 ATTTTTAATATTATAATAA
1 ATTTTTAATAATATAATAA
3357880 AT
1 AT
3357882 AATCAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTTAATAATATAATAA
Found at i:3358208 original size:19 final size:20
Alignment explanation
Indices: 3358184--3358233 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
3358174 TAATAAAAAT
3358184 ATAAAAATAATATTTA-ATA
1 ATAAAAATAATATTTATATA
* *
3358203 ATAAAAATTAT-TTTATATT
1 ATAAAAATAATATTTATATA
*
3358222 TTAAAAATAATA
1 ATAAAAATAATA
3358234 ATATTAAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAAAATAATATTTATATA
Found at i:3358895 original size:17 final size:18
Alignment explanation
Indices: 3358851--3358895 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
3358841 TTTAAAGATC
3358851 AAAACCAATAAAAAATATTA
1 AAAACCAAT-AAAAATA-TA
3358871 AAAA--AATAAAAATA-A
1 AAAACCAATAAAAATATA
3358886 AAAACCAATA
1 AAAACCAATA
3358896 TAATTATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 5 0.22
17 11 0.48
18 3 0.13
20 4 0.17
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAACCAATAAAAATATA
Found at i:3363540 original size:16 final size:17
Alignment explanation
Indices: 3363495--3363541 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
3363485 TTGTTTTGAC
3363495 TTTTCAAAAATAATATTA
1 TTTT-AAAAATAATATTA
*
3363513 TATTTATTAAATAATA-TA
1 T-TTTA-AAAATAATATTA
3363531 TTTTAAAAATA
1 TTTTAAAAATA
3363542 CTTATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 5 0.20
17 4 0.16
18 5 0.20
19 11 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTAAAAATAATATTA
Found at i:3373944 original size:21 final size:21
Alignment explanation
Indices: 3373903--3373944 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3373893 CAAATATTAT
* *
3373903 TTTTTGAAATTAAATTTTAAA
1 TTTTTAAAATTAAATTCTAAA
3373924 TTTTTAAAATT-AATTGCTAAA
1 TTTTTAAAATTAAATT-CTAAA
3373945 CTATTTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTTTAAAATTAAATTCTAAA
Found at i:3375942 original size:23 final size:23
Alignment explanation
Indices: 3375913--3375974 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
3375903 CATTTTATAT
* *
3375913 GGCACTTCAGTGCATTTGTACGC
1 GGCACTTCGGTGCATTTCTACGC
*
3375936 GGCACTTCGGTGCATTTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
3375959 GGTACTTCGGTGCATT
1 GGCACTTCGGTGCATT
3375975 ATATACGAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:3378574 original size:30 final size:30
Alignment explanation
Indices: 3378538--3378634 Score: 169
Period size: 30 Copynumber: 3.2 Consensus size: 30
3378528 ATGGCTCCAA
*
3378538 AAGAATTGA-AAAAGTTGAAGATTCAATTGC
1 AAGAATT-ACAAAAGTTGAAGGTTCAATTGC
3378568 AAGAATTACAAAAGTTGAAGGTTCAATTGC
1 AAGAATTACAAAAGTTGAAGGTTCAATTGC
3378598 AAGAATTACAAAAGTTGAAGGTTCAATTGC
1 AAGAATTACAAAAGTTGAAGGTTCAATTGC
3378628 AAGAATT
1 AAGAATT
3378635 GTTAGAAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 1 0.02
30 64 0.98
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (30 bp):
AAGAATTACAAAAGTTGAAGGTTCAATTGC
Found at i:3384421 original size:85 final size:85
Alignment explanation
Indices: 3384263--3384444 Score: 231
Period size: 85 Copynumber: 2.1 Consensus size: 85
3384253 TGTAGCGTTG
* * *
3384263 AAACCCTACAATCTTGTACATGTAGATTATTGGATTGGTTCAGATCCAACAGATCTGGTGATGCG
1 AAACCCTA-AATCTTGCACATGTAGATTATTGGATTGGTTCAGATCCAACAGATCTGATGACGCG
* *
3384328 ACGCTGATATC-ATAAGGGTA
65 ACGCTGATATCAAAAAGGATA
* * * *
3384348 AAACCCTAAGATCTTGCATATGTAGATTGTTGGATTGGTTCAGATCCAACGGATTTGATGACGCG
1 AAACCCTAA-ATCTTGCACATGTAGATTATTGGATTGGTTCAGATCCAACAGATCTGATGACGCG
* * *
3384413 ATGTTGATATCAAAAATGATA
65 ACGCTGATATCAAAAAGGATA
3384434 AAACCCTAAAT
1 AAACCCTAAAT
3384445 GTGTTTGGGC
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
84 1 0.01
85 67 0.81
86 15 0.18
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (85 bp):
AAACCCTAAATCTTGCACATGTAGATTATTGGATTGGTTCAGATCCAACAGATCTGATGACGCGA
CGCTGATATCAAAAAGGATA
Found at i:3384712 original size:44 final size:45
Alignment explanation
Indices: 3384645--3384752 Score: 143
Period size: 44 Copynumber: 2.4 Consensus size: 45
3384635 TATAATATAC
* *
3384645 ATATA-ATATATATATATATATTATATTTTC-AACATGTTTTTAA
1 ATATATATATATATATATATATTATATTTTCAAAAATGTTTTCAA
*
3384688 ATATATATATATATATATATATTATGTTTTCGAAAAATGTTTTCAA
1 ATATATATATATATATATATATTATATTTTC-AAAAATGTTTTCAA
3384734 A-ACTATATAT-TATATATAT
1 ATA-TATATATATATATATAT
3384753 TTTCAAAAAC
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
43 5 0.09
44 24 0.41
45 10 0.17
46 19 0.33
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.49
