Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 33
Found at i:5922052 original size:13 final size:13
Alignment explanation
Indices: 5922036--5922065 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5922026 AAGTTCAATA
5922036 AATTCAAATACTT
1 AATTCAAATACTT
*
5922049 AATTGAAATACTT
1 AATTCAAATACTT
5922062 AATT
1 AATT
5922066 AACTCAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (13 bp):
AATTCAAATACTT
Found at i:5922172 original size:32 final size:33
Alignment explanation
Indices: 5922076--5922174 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
5922066 AACTCAACAT
* * *
5922076 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
5922109 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
5922142 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
5922174 A
1 A
5922175 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:5922193 original size:21 final size:21
Alignment explanation
Indices: 5922169--5922208 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5922159 ACTTCAAGTT
5922169 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
5922190 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
5922209 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:5924520 original size:11 final size:12
Alignment explanation
Indices: 5924499--5924544 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
5924489 TCCGGATAAA
5924499 AACCGGTTTTTT
1 AACCGGTTTTTT
5924511 AACCGGTTTTTTT
1 AACCGG-TTTTTT
5924524 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
*
5924538 ATCCGGT
1 AACCGGT
5924545 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:5924529 original size:15 final size:14
Alignment explanation
Indices: 5924498--5924537 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
5924488 TTCCGGATAA
5924498 AAACCGG-TTTTTT
1 AAACCGGTTTTTTT
5924511 -AACCGGTTTTTTT
1 AAACCGGTTTTTTT
5924524 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
5924538 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:5924614 original size:20 final size:20
Alignment explanation
Indices: 5924589--5924628 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
5924579 GTTAAAATAA
* *
5924589 CCGGTTTAAAAAAATCCGAT
1 CCGGTTAAAAAAAAACCGAT
5924609 CCGGTTAAAAAAAAACCGAT
1 CCGGTTAAAAAAAAACCGAT
5924629 TTTTCCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (20 bp):
CCGGTTAAAAAAAAACCGAT
Found at i:5928313 original size:2 final size:2
Alignment explanation
Indices: 5928306--5928331 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5928296 ATTTGCTTAT
5928306 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
5928332 CATTTCCTCA
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):
TA
Found at i:5929097 original size:2 final size:2
Alignment explanation
Indices: 5929090--5929114 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5929080 ATTGGTTAAG
5929090 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5929115 ATCCTTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5932230 original size:41 final size:40
Alignment explanation
Indices: 5932174--5932293 Score: 179
Period size: 41 Copynumber: 3.0 Consensus size: 40
5932164 CGTTTATACC
*
5932174 ACAAACGCCGTAATAGTGTTAATCAATAGTGGCGTTTTTA
1 ACAAACGCCATAATAGTGTTAATCAATAGTGGCGTTTTTA
* * *
5932214 GATAAACGCCACAATAGTTTTAATCAATAGTGGCGTTTTTTA
1 -ACAAACGCCATAATAGTGTTAATCAATAGTGGCG-TTTTTA
5932256 ACAAACGCCATAATAGTG-TAATCAATAGTGGCGTTTTT
1 ACAAACGCCATAATAGTGTTAATCAATAGTGGCGTTTTT
5932294 TTGTATAAAC
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
39 5 0.07
40 15 0.21
41 45 0.63
42 6 0.08
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (40 bp):
ACAAACGCCATAATAGTGTTAATCAATAGTGGCGTTTTTA
Found at i:5932334 original size:81 final size:81
Alignment explanation
Indices: 5932174--5932335 Score: 188
Period size: 82 Copynumber: 2.0 Consensus size: 81
5932164 CGTTTATACC
* * *
5932174 ACAAACGCCGTAATAGTGTTAATCAATAGTGGCGTTTTTAGATAAACGCCACAATAGTTTTAATC
1 ACAAACGCCATAATAGTGTTAATCAATAGTGGCGTTTTTAGATAAACGCCACAAAAGTTTAAATC
* *
5932239 AATAGTGGCGTTTTTTA
66 AATAAT-GCATTTTTTA
* *
