Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_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: 7304151
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 31
Found at i:6109477 original size:6 final size:6
Alignment explanation
Indices: 6109468--6109513 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
6109458 GATAAAATGA
* * *
6109468 AAAAGT AAAAGT AAAAAT AAAAGT GAAAGT AAAAGT AAAAAT AAAA
1 AAAAGT AAAAGT AAAAGT AAAAGT AAAAGT AAAAGT AAAAGT AAAA
6109514 AATAAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (6 bp):
AAAAGT
Found at i:6109514 original size:6 final size:6
Alignment explanation
Indices: 6109461--6109521 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
6109451 AAGGAAAGAT
* * * * *
6109461 AAAATGA AAAAGTA AAAGTA AAAATA AAAGTG AAAGTA AAAGTA AAAATAA
1 AAAAT-A AAAA-TA AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A
6109512 AAAATA AAAA
1 AAAATA AAAA
6109522 ATTAAGTGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
6 31 0.67
7 14 0.30
8 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:6110028 original size:115 final size:114
Alignment explanation
Indices: 6109825--6110056 Score: 392
Period size: 115 Copynumber: 2.0 Consensus size: 114
6109815 AGTTCAATTG
* *
6109825 CTTAATTCCCAAAGGAGTTTTAAACAATTTTCTATATGCCCAAAGTTCTTCATCTAACTTTGGCG
1 CTTAATTCCCAAAGGAGTTTTAAACAATGTTCTATATGCCCAAAGTGCTTCATCTAACTTTGGCG
*
6109890 ACCAATATTTCCGCCTTGGGTTCACCATTTTTTCTAAAAATATGCTTGAT
66 ACCAATATTTCCGCCTTGGGTTCACCATTTTTTCT-AAAACATGCTTGAT
6109940 CTTAATTCCCAAAGGAGTTTTAAACAATGTTCTATATGCCCAAAGTGCTTCATCTAACTTTGGCG
1 CTTAATTCCCAAAGGAGTTTTAAACAATGTTCTATATGCCCAAAGTGCTTCATCTAACTTTGGCG
* * * *
6110005 ACCAGTATTTCTGCCTTGTGTTCACCATTTTTTCTAAAACCTGCTTGAT
66 ACCAATATTTCCGCCTTGGGTTCACCATTTTTTCTAAAACATGCTTGAT
6110054 CTT
1 CTT
6110057 TCGATTATAT
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
114 15 0.14
115 95 0.86
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (114 bp):
CTTAATTCCCAAAGGAGTTTTAAACAATGTTCTATATGCCCAAAGTGCTTCATCTAACTTTGGCG
ACCAATATTTCCGCCTTGGGTTCACCATTTTTTCTAAAACATGCTTGAT
Found at i:6122185 original size:20 final size:20
Alignment explanation
Indices: 6122160--6122204 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
6122150 AGTAAAAGGT
*
6122160 GAAAAGAAAAATTTGTTATG
1 GAAAAGAAAAATATGTTATG
6122180 GAAAAGAAAAATATGTTATG
1 GAAAAGAAAAATATGTTATG
6122200 GAAAA
1 GAAAA
6122205 AAATTCGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.20, T:0.24
Consensus pattern (20 bp):
GAAAAGAAAAATATGTTATG
Found at i:6126949 original size:15 final size:14
Alignment explanation
Indices: 6126924--6126953 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
6126914 TTACTATTAT
6126924 AAATTAAAAGATCA
1 AAATTAAAAGATCA
6126938 AAATTCAAAAGATCA
1 AAATT-AAAAGATCA
6126953 A
1 A
6126954 TTGTTTCGGA
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:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (14 bp):
AAATTAAAAGATCA
Found at i:6127614 original size:2 final size:2
Alignment explanation
Indices: 6127607--6127632 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6127597 TTTACCATAC
6127607 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
6127633 TGTCATAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6128072 original size:21 final size:23
Alignment explanation
Indices: 6128042--6128083 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
6128032 AATTTGTTTT
6128042 AAATTATTTAAT-T-AAAAGAGA
1 AAATTATTTAATATGAAAAGAGA
*
6128063 AAATTCTTTAATATGAAAAGA
1 AAATTATTTAATATGAAAAGA
6128084 AATCTCGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (23 bp):
AAATTATTTAATATGAAAAGAGA
Found at i:6128271 original size:17 final size:16
Alignment explanation
Indices: 6128251--6128284 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6128241 AAATATATTG
6128251 AATAATAAAATATTTAA
1 AATAATAAAAT-TTTAA
*
6128268 AATAATAATATTTTAA
1 AATAATAAAATTTTAA
6128284 A
1 A
6128285 TATTGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAATAAAATTTTAA
Found at i:6131176 original size:64 final size:64
Alignment explanation
Indices: 6131036--6131219 Score: 167
Period size: 64 Copynumber: 2.9 Consensus size: 64
6131026 TCACTATATA
* * ** * * * * *
6131036 ATGCATCGATGCAC-CCTTGAATAAATTGAATTTCGAATGCATTTTGTGTACCGATGCACAAGGC
1 ATGCATCGATGCACTCC-TAAATAATTTGAACATCGAATGCATTTTATGCATCGATACACAAGCC
* * *
6131100 ATTCATCAATGCACTCCTAAATAATTTGAACATCGAATGCATTTTATGCATCGATATACATA-CC
1 ATGCATCGATGCACTCCTAAATAATTTGAACATCGAATGCATTTTATGCATCGATACACA-AGCC
** * *
6131164 ATGCATCGATGCACTCC-AGGTTTATTTGAAACATCGAATGTATTTTATGCATCGAT
1 ATGCATCGATGCACTCCTA-AATAATTTG-AACATCGAATGCATTTTATGCATCGAT
6131220 GCACCTCTAG
Statistics
Matches: 98, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
63 1 0.01
64 68 0.69
65 29 0.30
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTCCTAAATAATTTGAACATCGAATGCATTTTATGCATCGATACACAAGCC
Found at i:6137074 original size:23 final size:23
Alignment explanation
Indices: 6136996--6137096 Score: 88
Period size: 23 Copynumber: 4.6 Consensus size: 23
6136986 ACTAGACAGA
*
6136996 GCATCGATGCA-TCCTTTGAATAT
1 GCATCGATGCACTCC-TTGAATGT
* *
6137019 GCATCGAT--ACACCTTGAAGGT
1 GCATCGATGCACTCCTTGAATGT
* *
6137040 ACACCGATGCACTCCTTGAATGT
1 GCATCGATGCACTCCTTGAATGT
*
6137063 GCATCGATGCACT-C-TG-CTGT
1 GCATCGATGCACTCCTTGAATGT
*
6137083 GCATCGATACACTC
1 GCATCGATGCACTC
6137097 GTCGAGTTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
20 15 0.24
21 15 0.24
22 3 0.05
23 30 0.48
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (23 bp):
GCATCGATGCACTCCTTGAATGT
Found at i:6139773 original size:64 final size:65
Alignment explanation
Indices: 6139640--6139841 Score: 196
Period size: 64 Copynumber: 3.1 Consensus size: 65
6139630 AGTAGTGTAA
* ** * * ** * * *
6139640 CGATGCACTATATAATGCATCGATGCAC-CCTTGAATAAATTGAATTTTGAATGCATTTTGTGTA
1 CGATGCACAATACCATGCATCGATGCACTCC-TAAATAATTTGAACATCGAATGCATTTTATGCA
*
6139704 C
65 T
** *
6139705 CGATGCACAA-GGCATGCATCGATGCACTCCTAAATAATTTGAACATCGAATGCATTTTATACAT
1 CGATGCACAATACCATGCATCGATGCACTCCTAAATAATTTGAACATCGAATGCATTTTATGCAT
* * *
6139769 CGATGCA-AATACCATGTATCGATGCACTCC-ATAATTATTTGAAACATCGAATGTATTTTATGC
1 CGATGCACAATACCATGCATCGATGCACTCCTA-AATAATTTG-AACATCGAATGCATTTTATGC
6139832 AT
64 AT
6139834 CGATGCAC
1 CGATGCAC
6139842 CCTTAGTGTA
Statistics
Matches: 113, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
63 3 0.03
64 71 0.63
65 39 0.35
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (65 bp):
CGATGCACAATACCATGCATCGATGCACTCCTAAATAATTTGAACATCGAATGCATTTTATGCAT
Found at i:6139839 original size:65 final size:64
Alignment explanation
Indices: 6139717--6139840 Score: 187
Period size: 65 Copynumber: 1.9 Consensus size: 64
6139707 ATGCACAAGG
6139717 CATGCATCGATGCACTCCTAAATAATTTGAACATCGAATGCATTTTATACATCGATGCAAATAC
1 CATGCATCGATGCACTCCTAAATAATTTGAACATCGAATGCATTTTATACATCGATGCAAATAC
* * * *
6139781 CATGTATCGATGCACTCC-ATAATTATTTGAAACATCGAATGTATTTTATGCATCGATGCA
1 CATGCATCGATGCACTCCTA-AATAATTTG-AACATCGAATGCATTTTATACATCGATGCA
6139841 CCCTTAGTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
63 1 0.02
64 25 0.46
65 28 0.52
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (64 bp):
CATGCATCGATGCACTCCTAAATAATTTGAACATCGAATGCATTTTATACATCGATGCAAATAC
Found at i:6144191 original size:16 final size:17
Alignment explanation
Indices: 6144170--6144206 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
6144160 AACTTCTTTT
6144170 AAAAACAATTTTAAGA-
1 AAAAACAATTTTAAGAC
*
6144186 AAAAACATTTTTAAGAC
1 AAAAACAATTTTAAGAC
6144203 AAAA
1 AAAA
6144207 TTTGGTCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAAACAATTTTAAGAC
Found at i:6144678 original size:21 final size:21
Alignment explanation
Indices: 6144629--6144678 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
6144619 TTAAATATTG
*
6144629 AAATAAAATAAAATAATAAGCA
1 AAAT-AAATAAAATAATAAGAA
*
6144651 AAATAAATTAAATAATAA-AA
1 AAATAAATAAAATAATAAGAA
6144671 AAACTAAA
1 AAA-TAAA
6144679 AAATTGAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATAAATAAAATAATAAGAA
Found at i:6145219 original size:2 final size:2
Alignment explanation
Indices: 6145212--6145304 Score: 186
Period size: 2 Copynumber: 46.5 Consensus size: 2
6145202 ATTTTATCTA
6145212 AT AT 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 AT AT
6145254 AT AT 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 AT AT
6145296 AT AT AT AT A
1 AT AT AT AT A
6145305 GGGCCAAAAT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 91 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6146264 original size:2 final size:2
Alignment explanation
Indices: 6146257--6146300 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
6146247 ATAGTAATTA
6146257 AT AT 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 AT AT
6146299 AT
1 AT
6146301 TTGGCACCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6146946 original size:35 final size:34
Alignment explanation
Indices: 6146897--6147076 Score: 143
Period size: 35 Copynumber: 5.2 Consensus size: 34
6146887 GTTTACTCGA
*
6146897 AATAGATATCTTTTAATATTCAAATTTAAATAGAT
1 AATAAATATCTTTTAAT-TTCAAATTTAAATAGAT
* *
6146932 AATAAATATCTTTTAATTTGACATATTCAAA-AGAT
1 AATAAATATCTTTTAATTT--CAAATTTAAATAGAT
* * * *
6146967 -ATAGATA-CTTTTAATTTTCAAACTCAAAGAGAT
1 AATAAATATCTTTTAA-TTTCAAATTTAAATAGAT
* * *
6147000 AATATATATCTTTTAATTTGAAATATTAAAAAAGGAT
1 AATAAATATCTTTTAATTTCAAAT-TT-AAATA-GAT
* * *
6147037 -ATAATTATCTTTTAATACTCAAAGTTAAATAGAT
1 AATAAATATCTTTTAAT-TTCAAATTTAAATAGAT
6147071 AATAAA
1 AATAAA
6147077 CACCTTTTGT
Statistics
Matches: 116, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
32 8 0.07
33 11 0.09
34 26 0.22
35 36 0.31
36 28 0.24
37 7 0.06
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (34 bp):
AATAAATATCTTTTAATTTCAAATTTAAATAGAT
Found at i:6147015 original size:68 final size:69
Alignment explanation
Indices: 6146898--6147076 Score: 218
Period size: 68 Copynumber: 2.6 Consensus size: 69
6146888 TTTACTCGAA
* * * * *
6146898 ATAGATATCTTTTAATATTCAAATTTAAATAGATAATAAATATCTTTTAATTTGACATATTCAAA
1 ATAGATATCTTTTAATATTCAAACTCAAAGAGATAATAAATATCTTTTAATTTGAAATATTAAAA
6146963 AGAT
66 AGAT
* *
6146967 ATAGATA-CTTTTAATTTTCAAACTCAAAGAGATAATATATATCTTTTAATTTGAAATATTAAAA
1 ATAGATATCTTTTAATATTCAAACTCAAAGAGATAATAAATATCTTTTAATTTGAAATATT-AAA
6147031 AAGGAT
65 AA-GAT
* * * *
6147037 ATA-ATTATCTTTTAATACTCAAAGTTAAATAGATAATAAA
1 ATAGA-TATCTTTTAATATTCAAACTCAAAGAGATAATAAA
6147077 CACCTTTTGT
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
68 47 0.51
69 12 0.13
70 8 0.09
71 26 0.28
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (69 bp):
ATAGATATCTTTTAATATTCAAACTCAAAGAGATAATAAATATCTTTTAATTTGAAATATTAAAA
AGAT
Found at i:6150442 original size:18 final size:19
Alignment explanation
Indices: 6150410--6150449 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6150400 CCTTAAGTTT
*
6150410 AAAATAAATAGAATCCTAA
1 AAAATAAATAGAATCATAA
*
6150429 AAAATAATTA-AATCATAA
1 AAAATAAATAGAATCATAA
6150447 AAA
1 AAA