Consensus pattern (45 bp):
ATATATATATATATATATATATTATATTTTCAAAAATGTTTTCAA
Found at i:3384767 original size:25 final size:26
Alignment explanation
Indices: 3384727--3384806 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 26
3384717 TCGAAAAATG
3384727 TTTTCAAAACTATATAT-TATATATA
1 TTTTCAAAACTATATATATATATATA
3384752 TTTTCAAAAACTTATATATATATATATA
1 TTTTC-AAAAC-TATATATATATATATA
* *
3384780 TATAT-ATATA-TATATATATATATATA
1 T-TTTCA-AAACTATATATATATATATA
3384806 T
1 T
3384807 ATATATATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
25 5 0.10
26 22 0.46
27 8 0.17
28 11 0.23
29 2 0.04
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTTCAAAACTATATATATATATATA
Found at i:3384769 original size:2 final size:2
Alignment explanation
Indices: 3384764--3384818 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
3384754 TTCAAAAACT
3384764 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3384806 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
3384819 GTTTTAAAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3384773 original size:26 final size:25
Alignment explanation
Indices: 3384727--3384780 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 25
3384717 TCGAAAAATG
3384727 TTTTCAAAACTATATATTATATATA
1 TTTTCAAAACTATATATTATATATA
3384752 TTTTCAAAAACTTATATATATATATATA
1 TTTTC-AAAAC-TATATAT-TATATATA
3384780 T
1 T
3384781 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 5 0.19
26 5 0.19
27 7 0.27
28 9 0.35
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTTCAAAACTATATATTATATATA
Found at i:3384838 original size:22 final size:22
Alignment explanation
Indices: 3384808--3384850 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3384798 TATATATATA
3384808 TATATATATATGTTTT-AAAAC
1 TATATATATATGTTTTCAAAAC
3384829 TATATCATATATGTTTTCAAAA
1 TATAT-ATATATGTTTTCAAAA
3384851 AGGTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (22 bp):
TATATATATATGTTTTCAAAAC
Found at i:3384949 original size:14 final size:15
Alignment explanation
Indices: 3384930--3384959 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3384920 TTCAAAAGCA
3384930 TTTTC-AAAACTATG
1 TTTTCAAAAACTATG
3384944 TTTTCAAAAACTATG
1 TTTTCAAAAACTATG
3384959 T
1 T
3384960 ATTATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (15 bp):
TTTTCAAAAACTATG
Found at i:3391159 original size:229 final size:227
Alignment explanation
Indices: 3390754--3391202 Score: 785
Period size: 229 Copynumber: 2.0 Consensus size: 227
3390744 GTAAATTATC
* * *
3390754 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
3390819 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
3390884 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATTT
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAA-TT
3390948 GAAACATAAATTACATAACTTTCAAAAAAGTATA
195 GAAACATAAATTACATAACTTT-AAAAAAGTATA
*
3390982 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
3391047 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
3391111 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
3391176 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
3391203 GCAGTTTTAA
Statistics
Matches: 211, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
228 44 0.21
229 164 0.78
230 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:3391291 original size:20 final size:19
Alignment explanation
Indices: 3391268--3391313 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
3391258 CGATATACCA
3391268 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
3391288 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
3391308 GGTAAA
1 GGTAAA
3391314 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:3391457 original size:20 final size:19
Alignment explanation
Indices: 3391434--3391480 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
3391424 CGATATAACA
*
3391434 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
3391454 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
3391474 GGTAAAA
1 GGTAAAA
3391481 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:3391652 original size:24 final size:24
Alignment explanation
Indices: 3391625--3391677 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
3391615 TGTATCGATT
3391625 AAATATAAA-TAACATATCCGATGA
1 AAATATAAACTAA-ATATCCGATGA
**
3391649 AAATATAAACTAAATATCCTCTGA
1 AAATATAAACTAAATATCCGATGA
3391673 AAATA
1 AAATA
3391678 GATAGAACGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (24 bp):
AAATATAAACTAAATATCCGATGA
Found at i:3393840 original size:33 final size:33