5932256 ACAAACGCCATAATAGTG-TAATCAATAGTGGCGTTTTTTTGTATAAACGCCGCAAAA-TGTTAA
1 ACAAACGCCATAATAGTGTTAATCAATAGTGGCG-TTTTTAG-ATAAACGCCACAAAAGT-TTAA
5932319 AT-ATATAAT-CATTTTTT
63 ATCA-ATAATGCATTTTTT
5932336 TCTCCTACCC
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
81 22 0.32
82 25 0.36
83 22 0.32
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (81 bp):
ACAAACGCCATAATAGTGTTAATCAATAGTGGCGTTTTTAGATAAACGCCACAAAAGTTTAAATC
AATAATGCATTTTTTA
Found at i:5940485 original size:21 final size:21
Alignment explanation
Indices: 5940461--5940539 Score: 63
Period size: 21 Copynumber: 3.7 Consensus size: 21
5940451 ATGAAGTAAG
5940461 GGAAACAGAGAGAGCAGCAGC
1 GGAAACAGAGAGAGCAGCAGC
* *
5940482 GGAAGCA-ACTAGAGCAGCAGC
1 GGAAACAGA-GAGAGCAGCAGC
* *
5940503 -GAAAGTAGAGAGAGAAGCAGC
1 GGAAA-CAGAGAGAGCAGCAGC
*
5940524 GGCAGCACAGAGAGAG
1 GG-A-AACAGAGAGAG
5940540 GCACCGGCAG
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
20 4 0.09
21 28 0.64
22 2 0.05
23 9 0.20
24 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.38, T:0.03
Consensus pattern (21 bp):
GGAAACAGAGAGAGCAGCAGC
Found at i:5940547 original size:21 final size:21
Alignment explanation
Indices: 5940511--5940561 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
5940501 GCGAAAGTAG
* *
5940511 AGAGAGAAGCAGCGGCAGCAC
1 AGAGAGAAGCACCGGCAGAAC
*
5940532 AGAGAGAGGCACCGGCAGAAC
1 AGAGAGAAGCACCGGCAGAAC
5940553 AGAGAGAAG
1 AGAGAGAAG
5940562 TAATATATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.39, T:0.00
Consensus pattern (21 bp):
AGAGAGAAGCACCGGCAGAAC
Found at i:5941032 original size:43 final size:42
Alignment explanation
Indices: 5940895--5941121 Score: 154
Period size: 43 Copynumber: 5.3 Consensus size: 42
5940885 CATACATTTA
* * *
5940895 GCGGCGTTTGTGATA-AAAACGCCGCAAAATC-TCAAGACATATTCT
1 GCGGCGTTTGT-A-AGAAAACGCCGCTAAA-CATCAACACCTA-T-T
* * * * * *
5940940 GCGGCGTTTGTAGGAAAACGCCGGTAAAAATAAACATCTACT
1 GCGGCGTTTGTAAGAAAACGCCGCTAAACATCAACACCTATT
*
5940982 GCAGCGTTTGTGAAGAAAACGCCGCTAAACATCAACGA-CTATT
1 GCGGCGTTTGT-AAGAAAACGCCGCTAAACATCAAC-ACCTATT
** * * * *
5941025 GCGGCGTTTGTCTGCCAAATGCCGTTAAATATCAACACCTATT
1 GCGGCGTTTGTAAG-AAAACGCCGCTAAACATCAACACCTATT
* * * * * *
5941068 GCGGCGTTTTTATGCCAAACGCCGCTAAATATCAATACCTTTT
1 GCGGCGTTTGTAAG-AAAACGCCGCTAAACATCAACACCTATT
5941111 GCGGCGTTTGT
1 GCGGCGTTTGT
5941122 TGAACAATCG
Statistics
Matches: 147, Mismatches: 29, Indels: 14
0.77 0.15 0.07
Matches are distributed among these distances:
42 13 0.09
43 103 0.70
44 20 0.14
45 11 0.07
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (42 bp):
GCGGCGTTTGTAAGAAAACGCCGCTAAACATCAACACCTATT
Found at i:5941134 original size:43 final size:43
Alignment explanation
Indices: 5941001--5941137 Score: 154
Period size: 43 Copynumber: 3.2 Consensus size: 43
5940991 GTGAAGAAAA
* *
5941001 CGCCGCTAAACATCAACGA-CTATTGCGGCGTTTGTCTGCCAAAT
1 CGCCGCTAAATATCAAC-ACCTATTGCGGCGTTTGTATGCC-AAT
* * *
5941045 -GCCGTTAAATATCAACACCTATTGCGGCGTTTTTATGCCAAA
1 CGCCGCTAAATATCAACACCTATTGCGGCGTTTGTATGCCAAT
* * *
5941087 CGCCGCTAAATATCAATACCTTTTGCGGCGTTTGT-TGAACAAT
1 CGCCGCTAAATATCAACACCTATTGCGGCGTTTGTATG-CCAAT
5941130 CGCCGCTA
1 CGCCGCTA
5941138 TATGTTGTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
42 5 0.06
43 74 0.94
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (43 bp):
CGCCGCTAAATATCAACACCTATTGCGGCGTTTGTATGCCAAT
Found at i:5949329 original size:21 final size:22
Alignment explanation
Indices: 5949300--5949340 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
5949290 CATAGCCCTG
5949300 ATTTCCTCTTCTAGATGTTTTC
1 ATTTCCTCTTCTAGATGTTTTC
*
5949322 ATTT-CTCTTCTAGCTGTTT
1 ATTTCCTCTTCTAGATGTTT
5949341 GTTCTGCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.22, G:0.10, T:0.56
Consensus pattern (22 bp):
ATTTCCTCTTCTAGATGTTTTC
Found at i:5950136 original size:95 final size:95
Alignment explanation
Indices: 5949973--5950166 Score: 388
Period size: 95 Copynumber: 2.0 Consensus size: 95
5949963 ATAAATAAAG
5949973 TTCGATTACAAGGCTTAAACATATCATAGATAGATCTGAGCTATCTTCCCTAATTGTTGCATATG
1 TTCGATTACAAGGCTTAAACATATCATAGATAGATCTGAGCTATCTTCCCTAATTGTTGCATATG