6150450 TCAATAGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAATAAATAGAATCATAA
Found at i:6152044 original size:4 final size:4
Alignment explanation
Indices: 6152035--6152064 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
6152025 ATTATTATTA
6152035 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
6152065 TTAACATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:6153533 original size:64 final size:63
Alignment explanation
Indices: 6153457--6153576 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 63
6153447 TTGTTCAAGG
* * * * *
6153457 TGTATCGATGCACATGAAGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGCCATCAA
1 TGTATCAATGCACAAGAAGTGCATCGATGCACCCCCTT-AAATAAAAACATCGAATGCCATCAA
* * *
6153521 TGTATCAATGCACAAGTAGTGCATCGATGCACCCCCTTAATTACAAACATCGAATG
1 TGTATCAATGCACAAGAAGTGCATCGATGCACCCCCTTAAATAAAAACATCGAATG
6153577 GGATTTATGT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
63 16 0.33
64 32 0.67
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.26
Consensus pattern (63 bp):
TGTATCAATGCACAAGAAGTGCATCGATGCACCCCCTTAAATAAAAACATCGAATGCCATCAA
Found at i:6154167 original size:23 final size:23
Alignment explanation
Indices: 6154141--6154185 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
6154131 AATCTTATAT
6154141 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
6154164 GGCACTTCGGTGCAATTCTACG
1 GGCACTACGGTGCAATTCTACG
6154186 TGGTCCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.29, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:6159934 original size:19 final size:19
Alignment explanation
Indices: 6159910--6159961 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
6159900 ATTATTCAAG
6159910 GTGTATCGATGCACATGAA
1 GTGTATCGATGCACATGAA
6159929 GTGTATCGATGCACATGAA
1 GTGTATCGATGCACATGAA
* *
6159948 GTGCATTGATGCAC
1 GTGTATCGATGCAC
6159962 TCCTTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (19 bp):
GTGTATCGATGCACATGAA
Found at i:6160771 original size:23 final size:23
Alignment explanation
Indices: 6160745--6160791 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
6160735 ACTACGGTAT
6160745 AATTCTACGCGGCACTTCGATGC
1 AATTCTACGCGGCACTTCGATGC
* *
6160768 AATTCTACGTGGCACTTCGGTGC
1 AATTCTACGCGGCACTTCGATGC
6160791 A
1 A
6160792 TTTATACAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (23 bp):
AATTCTACGCGGCACTTCGATGC
Found at i:6168755 original size:32 final size:32
Alignment explanation
Indices: 6168712--6168875 Score: 150
Period size: 32 Copynumber: 5.0 Consensus size: 32
6168702 ACGTGACACT
* * *
6168712 TGACACGTCATCATTTTAGGTGATGTGGAATA
1 TGACACATCATCATTTTGGGTGATGTGGAACA
* *
6168744 TGACATATCATCACTTTGGGTGATGTGGCAA-A
1 TGACACATCATCATTTTGGGTGATGTGG-AACA
* *
6168776 TGACACATCATCACCATTTTGGATGATGTGGCACA
1 TGACACATCAT---CATTTTGGGTGATGTGGAACA
* ** * ** *
6168811 TGACACATCGTCAAATTCGGTGATGCAGCACA
1 TGACACATCATCATTTTGGGTGATGTGGAACA
*
6168843 TGACACATCATCATTTTGGGTGATGTGGCACA
1 TGACACATCATCATTTTGGGTGATGTGGAACA
6168875 T
1 T
6168876 ACCACGTCAT
Statistics
Matches: 106, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
32 77 0.73
33 2 0.02
34 1 0.01
35 26 0.25
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (32 bp):
TGACACATCATCATTTTGGGTGATGTGGAACA
Found at i:6170599 original size:12 final size:12
Alignment explanation
Indices: 6170582--6170608 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6170572 CATAATTAAA
6170582 AGTGCAAGCCTG
1 AGTGCAAGCCTG
6170594 AGTGCAAGCCTG
1 AGTGCAAGCCTG
6170606 AGT
1 AGT
6170609 CTGTTAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.22, G:0.33, T:0.19
Consensus pattern (12 bp):
AGTGCAAGCCTG
Found at i:6171402 original size:36 final size:36
Alignment explanation
Indices: 6171276--6171404 Score: 113
Period size: 36 Copynumber: 3.6 Consensus size: 36
6171266 AATTTAAATG
* * **
6171276 TTTT-AAATCATATAATATATAATTTTAAAAATCGGT
1 TTTTGAAAACATATAATATATATTTTTAAAAA-CAAT
* ** * *
6171312 TTTTGAAAATATAT-A-ATATGGTTTTGAAAA-TAT
1 TTTTGAAAACATATAATATATATTTTTAAAAACAAT
* *
6171345 ATTTTAAAAACATATATTATATATTTTTAAAAACAAT
1 -TTTTGAAAACATATAATATATATTTTTAAAAACAAT
6171382 TTTTGAAAACATATAATATATAT
1 TTTTGAAAACATATAATATATAT
6171405 ATATATATAT
Statistics
Matches: 72, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
33 1 0.01
34 12 0.17
35 12 0.17
36 38 0.53
37 9 0.12
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (36 bp):
TTTTGAAAACATATAATATATATTTTTAAAAACAAT
Found at i:6171404 original size:2 final size:2
Alignment explanation
Indices: 6171392--6171432 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
6171382 TTTTGAAAAC
6171392 AT AT A- 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 AT AT
6171433 TAAAAACCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6171415 original size:70 final size:70
Alignment explanation
Indices: 6171276--6171538 Score: 174
Period size: 70 Copynumber: 3.8 Consensus size: 70
6171266 AATTTAAATG
* ** * * *
6171276 TTTTAAATCATATAATATATAATTTTAAAAATCGGTTTTTGAAAATATATAATATGGTTTTGAAA
1 TTTTAAAACATATAATATATAATTTTAAAAATCAATTTTTGAAAACATATAATATGATTATGAAA
6171341 ATATA
66 ATATA
* *
6171346 TTTTAAAAACATATATTATATATTTTTAAAAA-CAATTTTTGAAAACATATAATAT-A-TAT--A
1 TTTT-AAAACATATAATATATAATTTTAAAAATCAATTTTTGAAAACATATAATATGATTATGAA
*
6171406 TATATA
65 AATATA
* * * * * * *
6171412 -TAT-ATATATAT-ATATAT-ATATTAAAAA-CCATTTTTGAAAACATATATTATATAATT-TCA
1 TTTTAAAACATATAATATATAATTTTAAAAATCAATTTTTGAAAACATATA--ATATGATTATGA
*
6171471 AAA-ACAA
64 AAATA-TA
*
6171478 TTTTTAAAAACATATATATATTATATAGTTTTGAAAAATC-ATTTTTGAAAACGTATAATAT
1 -TTTT-AAAACATATA-ATA-TATA-A-TTTT-AAAAATCAATTTTTGAAAACATATAATAT
6171539 ATAGTTTTGA
Statistics
Matches: 150, Mismatches: 23, Indels: 35
0.72 0.11 0.17
Matches are distributed among these distances:
61 26 0.17
62 5 0.03
63 10 0.07
64 2 0.01
65 4 0.03
66 9 0.06
68 4 0.03
70 30 0.20
71 24 0.16
72 3 0.02
73 3 0.02
75 5 0.03
76 3 0.02
77 21 0.14
78 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (70 bp):
TTTTAAAACATATAATATATAATTTTAAAAATCAATTTTTGAAAACATATAATATGATTATGAAA
ATATA
Found at i:6171457 original size:36 final size:38
Alignment explanation
Indices: 6171415--6171541 Score: 145
Period size: 36 Copynumber: 3.3 Consensus size: 38
6171405 ATATATATAT
6171415 ATATATATATATATATATT-AAAAACCATTTTTGAAAAC
1 ATATATATATATATAT-TTCAAAAACCATTTTTGAAAAC
* *
6171453 ATATAT-TATATA-ATTTCAAAAACAATTTTTAAAAAC
1 ATATATATATATATATTTCAAAAACCATTTTTGAAAAC
* *
6171489 ATATATATATTATATAGTTTTGAAAAATCATTTTTGAAAAC
1 ATATATATA-TATATA--TTTCAAAAACCATTTTTGAAAAC
*
6171530 GTATA-ATATATA
1 ATATATATATATA
6171542 GTTTTGAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
35 2 0.03
36 25 0.33
37 8 0.11
38 10 0.13
39 5 0.07
40 3 0.04
41 23 0.30
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (38 bp):
ATATATATATATATATTTCAAAAACCATTTTTGAAAAC
Found at i:6171497 original size:40 final size:39
Alignment explanation
Indices: 6171411--6171540 Score: 117
Period size: 41 Copynumber: 3.3 Consensus size: 39
6171401 ATATATATAT
*
6171411 ATATATATATATATATATATATTAAAAACCATTTTTGAAAAC
1 ATATATATAT-TATATAGAT-TTAAAAA-CATTTTTGAAAAC
*
6171453 ----ATATATTATATA-ATTTCAAAAACAATTTTTAAAAAC
1 ATATATATATTATATAGATTT-AAAAAC-ATTTTTGAAAAC
*
6171489 ATATATATATTATATAGTTTTGAAAAATCATTTTTGAAAAC
1 ATATATATATTATATAGATTT-AAAAA-CATTTTTGAAAAC
*
6171530 GTATAATATAT
1 ATAT-ATATAT
6171541 AGTTTTGAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
35 3 0.04
36 18 0.24
37 6 0.08
38 6 0.08
40 12 0.16
41 22 0.30
42 7 0.09
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (39 bp):
ATATATATATTATATAGATTTAAAAACATTTTTGAAAAC
Found at i:6171550 original size:23 final size:24
Alignment explanation
Indices: 6171520--6171564 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
6171510 GAAAAATCAT
*
6171520 TTTTGAAAACGTATA-ATATATAG
1 TTTTGAAAACATATATATATATAG
6171543 TTTTGAAAACATATATATATAT
1 TTTTGAAAACATATATATATAT
6171565 TATATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (24 bp):
TTTTGAAAACATATATATATATAG
Found at i:6171560 original size:66 final size:64
Alignment explanation
Indices: 6171479--6171610 Score: 187
Period size: 64 Copynumber: 2.1 Consensus size: 64
6171469 CAAAAACAAT
* * * *
6171479 TTTTAAAAACATATATATAT-TATATAGTTTTGAAAAATC-ATTTTTGAAAACGTATAATATATA
1 TTTTGAAAACATATATATATAT-TATA-TTTTTAAAAAACAATTTTTGAAAACGTATAATAAATA
6171542 G
64 G
*
6171543 TTTTGAAAACATATATATATATTATATTTTTAAAAAACAATTTTTGAAAACGTATAATAAATGG
1 TTTTGAAAACATATATATATATTATATTTTTAAAAAACAATTTTTGAAAACGTATAATAAATAG
6171607 TTTT
1 TTTT
6171611 TTTAAAAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
63 10 0.16
64 50 0.82
65 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.43
Consensus pattern (64 bp):
TTTTGAAAACATATATATATATTATATTTTTAAAAAACAATTTTTGAAAACGTATAATAAATAG
Found at i:6171624 original size:38 final size:37
Alignment explanation
Indices: 6171543--6171729 Score: 186
Period size: 38 Copynumber: 4.9 Consensus size: 37
6171533 TAATATATAG
* *
6171543 TTTTGAAAACATATATATATATTA-TATTTTTAAAAAACAAT
1 TTTTGAAAACGTATA-ATATA-TAGT-TTTTT-AAAAA-TAT
* *
6171584 TTTTGAAAACGTATAATAAATGGTTTTTTTAAAAATAT
1 TTTTGAAAACGTATAATATATAG-TTTTTTAAAAATAT
6171622 TTTTGAAAACGTATAATATATAG-TTTTTAAAAA-A-
1 TTTTGAAAACGTATAATATATAGTTTTTTAAAAATAT
** *
6171656 AATTGAAAAAGTATAATATATAGTTTTTTAAAAATATT
1 TTTTGAAAACGTATAATATATAGTTTTTTAAAAATA-T
6171694 TTTTGAAAACGTATAATGTATATA-TTTTTTAGAAAA
1 TTTTGAAAACGTATAA--TATATAGTTTTTTA-AAAA
6171730 AAATGATTTT
Statistics
Matches: 125, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
34 20 0.16
35 11 0.09
36 11 0.09
38 36 0.29
39 13 0.10
40 19 0.15
41 15 0.12
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (37 bp):
TTTTGAAAACGTATAATATATAGTTTTTTAAAAATAT
Found at i:6171631 original size:102 final size:99
Alignment explanation
Indices: 6171443--6171653 Score: 268
Period size: 102 Copynumber: 2.1 Consensus size: 99
6171433 TAAAAACCAT
*
6171443 TTTTGAAAACATATATTATATAATTTCAAAAACAATTTTTAAAAACATATATATATTATATAGTT
1 TTTTGAAAACATATATTATATAATTTAAAAAACAATTTTTAAAAACATATATATA-TATATAGTT
6171508 TTGAAAAATCATTTTTGAAAACGTATAATATATAG
65 TTGAAAAATCATTTTTGAAAACGTATAATATATAG
* *
6171543 TTTTGAAAACATATATATATATTATATTTTTAAAAAACAATTTTTGAAAACGTATA-ATA-A-AT
1 TTTTGAAAACATATAT-TATA-TA-A--TTTAAAAAACAATTTTTAAAAACATATATATATATAT
* *
6171605 GGTTTTTTTAAAAAT-ATTTTTGAAAACGTATAATATATAG
61 AG--TTTTGAAAAATCATTTTTGAAAACGTATAATATATAG
*
6171645 TTTTTAAAA
1 TTTTGAAAA
6171654 AAAATTGAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 12
0.84 0.05 0.10
Matches are distributed among these distances:
100 16 0.16
101 7 0.07
102 36 0.37
103 11 0.11
104 3 0.03
105 25 0.26
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (99 bp):
TTTTGAAAACATATATTATATAATTTAAAAAACAATTTTTAAAAACATATATATATATATAGTTT
TGAAAAATCATTTTTGAAAACGTATAATATATAG
Found at i:6171670 original size:34 final size:34
Alignment explanation
Indices: 6171624--6171689 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
6171614 AAAAATATTT
*
6171624 TTGAAAACGTATAATATATAGTTTTTAAAAAAAA
1 TTGAAAAAGTATAATATATAGTTTTTAAAAAAAA
*