Alignment explanation
Indices: 3393798--3393863 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
3393788 AAATAGATGG
*
3393798 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
3393831 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
3393864 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:3395697 original size:19 final size:19
Alignment explanation
Indices: 3395653--3395696 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
3395643 AATGTCGAGT
3395653 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
3395672 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
3395691 T-ATTTT
1 TAATTTT
3395697 TTTATGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3397045 original size:200 final size:200
Alignment explanation
Indices: 3395779--3397655 Score: 3464
Period size: 199 Copynumber: 9.4 Consensus size: 200
3395769 TTAAGGGTCA
* *
3395779 TGTCGATACTAATATAGTTTGTGTCGAAATTTTTTTTCCAGAATGAATT-AAAACAAGGTGCACG
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT----G
3395843 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
62 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
3395908 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
127 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
3395973 TAAATAATG
192 TAAATAATG
*
3395982 TGTCGACACTAATATAGTTTGTGTCGAAATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACG
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT----G
3396047 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
62 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
3396112 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
127 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
3396177 TAAATAATG
192 TAAATAATG
* *
3396186 TGTCGACACTAATATAGTTTGTGTCGAAATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
3396251 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
3396315 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
3396380 TAATG
196 TAATG
* *
3396385 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATAAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
3396450 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
3396514 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
3396579 TAATG
196 TAATG
3396584 TGTCGACACTAATATAG-TTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
3396647 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
3396712 GTAATATGTAA-TTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
3396776 TAATG
196 TAATG
3396781 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
3396846 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
3396911 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
3396976 TAATG
196 TAATG
3396981 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
3397046 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
3397111 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
3397176 TAATG
196 TAATG
*
3397181 TGTCGACACTAATATAGTTTGTGTCGAAATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
3397246 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
3397310 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
3397375 TAATG
196 TAATG
3397380 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
3397445 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
3397509 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
3397574 TAATG
196 TAATG
* *
3397579 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCATAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
3397644 CATAAAGTGTCG
66 CATAAAGTGTCG
3397656 GTACTTTTTG
Statistics
Matches: 1649, Mismatches: 20, Indels: 14
0.98 0.01 0.01
Matches are distributed among these distances:
197 128 0.08
198 75 0.05
199 815 0.49
200 369 0.22
203 48 0.03
204 214 0.13
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (200 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
TAATG
Found at i:3397959 original size:184 final size:184
Alignment explanation
Indices: 3397650--3398223 Score: 1103
Period size: 184 Copynumber: 3.1 Consensus size: 184
3397640 CACCCATAAA
* *
3397650 GTGTCGGTACTTTTTGTCCATATTGGAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACA
1 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
3397715 TTTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
66 TTTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
3397780 TACCGGTCTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
131 TACCGGTCTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