5950038 GCCAAGTAATTCCAAAATCCTATGAGCTTC
66 GCCAAGTAATTCCAAAATCCTATGAGCTTC
5950068 TTCGATTACAAGGCTTAAACATATCATAGATAGATCTGAGCTATCTTCCCTAATTGTTGCATATG
1 TTCGATTACAAGGCTTAAACATATCATAGATAGATCTGAGCTATCTTCCCTAATTGTTGCATATG
5950133 GCCAAGTAATTCCAAAATCCTATGAGCTTC
66 GCCAAGTAATTCCAAAATCCTATGAGCTTC
5950163 TTCG
1 TTCG
5950167 GTCTTGAGTT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 99 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (95 bp):
TTCGATTACAAGGCTTAAACATATCATAGATAGATCTGAGCTATCTTCCCTAATTGTTGCATATG
GCCAAGTAATTCCAAAATCCTATGAGCTTC
Found at i:5954965 original size:93 final size:89
Alignment explanation
Indices: 5954850--5955032 Score: 280
Period size: 87 Copynumber: 2.0 Consensus size: 89
5954840 GCTGTTGGGC
*
5954850 TTTGAATTTTTCTTTGTAACCTGGGCCGGTAACCGAAAGTAATAAAAATTATCATTTCTTTTAGA
1 TTTGAATTTTTCTTTGTAACCTGGGCC-G-----GAAAGTAATAAAAATTATCATTTCCTTTAGA
5954915 GTTAGTTCTTCATATATATATATATATATA
60 GTTAGTTCTTCATATATATATATATATATA
*
5954945 TTTGAA-TTTT-TTTGTAACCTGGGCCGGAAAGTAATAAAAATTATCATTTCCTTTAGATTTAGT
1 TTTGAATTTTTCTTTGTAACCTGGGCCGGAAAGTAATAAAAATTATCATTTCCTTTAGAGTTAGT
5955008 TCTTCATATATATATATATATATA
66 TCTTCATATATATATATATATATA
5955032 T
1 T
5955033 ATATATGAAA
Statistics
Matches: 86, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
87 60 0.70
92 1 0.01
93 15 0.17
94 4 0.05
95 6 0.07
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (89 bp):
TTTGAATTTTTCTTTGTAACCTGGGCCGGAAAGTAATAAAAATTATCATTTCCTTTAGAGTTAGT
TCTTCATATATATATATATATATA
Found at i:5955020 original size:2 final size:2
Alignment explanation
Indices: 5955013--5955038 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5955003 TTAGTTCTTC
5955013 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
5955039 GAAAAATGCT
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:5955733 original size:22 final size:21
Alignment explanation
Indices: 5955680--5955738 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
5955670 AAATTCTTGA
5955680 AACTTTT-ATTTAAAAAACTTT
1 AACTTTTAATTT-AAAAACTTT
*
5955701 AAATTTATAATTTAAAAACTTTT
1 AACTTT-TAATTTAAAAAC-TTT
*
5955724 AACTTTTAATATAAA
1 AACTTTTAATTTAAA
5955739 TTATATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 5 0.16
22 15 0.47
23 12 0.38
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (21 bp):
AACTTTTAATTTAAAAACTTT
Found at i:5955853 original size:17 final size:17
Alignment explanation
Indices: 5955823--5955862 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
5955813 ATCATCAACA
5955823 TTAAA-TATAAAAATAT
1 TTAAATTATAAAAATAT
* *
5955839 TTAAATTATATAAATTT
1 TTAAATTATAAAAATAT
5955856 TTAAATT
1 TTAAATT
5955863 TTTTTCAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAATTATAAAAATAT
Found at i:5960003 original size:64 final size:64
Alignment explanation
Indices: 5959930--5960544 Score: 998
Period size: 64 Copynumber: 9.6 Consensus size: 64
5959920 TGCAGCTTTT
* *
5959930 AGAGTCAATTTCAACTTCACAACGAATGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * *
5959994 AGAGTCAATTTCAACTTCACAGCAAAGGATATTAGATTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * * *
5960058 ATAGTCAATTTCAACTTCACAACAAAGGATATTGGATTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
5960122 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAA-ACACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACA-ACTTTCCAGTTTCATTC
* *
5960186 AGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTTATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* *
5960250 AGAGTCAATTTCAACTTCACAGTGAAGGATATTGAACTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * *
5960314 AGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAACAAACAACTTTCCAGATTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
*
5960378 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAATAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * * *
5960442 AGAGTCAATTTTAACTTCACAACGAAGAATATTGGACTCAACAAACAACTTTCCAGTTTTATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* **
5960506 AGAGTCAATTTCAACTTCACAGTGAATAATATTGGACTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
5960545 GAAACAAGGC
Statistics