6171658 TTGAAAAAGTATAATATATAGTTTTTTAAAAA
1 TTGAAAAAGTATAATATATAGTTTTTAAAAAA
6171690 TATTTTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (34 bp):
TTGAAAAAGTATAATATATAGTTTTTAAAAAAAA
Found at i:6185219 original size:35 final size:33
Alignment explanation
Indices: 6185180--6185470 Score: 179
Period size: 36 Copynumber: 8.0 Consensus size: 33
6185170 GTTTTAAATC
* *
6185180 ATATACTATATAATTTTAAAAATCGGTTTTTGAAA
1 ATATATTATATAATTTTAAAAA-C-ATTTTTGAAA
* ** * * *
6185215 ATATATAATATGGTTTTGAAAATATGTTTTAAAAGA
1 ATATATTATATAATTTTAAAAACAT-TTTT-GAA-A
*
6185251 ATATATTATATAGTTTTAAAAACAATTTTTGAAA
1 ATATATTATATAATTTTAAAAAC-ATTTTTGAAA
* *
6185285 ACGTATAATATA-AAGTTTTAAAAACAATTTTGAAAA
1 A--TATATTATATAA-TTTTAAAAACATTTTTG-AAA
*
6185321 CATATATTATATAATTTCAAAAACAATTTTTTGAAAACA
1 -ATATATTATATAATTTTAAAAAC-A-TTTTTG--AA-A
*
6185360 TTTATATATTATATAGTTTTGAAAAACAATTTTTGAAA
1 ---ATATATTATATAATTTT-AAAAAC-ATTTTTGAAA
* *
6185398 ATGTATAATATATAGTTTTAAAAACAATTTTTGAAAA
1 A--TATATTATATAATTTTAAAAAC-ATTTTTG-AAA
* *
6185435 CATATATTATATAATTTCAAAAACAATTTTTTAAA
1 -ATATATTATATAATTTTAAAAAC-ATTTTTGAAA
6185470 A
1 A
6185471 CGTATAATAT
Statistics
Matches: 208, Mismatches: 27, Indels: 43
0.75 0.10 0.15
Matches are distributed among these distances:
33 1 0.00
34 7 0.03
35 49 0.24
36 88 0.42
37 26 0.12
38 5 0.02
39 3 0.01
41 21 0.10
42 8 0.04
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (33 bp):
ATATATTATATAATTTTAAAAACATTTTTGAAA
Found at i:6185302 original size:36 final size:36
Alignment explanation
Indices: 6185252--6185560 Score: 343
Period size: 36 Copynumber: 8.3 Consensus size: 36
6185242 TTTAAAAGAA
*
6185252 TATATTATATAGTTTTAAAAACAATTTTTGAAAACG
1 TATAATATATAGTTTTAAAAACAATTTTTGAAAACG
* *
6185288 TATAATATAAAGTTTTAAAAACAA-TTTTGAAAACA
1 TATAATATATAGTTTTAAAAACAATTTTTGAAAACG
* * * *
6185323 TATATTATATAATTTCAAAAACAATTTTTTGAAAACATT
1 TATAATATATAGTTTTAAAAACAA-TTTTTGAAAAC--G
*
6185362 TATATATTATATAGTTTTGAAAAACAATTTTTGAAAATG
1 TATA-A-TATATAGTTTT-AAAAACAATTTTTGAAAACG
*
6185401 TATAATATATAGTTTTAAAAACAATTTTTGAAAACA
1 TATAATATATAGTTTTAAAAACAATTTTTGAAAACG
* * * *
6185437 TATATTATATAATTTCAAAAACAATTTTTTAAAACG
1 TATAATATATAGTTTTAAAAACAATTTTTGAAAACG
* * *
6185473 TATAATATATGGTTTTTTTAAAAAAATATTTTTGAAAATG
1 TATAATATATAG---TTTTAAAAACA-ATTTTTGAAAACG
*
6185513 TATAATATATAGTTTTTAAAAA-ATATTTGTGAAAACG
1 TATAATATATAG-TTTTAAAAACA-ATTTTTGAAAACG
6185550 TATAATATATA
1 TATAATATATA
6185561 TATTTTTTAG
Statistics
Matches: 232, Mismatches: 30, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
35 30 0.13
36 80 0.34
37 45 0.19
38 11 0.05
39 17 0.07
40 22 0.09
41 19 0.08
42 8 0.03
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (36 bp):
TATAATATATAGTTTTAAAAACAATTTTTGAAAACG
Found at i:6185408 original size:113 final size:109
Alignment explanation
Indices: 6185241--6185565 Score: 433
Period size: 113 Copynumber: 2.9 Consensus size: 109
6185231 TGAAAATATG
* * *
6185241 TTTTAAAA-GAATATATTATATAGTTTTAAAAACAATTTTTGAAAACGTATAATATAAAGTTTTA
1 TTTTAAAACGTATATATTATATAGTTTTAAAAACAATTTTTGAAAATGTATAATATATAGTTTTA
6185305 AAAACAATTTTGAAAACATATATTATATAATTTCAAAAACAATT
66 AAAACAATTTTGAAAACATATATTATATAATTTCAAAAACAATT
*
6185349 TTTTGAAAACATTTATATATTATATAGTTTTGAAAAACAATTTTTGAAAATGTATAATATATAGT
1 TTTT-AAAAC--GTATATATTATATAGTTTT-AAAAACAATTTTTGAAAATGTATAATATATAGT
6185414 TTTAAAAACAATTTTTGAAAACATATATTATATAATTTCAAAAACAATT
62 TTTAAAAACAA-TTTTGAAAACATATATTATATAATTTCAAAAACAATT
* *
6185463 TTTTAAAACGTATA-A-TATATGGTTTTTTTAAAAAAATATTTTTGAAAATGTATAATATATAGT
1 TTTTAAAACGTATATATTATATAG---TTTTAAAAACA-ATTTTTGAAAATGTATAATATATAG-
* *
6185526 TTTTAAAAA-ATATTTGTGAAAACGTATAATATATATATTT
61 TTTTAAAAACA-ATTT-TGAAAACATATATTATATA-ATTT
6185566 TTTAGAAAAA
Statistics
Matches: 194, Mismatches: 9, Indels: 22
0.86 0.04 0.10
Matches are distributed among these distances:
108 4 0.02
109 10 0.05
110 1 0.01
111 10 0.05
112 50 0.26
113 74 0.38
114 45 0.23
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (109 bp):
TTTTAAAACGTATATATTATATAGTTTTAAAAACAATTTTTGAAAATGTATAATATATAGTTTTA
AAAACAATTTTGAAAACATATATTATATAATTTCAAAAACAATT
Found at i:6185426 original size:149 final size:149
Alignment explanation
Indices: 6185206--6185560 Score: 383
Period size: 149 Copynumber: 2.4 Consensus size: 149
6185196 TAAAAATCGG
* * * * *
6185206 TTTTTGAAAATATAT-A-ATATGGTTTTGAAAATATGTTT-T-AAAA-GAATATATTATATAGTT
1 TTTTTGAAAATGTATAATATATAGTTTTGAAAAAATATTTGTGAAAACG--TATAATATATAGTT
* *
6185266 TTAAAAACAATTTTTGAAAACGTATAATATA-AAGTTTTAAAAACAA-TTTTGAAAACATAT-AT
64 TTAAAAACAATTTTTGAAAACATATAATATATAA-TTTCAAAAACAATTTTTGAAAACATATAAT
6185328 -TAT-ATAATTTCAAAAACAAT-
128 ATATGATAATTTCAAAAA-AATA
* * *
6185348 TTTTTGAAAACATTTATATATTATATAGTTTTGAAAAACA-ATTTTTGAAAATGTATAATATATA
1 TTTTTG-AAA-ATGTATA-A-TATATAGTTTTGAAAAA-ATATTTGTGAAAACGTATAATATATA
* * *
6185412 GTTTTAAAAACAATTTTTGAAAACATATATTATATAATTTCAAAAACAATTTTTTAAAACGTATA
61 GTTTTAAAAACAATTTTTGAAAACATATAATATATAATTTCAAAAACAATTTTTGAAAACATATA
* ** *
6185477 ATATATGGTTTTTTTAAAAAAATA
126 ATATATGATAATTTCAAAAAAATA
*
6185501 TTTTTGAAAATGTATAATATATAGTTTTTAAAAAATATTTGTGAAAACGTATAATATATA
1 TTTTTGAAAATGTATAATATATAGTTTTGAAAAAATATTTGTGAAAACGTATAATATATA
6185561 TATTTTTTAG
Statistics
Matches: 178, Mismatches: 18, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
142 6 0.03
143 3 0.02
144 5 0.03
146 1 0.01
148 18 0.10
149 93 0.52
150 19 0.11
151 9 0.05
152 9 0.05
153 15 0.08
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (149 bp):
TTTTTGAAAATGTATAATATATAGTTTTGAAAAAATATTTGTGAAAACGTATAATATATAGTTTT
AAAAACAATTTTTGAAAACATATAATATATAATTTCAAAAACAATTTTTGAAAACATATAATATA
TGATAATTTCAAAAAAATA
Found at i:6192605 original size:134 final size:133
Alignment explanation
Indices: 6192428--6192677 Score: 356
Period size: 134 Copynumber: 1.9 Consensus size: 133
6192418 GGAAGTCTAG
* * * * *
6192428 TTATCTAAGGCTGATCAGCTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACAGTTCCTAC
1 TTATCTAAGGCTGATAAGCTCCTACATGATGAGGAGATATGGTCCGTGGATAACACAGTTCCTAC
* * * *
6192493 GTGATGAGGACTGATGGCCATCTTTAGGGATGATGATAACATGGTTCCTACATGATGAGATTGGT
66 GTGATGAGGACGGATGGCCATCTTTAAGGATGATGATAACACGATTCCTACATGATGAGATTGGT
6192558 TTC
131 TTC
* * *
6192561 TTATCTAAGGTTGATGAAGCTCCTACATGATGAGGAGATATGGTCCGTGGATAACACGGTTCTTA
1 TTATCTAAGGCTGAT-AAGCTCCTACATGATGAGGAGATATGGTCCGTGGATAACACAGTTCCTA
* * *
6192626 TGTGATGAGGACGGTTGGCCATTTTTAAGGATGATGATAACACGATTCCTAC
65 CGTGATGAGGACGGATGGCCATCTTTAAGGATGATGATAACACGATTCCTAC
6192678 GCGATGAGGA
Statistics
Matches: 101, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
133 14 0.14
134 87 0.86
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (133 bp):
TTATCTAAGGCTGATAAGCTCCTACATGATGAGGAGATATGGTCCGTGGATAACACAGTTCCTAC
GTGATGAGGACGGATGGCCATCTTTAAGGATGATGATAACACGATTCCTACATGATGAGATTGGT
TTC
Found at i:6199964 original size:17 final size:17
Alignment explanation
Indices: 6199944--6199977 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6199934 TATTCGAACT
*
6199944 TTTTTCTCTCTTTTCTC
1 TTTTTCTCTATTTTCTC
*
6199961 TTTTTTTCTATTTTCTC
1 TTTTTCTCTATTTTCTC
6199978 ACGGGTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTCTCTATTTTCTC
Found at i:6200548 original size:3 final size:3
Alignment explanation
Indices: 6200540--6200581 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
6200530 ATAATATGTA
6200540 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6200582 TTAATAACGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6202790 original size:19 final size:19
Alignment explanation
Indices: 6202766--6202827 Score: 115
Period size: 19 Copynumber: 3.3 Consensus size: 19
6202756 CTGTTTTACT
6202766 TCTCTCTAGCTCTCCATTC
1 TCTCTCTAGCTCTCCATTC
6202785 TCTCTCTAGCTCTCCATTC
1 TCTCTCTAGCTCTCCATTC
*
6202804 TCTCTCTAGCTCTCCCTTC
1 TCTCTCTAGCTCTCCATTC
6202823 TCTCT
1 TCTCT
6202828 AAACTCCCTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.08, C:0.44, G:0.05, T:0.44
Consensus pattern (19 bp):
TCTCTCTAGCTCTCCATTC
Found at i:6203773 original size:3 final size:3
Alignment explanation
Indices: 6203763--6203813 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
6203753 GTAATAATTG
**
6203763 TAA T-A TAA TAA TAA TAA TAA TAA TAA TTG TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6203809 TAA TA
1 TAA TA
6203814 TATAGTCTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:6203793 original size:29 final size:29
Alignment explanation
Indices: 6203754--6203813 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
6203744 GTATTATTTG
6203754 TAATAATTGTAATATAATAATAATAATAA
1 TAATAATTGTAATATAATAATAATAATAA
6203783 TAATAATTGTAATATAATAATAATAATAA
1 TAATAATTGTAATATAATAATAATAATAA
6203812 TA
1 TA
6203814 TATAGTCTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
TAATAATTGTAATATAATAATAATAATAA
Found at i:6204101 original size:20 final size:20
Alignment explanation
Indices: 6204054--6204107 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
6204044 AAAACATCCT
* *
6204054 ACCCTGAGGTTTTACAGATG
1 ACCCGGAGGTTTTACAAATG
*
6204074 ACCCGGAGGTTTTACAAATT
1 ACCCGGAGGTTTTACAAATG
**
6204094 ACTTGGAGGTTTTA
1 ACCCGGAGGTTTTA
6204108 ATTTTCTAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (20 bp):
ACCCGGAGGTTTTACAAATG
Found at i:6204189 original size:119 final size:119
Alignment explanation
Indices: 6203979--6204404 Score: 712
Period size: 119 Copynumber: 3.6 Consensus size: 119
6203969 TATAGATGAT
* * * * **
6203979 GGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGCG
1 GGAGGTTTTAATTTTCTAGAACATTAAATGAGAAACTTTGTTTATTACTTTCTCATTTTCATGCG
**
6204044 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGTTTTACAAATTACTT
66 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGTTTTACAAATTACCC
*
6204098 GGAGGTTTTAATTTTCTAGAACATTAAATGAGAAACTTTGTTTATTACTTTCTCATTTTAATGCG
1 GGAGGTTTTAATTTTCTAGAACATTAAATGAGAAACTTTGTTTATTACTTTCTCATTTTCATGCG
6204163 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGTTTTACAAATTACCC
66 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGTTTTACAAATTACCC
6204217 GGAGGTTTTAATTTTCTAGAACATTAAATGAGAAACTTTGTTTATTACTTTCTCATTTTCATGCG
1 GGAGGTTTTAATTTTCTAGAACATTAAATGAGAAACTTTGTTTATTACTTTCTCATTTTCATGCG
* *
6204282 AAAACATCCTACCCTGAGGTTTTACAGTTGA-CCAGAGGTTTTACAAATTACCC
66 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGTTTTACAAATTACCC
*
6204335 AGAGGTTTTAATTTTCTAGAACATTAAATGAGAAACTTTGTTTATT-CGTTTTCTCATTTTCATG
1 GGAGGTTTTAATTTTCTAGAACATTAAATGAGAAACTTTGTTTATTAC--TTTCTCATTTTCATG
6204399 CGAAAA
64 CGAAAA
6204405 TCATATGTGA
Statistics
Matches: 292, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
117 1 0.00
118 66 0.23
119 225 0.77
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (119 bp):
GGAGGTTTTAATTTTCTAGAACATTAAATGAGAAACTTTGTTTATTACTTTCTCATTTTCATGCG
AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGTTTTACAAATTACCC
Found at i:6204201 original size:20 final size:20
Alignment explanation
Indices: 6204173--6204226 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
6204163 AAAACATCCT
* *
6204173 ACCCTGAGGTTTTACAGATG
1 ACCCGGAGGTTTTACAAATG
*