3397834 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
1 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
3397899 TTTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
66 TTTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
3397964 TACCGGTCTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
131 TACCGGTCTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
3398018 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
1 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
3398083 TTTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
66 TTTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
* * *
3398148 TACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
131 TACCGGTCTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
3398202 GTGTCGGTACTTTATGTCCATA
1 GTGTCGGTACTTTATGTCCATA
3398224 CCATTTAGTG
Statistics
Matches: 385, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 385 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
TTTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
TACCGGTCTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
Found at i:3399379 original size:23 final size:23
Alignment explanation
Indices: 3399348--3399410 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
3399338 ATAGGTAAAC
*
3399348 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
3399371 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
3399394 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
3399411 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:3399418 original size:23 final size:23
Alignment explanation
Indices: 3399348--3399420 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
3399338 ATAGGTAAAC
* * **
3399348 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
3399371 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
3399394 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
3399417 ATAT
1 ATAT
3399421 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:3399606 original size:29 final size:30
Alignment explanation
Indices: 3399563--3399629 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
3399553 GTTACGGTAT
* *
3399563 ATATTATTATTAAAT-TAAAA-ATTCTAAATA
1 ATATT-TTATAAAATATAAAACAATC-AAATA
3399593 ATATTTTATAAAATATAAAACAATCAAATA
1 ATATTTTATAAAATATAAAACAATCAAATA
*
3399623 ATTTTTT
1 ATATTTT
3399630 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
31 3 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (30 bp):
ATATTTTATAAAATATAAAACAATCAAATA
Found at i:3399806 original size:21 final size:23
Alignment explanation
Indices: 3399775--3399835 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 23
3399765 ATAGGTAAAC
*
3399775 ATATGATGTAATAGGTAGC-CCT
1 ATATAATGTAATAGGTAGCGCCT
* **
3399797 -TATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCCT
3399819 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
3399836 ATGGTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 16 0.48
22 1 0.03
23 16 0.48
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCCT
Found at i:3399843 original size:23 final size:23
Alignment explanation
Indices: 3399797--3399845 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
3399787 AGGTAGCCCT
*
3399797 TATAATGTAATAGGTATCGTTTA
1 TATAATGTAATAGGTATCGGTTA
3399820 TATAATGTAATAGGTAAT-GGTTA
1 TATAATGTAATAGGT-ATCGGTTA
3399843 TAT
1 TAT
3399846 TGTAAAGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (23 bp):
TATAATGTAATAGGTATCGGTTA
Found at i:3399849 original size:21 final size:21
Alignment explanation
Indices: 3399781--3399850 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
3399771 AAACATATGA
* ** *
3399781 TGTAATAGGTAGCCCTTATAA
1 TGTAATAGGTATCGGTTATAT
*
3399802 TGTAATAGGTATCGTTTATAT
1 TGTAATAGGTATCGGTTATAT
3399823 AATGTAATAGGTAAT-GGTTATAT
1 --TGTAATAGGT-ATCGGTTATAT
3399846 TGTAA
1 TGTAA
3399851 AGTGTCTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
21 22 0.54
23 17 0.41
24 2 0.05
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (21 bp):
TGTAATAGGTATCGGTTATAT
Found at i:3400033 original size:29 final size:29
Alignment explanation
Indices: 3399990--3400055 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
3399980 GTTACGGTAT
* *
3399990 ATATTATTATTAAAT-TAAAAATTCTAAATA
1 ATATT-TTATAAAATATAAAAAATC-AAATA
3400020 ATATTTTATAAAATATAAAAAATCAAATA
1 ATATTTTATAAAATATAAAAAATCAAATA
*
3400049 ATTTTTT
1 ATATTTT
3400056 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (29 bp):
ATATTTTATAAAATATAAAAAATCAAATA