Matches: 513, Mismatches: 36, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
63 1 0.00
64 511 1.00
65 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
Found at i:5960793 original size:124 final size:124
Alignment explanation
Indices: 5960627--5961102 Score: 700
Period size: 124 Copynumber: 3.8 Consensus size: 124
5960617 TGAAACAACC
*
5960627 ATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACAAAGGAGCCA
1 ATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCA
* *
5960692 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAATATCCATCTCTAG
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGAAACATCCATCTCTAG
* * * *
5960751 ATTGGATTTCAACTTCACAACGAAGGATATCCAATTTAAAGCTAAACTTCACAACGAAGAAGTCA
1 ATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCA
* **
5960816 TCAACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGAAACATTTATCTCTAG
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGAAACATCCATCTCTAG
* * *
5960875 ATTGGATTTCAACTTCACAACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAACCA
1 ATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCA
* * * * * * *
5960940 TCCACGATATCAACTTCACAACGAATGATATCGAGCCCACAAGTAGCATCCACCTCTAG
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGAAACATCCATCTCTAG
* * * * *
5960999 ATTGGATTTCAACTTCACAATGCAGGATATCCAACTCAAAGCTCAACTTCACGACGAATGAGCCA
1 ATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCA
* * *
5961064 TCCACGATTTCAACTTCATGACGAAAGATATTGTGCCCA
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCA
5961103 ACAGATCGAC
Statistics
Matches: 313, Mismatches: 39, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
124 313 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (124 bp):
ATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCA
TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGAAACATCCATCTCTAG
Found at i:5961320 original size:85 final size:84
Alignment explanation
Indices: 5961166--5961327 Score: 243
Period size: 85 Copynumber: 1.9 Consensus size: 84
5961156 TTCCCCAGCT
* * **
5961166 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTATCAACCAAGACCTTCGAGTTTGATTACA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTATCAACAAAGACCTTCGAGTTCAATTACA
5961231 TTCAGCTCAGAGGCGTATTG
66 TTCAGCTC-GAGGCGTATTG
* ***
5961251 AATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAGACCTTCGAGTTCAATTTTG
1 AATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTATCAACAAAGACCTTCGAGTTCAATTACA
5961316 TTCAGCTCGAGG
66 TTCAGCTCGAGG
5961328 GCCTATCAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
84 4 0.06
85 65 0.94
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (84 bp):
AATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTATCAACAAAGACCTTCGAGTTCAATTACA
TTCAGCTCGAGGCGTATTG
Found at i:5963686 original size:65 final size:65
Alignment explanation
Indices: 5963582--5963714 Score: 266
Period size: 65 Copynumber: 2.0 Consensus size: 65
5963572 AAGTCGAAGC
5963582 CCAATTCCGGGCCCACCCGAAAGACGGTCGCGACAATATCAATACCTTATTGTAGGATATTGATA
1 CCAATTCCGGGCCCACCCGAAAGACGGTCGCGACAATATCAATACCTTATTGTAGGATATTGATA
5963647 CCAATTCCGGGCCCACCCGAAAGACGGTCGCGACAATATCAATACCTTATTGTAGGATATTGATA
1 CCAATTCCGGGCCCACCCGAAAGACGGTCGCGACAATATCAATACCTTATTGTAGGATATTGATA
5963712 CCA
1 CCA
5963715 TACATTAATA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (65 bp):
CCAATTCCGGGCCCACCCGAAAGACGGTCGCGACAATATCAATACCTTATTGTAGGATATTGATA
Found at i:5969387 original size:26 final size:26
Alignment explanation
Indices: 5969351--5969425 Score: 123
Period size: 26 Copynumber: 2.9 Consensus size: 26
5969341 CTTTACAGCT
* *
5969351 GGACAGTAAGTACTTTCCAATTAATA
1 GGACACTAAGTACTTTCCAATAAATA
5969377 GGACACTAAGTACTTTCCAATAAATA
1 GGACACTAAGTACTTTCCAATAAATA
*
5969403 GAACACTAAGTACTTTCCAATAA
1 GGACACTAAGTACTTTCCAATAA
5969426 TTAACTAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (26 bp):
GGACACTAAGTACTTTCCAATAAATA
Found at i:5969623 original size:49 final size:49
Alignment explanation
Indices: 5969570--5969677 Score: 128
Period size: 49 Copynumber: 2.2 Consensus size: 49
5969560 GTAGCAGTAA