6204193 ACCCGGAGGTTTTACAAATT
1 ACCCGGAGGTTTTACAAATG
6204213 ACCCGGAGGTTTTA
1 ACCCGGAGGTTTTA
6204227 ATTTTCTAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (20 bp):
ACCCGGAGGTTTTACAAATG
Found at i:6204321 original size:19 final size:20
Alignment explanation
Indices: 6204291--6204344 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
6204281 GAAAACATCC
* *
6204291 TACCCTGAGGTTTTAC-AGT
1 TACCCAGAGGTTTTACAAAT
6204310 TGA-CCAGAGGTTTTACAAAT
1 T-ACCCAGAGGTTTTACAAAT
6204330 TACCCAGAGGTTTTA
1 TACCCAGAGGTTTTA
6204345 ATTTTCTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (20 bp):
TACCCAGAGGTTTTACAAAT
Found at i:6204914 original size:251 final size:248
Alignment explanation
Indices: 6204457--6205081 Score: 989
Period size: 251 Copynumber: 2.5 Consensus size: 248
6204447 AAGGACTTAT
* * *
6204457 CATCTTGCTCGAAAGACTAACAGATGACTCGGAGGATTTACAAATTTGTGGGAAATACTTTACTA
1 CATCATGCTCGAAAGACTAACAGATGAC-CTGAAGATTTACAAATTTGTGGGAAATACTTTACTA
* *
6204522 GGTAAGAAACTTATTACTTTTCAAGAATTTGATTTTCTAGAACATTAAATGAGAAACTTTGAAAA
65 GGTAAGAAACTTCTTACTTTTCAAGAATTTCATTTTCTAGAACATTAAATGAGAAACTTTGAAAA
* *
6204587 TCGCTATCTCATTTTCATGCGAAAATCATATGTGAACATCCTACCCCAAGGCTTTACGGATGGCC
130 TCGCTATCTCATTTTCATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACAGATGGCC
6204652 CTAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGTTTTAAG
195 CTAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGTTTTAAG
* * * *
6204706 CATCATGCTCAAAAGACTAACAGATGACCTGAATGATTTACAAATTTGTGGGAAATAGTTTATTG
1 CATCATGCTCGAAAGACTAACAGATGACCTGAA-GATTTACAAATTTGTGGGAAATACTTTACTA
**
6204771 GGTAAGAAAACTTCTTACTTTTCAAGAATTTCATTTTCTAGAACATTAAATGAGAAACTTTGCTT
65 GGTAAG-AAACTTCTTACTTTTCAAGAATTTCATTTTCTAGAACATTAAATGAGAAACTTTG-AA
* * *
6204836 ATTCGTTTTCTCATTTTCATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACAGATGG
128 AATCGCTATCTCATTTTCATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACAGATGG
* * *
6204901 TCCTAAGGACTTATCATCTTGCTTGAAAGACTGACAGATGACCCGAAGGTTTTAAG
193 CCCTAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGTTTTAAG
* *
6204957 CATCATGCTCGAAAGACTAACAGATGACCCGAAGAATTTACAAATTTTTGGGAAATACTTTACTA
1 CATCATGCTCGAAAGACTAACAGATGACCTGAAG-ATTTACAAATTTGTGGGAAATACTTTACTA
* *
6205022 GGTAAGAAACTTCTTACTTTTCAAGAATTTCATTTTCTAAAAAGATTAAATGAGAAACTT
65 GGTAAGAAACTTCTTACTTTTCAAGAATTTCATTTTCT-AGAACATTAAATGAGAAACTT
6205082 GTTGGTTGGG
Statistics
Matches: 344, Mismatches: 27, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
248 3 0.01
249 60 0.17
250 86 0.25
251 195 0.57
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (248 bp):
CATCATGCTCGAAAGACTAACAGATGACCTGAAGATTTACAAATTTGTGGGAAATACTTTACTAG
GTAAGAAACTTCTTACTTTTCAAGAATTTCATTTTCTAGAACATTAAATGAGAAACTTTGAAAAT
CGCTATCTCATTTTCATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACAGATGGCCC
TAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGTTTTAAG
Found at i:6207826 original size:1 final size:1
Alignment explanation
Indices: 6207815--6207893 Score: 59
Period size: 1 Copynumber: 79.0 Consensus size: 1
6207805 TTTCAATTTC
* * * * * * * * * *
6207815 TTTTTTCTTTTTTTTTCTTTTTTTCTCTTTTTCTTCTTTTTCTTTTTTTTCTTCTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
6207880 TTTTTTCTTTTTTT
1 TTTTTTTTTTTTTT
6207894 CTGATAAATG
Statistics
Matches: 56, Mismatches: 22, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:6207829 original size:9 final size:9
Alignment explanation
Indices: 6207811--6207893 Score: 91
Period size: 9 Copynumber: 9.2 Consensus size: 9
6207801 CTTGTTTCAA
6207811 TTTCTTTTT
1 TTTCTTTTT
*
6207820 TCT-TTTTT
1 TTTCTTTTT
6207828 TTTCTTTTT
1 TTTCTTTTT
6207837 TTCTCTTTTT
1 TT-TCTTTTT
*
6207847 CTTCTTTTT
1 TTTCTTTTT
6207856 CTTT-TTTTT
1 -TTTCTTTTT
*
6207865 CTTCTTTTT
1 TTTCTTTTT
6207874 CTTT-TTTTT
1 -TTTCTTTTT
6207883 TTTCTTTTT
1 TTTCTTTTT
6207892 TT
1 TT
6207894 CTGATAAATG
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
8 12 0.19
9 38 0.61
10 12 0.19
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:6207838 original size:18 final size:18
Alignment explanation
Indices: 6207811--6207895 Score: 104
Period size: 18 Copynumber: 4.7 Consensus size: 18
6207801 CTTGTTTCAA
6207811 TTTC-TTTTTTCTTTTTT
1 TTTCTTTTTTTCTTTTTT
6207828 TTTCTTTTTTTCTCTTTTT
1 TTTCTTTTTTTCT-TTTTT
*
6207847 CTTCTTTTTCTT-TTTTTT
1 TTTCTTTTT-TTCTTTTTT
*
6207865 CTTCTTTTTCTT-TTTTTT
1 TTTCTTTTT-TTCTTTTTT
6207883 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
6207896 GATAAATGAG
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.10
18 40 0.65
19 14 0.23
20 2 0.03
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTCTTTTTTTCTTTTTT
Found at i:6207858 original size:35 final size:31
Alignment explanation
Indices: 6207815--6207893 Score: 106
Period size: 34 Copynumber: 2.5 Consensus size: 31
6207805 TTTCAATTTC
6207815 TTTTTTCTTTTTTTTTCTT-TTTTTCTCTTTT
1 TTTTTTCTTTTTTTTTCTTCTTTTTCT-TTTT
*
6207846 TCTTCTTTTTCTTTTTTTTCTTCTTTTTCTTTTT
1 T-TT-TTTCT-TTTTTTTTCTTCTTTTTCTTTTT
6207880 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
6207894 CTGATAAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
31 7 0.17
32 6 0.14
33 6 0.14
34 16 0.38
35 7 0.17
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (31 bp):
TTTTTTCTTTTTTTTTCTTCTTTTTCTTTTT
Found at i:6210205 original size:78 final size:78
Alignment explanation
Indices: 6210048--6210211 Score: 177
Period size: 78 Copynumber: 2.1 Consensus size: 78
6210038 AGTGCTGCCA
* *
6210048 TCTTTTCTTGCAATGCCTGTGCAAGGGCATATGAGGCATCACCTTTAGTCTCAACGGTATTTAAA
1 TCTTTTCTTGCAATGCCTGTGCAAGGGCATATGAGGCATAACCTTTAGTCTCAACAGTATTTAAA
* * **
6210113 TCCAGTATGCCCC
66 TACAGCAAACCCC
* * * * * *
6210126 TCTTTTCTTGCAATGCCTTTGCAAGGGCTTCTGAGGCATTAAGC-TTAGTCTCAGCAGTATTTGA
1 TCTTTTCTTGCAATGCCTGTGCAAGGGCATATGAGGCA-TAACCTTTAGTCTCAACAGTATTTAA
*
6210190 ATAGAGCAAATCCCTC
65 ATACAGCAAA-CCC-C
6210206 TCTTTT
1 TCTTTT
6210212 ACCTCATCTT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
78 57 0.81
79 6 0.09
80 7 0.10
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (78 bp):
TCTTTTCTTGCAATGCCTGTGCAAGGGCATATGAGGCATAACCTTTAGTCTCAACAGTATTTAAA
TACAGCAAACCCC
Found at i:6214277 original size:45 final size:45
Alignment explanation
Indices: 6214207--6214298 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
6214197 AACATAAAAT
* * *
6214207 GAAATAAATAATGTACAACACACAAATATAATCTTTAAATCTAAA
1 GAAACAAATAATGTACAACAAACAAATATAATCTTTAAATATAAA
* * *
6214252 GAAACAAATAATGTACAACAAACAAATTTATTCTTTCAATATAAA
1 GAAACAAATAATGTACAACAAACAAATATAATCTTTAAATATAAA
6214297 GA
1 GA
6214299 CATATAATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.27
Consensus pattern (45 bp):
GAAACAAATAATGTACAACAAACAAATATAATCTTTAAATATAAA
Found at i:6221498 original size:3 final size:3
Alignment explanation
Indices: 6221490--6221522 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
6221480 CGTGTGAATC
*
6221490 ATA ATA ATA ATA A-A TTA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6221523 ATGTTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 26 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6222995 original size:19 final size:19
Alignment explanation
Indices: 6222971--6223012 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
6222961 TAAGTTACAA
*
6222971 TTGATGAAGTTGTGAGATT
1 TTGATGAAGTTGTGAAATT
6222990 TTGATGAAGTTGTGAAATT
1 TTGATGAAGTTGTGAAATT
6223009 TTGA
1 TTGA
6223013 ATTTATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (19 bp):
TTGATGAAGTTGTGAAATT
Found at i:6223059 original size:76 final size:76
Alignment explanation
Indices: 6222957--6223105 Score: 199
Period size: 76 Copynumber: 2.0 Consensus size: 76
6222947 TTTACCTGAC
* * * *
6222957 CTTATAAGTTACAATTGATGAAGTTGTGAGATTTTGATGAAGTTGTGAAATTTTGAATTTATAAT
1 CTTATAAGTTACAATTGATGAAGTTGTGAGACTTTAATGAAGTTATGAAATTTAGAATTTATAAT
6223022 AAACTATATTA
66 AAACTATATTA
* * ** * * *
6223033 CTTATAAGTTTCAGTTGATTTAGTTGTTAGACTTTAATGAAGTTATGAGATTTAGAATTTGTAAT
1 CTTATAAGTTACAATTGATGAAGTTGTGAGACTTTAATGAAGTTATGAAATTTAGAATTTATAAT
6223098 AAACTATA
66 AAACTATA
6223106 ATAATTAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.43
Consensus pattern (76 bp):
CTTATAAGTTACAATTGATGAAGTTGTGAGACTTTAATGAAGTTATGAAATTTAGAATTTATAAT
AAACTATATTA
Found at i:6223242 original size:27 final size:27
Alignment explanation
Indices: 6223184--6223242 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
6223174 TACTTTCTAT
* *
6223184 ATTAATTATAATCCTTATATTATTAATC
1 ATTAATTATAATCATTAAATTATT-ATC
6223212 -TTAATTATAATCATTAAATTAATT-TC
1 ATTAATTATAATCATTAAATT-ATTATC
6223238 ATTAA
1 ATTAA
6223243 ATAATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 2 0.07
27 22 0.81
28 3 0.11
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTAATTATAATCATTAAATTATTATC
Found at i:6223963 original size:2 final size:2
Alignment explanation
Indices: 6223956--6224025 Score: 60
Period size: 2 Copynumber: 36.0 Consensus size: 2
6223946 AGTTGGTTCG
*
6223956 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TG TA TA CT- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
*
6223997 T- TA TA TA CT- TA TA TA -A GTA TA TA CA TA TA
1 TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA
6224026 ATGAATGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
1 5 0.09
2 48 0.86
3 3 0.05
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6225376 original size:82 final size:80
Alignment explanation
Indices: 6225234--6225399 Score: 183
Period size: 82 Copynumber: 2.0 Consensus size: 80
6225224 ACCTTGGGAG
* ** **
6225234 GGTATTGATACTGTAAGGCTAGTATCGATACCAAGGGTATGGTTTAAGCTTTAAAGCATGAGTTA
1 GGTATCGATACTGTAAGGCTAGTATCGATACCAA-GGTATGGAATAAGCTTTAAAGCATGAGAAA
*
6225299 GTGTAGAGGCAAGATAA
65 GTATAGAGGCAAG-TAA
* **
6225316 GGTATCGATATTGTAAGGCTAGTATCGATACCAA-GTATAGGAAATGGGCTTT-AAGTCATGAGA
1 GGTATCGATACTGTAAGGCTAGTATCGATACCAAGGTAT-GG-AATAAGCTTTAAAG-CATGAGA
*
6225379 AAGTATAGAGGTAAGTAA
63 AAGTATAGAGGCAAGTAA
6225397 GGT
1 GGT
6225400 TTCCCAAAAG
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
80 4 0.06
81 11 0.15
82 56 0.79
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (80 bp):
GGTATCGATACTGTAAGGCTAGTATCGATACCAAGGTATGGAATAAGCTTTAAAGCATGAGAAAG
TATAGAGGCAAGTAA
Found at i:6226232 original size:13 final size:13
Alignment explanation
Indices: 6226214--6226238 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6226204 GTTTAATTTA
6226214 TTTAAATTTTAAT
1 TTTAAATTTTAAT
6226227 TTTAAATTTTAA
1 TTTAAATTTTAA
6226239 ATTTGTTCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTAAATTTTAAT
Found at i:6226234 original size:7 final size:7
Alignment explanation
Indices: 6226214--6226242 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
6226204 GTTTAATTTA
6226214 TTTAAAT
1 TTTAAAT
6226221 TTT-AAT
1 TTTAAAT
6226227 TTTAAAT
1 TTTAAAT
6226234 TTTAAAT
1 TTTAAAT
6226241 TT
1 TT
6226243 GTTCAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTAAAT
Found at i:6226867 original size:23 final size:24
Alignment explanation
Indices: 6226827--6226871 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