Found at i:3400122 original size:426 final size:427
Alignment explanation
Indices: 3399250--3400263 Score: 1939
Period size: 426 Copynumber: 2.4 Consensus size: 427
3399240 AATTCGCAGT
3399250 ACACTGTTAAAAAAATTGAAACATAAATTACATAAG-TTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
3399314 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
3399379 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTATA
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTATA
3399444 AAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
196 AAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
3399509 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTTTTTTACGTTACGGTATATATTATTATT
261 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTTTTTTACGTTACGGTATATATTATTATT
3399574 AAATTAAAAATTCTAAATAATATTTTATAAAATATAAAACAATCAAATAATTTTTTGTGCAAATG
326 AAATTAAAAATTCTAAATAATATTTTATAAAATATAAAACAATCAAATAATTTTTTGTGCAAATG
3399639 AAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
3399676 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
3399741 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCC-T-TATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
3399804 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCC-TTTTAT
*
3399869 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
195 AAAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
3399933 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
260 AAGATATTAATTTAGTAATTATAGGCGTCTAATGA-TT-TTTTTTACGTTACGGTATATATTATT
3399998 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAA-AATCAAATAATTTTTTGTGCAA
323 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAACAATCAAATAATTTTTTGTGCAA
3400062 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
388 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
*
3400102 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATACTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
3400167 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
3400232 TAATATGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
3400264 TCTATCTCGC
Statistics
Matches: 579, Mismatches: 3, Indels: 10
0.98 0.01 0.02
Matches are distributed among these distances:
425 149 0.26
426 240 0.41
427 152 0.26
428 38 0.07
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (427 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTATA
AAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTTTTTTACGTTACGGTATATATTATTATT
AAATTAAAAATTCTAAATAATATTTTATAAAATATAAAACAATCAAATAATTTTTTGTGCAAATG
AAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:3400169 original size:22 final size:22
Alignment explanation
Indices: 3400138--3400183 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
3400128 ATTACATAAG
*
3400138 TTTTAAAAAAAGTATCGATACT
1 TTTTAAAAAAAGTATCGACACT
* *
3400160 TTTTATAAAAAGTATGGACACT
1 TTTTAAAAAAAGTATCGACACT
3400182 TT
1 TT
3400184 CAATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (22 bp):
TTTTAAAAAAAGTATCGACACT
Found at i:3400264 original size:23 final size:23
Alignment explanation
Indices: 3400201--3400265 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
3400191 ATAGGTAAAC
* *
3400201 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
* **
3400224 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
3400247 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
3400266 TATCTCGCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:3400489 original size:18 final size:18
Alignment explanation
Indices: 3400468--3400504 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3400458 GTAATTGGAG
3400468 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
3400486 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
3400504 T
1 T
3400505 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:3400512 original size:24 final size:24
Alignment explanation
Indices: 3400460--3400506 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
3400450 TTTCATATGT
* *
3400460 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
3400484 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
3400507 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:3428925 original size:16 final size:17
Alignment explanation
Indices: 3428895--3428927 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3428885 AATTTTTAAG
3428895 AAAATATATTAATTTAT
1 AAAATATATTAATTTAT
*
3428912 AAAA-ATATTTATTTAT
1 AAAATATATTAATTTAT
3428928 TTAGAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAAATATATTAATTTAT
Found at i:3430386 original size:3 final size:3
Alignment explanation
Indices: 3430380--3430421 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
3430370 TTTTTTTATT
* *
3430380 TAA TAA TAA TAA TAA TAC TAA TAT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3430422 AACAAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:3431292 original size:76 final size:76
Alignment explanation
Indices: 3430596--3431265 Score: 1241
Period size: 76 Copynumber: 8.8 Consensus size: 76
3430586 CGAGGGTTTA
3430596 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
3430661 CTAAGGCTTTG
66 CTAAGGCTTTG
3430672 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
*
3430737 TTAAGGCTTTG
66 CTAAGGCTTTG
*
3430748 AAAACATCAAAAGGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
3430813 CTAAGGCTTTG
66 CTAAGGCTTTG
* *
3430824 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACT
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
*
3430889 TTAAGGCTTTG
66 CTAAGGCTTTG
*
3430900 AAAACATCAAAAAGATCTCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
3430965 CTAAGGCTTTG
66 CTAAGGCTTTG
*
3430976 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
*
3431041 TTAAGGCTTTG
66 CTAAGGCTTTG
3431052 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
3431117 CTAAGGCTTTG
66 CTAAGGCTTTG
* *
3431128 AAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
3431193 CTAAGGCTTTG
66 CTAAGGCTTTG
*
3431204 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
3431266 TGGGAAATAG
Statistics
Matches: 575, Mismatches: 19, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 575 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (76 bp):
AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
CTAAGGCTTTG
Found at i:3431967 original size:22 final size:22
Alignment explanation
Indices: 3431942--3431996 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
3431932 CATAAAGTTT
*
3431942 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
3431964 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
3431986 TCATCTTTGAA
1 TCATCTTTGAA
3431997 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:3434865 original size:114 final size:115
Alignment explanation
Indices: 3434569--3434886 Score: 523
Period size: 115 Copynumber: 2.8 Consensus size: 115
3434559 GATCATGCAG
* * * * * * *
3434569 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
* *
3434634 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAAA
66 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACTATGAGCAAAA
3434684 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
3434749 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACTATGAGC-AAA
66 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACTATGAGCAAAA
* *
3434798 TTCATCTTTTAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAATTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
3434863 ACACTTCCAGAAGATGCTA-TGAGC
66 ACACTTCCAGAAGATGCTATTGAGC
3434887 ACATTCATCT
Statistics
Matches: 192, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
113 5 0.03
114 85 0.44
115 102 0.53
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACTATGAGCAAAA
Found at i:3434957 original size:93 final size:92
Alignment explanation
Indices: 3434787--3434971 Score: 275
Period size: 93 Copynumber: 2.0 Consensus size: 92
3434777 CTTATTTCTA
** *
3434787 CTATGAGCAAATTCATCTTTTAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGA
1 CTATGAGCAAATTCATCTTCCAAATCCAATGATTGATTTTGGAGTTCATACCAAACCAGATCAGA
3434852 TAATTCAAAGAACACTTCCAGAAGATG
66 TAATTCAAAGAACACTTCCAGAAGATG
* * *
3434879 CTATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGG-TTTCATACCAAACCAGATCA
1 CTATGAGCAAATTCATCTTCCAAATCCAATGATTGATT-T-TGGAGTTCATACCAAACCAGATCA
3434943 GATAACTT-AAAGAACACTTCCAGAAGATG
64 GATAA-TTCAAAGAACACTTCCAGAAGATG
3434972 TTATTGGGTC
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
92 34 0.40
93 45 0.54
94 5 0.06
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (92 bp):
CTATGAGCAAATTCATCTTCCAAATCCAATGATTGATTTTGGAGTTCATACCAAACCAGATCAGA
TAATTCAAAGAACACTTCCAGAAGATG
Found at i:3439879 original size:22 final size:21
Alignment explanation
Indices: 3439854--3439895 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
3439844 TGCAATTCAA
*
3439854 AGATATAAAAAGTAAAATGCAC
1 AGATACAAAAAGT-AAATGCAC
*
3439876 AGATACAAAATGTAAATGCA
1 AGATACAAAAAGTAAATGCA
3439896 TGTATGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.19
Consensus pattern (21 bp):
AGATACAAAAAGTAAATGCAC
Done.