** * * *
5969570 AGCGCGCCCCTGAACC-GCGTTATACGTTGATTTGGCGTCACGTGGGTAT
1 AGCGCGCCCCTG-ACCTGCGACATACGGTGATTTGACGTCAAGTGGGTAT
* *
5969619 AGCGCGCCCCTGCCCTGCGACATACGGTGATTTGACGTCAAGTGTGTAT
1 AGCGCGCCCCTGACCTGCGACATACGGTGATTTGACGTCAAGTGGGTAT
*
5969668 AGTGCGCCCC
1 AGCGCGCCCC
5969678 CTAATCCGCG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
48 2 0.04
49 48 0.96
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.24
Consensus pattern (49 bp):
AGCGCGCCCCTGACCTGCGACATACGGTGATTTGACGTCAAGTGGGTAT
Found at i:5969845 original size:20 final size:19
Alignment explanation
Indices: 5969815--5969855 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
5969805 TTTTATCACA
*
5969815 CTAAATTCTCTCAAATTCT
1 CTAAATTCTCTCAAATACT
5969834 CTAAATTTCTCTCAAATACT
1 CTAAA-TTCTCTCAAATACT
5969854 CT
1 CT
5969856 CTCTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (19 bp):
CTAAATTCTCTCAAATACT
Found at i:5969858 original size:12 final size:10
Alignment explanation
Indices: 5969817--5969856 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
5969807 TTATCACACT
5969817 AAATTCTCTC
1 AAATTCTCTC
5969827 AAATTCTCT-
1 AAATTCTCTC
5969836 AAATTTCTCTC
1 AAA-TTCTCTC
*
5969847 AAATACTCTC
1 AAATTCTCTC
5969857 TCTTTTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:5972115 original size:18 final size:18
Alignment explanation
Indices: 5972089--5972153 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
5972079 TGCTCAGGAC
5972089 GACGACGACGACGATGGT
1 GACGACGACGACGATGGT
5972107 GACGTCGACGACGACGATGGT
1 GA---CGACGACGACGATGGT
*
5972128 GACGACGACGACGATGAT
1 GACGACGACGACGATGGT
*
5972146 GACAACGA
1 GACGACGA
5972154 GGAGTCAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 24 0.57
21 18 0.43
ACGTcount: A:0.31, C:0.23, G:0.35, T:0.11
Consensus pattern (18 bp):
GACGACGACGACGATGGT
Found at i:5972115 original size:21 final size:21
Alignment explanation
Indices: 5972086--5972146 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
5972076 ACCTGCTCAG
5972086 GACGACGACGACGACGATGGT
1 GACGACGACGACGACGATGGT
*
5972107 GACGTCGACGACGACGATGGT
1 GACGACGACGACGACGATGGT
*
5972128 GACGACGACGACGATGATG
1 GACGACGACGACGACGATG
5972147 ACAACGAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.28, C:0.23, G:0.38, T:0.11
Consensus pattern (21 bp):
GACGACGACGACGACGATGGT
Found at i:5972417 original size:38 final size:34
Alignment explanation
Indices: 5972364--5972446 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 34
5972354 TTCAGTTAAT
5972364 TTTGTT-TA-TTACCATTTAATATCCGTTATTGTAA-
1 TTTGTTATATTTACCATTTAAT-T-C-TTATTGTAAG
5972398 TTTGGTTATCATTTACCATTTAATTCTTATTGTAAG
1 TTT-GTTAT-ATTTACCATTTAATTCTTATTGTAAG
5972434 TTTGTTATATTTA
1 TTTGTTATATTTA
5972447 AAAACCAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
34 8 0.18
35 17 0.39
36 5 0.11
37 2 0.05
38 12 0.27
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (34 bp):
TTTGTTATATTTACCATTTAATTCTTATTGTAAG
Found at i:5976154 original size:51 final size:50
Alignment explanation
Indices: 5976051--5976154 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 50
5976041 CGCGGAGCAT
* * *
5976051 GGGGCGCGCTATACCCCACGTGTAACCCAGTCAGCATATAGCACGGTACAG
1 GGGGCACGCTATACCCCACGTG-AACCCAATCAGCATATAGCACAGTACAG
* * *
5976102 GGGGCACGCTATACTCCACGTG-ACGCCAAATCAGCATATAGTACAGTTCAG
1 GGGGCACGCTATACCCCACGTGAAC-CC-AATCAGCATATAGCACAGTACAG
5976153 GG
1 GG
5976155 AGAGCGCTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
49 2 0.04
50 2 0.04
51 41 0.91
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (50 bp):
GGGGCACGCTATACCCCACGTGAACCCAATCAGCATATAGCACAGTACAG
Found at i:5979589 original size:25 final size:25
Alignment explanation
Indices: 5979561--5979610 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
5979551 TTGAAAATAT
5979561 GTTTTCAACTCTTAAAATTATATAA
1 GTTTTCAACTCTTAAAATTATATAA
** * *
5979586 GTTTTCTTCTTTTAAAATTTTATAA
1 GTTTTCAACTCTTAAAATTATATAA
5979611 ATTCATCCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (25 bp):
GTTTTCAACTCTTAAAATTATATAA
Found at i:5980295 original size:17 final size:18
Alignment explanation