6226817 TAATTTAACC
6226827 CGAACCACTTAATATGATCTGAGT
1 CGAACCACTTAATATGATCTGAGT
6226851 CGAACCA-TTAA-ATTGATCTGA
1 CGAACCACTTAATA-TGATCTGA
6226872 CACAATCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.05
23 12 0.60
24 7 0.35
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (24 bp):
CGAACCACTTAATATGATCTGAGT
Found at i:6229591 original size:45 final size:45
Alignment explanation
Indices: 6229496--6229821 Score: 317
Period size: 45 Copynumber: 7.3 Consensus size: 45
6229486 TTGATAACAC
* * * * ** * *
6229496 ACCCATATGCATTGCAACTATAGTATAC-TTTCCATTAATAATAT
1 ACCCATATACATTTCAACCATAGCATACTTTTCTGTTGATAATGT
*
6229540 ACCCATATACATTTCAACCATAGTATACTTTTCTGTTGATAATGT
1 ACCCATATACATTTCAACCATAGCATACTTTTCTGTTGATAATGT
* * *
6229585 ACCCATATACATTTCAACTC-TAGCATGCTCTTCTGTTGATAATGC
1 ACCCATATACATTTCAAC-CATAGCATACTTTTCTGTTGATAATGT
* *
6229630 ACCCATATGCATTTCAACTC-TAGCATACTTTTCTGTTGATAATGC
1 ACCCATATACATTTCAAC-CATAGCATACTTTTCTGTTGATAATGT
* *
6229675 ACCCATATGCATTTCAACTC-TAGCATACTTTTATGTTGATAATGT
1 ACCCATATACATTTCAAC-CATAGCATACTTTTCTGTTGATAATGT
* * * *
6229720 A-CCACTATACATTTCAACTAAAGTAT-GTTTT-TGTTGATAATGT
1 ACCCA-TATACATTTCAACCATAGCATACTTTTCTGTTGATAATGT
* * * * *
6229763 ACCCATATACATTTCAACTATAGCATTC-TTTCATGCTAATAATGC
1 ACCCATATACATTTCAACCATAGCATACTTTTC-TGTTGATAATGT
*
6229808 ACCCATATGCATTT
1 ACCCATATACATTT
6229822 GTATTTTCAT
Statistics
Matches: 246, Mismatches: 28, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
43 35 0.14
44 35 0.14
45 175 0.71
46 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.38
Consensus pattern (45 bp):
ACCCATATACATTTCAACCATAGCATACTTTTCTGTTGATAATGT
Found at i:6229647 original size:90 final size:89
Alignment explanation
Indices: 6229496--6229821 Score: 363
Period size: 90 Copynumber: 3.7 Consensus size: 89
6229486 TTGATAACAC
* * * * ** * **
6229496 ACCCATATGCATTGCAACTATAGTATACTTTCCATTAATAATATACCCATATACATTTCAACCAT
1 ACCCATATACATTTCAACTCTAGCATACTTTCTGTTGATAATGCACCCATATACATTTCAACCAT
6229561 AGTATACTTTTCTGTTGATAATGT
66 AGTATACTTTTCTGTTGATAATGT
* *
6229585 ACCCATATACATTTCAACTCTAGCATGCTCTTCTGTTGATAATGCACCCATATGCATTTCAACTC
1 ACCCATATACATTTCAACTCTAGCATACT-TTCTGTTGATAATGCACCCATATACATTTCAAC-C
* *
6229650 -TAGCATACTTTTCTGTTGATAATGC
64 ATAGTATACTTTTCTGTTGATAATGT
* * * *
6229675 ACCCATATGCATTTCAACTCTAGCATACTTTTATGTTGATAATGTA-CCACTATACATTTCAACT
1 ACCCATATACATTTCAACTCTAGCATAC-TTTCTGTTGATAATGCACCCA-TATACATTTCAACC
* *
6229739 AAAGTAT-GTTTT-TGTTGATAATGT
64 ATAGTATACTTTTCTGTTGATAATGT
* * * * *
6229763 ACCCATATACATTTCAACTATAGCATTCTTTCATGCTAATAATGCACCCATATGCATTT
1 ACCCATATACATTTCAACTCTAGCATACTTTC-TGTTGATAATGCACCCATATACATTT
6229822 GTATTTTCAT
Statistics
Matches: 199, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
87 3 0.02
88 54 0.27
89 34 0.17
90 106 0.53
91 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.38
Consensus pattern (89 bp):
ACCCATATACATTTCAACTCTAGCATACTTTCTGTTGATAATGCACCCATATACATTTCAACCAT
AGTATACTTTTCTGTTGATAATGT
Found at i:6229807 original size:178 final size:178
Alignment explanation
Indices: 6229475--6229821 Score: 470
Period size: 178 Copynumber: 1.9 Consensus size: 178
6229465 TAAGCTATAA
* *
6229475 CATATTTTTTGTTGATAACACACCCATATGCATTGCAACTATAGTATACTTTCCATTAATAATAT
1 CATATTTTCTGTTGATAACACACCCATATGCATTGCAACTATAGCATACTTTCCATTAATAATAT
* *
6229540 ACCCATATACATTTCAACCATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTC
66 ACCCATATACATTTCAACCAAAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTA
* *
6229605 TAGCATGCTCTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAG
131 TAGCATGCTCTTCTGCTAATAATGCACCCATATGCATTTCAACTCTAG
** * * * *
6229653 CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTT-TATGTTGATAA
1 CATA-TTTTCTGTTGATAACACACCCATATGCATTGCAACTATAGCATACTTTCCA--TTAATAA
* * *
6229717 TGTA-CCACTATACATTTCAACTAAAGTAT-GTTTT-TGTTGATAATGTACCCATATACATTTCA
63 TATACCCA-TATACATTTCAACCAAAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCA
*
6229779 ACTATAGCATTCT-TTCATGCTAATAATGCACCCATATGCATTT
127 ACTATAGCATGCTCTTC-TGCTAATAATGCACCCATATGCATTT
6229822 GTATTTTCAT
Statistics
Matches: 148, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
177 3 0.02
178 68 0.46
179 49 0.33
180 28 0.19
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.39
Consensus pattern (178 bp):
CATATTTTCTGTTGATAACACACCCATATGCATTGCAACTATAGCATACTTTCCATTAATAATAT
ACCCATATACATTTCAACCAAAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTA
TAGCATGCTCTTCTGCTAATAATGCACCCATATGCATTTCAACTCTAG
Found at i:6230270 original size:22 final size:20
Alignment explanation
Indices: 6230229--6230284 Score: 85
Period size: 22 Copynumber: 2.7 Consensus size: 20
6230219 TGGCCCTTCA
6230229 GTATCGATACCCCTACTATG
1 GTATCGATACCCCTACTATG
*
6230249 GTATCGATACTACCCTATTATG
1 GTATCGATAC--CCCTACTATG
6230271 GTATCGATACCCCT
1 GTATCGATACCCCT
6230285 TCCAGTATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 14 0.42
22 19 0.58
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (20 bp):
GTATCGATACCCCTACTATG
Found at i:6230344 original size:94 final size:94
Alignment explanation
Indices: 6230229--6230449 Score: 270
Period size: 94 Copynumber: 2.4 Consensus size: 94
6230219 TGGCCCTTCA
* * * * *
6230229 GTATCGATACCC-CTACTATGGTATCGATACTACCCTATTATGGTATCGATA-CCCCTTCCA-GT
1 GTATCGATACCCTC-ACCATGGTATCGATACCACCATATTATGGTACCAATACCCCCTT--AGGT
*
6230291 ATCAATACCAAAATTAGTTTCGATGTAAT-CTG
63 ATCAATACCAAAATTAGATTCGATGT-ATCCTG
* *
6230323 GTATCGATACCCTCACCATGGTATCGATACCACTATGTTATGGTACCAATACCCCCTTAGGTATC
1 GTATCGATACCCTCACCATGGTATCGATACCACCATATTATGGTACCAATACCCCCTTAGGTATC
* *
6230388 GATACCAAAATTAGATTCGATGTTTCCTG
66 AATACCAAAATTAGATTCGATGTATCCTG
* *
6230417 GTAACGATACCCTTACCATGGTATCGATACCAC
1 GTATCGATACCCTCACCATGGTATCGATACCAC
6230450 ATCGATTGGG
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
93 2 0.02
94 102 0.92
95 7 0.06
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (94 bp):
GTATCGATACCCTCACCATGGTATCGATACCACCATATTATGGTACCAATACCCCCTTAGGTATC
AATACCAAAATTAGATTCGATGTATCCTG
Found at i:6230462 original size:94 final size:94
Alignment explanation
Indices: 6230289--6230468 Score: 258
Period size: 94 Copynumber: 1.9 Consensus size: 94
6230279 ACCCCTTCCA
* *
6230289 GTATCAATACCAAAATTAGTTTCGATGTAATCTGGTATCGATACCCTCACCATGGTATCGATACC
1 GTATCAATACCAAAATTAGATTCGATGTAATCTGGTAACGATACCCTCACCATGGTATCGATACC
*
6230354 ACTATGTTATGGTACCAATACCCCCTTAG
66 ACTATGTTAGGGTACCAATACCCCCTTAG
* * *
6230383 GTATCGATACCAAAATTAGATTCGATGT-TTCCTGGTAACGATACCCTTACCATGGTATCGATAC
1 GTATCAATACCAAAATTAGATTCGATGTAAT-CTGGTAACGATACCCTCACCATGGTATCGATAC
6230447 CAC-ATCGATT-GGGTACCAATAC
65 CACTAT-G-TTAGGGTACCAATAC
6230469 TGATTGAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
93 3 0.04
94 72 0.94
95 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (94 bp):
GTATCAATACCAAAATTAGATTCGATGTAATCTGGTAACGATACCCTCACCATGGTATCGATACC
ACTATGTTAGGGTACCAATACCCCCTTAG
Found at i:6236600 original size:45 final size:45
Alignment explanation
Indices: 6236543--6236870 Score: 394
Period size: 45 Copynumber: 7.3 Consensus size: 45
6236533 CACTTTAAGT
* * *
6236543 TATAACAT-CTTTTCTGTTGATAATGCACCCATATGCATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * *
6236587 TATAGTATACTTTTCCGTTGATAGTTTACCCATATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * *
6236632 CATAGTATATTTTTTCTGTTGATAATGTACCCATATACATTTCAAC
1 TATAGCATA-CTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * *
6236678 TCTAGCATGA-TTTTCTGTTGATATTGTACCAATATGCATTTCAAC
1 TATAGCAT-ACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * *
6236723 TCTAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* *
6236768 TCTAGCATACTTTTTTGTTGATAATGTAACCC-TATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGT-ACCCATATACATTTCAAC
* *
6236813 TGA-AGTATGCTTTTCTGTTGATAATGTACCCATATACATTTCAAC
1 T-ATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
*
6236858 TATAGCATTCTTT
1 TATAGCATACTTT
6236871 CATGCTAATA
Statistics
Matches: 246, Mismatches: 30, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
44 12 0.05
45 192 0.78
46 41 0.17
47 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.41
Consensus pattern (45 bp):
TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
Found at i:6236855 original size:135 final size:136
Alignment explanation
Indices: 6236551--6236898 Score: 452
Period size: 135 Copynumber: 2.6 Consensus size: 136
6236541 GTTATAACAT
* * * * **
6236551 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCCGTTGATAGTTTAC
1 CTTTTCTGTTGATAATGTACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCAC
* * * *
6236616 CCATATACATTTCAACCATAGTATATTTTTTCTGTTGATAATGTACCCATATACATTTCAACTCT
66 CCATATGCATTTCAACCATAGCATACTTTTTCTGTTGATAATGTACCCATATACATTTCAACTCA
6236681 AGCATG
131 AGCATG
* * * *
6236687 ATTTTCTGTTGATATTGTACCAATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCAC
1 CTTTTCTGTTGATAATGTACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCAC
6236752 CCATATGCATTTCAACTC-TAGCATACTTTTT-TGTTGATAATGTAACCC-TATACATTTCAACT
66 CCATATGCATTTCAAC-CATAGCATACTTTTTCTGTTGATAATGT-ACCCATATACATTTCAACT
* *
6236814 GAAGTATG
129 CAAGCATG
* * * *
6236822 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGCATTC-TTTCATGCTAATAATGCA
1 CTTTTCTGTTGATAATGTACCCATATGCATTTCAACTATAGCATACTTTTC-TGTTGATAATGCA
*
6236886 CTCATATGCATTT
65 CCCATATGCATTT
6236899 GTATTTTCAT
Statistics
Matches: 184, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
134 4 0.02
135 94 0.51
136 85 0.46
137 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (136 bp):
CTTTTCTGTTGATAATGTACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCAC
CCATATGCATTTCAACCATAGCATACTTTTTCTGTTGATAATGTACCCATATACATTTCAACTCA
AGCATG
Found at i:6237348 original size:22 final size:20
Alignment explanation
Indices: 6237307--6237359 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 20
6237297 TGGCCCTTCA
6237307 GTATCGATACCCCTACTATG
1 GTATCGATACCCCTACTATG
*
6237327 GTATCGATACTACCCTATTATG
1 GTATCGATAC--CCCTACTATG
6237349 GTATCGATACC
1 GTATCGATACC
6237360 TCCTTTCAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 11 0.37
22 19 0.63
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (20 bp):
GTATCGATACCCCTACTATG
Found at i:6237457 original size:74 final size:72
Alignment explanation
Indices: 6237346--6237506 Score: 173
Period size: 74 Copynumber: 2.2 Consensus size: 72
6237336 CTACCCTATT
* * * *
6237346 ATGGTATCGATACCTCCTTTCAGTATCAATACCAAAATTAGCTTCGAAGTAATT-TGGTATCGAT
1 ATGGTATCGATACCCCCCTTCAGTATCAAGACCAAAATTAGATTCGAAGT--TTCTGGTATCGAT
*
6237410 ACTCTCACC
64 ACCCTCACC
* * *
6237419 ATGGTATCGATACTCCCCCTT-AGGTATCGAGACCAAAATTAGATTCGATGTTTCCTTGTATCGA
1 ATGGTATCGATAC-CCCCCTTCA-GTATCAAGACCAAAATTAGATTCGAAGTTT-CTGGTATCGA
* *
6237483 TACCCTTATC
63 TACCCTCACC
6237493 ATGGTATCGATACC
1 ATGGTATCGATACC
6237507 ACATCGATTG
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
72 2 0.03
73 15 0.20
74 57 0.77
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (72 bp):
ATGGTATCGATACCCCCCTTCAGTATCAAGACCAAAATTAGATTCGAAGTTTCTGGTATCGATAC