Indices: 5980273--5980313 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
5980263 TTCACTAAAT
5980273 AAATTATAC-TTTATATA
1 AAATTATACTTTTATATA
5980290 AAATTATACTTTTTATATA
1 AAATTATAC-TTTTATATA
5980309 AAATT
1 AAATT
5980314 TTATGTCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 9 0.41
19 13 0.59
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATTATACTTTTATATA
Found at i:5984350 original size:184 final size:178
Alignment explanation
Indices: 5984122--5984486 Score: 543
Period size: 184 Copynumber: 2.0 Consensus size: 178
5984112 AATTAAACGT
*
5984122 TTTTTAATTAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAGA
1 TTTTTAATTAAAAAAAGTTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAGA
* * *
5984187 TAAAT-TTTTTAATTAATTAATATTGATTTAGGTTTAAATGTTATTGGATCTTAAATTATTAATT
66 T-AATGTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTAGATCTTAAATTATTAATT
*
5984251 GGGTTTTAAATGGTTTGGGCTTAGCCCATATGTTATATATAATATATATAATA
130 GGGTTTTAAATGGTTT-GG---AGCCCATATGTTATATATAATATATATAAAA
** **
5984304 TTTTTAATTAAAAAAACAGTTTAAAATTAATTTAAATAATATATAATTATAAAATAAATTTTTTT
1 TTTTTAATT-AAAAAA-AGTTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCA
* *
5984369 TATAATGTTTTTAGTTAATTAATATTGATTTAGATTTAAAAGTTATTAGATCTTAAATTATTAAT
64 GATAATGTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTAGATCTTAAATTATTAAT
* *
5984434 TGGGTTTTAAATGGTTTGGAGTCCATATGTTATATATAATATATTTAAAA
129 TGGGTTTTAAATGGTTTGGAGCCCATATGTTATATATAATATATATAAAA
5984484 TTT
1 TTT
5984487 AAAATTTAAT
Statistics
Matches: 167, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
180 31 0.19
182 9 0.05
183 11 0.07
184 116 0.69
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (178 bp):
TTTTTAATTAAAAAAAGTTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAGA
TAATGTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTAGATCTTAAATTATTAATTG
GGTTTTAAATGGTTTGGAGCCCATATGTTATATATAATATATATAAAA
Found at i:5984511 original size:9 final size:9
Alignment explanation
Indices: 5984492--5984525 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
5984482 AATTTAAAAT
5984492 TTAATTTCGG
1 TTAA-TTCGG
5984502 TTAATTCGG
1 TTAATTCGG
5984511 TTAATTCGG
1 TTAATTCGG
5984520 TTAATT
1 TTAATT
5984526 AACCGAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.50
Consensus pattern (9 bp):
TTAATTCGG
Found at i:5987602 original size:3 final size:3
Alignment explanation
Indices: 5987594--5987642 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
5987584 TGTTTTTTGT
5987594 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
5987642 A
1 A
5987643 TAATAATAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:5987647 original size:3 final size:3
Alignment explanation
Indices: 5987641--5987678 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
5987631 CAACAACAAC
5987641 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5987679 GGCTTAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5987751 original size:26 final size:26
Alignment explanation
Indices: 5987715--5987766 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
5987705 CATATGTCCG
*
5987715 TTTTTCCAGTTTAGTGCCTAATGTTT
1 TTTTTCCAGTTTAGTGCCTAACGTTT
* *
5987741 TTTTTCTAGTTTGGTGCCTAACGTTT
1 TTTTTCCAGTTTAGTGCCTAACGTTT
5987767 CATTTCGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.13, C:0.15, G:0.17, T:0.54
Consensus pattern (26 bp):
TTTTTCCAGTTTAGTGCCTAACGTTT
Found at i:5987772 original size:26 final size:26
Alignment explanation
Indices: 5987717--5987772 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
5987707 TATGTCCGTT
* **
5987717 TTTCCAGTTTAGTGCCTAATGTTTTT
1 TTTCCAGTTTAGTGCCTAACGTTTCA
* *
5987743 TTTCTAGTTTGGTGCCTAACGTTTCA
1 TTTCCAGTTTAGTGCCTAACGTTTCA
5987769 TTTC
1 TTTC
5987773 GTTACTCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.14, C:0.18, G:0.16, T:0.52
Consensus pattern (26 bp):
TTTCCAGTTTAGTGCCTAACGTTTCA
Found at i:5992338 original size:24 final size:24
Alignment explanation
Indices: 5992314--5992398 Score: 107
Period size: 24 Copynumber: 3.5 Consensus size: 24
5992304 TTCGACATGG
*
5992314 ATTCTGATTTGATACTTGACCTGG
1 ATTCTGATTTGATACTTGACCTGA
* *
5992338 ATTCTGATCTGATACTTGACATGA
1 ATTCTGATTTGATACTTGACCTGA
* *
5992362 ATTTTGATATGATACTTGACCTGA
1 ATTCTGATTTGATACTTGACCTGA
* *
5992386 ATTATGTTTTGAT
1 ATTCTGATTTGAT
5992399 TTTTTATATA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (24 bp):
ATTCTGATTTGATACTTGACCTGA
Found at i:5997186 original size:24 final size:24
Alignment explanation
Indices: 5997154--5997224 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
5997144 TTCCGACATG
*
5997154 GATTCTGATTTGATACTTGACCTA
1 GATTCTGATATGATACTTGACCTA
* * *
5997178 GATTCTGATCTGATACTTGACATG
1 GATTCTGATATGATACTTGACCTA
*
5997202 GATTTTGATATGATACTTGACCT
1 GATTCTGATATGATACTTGACCT
5997225 GAATTGTGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (24 bp):
GATTCTGATATGATACTTGACCTA
Found at i:5997239 original size:24 final size:24
Alignment explanation
Indices: 5997155--5997239 Score: 91
Period size: 24 Copynumber: 3.5 Consensus size: 24
5997145 TCCGACATGG
5997155 ATTCTGATTTGATACTTGACCT-A
1 ATTCTGATTTGATACTTGACCTGA
* * *
5997178 GATTCTGATCTGATACTTGACATGG
1 -ATTCTGATTTGATACTTGACCTGA
* *
5997203 ATTTTGATATGATACTTGACCTGA
1 ATTCTGATTTGATACTTGACCTGA
* *
5997227 ATTGTGTTTTGAT
1 ATTCTGATTTGAT
5997240 TTTTGATATA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.44
Consensus pattern (24 bp):
ATTCTGATTTGATACTTGACCTGA
Found at i:5998508 original size:55 final size:58
Alignment explanation
Indices: 5998437--5998561 Score: 202
Period size: 55 Copynumber: 2.2 Consensus size: 58
5998427 ACTGTTTATT
* *
5998437 CCTTTAAGTTTTTGTATTTGTATTTTAGTCCTTT-AA-TTT-TTTTTACTATTTTAGC
1 CCTTTAAGTTTATGTATTTGTATTTTAGTCCTTTGAATTTTGTTTTTACTATTTTAAC
5998492 CCTTTAAGTTTATGTATTTGTATTTTAGTCCTTTGAATTTTTGTTTTTACTATTTTAAC
1 CCTTTAAGTTTATGTATTTGTATTTTAGTCCTTTGAA-TTTTGTTTTTACTATTTTAAC
5998551 CCTTTAAGTTT
1 CCTTTAAGTTT
5998562 CTATTTTTTC
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
55 33 0.52
56 2 0.03
58 3 0.05
59 26 0.41
ACGTcount: A:0.19, C:0.11, G:0.10, T:0.60
Consensus pattern (58 bp):
CCTTTAAGTTTATGTATTTGTATTTTAGTCCTTTGAATTTTGTTTTTACTATTTTAAC
Found at i:5998578 original size:59 final size:57
Alignment explanation
Indices: 5998437--5998607 Score: 188
Period size: 59 Copynumber: 3.0 Consensus size: 57
5998427 ACTGTTTATT
* * *
5998437 CCTTTAAGTTTTTGTATTTGTATTTTAGTCCTTTAA--TTTTTTTTACTATTTTAGC
1 CCTTTAAGTTTATGTATTTCTATTTTAGTCCTTTAATTTTTTTTTTACTATTTTAAC
*
5998492 CCTTTAAGTTTATGTATTTGTATTTTAGTCCTTTGAATTTTTGTTTTTACTATTTTAAC
1 CCTTTAAGTTTATGTATTTCTATTTTAGTCCTTT-AATTTTT-TTTTTACTATTTTAAC
* * * *
5998551 CCTTTAAGTTTCTAT-TTTTTCTA-TTTAGTCCCTTAAGTTTCTATTTTTGCTATTTTA
1 CCTTTAAG-TT-TATGTATTTCTATTTTAGTCCTTTAA-TTT-TTTTTTTACTATTTTA
5998608 GTCTTTTAAA
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
55 33 0.33
56 2 0.02
58 5 0.05
59 49 0.49
60 9 0.09
61 3 0.03
ACGTcount: A:0.19, C:0.12, G:0.09, T:0.60
Consensus pattern (57 bp):
CCTTTAAGTTTATGTATTTCTATTTTAGTCCTTTAATTTTTTTTTTACTATTTTAAC
Found at i:5998687 original size:29 final size:29
Alignment explanation
Indices: 5998431--5998687 Score: 188
Period size: 30 Copynumber: 8.8 Consensus size: 29
5998421 GTAATTACTG
*
5998431 TTTATTCCTTTAAGTTTT-TGTATTTG-TAT
1 TTTAGTCCTTTAAGTTTTAT-T-TTTGCTAT
*
5998460 TTTAGTCCTTTAA--TTT-TTTTTACTAT
1 TTTAGTCCTTTAAGTTTTATTTTTGCTAT
*
5998486 TTTAGCCCTTTAAG-TTTATGTATTTG-TAT
1 TTTAGTCCTTTAAGTTTTAT-T-TTTGCTAT
* * *
5998515 TTTAGTCCTTTGAATTTTTGTTTTTACTAT
1 TTTAGTCCTTT-AAGTTTTATTTTTGCTAT
** *
5998545 TTTAACCCTTTAAGTTTCTATTTTTTCTA-
1 TTTAGTCCTTTAAGTTT-TATTTTTGCTAT
*
5998574 TTTAGTCCCTTAAGTTTCTATTTTTGCTAT
1 TTTAGTCCTTTAAGTTT-TATTTTTGCTAT
* * * * *
5998604 TTTAGTCTTTTAAATGTCTGTATTTGCTAT
1 TTTAGTCCTTTAAGT-TTTATTTTTGCTAT
* * * * *
5998634 TTTATTCCCTTAAATGTATGTTTTTGCTAT
1 TTTAGTCCTTTAAGT-TTTATTTTTGCTAT
*
5998664 TTTGGTCCTTTAAGTTTTATTTTT
1 TTTAGTCCTTTAAGTTTTATTTTT
5998688 CCCATGGTCC
Statistics
Matches: 183, Mismatches: 34, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
25 3 0.02
26 16 0.09
27 7 0.04
28 1 0.01
29 66 0.36
30 85 0.46
31 5 0.03
ACGTcount: A:0.18, C:0.12, G:0.10, T:0.60
Consensus pattern (29 bp):
TTTAGTCCTTTAAGTTTTATTTTTGCTAT
Found at i:6002395 original size:20 final size:20