CCTCACC
Found at i:6238848 original size:16 final size:13
Alignment explanation
Indices: 6238816--6238854 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 13
6238806 ACGTATAATG
6238816 TATACTTATATTA
1 TATACTTATATTA
6238829 TATACTTATATAAGTA
1 TATACTTATAT---TA
6238845 TATACTTATA
1 TATACTTATA
6238855 ATTTATGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.48
16 12 0.52
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (13 bp):
TATACTTATATTA
Found at i:6238922 original size:56 final size:58
Alignment explanation
Indices: 6238809--6238922 Score: 130
Period size: 58 Copynumber: 2.0 Consensus size: 58
6238799 ACATTATACG
* *
6238809 TATAATGTATACTTATATTATATACTTATATAAGTATATACTTATAATTTATGCATAAA
1 TATAATGTACACTTATAATATATACTTATATAAGTATATACTTAT-ATTTATGCATAAA
*
6238868 TATAATGTACA-TTATAATATATA-TATATATATA-TATATGCATTAT-TTTAT-CATAA
1 TATAATGTACACTTATAATATATACT-TATATA-AGTATATAC-TTATATTTATGCATAA
6238923 CATTCAATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
56 5 0.10
57 6 0.12
58 23 0.47
59 15 0.31
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.46
Consensus pattern (58 bp):
TATAATGTACACTTATAATATATACTTATATAAGTATATACTTATATTTATGCATAAA
Found at i:6241601 original size:27 final size:27
Alignment explanation
Indices: 6241566--6241617 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
6241556 GAAATTAATC
6241566 AATAATATATTTTTATTATAAAAAAGT
1 AATAATATATTTTTATTATAAAAAAGT
*
6241593 AATATTATATTTTTATTATAAAAAA
1 AATAATATATTTTTATTATAAAAAA
6241618 TATTTAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
AATAATATATTTTTATTATAAAAAAGT
Found at i:6242711 original size:27 final size:24
Alignment explanation
Indices: 6242671--6242731 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 24
6242661 CTAGATGACT
6242671 AAATACATAATTTACCTTTAAAAATA
1 AAATA-ATAATTTACCTTT-AAAATA
6242697 ATAATAATAATTTTACCTTTAAAATA
1 A-AATAATAA-TTTACCTTTAAAATA
6242723 AAATAATAA
1 AAATAATAA
6242732 CTCAAGGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
25 8 0.24
26 12 0.36
27 13 0.39
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATAATAATTTACCTTTAAAATA
Found at i:6252124 original size:336 final size:336
Alignment explanation
Indices: 6251511--6252183 Score: 987
Period size: 336 Copynumber: 2.0 Consensus size: 336
6251501 CACAGTCACA
6251511 TTCAACAAGGAACGAGTAAACCTCCTTACAGGATTCGCTTCCTTCACCACTTCCTCTATCTTACT
1 TTCAACAAGGAACGAGTAAACCTCCTTACAGGATTCGCTTCCTTCACCACTTCCTCTATCTTACT
* * * *
6251576 ATCATCCTTGCAACTAACCAAAACCGGCACCCATAAGTCCCCTTTGCACGGCCCATTTTCTATCA
66 ATCATCCTTGCAACTAACAAAAACAGGCACCCATAAATCCCCTTTGCACGACCCATTTTCTATCA
* * *
6251641 CCAAATCCTCCTTTAACTTATCTTCATCTACATTCTTCATTGTATTTTCCAGTTCACTTTTTTTC
131 CCAAATCCTCCTTTAACTTATCCTCATCTACATTCTTCATTGCATTTTCCAGTTCACTTTCTTTC
* *
6251706 TCTCCAGTGTCAGCACTCATCTTCTCTTCCTCCTGTTTTTCTTCTGGCGAGCCCGTTACAGCCAT
196 TCTCCAATGTCAGCACTCATCTTCTCTTCCTCCTGTTTTTCTTCTGGCGAGCCAGTTACAGCCAT
* *
6251771 TCCGGGTTCATTTTTTTCATCCCCTT-CTTTGACAACATCATCTTCAGACAGTGGTTCAATTACC
261 TCCGGGTTCACTTTTTTCATCCCCTTGC-TTGACAACATCAACTTCAGACAGTGGTTCAATTACC
6251835 ACATCTTTAACT
325 ACATCTTTAACT
* * * * *
6251847 TTCAACAAGGAATGGGTAAACCTCCTTACAGGCTTCTCTTCCTTCACCACTTCCTCTATCTTGCT
1 TTCAACAAGGAACGAGTAAACCTCCTTACAGGATTCGCTTCCTTCACCACTTCCTCTATCTTACT
* * *
6251912 ATCA-CCGTTGCAACTAACAAAAACAGGCACCTC-TAAATCTCCTTTGCATGACCTATTTTCTAT
66 ATCATCC-TTGCAACTAACAAAAACAGGCACC-CATAAATCCCCTTTGCACGACCCATTTTCTAT
** * *
6251975 CACCAAATTTTCCTTTAGCATT-TCCTCCTCTACATTCTTCATTGCATTTTCCAGTTCACTTTCT
129 CACCAAATCCTCCTTTAAC-TTATCCTCATCTACATTCTTCATTGCATTTTCCAGTTCACTTTCT
* * *
6252039 TTCTCTCCAATGTCAGCATTCATCTTCTCTTCC-CCATGTTTTTCTTCTGGCGTGCCAGTTATAG
193 TTCTCTCCAATGTCAGCACTCATCTTCTCTTCCTCC-TGTTTTTCTTCTGGCGAGCCAGTTACAG
* * * *
6252103 CCATTGCGGGTTCACTTTTTTCCTCCCCTTGCTTGACAACTTCAACTTCAGACATTGGTTCAATT
257 CCATTCCGGGTTCACTTTTTTCATCCCCTTGCTTGACAACATCAACTTCAGACAGTGGTTCAATT
*
6252168 ACCTCATCTTTAACT
322 ACCACATCTTTAACT
6252183 T
1 T
6252184 CCTCGTTCTT
Statistics
Matches: 301, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
335 4 0.01
336 293 0.97
337 4 0.01
ACGTcount: A:0.21, C:0.31, G:0.10, T:0.37
Consensus pattern (336 bp):
TTCAACAAGGAACGAGTAAACCTCCTTACAGGATTCGCTTCCTTCACCACTTCCTCTATCTTACT
ATCATCCTTGCAACTAACAAAAACAGGCACCCATAAATCCCCTTTGCACGACCCATTTTCTATCA
CCAAATCCTCCTTTAACTTATCCTCATCTACATTCTTCATTGCATTTTCCAGTTCACTTTCTTTC
TCTCCAATGTCAGCACTCATCTTCTCTTCCTCCTGTTTTTCTTCTGGCGAGCCAGTTACAGCCAT
TCCGGGTTCACTTTTTTCATCCCCTTGCTTGACAACATCAACTTCAGACAGTGGTTCAATTACCA
CATCTTTAACT
Found at i:6254517 original size:14 final size:14
Alignment explanation
Indices: 6254481--6254519 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
6254471 TCTGTCTATA
* *
6254481 TGCAGAGATTCTTT
1 TGCAGGGATTATTT
6254495 TGCAGGGATTATTT
1 TGCAGGGATTATTT
*
6254509 TGCATGGATTA
1 TGCAGGGATTA
6254520 CTCCCCATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (14 bp):
TGCAGGGATTATTT
Found at i:6256314 original size:24 final size:23
Alignment explanation
Indices: 6256251--6256325 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
6256241 ATATATATAT
6256251 ATATATATATTTAATATT-TTAAA
1 ATATAT-TATTTAATATTATTAAA
* * * *
6256274 AAATTTTATTTTTATATTATTAAC
1 ATATATTA-TTTAATATTATTAAA
*
6256298 ATATATTATTTAAATATTA-AAAA
1 ATATATTATTT-AATATTATTAAA
6256321 ATATA
1 ATATA
6256326 AAATATATTA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
22 2 0.05
23 22 0.55
24 16 0.40
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATATTATTTAATATTATTAAA
Found at i:6256324 original size:21 final size:21
Alignment explanation
Indices: 6256253--6256324 Score: 54
Period size: 24 Copynumber: 3.2 Consensus size: 21
6256243 ATATATATAT
*
6256253 ATATATATTTAATATTTTAAAAA
1 ATAT-TATTTAA-ATATTAAAAA
* * * *
6256276 ATTTTATTTTTATATTATTAACAT
1 ATATTA--TTTA-AATATTAAAAA
6256300 ATATTATTTAAATATTAAAAA
1 ATATTATTTAAATATTAAAAA
6256321 ATAT
1 ATAT
6256325 AAAATATATT
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
21 12 0.32
22 6 0.16
23 3 0.08
24 15 0.41
25 1 0.03
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTATTTAAATATTAAAAA
Found at i:6259190 original size:17 final size:17
Alignment explanation
Indices: 6259165--6259216 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
6259155 TCGGTTTCGG
6259165 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
* *
6259182 TTTTTAAAAACCCGG-T
1 TTTTAAAAAAACCGGTT
* * *
6259198 TATAAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
6259215 TT
1 TT
6259217 AATATTCCAG
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:6259394 original size:21 final size:21
Alignment explanation
Indices: 6259366--6259439 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
6259356 ACACTTAGGG
6259366 AACCGATTCCCTATGAGAGGA
1 AACCGATTCCCTATGAGAGGA
* * *
6259387 AACTGATTCCTTATGTGAGGA
1 AACCGATTCCCTATGAGAGGA
* *
6259408 AACCGATTTCCTATGAGAGGG
1 AACCGATTCCCTATGAGAGGA
*
6259429 TACCGATTCCC
1 AACCGATTCCC
6259440 CCACGCTCCA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (21 bp):
AACCGATTCCCTATGAGAGGA
Found at i:6259656 original size:13 final size:13
Alignment explanation
Indices: 6259635--6259689 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
6259625 AAGTTCGATA
*
6259635 AATTCAAATACTT
1 AATTGAAATACTT
6259648 AATTGAAATACTT
1 AATTGAAATACTT
* *
6259661 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
6259675 AATTGAAATACTT
1 AATTGAAATACTT
6259688 AA
1 AA
6259690 ATATTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:6259771 original size:32 final size:33
Alignment explanation
Indices: 6259675--6259773 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
6259665 AACTCAACAT
* * * *
6259675 AATTGAAATACTTAAATATTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
6259708 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
6259741 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
6259773 A
1 A
6259774 TTGAAACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 12 0.19
33 50 0.81
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:6259792 original size:21 final size:21
Alignment explanation
Indices: 6259768--6259807 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6259758 ACTTCAAGTT
6259768 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
6259789 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
6259808 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:6262104 original size:11 final size:12
Alignment explanation
Indices: 6262083--6262128 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
6262073 TCCGGATAAA
6262083 AACCGGTTTTTT
1 AACCGGTTTTTT
6262095 AACCGGTTTTTTT
1 AACCGG-TTTTTT
6262108 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
*
6262122 ATCCGGT
1 AACCGGT
6262129 AAAAAAACCG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.40
13 6 0.20
14 6 0.20
15 6 0.20
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:6262113 original size:15 final size:14
Alignment explanation
Indices: 6262082--6262121 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
6262072 TTCCGGATAA
6262082 AAACCGG-TTTTTT
1 AAACCGGTTTTTTT
6262095 -AACCGGTTTTTTT
1 AAACCGGTTTTTTT
6262108 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
6262122 ATCCGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
15 12 0.50
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (14 bp):
AAACCGGTTTTTTT
Found at i:6266206 original size:55 final size:55
Alignment explanation
Indices: 6266122--6266260 Score: 215
Period size: 55 Copynumber: 2.5 Consensus size: 55
6266112 TCTCGGCGTC
* *
6266122 TTTAGGGTTGGAATTACCTTGTTGGAAATCATGGCATCTTCAAGGGAACCATGCA
1 TTTAGGGTTGGAATTCCCTTGTTGGAAATCATAGCATCTTCAAGGGAACCATGCA
* * * * *
6266177 TTTAGGGTTGGAATTCCCTTATTGGAAATCCTAGCGTCTTTAAGGGAACTATGCA
1 TTTAGGGTTGGAATTCCCTTGTTGGAAATCATAGCATCTTCAAGGGAACCATGCA
6266232 TTTAGGGTTGGAATTCCCTTGTTGGAAAT
1 TTTAGGGTTGGAATTCCCTTGTTGGAAAT
6266261 TCGACGTCTT
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 76 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (55 bp):
TTTAGGGTTGGAATTCCCTTGTTGGAAATCATAGCATCTTCAAGGGAACCATGCA
Found at i:6267111 original size:45 final size:45
Alignment explanation
Indices: 6267023--6267126 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
6267013 ATAATATCAA
*** *
6267023 TAGGTTGGTGGTTGGTGGTTAATAATTATCTTTTAATTACTCGAG
1 TAGGTTGGTGGTTGGTGGTTAATAATTATCCACTAAATACTCGAG
* *
6267068 TAGGTTAGTGGTTGGTGGTTATTAATTATCCACTAACAT-CTCGAG
1 TAGGTTGGTGGTTGGTGGTTAATAATTATCCACTAA-ATACTCGAG
*
6267113 TAAGTTGGTGGTTG
1 TAGGTTGGTGGTTG
6267127 CAGAGGAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
45 49 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (45 bp):
TAGGTTGGTGGTTGGTGGTTAATAATTATCCACTAAATACTCGAG
Found at i:6275719 original size:64 final size:65
Alignment explanation
Indices: 6275569--6275744 Score: 234
Period size: 64 Copynumber: 2.7 Consensus size: 65
6275559 TACAACACAT
*
6275569 ATCACT-AGTATGA-TTCATGTACCTTTGTGGTGTATGAGGTGGAGTGATAATTGAATACTGTAC
1 ATCACTCA-TATGACTT-ATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACTGTAC
6275632 AA
64 AA
* * * *
6275634 ACCACTCATATGAC-TAGTGTACCTTTGTGGTACATGAGGTGGAGTGA-AATTGAATATTGTACT
1 ATCACTCATATGACTTA-TGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACTGTACA
*
6275697 G
65 A
*
6275698 ATCACTCATATGACTTATGTACCTTTGTGGTGCATGAGGCGGAGTGA
1 ATCACTCATATGACTTATGTACCTTTGTGGTGCATGAGGTGGAGTGA
6275745 CTATATAATA
Statistics
Matches: 98, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
64 56 0.57
65 41 0.42
66 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (65 bp):
ATCACTCATATGACTTATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACTGTACAA
Found at i:6276009 original size:49 final size:50
Alignment explanation
Indices: 6275941--6276040 Score: 143
Period size: 49 Copynumber: 2.0 Consensus size: 50
6275931 ATAGTATATG
6275941 AAATAGTACAGTAAAAGAATTAGTACAA-AAAAAG-G-AATGATATAGGAAA
1 AAATAGTACAGTAAAAGAATTAGTACAAGAAAAAGAGCAA-G-TATAGGAAA
* *
6275990 AAATAGTACAGTGAGAGAATTAGTACAAGAAAAAGAGCAAGTATAGGAAA
1 AAATAGTACAGTAAAAGAATTAGTACAAGAAAAAGAGCAAGTATAGGAAA
6276040 A
1 A
6276041 GAAACGATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
49 26 0.57
50 16 0.35
51 2 0.04
52 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (50 bp):
AAATAGTACAGTAAAAGAATTAGTACAAGAAAAAGAGCAAGTATAGGAAA
Found at i:6282153 original size:26 final size:28
Alignment explanation
Indices: 6282105--6282157 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
6282095 TACATAAGGA
* *
6282105 CTCCTCTTACTCTCACTATCTTTGTTTC
1 CTCCTCTTACTCACACTACCTTTGTTTC
6282133 CTCCTCTTACTCAC-CT-CCTTTGTTT
1 CTCCTCTTACTCACACTACCTTTGTTT
6282158 GGTCACTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 2 0.09
28 13 0.57
ACGTcount: A:0.09, C:0.38, G:0.04, T:0.49
Consensus pattern (28 bp):
CTCCTCTTACTCACACTACCTTTGTTTC
Found at i:6288817 original size:197 final size:200
Alignment explanation
Indices: 6288482--6288879 Score: 766
Period size: 197 Copynumber: 2.0 Consensus size: 200
6288472 GTTAAGGAAT
6288482 TGATGGGAAGAAAGAATTTGTAAACAATTGTAGTCAAAAGACCAAATTGAGTAAAATGCAAAGTT
1 TGATGGGAAGAAAGAATTTGTAAACAATTGTAGTCAAAAGACCAAATTGAGTAAAATGCAAAGTT
6288547 AAGGGACTAAATAAAAAAGAAATTACGATTTTAGTAAAACAGTAAGAATTGAAGTTACGTATGTA
66 AAGGGACTAAATAAAAAAGAAATTACGATTTTAGTAAAACAGTAAGAATTGAAGTTACGTATGTA
6288612 TTCTATTGTGG-TATGAGAATGT-GTTTAAATTTGAT-AAAGACAGACTTAAAATAAAGGATGAA
131 TTCTATTGTGGATATGAGAATGTGGTTTAAATTTGATAAAAGACAGACTTAAAATAAAGGATGAA
6288674 TTGAA
196 TTGAA
6288679 TGATGGGAAGAAAGAATTTGTAAACAATTGTAGTCAAAAGACCAAATTGAGTAAAATGCAAAGTT
1 TGATGGGAAGAAAGAATTTGTAAACAATTGTAGTCAAAAGACCAAATTGAGTAAAATGCAAAGTT
6288744 AAGGGACTAAATAAAAAAGAAATTACGATTTTAGTAAAACAGTAAGAATTGAAGTTACGTATGTA
66 AAGGGACTAAATAAAAAAGAAATTACGATTTTAGTAAAACAGTAAGAATTGAAGTTACGTATGTA
6288809 TTCTATTGTGGTATATGAGAATGTGGTTTAAATTTGATAAAAGACAGACTTAAAATAAAGGATGA
131 TTCTATTGTGG-ATATGAGAATGTGGTTTAAATTTGATAAAAGACAGACTTAAAATAAAGGATGA
6288874 ATTGAA
195 ATTGAA
6288880 GAAATAAGGA
Statistics
Matches: 197, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
197 141 0.72
199 11 0.06
200 13 0.07
201 32 0.16
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.28
Consensus pattern (200 bp):
TGATGGGAAGAAAGAATTTGTAAACAATTGTAGTCAAAAGACCAAATTGAGTAAAATGCAAAGTT
AAGGGACTAAATAAAAAAGAAATTACGATTTTAGTAAAACAGTAAGAATTGAAGTTACGTATGTA
TTCTATTGTGGATATGAGAATGTGGTTTAAATTTGATAAAAGACAGACTTAAAATAAAGGATGAA
TTGAA
Found at i:6288886 original size:20 final size:19
Alignment explanation
Indices: 6288860--6288926 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
6288850 AGACAGACTT
*
6288860 AAAATAAAGGATGAATTGA
1 AAAATAAAGGATAAATTGA
6288879 AGAAAT-AAGGA-AAATATGA
1 A-AAATAAAGGATAAAT-TGA
6288898 AAAATTAAAGGACTAAATTGA
1 AAAA-TAAAGGA-TAAATTGA
6288919 AAAATAAA
1 AAAATAAA
6288927 AAAATTGTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
18 6 0.15
19 11 0.27
20 13 0.32
21 7 0.17
22 4 0.10
ACGTcount: A:0.63, C:0.01, G:0.16, T:0.19
Consensus pattern (19 bp):
AAAATAAAGGATAAATTGA
Found at i:6289071 original size:22 final size:20
Alignment explanation
Indices: 6289041--6289080 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6289031 GAATCGAAGA
6289041 AATAATAAAATATGAAAAATTG
1 AATAAT-AAAT-TGAAAAATTG
*
6289063 AATACTAAATTGAAAAAT
1 AATAATAAATTGAAAAAT
6289081 AAAAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 4 0.24
22 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (20 bp):
AATAATAAATTGAAAAATTG
Found at i:6289087 original size:159 final size:157
Alignment explanation
Indices: 6288838--6289200 Score: 491
Period size: 155 Copynumber: 2.3 Consensus size: 157
6288828 AATGTGGTTT
* *
6288838 AAATTTGATAAAAGACAGACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAAATATGAAAAAT
1 AAATTTGGTAAAAGACAAACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAAATATGAAAAAT
* *
6288903 TAAAGGACTAAATTGAAAAATAAAAAAATTGTTATCAAAAAAGAGGAATTGAAATTGCATATGTA
66 TAAAGGACTAAATTGAAAAATAAAAAAA-TGTTATC-AAAAAGAGGAATTGAAAGTACATATGTA
*
6288968 TTCTACGT-TGGTTTATAAGCATGTGACTC
129 TTCTA-GTATGATTTATAAGCATGTGACTC
* *
6288997 AAATTTGGTAAAAGACAAACTTAAAATAAAGGATGAATCGAAGAAATAA-TAAAATATGAAAAAT
1 AAATTTGGTAAAAGACAAACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAAATATGAAAAAT
* * * *
6289061 TGAA-TACTAAATTGAAAAATAAAAAAATGTTATCAGAAAGAGGAATTGGAAGTACATATGTATT
66 TAAAGGACTAAATTGAAAAATAAAAAAATGTTATCAAAAAGAGGAATTGAAAGTACATATGTATT
* **
6289125 CTAGTATGATTTATGAGCATGTGGTTC
131 CTAGTATGATTTATAAGCATGTGACTC
* * * *
6289152 AAATTTGGTAAAA-AAAAGGACTTAAAATGAAGGAGGATTTGAAGAAATA
1 AAATTTGGTAAAAGACAA--ACTTAAAATAAAGGATGAATTGAAGAAATA
6289201 TTGAAATCAG
Statistics
Matches: 182, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
154 5 0.03
155 59 0.32
156 33 0.18
157 22 0.12
158 17 0.09
159 46 0.25
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.27
Consensus pattern (157 bp):
AAATTTGGTAAAAGACAAACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAAATATGAAAAAT
TAAAGGACTAAATTGAAAAATAAAAAAATGTTATCAAAAAGAGGAATTGAAAGTACATATGTATT
CTAGTATGATTTATAAGCATGTGACTC
Found at i:6289157 original size:155 final size:158
Alignment explanation
Indices: 6288789--6289200 Score: 521
Period size: 159 Copynumber: 2.6 Consensus size: 158
6288779 AAAACAGTAA
* * * * * *
6288789 GAATT-GAAGTTACGTATGTATTCTATTGTGGTATATGAGAATGTGGTTTAAATTTGATAAAAGA
1 GAATTGGAAG-TACATATGTATTCTAGT-TGGTTTATGAGCATGTGGTTCAAATTTGGTAAAAGA
*
6288853 CAGACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAAATATGAAAAATTAAAGGACTAAATTG
64 CAAACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAAATATGAAAAATTAAAGGACTAAATTG
6288918 AAAAATAAAAAAATTGTTATCAAAAAAGAG
129 AAAAATAAAAAAATTGTTATCAAAAAAGAG
* * * * **
6288948 GAATTGAAATTGCATATGTATTCTACGTTGGTTTATAAGCATGTGACTCAAATTTGGTAAAAGAC
1 GAATTGGAAGTACATATGTATTCTA-GTTGGTTTATGAGCATGTGGTTCAAATTTGGTAAAAGAC
* * * *
6289013 AAACTTAAAATAAAGGATGAATCGAAGAAATAA-TAAAATATGAAAAATTGAA-TACTAAATTGA
65 AAACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAAATATGAAAAATTAAAGGACTAAATTGA
*
6289076 AAAATAAAAAAA-TGTTATC-AGAAAGAG
130 AAAATAAAAAAATTGTTATCAAAAAAGAG
* *
6289103 GAATTGGAAGTACATATGTATTCTAGTATGATTTATGAGCATGTGGTTCAAATTTGGTAAAA-AA
1 GAATTGGAAGTACATATGTATTCTAGT-TGGTTTATGAGCATGTGGTTCAAATTTGGTAAAAGAC
* * *
6289167 AAGGACTTAAAATGAAGGAGGATTTGAAGAAATA
65 AA--ACTTAAAATAAAGGATGAATTGAAGAAATA
6289201 TTGAAATCAG
Statistics
Matches: 218, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
154 5 0.02
155 59 0.27
156 33 0.15
157 22 0.10
158 17 0.08
159 79 0.36
160 3 0.01
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.29
Consensus pattern (158 bp):
GAATTGGAAGTACATATGTATTCTAGTTGGTTTATGAGCATGTGGTTCAAATTTGGTAAAAGACA
AACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAAATATGAAAAATTAAAGGACTAAATTGAA
AAATAAAAAAATTGTTATCAAAAAAGAG
Found at i:6289621 original size:24 final size:25
Alignment explanation
Indices: 6289594--6289640 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6289584 TATATTTTCG
6289594 TCCCT-TAAAATTTTATAAGTTCAT
1 TCCCTCTAAAATTTTATAAGTTCAT
* *
6289618 TCCCTCTAAACTTTTATATGTTC
1 TCCCTCTAAAATTTTATAAGTTC
6289641 GTATTAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (25 bp):
TCCCTCTAAAATTTTATAAGTTCAT
Found at i:6291393 original size:16 final size:16
Alignment explanation
Indices: 6291369--6291419 Score: 84
Period size: 16 Copynumber: 3.1 Consensus size: 16
6291359 TGCAAAACAA
*
6291369 TTTTAAGAAAAATCAT
1 TTTTTAGAAAAATCAT
6291385 TTTTTAGAAAAATCAT
1 TTTTTAGAAAAATCAT
6291401 TTTTTATGAAAAATCAT
1 TTTTTA-GAAAAATCAT
6291418 TT
1 TT
6291420 CTTAAGACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 21 0.64
17 12 0.36
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTTTAGAAAAATCAT
Found at i:6291396 original size:17 final size:17
Alignment explanation
Indices: 6291369--6291419 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
6291359 TGCAAAACAA
*
6291369 TTTTAAGAAAAATCATT
1 TTTTATGAAAAATCATT
6291386 TTTTA-GAAAAATCATT
1 TTTTATGAAAAATCATT
6291402 TTTTATGAAAAATCATT
1 TTTTATGAAAAATCATT
6291419 T
1 T
6291420 CTTAAGACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 16 0.48
17 17 0.52
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (17 bp):
TTTTATGAAAAATCATT
Found at i:6292505 original size:29 final size:29
Alignment explanation
Indices: 6292470--6292542 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
6292460 ACTTACATGG
6292470 CTAAAATAACAAAACA-GAAAGTTAAAGGA
1 CTAAAATAACAAAACATG-AAGTTAAAGGA
* * * *
6292499 CTGAAATAGCATAAACATGAATTTACAGGA
1 CTAAAATAACA-AAACATGAAGTTAAAGGA
*
6292529 CTAAAATAATAAAA
1 CTAAAATAACAAAA
6292543 ATAGACATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
29 12 0.34
30 22 0.63
31 1 0.03
ACGTcount: A:0.58, C:0.11, G:0.12, T:0.19
Consensus pattern (29 bp):
CTAAAATAACAAAACATGAAGTTAAAGGA
Found at i:6294318 original size:3 final size:3
Alignment explanation
Indices: 6294305--6294366 Score: 65
Period size: 3 Copynumber: 20.7 Consensus size: 3
6294295 GTAATATGTA
** *
6294305 AAT AA- AAT AAT AAT AAT AAT TCT AAT AAT AAT AATT AA- AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
6294349 AAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT A-AT AA
6294367 AAAAGATCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 4 0.08
3 39 0.80
4 6 0.12
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6294985 original size:40 final size:41
Alignment explanation
Indices: 6294889--6295001 Score: 131
Period size: 40 Copynumber: 2.7 Consensus size: 41
6294879 AAGGGTGATA
* * *
6294889 ACACGGTTCCTACGTGATGAGGACGTCTGGTTATCTAGGGTTG
1 ACACGGTTCCTACGTGATGAAGACGTCTGG-T-TCAAGGGATG
*
6294932 ACACGGCTCCTACGTGATGAAGA-GATCTGG-TCAAGGGATG
1 ACACGGTTCCTACGTGATGAAGACG-TCTGGTTCAAGGGATG
* *
6294972 ACACGGTTCCTACGTGATGAGGACGACTGG
1 ACACGGTTCCTACGTGATGAAGACGTCTGG
6295002 CCATCTCTAG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
40 33 0.54
41 1 0.02
42 1 0.02
43 26 0.43
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (41 bp):
ACACGGTTCCTACGTGATGAAGACGTCTGGTTCAAGGGATG
Found at i:6295007 original size:134 final size:132
Alignment explanation
Indices: 6294579--6294991 Score: 619
Period size: 134 Copynumber: 3.1 Consensus size: 132
6294569 ACTCGGTTCC
** *
6294579 TACGTGATGAAGAGTTCTTGGCCATCTTTAGGAAGGGTGATAACTTGGTTCCTACGCGATGAGGA
1 TACGTGATGAAGAGTTC-TGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGA
* * *
6294644 CGGCTGGTTATCTAGGGGTGACACGGCTCCTACGCGATGAGGAGATCTAGTCGGGAGATGACATG
65 CGTCTGGTTATCTA-GGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGG-GATGACACG
6294709 GCTCA
128 GCTCA
* *
6294714 TATGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACACGGTTCCTACGTGATGAGGAC
1 TACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGAC
* *
6294779 GTCTGGTTATCTAGGAGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGGGACGACACGA
66 GTCTGGTTATCTAGG-GTGACACGGCTCCTACGCGATGAGGAGATCTGGTC-GGGGATGACACGG
6294844 CTCA
129 CTCA
*
6294848 TACGTGGTGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGAC
1 TACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGAC
* * *
6294913 GTCTGGTTATCTAGGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCAAGGGATGACACGG
66 GTCTGGTTATCTAGGG-TGACACGGCTCCTACGCGATGAGGAGATCTGGTC-GGGGATGACACGG
* *
6294978 TTCC
129 CTCA
6294982 TACGTGATGA
1 TACGTGATGA
6294992 GGACGACTGG
Statistics
Matches: 253, Mismatches: 22, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
133 3 0.01
134 231 0.91
135 19 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (132 bp):
TACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGAC
GTCTGGTTATCTAGGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGGATGACACGGCT
CA
Found at i:6295983 original size:30 final size:30
Alignment explanation
Indices: 6295949--6296079 Score: 106
Period size: 30 Copynumber: 4.1 Consensus size: 30
6295939 TGAGACAAAA
*
6295949 TTTTGTTTCCAAAGAAACAGACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAGACTCAAAGAT
**
6295979 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAA-A-
1 TTTTGTTTCAAAAG-AA--A-C-----AGACTCAAAGAT
* *
6296016 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAGACTCAAAGAT
6296046 TTTTGTTTCAAAAGAAACA-ATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACAGA-CTCAAAGAT
6296076 TTTT
1 TTTT
6296080 TCGCAAAATT
Statistics
Matches: 81, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
28 6 0.07
29 2 0.02
30 44 0.54
31 2 0.02
33 2 0.02
34 2 0.02
36 2 0.02
37 13 0.16
38 1 0.01
39 7 0.09
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAGACTCAAAGAT
Found at i:6296020 original size:67 final size:66
Alignment explanation
Indices: 6295931--6296062 Score: 237
Period size: 67 Copynumber: 2.0 Consensus size: 66
6295921 CAGAAAATTA
* *
6295931 TATCTTAGTGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAA
1 TATCTTAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAA
6295996 T
66 T
6295997 TATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAA
1 TATCTT-AGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAA
6296062 A
65 A
6296063 CAATCTCAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
66 6 0.10
67 57 0.90
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (66 bp):
TATCTTAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAA
T
Found at i:6296086 original size:29 final size:30
Alignment explanation
Indices: 6296026--6296087 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
6296016 TTTTGTTTCC
**
6296026 AAAGAAACAAACTCAAAGATTTTTGTTTCA
1 AAAGAAACAAACTCAAAGATTTTTGTCGCA
*
6296056 AAAGAAACAATCTCAAAGATTTTT-TCGCA
1 AAAGAAACAAACTCAAAGATTTTTGTCGCA
6296085 AAA
1 AAA
6296088 TTGTCTCAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (30 bp):
AAAGAAACAAACTCAAAGATTTTTGTCGCA
Found at i:6296143 original size:52 final size:52
Alignment explanation
Indices: 6296067--6296168 Score: 170
Period size: 52 Copynumber: 2.0 Consensus size: 52
6296057 AAGAAACAAT
*
6296067 CTCAAAGATTTTTTCGCAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGAC-AAACTTTGTTTCAGA
*
6296120 CTCAAAGA-TTTTTCACGAAATTGTCTCAAGAGAGACAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAACTTTGTTTCA
6296169 AAATAAATAG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 13 0.28
52 26 0.55
53 8 0.17
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (52 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAACTTTGTTTCAGA
Found at i:6296195 original size:28 final size:28
Alignment explanation
Indices: 6296164--6296289 Score: 157
Period size: 29 Copynumber: 4.5 Consensus size: 28
6296154 ACAAACTTTG
* * *
6296164 TTTCAAAATAAATAGACTCAAAGATTTT
1 TTTCAAAAGAAACAAACTCAAAGATTTT
6296192 TTTCAAAAGAAAC-AACTCAAAGATTTT
1 TTTCAAAAGAAACAAACTCAAAGATTTT
* *
6296219 TATTCAAAAGGAACAAACTCCAAGATTTT
1 T-TTCAAAAGAAACAAACTCAAAGATTTT
*
6296248 TGTTCAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGAAACAAACTCAAAGATTTT
6296277 TTT-AAAGAGAAAC
1 TTTCAAA-AGAAAC
6296290 TGTCTCAAGA
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
27 17 0.20
28 29 0.33
29 41 0.47
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.29
Consensus pattern (28 bp):
TTTCAAAAGAAACAAACTCAAAGATTTT
Found at i:6296247 original size:29 final size:28
Alignment explanation
Indices: 6296179--6296279 Score: 159
Period size: 29 Copynumber: 3.6 Consensus size: 28
6296169 AAATAAATAG
*
6296179 ACTCAAAGATTTTTTTCAAAAGAAAC-A
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
6296206 ACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAAGGAACAA
*
6296235 ACTCCAAGATTTTTGTTCAAAAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAAGGAACAA
6296264 ACTCAAAGATTTTTTT
1 ACTCAAAGATTTTTTT
6296280 AAAGAGAAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
27 14 0.21
28 13 0.19
29 41 0.60
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (28 bp):
ACTCAAAGATTTTTTTCAAAAGGAACAA
Found at i:6296611 original size:36 final size:36
Alignment explanation
Indices: 6296527--6296630 Score: 115
Period size: 36 Copynumber: 3.0 Consensus size: 36
6296517 GAGAAAATGA
* ** *
6296527 TGTCTCAAGCGAGACGAAATTT-GCTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTATTTTTAGAGAAAT
* **
6296561 AGTCTCAAATGAGACAAAATTTATTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTATTTTTAGAGAAAT
*
6296597 TGTCTCAAGCGAGACAAAGTTTATTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTATTTTTAGAGAAA
6296631 ACGATCTCAA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
34 18 0.32
35 10 0.18
36 29 0.51
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTATTTTTAGAGAAAT
Found at i:6296639 original size:36 final size:36
Alignment explanation
Indices: 6296528--6296646 Score: 102
Period size: 36 Copynumber: 3.4 Consensus size: 36
6296518 AGAAAATGAT
* ** *
6296528 GTCTCAAGCGAGACGAAATTT-GCTTTA-AGATATA-
1 GTCTCAAGCGAGACAAAATTTATTTTTAGAGA-AAAC
** **
6296562 GTCTCAAATGAGACAAAATTTATTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAATTTATTTTTAGAGAAAAC
*
6296598 GTCTCAAGCGAGACAAAGTTTATTTTT-GAGAAAAC
1 GTCTCAAGCGAGACAAAATTTATTTTTAGAGAAAAC
*
6296633 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
6296647 TCAACTTTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
34 18 0.26
35 12 0.18
36 38 0.56
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTATTTTTAGAGAAAAC
Found at i:6297277 original size:4 final size:4
Alignment explanation
Indices: 6297268--6297955 Score: 1044
Period size: 4 Copynumber: 176.5 Consensus size: 4
6297258 TTATGTATCA
* *
6297268 GTAT GTAT GTAT GTAT GTA- -TAT GTAT ATAT GTAT ATAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
6297314 ATAT GTAT GTAT GTAT GTAT GTAT ATAT GTAT G-AT GTAT GTCT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6297361 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- -TAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
6297407 GTAT GTAT ATAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- -TAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6297453 GT-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT-T GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6297499 GTAT GTAT GTAT GTAT GTAT GTTAT GTAT GTAT GTAT GTAT GTAT GT-T
1 GTAT GTAT GTAT GTAT GTAT G-TAT GTAT GTAT GTAT GTAT GTAT GTAT
6297547 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G--T
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
6297593 GTAT GTAT GTTAT GTAT GTAT TTAT GTATT GTAT GTAT GTAT GTAT TTAT
1 GTAT GTAT G-TAT GTAT GTAT GTAT GTA-T GTAT GTAT GTAT GTAT GTAT
*
6297643 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTCT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6297690 -TAT GTAT GTAT GTAT GTAT GTAT G--T GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
6297735 GTAT GGAT GT-T AGTAT GTAT GTA- -TAT GTAT GTAT GTAT GTCT GTAT
1 GTAT GTAT GTAT -GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6297781 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
6297829 GTAT ATAT G--T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
6297875 GTAT G-GT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
6297922 GTAT GTAT GTAT GTGAT GTAT GTAT ATA- GTAT GT
1 GTAT GTAT GTAT GT-AT GTAT GTAT GTAT GTAT GT
6297956 TTTTCTCGAT
Statistics
Matches: 628, Mismatches: 28, Indels: 56
0.88 0.04 0.08
Matches are distributed among these distances:
2 16 0.03
3 17 0.03
4 578 0.92
5 17 0.03
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:6298505 original size:13 final size:13
Alignment explanation
Indices: 6298487--6298513 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6298477 TTGATGTCAC
6298487 TGGTCTGATGGAG
1 TGGTCTGATGGAG
6298500 TGGTCTGATGGAG
1 TGGTCTGATGGAG
6298513 T
1 T
6298514 AGCTTAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.44, T:0.33
Consensus pattern (13 bp):
TGGTCTGATGGAG
Found at i:6299847 original size:45 final size:45
Alignment explanation
Indices: 6299756--6299848 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
6299746 ATAAATACAG
** * *
6299756 TGTTTCAAGGTGGAAAGAATGTTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTCAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
*
6299801 TGTTTCAAGGTCAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGTCAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
6299846 TGT
1 TGT
6299849 CAAAAAGGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTCAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:6301155 original size:95 final size:95
Alignment explanation
Indices: 6300992--6301182 Score: 382
Period size: 95 Copynumber: 2.0 Consensus size: 95
6300982 TACTGCTGGA
6300992 TTACTCCTTAGATCAGTGGATTATCATATCAGTCTCGAATGATGCACGATCTTCGAGAAAATCTC
1 TTACTCCTTAGATCAGTGGATTATCATATCAGTCTCGAATGATGCACGATCTTCGAGAAAATCTC
6301057 ATTCTTGTACTCTGGACTTCTTTTTAGCCC
66 ATTCTTGTACTCTGGACTTCTTTTTAGCCC
6301087 TTACTCCTTAGATCAGTGGATTATCATATCAGTCTCGAATGATGCACGATCTTCGAGAAAATCTC
1 TTACTCCTTAGATCAGTGGATTATCATATCAGTCTCGAATGATGCACGATCTTCGAGAAAATCTC
6301152 ATTCTTGTACTCTGGACTTCTTTTTAGCCC
66 ATTCTTGTACTCTGGACTTCTTTTTAGCCC
6301182 T
1 T
6301183 CGATGCATGT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (95 bp):
TTACTCCTTAGATCAGTGGATTATCATATCAGTCTCGAATGATGCACGATCTTCGAGAAAATCTC
ATTCTTGTACTCTGGACTTCTTTTTAGCCC
Done.