Alignment explanation
Indices: 6002325--6002416 Score: 59
Period size: 19 Copynumber: 4.7 Consensus size: 20
6002315 AAATCAAAAT
* *
6002325 AAATAGAAAAGAATCAAAGAA
1 AAATAGCAAA-AAGCAAAGAA
* * *
6002346 AAA-AACAAAGAGCAAAGTGA
1 AAATAGCAAAAAGCAAAG-AA
*
6002366 AAAGAG-AAAAAGCAAAGAA
1 AAATAGCAAAAAGCAAAGAA
6002385 AAATAGC-AAAAG-AAA-AA
1 AAATAGCAAAAAGCAAAGAA
6002402 GCAAATAGCAAAAAG
1 --AAATAGCAAAAAG
6002417 AAAACAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
17 2 0.04
18 3 0.05
19 24 0.43
20 23 0.41
21 4 0.07
ACGTcount: A:0.70, C:0.08, G:0.17, T:0.05
Consensus pattern (20 bp):
AAATAGCAAAAAGCAAAGAA
Found at i:6002398 original size:14 final size:13
Alignment explanation
Indices: 6002365--6002420 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
6002355 GAGCAAAGTG
6002365 AAAAGAGAAAAAGC
1 AAAAGA-AAAAAGC
6002379 -AAAGAAAAATAGC
1 AAAAGAAAAA-AGC
6002392 AAAAG-AAAAAGC
1 AAAAGAAAAAAGC
*
6002404 AAATAGCAAAAAG-
1 AAA-AGAAAAAAGC
6002417 AAAA
1 AAAA
6002421 CAATAAGCAC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
12 11 0.29
13 17 0.45
14 10 0.26
ACGTcount: A:0.73, C:0.07, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAAGAAAAAAGC
Found at i:6003501 original size:33 final size:33
Alignment explanation
Indices: 6003450--6003518 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
6003440 AGAATCAGTG
6003450 TTGAAACAATCAACATCGAATATTGGGGCATCT
1 TTGAAACAATCAACATCGAATATTGGGGCATCT
* * * * *
6003483 TTGAAGCAATTAATATCGAATGTTGGGGTATCT
1 TTGAAACAATCAACATCGAATATTGGGGCATCT
6003516 TTG
1 TTG
6003519 GGGATTCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (33 bp):
TTGAAACAATCAACATCGAATATTGGGGCATCT
Found at i:6003767 original size:14 final size:14
Alignment explanation
Indices: 6003750--6003784 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
6003740 AGATAATTTT
6003750 TTTGAGAAAAAATC
1 TTTGAGAAAAAATC
6003764 TTTGAGAAAAAATC
1 TTTGAGAAAAAATC
6003778 TTTGAGA
1 TTTGAGA
6003785 TGTTTCCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (14 bp):
TTTGAGAAAAAATC
Found at i:6004143 original size:131 final size:131
Alignment explanation
Indices: 6003904--6004261 Score: 373
Period size: 131 Copynumber: 2.7 Consensus size: 131
6003894 TGAAACCATT
** * * * *
6003904 ATCCCTAAAGATGGTCTGTCATCCTCATCGCATATGAACCATGTCATCTCCCGACCAGACCTCCT
1 ATCCCTAAAGATGGTCTACCATCCTCATCACGTATGAACCGTGTCATCCCCCGACCAGACCTCCT
* * * *
6003969 CATCACGTAGGAGTCC-TGTCACCCTTAGATAACTTGTCATCCTCGTCACGTAAGAACCATGTTA
66 CATCACGTAGGAG-CCGTGTCACCCTTAGATAACTAGCCATCCTCATCACATAAGAACCATGTTA
6004033 TC
130 TC
*
6004035 ATCCCTAAAGATGGTCTACCATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCT
1 ATCCCTAAAGATGGTCTACCATCCTCATCACGTATGAACCGTGTCATCCCCCGACCAGACCTCCT
* ***
6004100 CATCACGTAGGAGCCGTGTCA-CCTCTAGATAA-TCAGCCGTCCTCATCACATAAGAATTGTGTT
66 CATCACGTAGGAGCCGTGTCACCCT-TAGATAACT-AGCCATCCTCATCACATAAGAACCATGTT
6004163 ATC
129 ATC
* ** ** * * * * * *
6004166 ACCATCCTAAAGATGGTC-AGAACTTTTCATCACGTATGAGCCGTATCATTCACCGACCAAATCT
1 ATC--CCTAAAGATGGTCTACCA-TCCTCATCACGTATGAACCGTGTCATCCCCCGACCAGACCT
** *
6004230 CCTCATCATATAGAAGCCGTGTCACCCTTAGA
63 CCTCATCACGTAGGAGCCGTGTCACCCTTAGA
6004262 CGACCATACC
Statistics
Matches: 190, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
130 6 0.03
131 109 0.57
132 2 0.01
133 70 0.37
134 3 0.02
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.26
Consensus pattern (131 bp):
ATCCCTAAAGATGGTCTACCATCCTCATCACGTATGAACCGTGTCATCCCCCGACCAGACCTCCT
CATCACGTAGGAGCCGTGTCACCCTTAGATAACTAGCCATCCTCATCACATAAGAACCATGTTAT
C
Found at i:6004944 original size:19 final size:18
Alignment explanation
Indices: 6004916--6004952 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
6004906 AATCAATCAG
*
6004916 AAAAACATATAAAGAAAAT
1 AAAAAAATATAAA-AAAAT
6004935 AAAAAAATATAAAAAAAT
1 AAAAAAATATAAAAAAAT
6004953 CCACACATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (18 bp):
AAAAAAATATAAAAAAAT
Found at i:6006056 original size:22 final size:22
Alignment explanation
Indices: 6006009--6006063 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
6005999 GATTCTGACA
6006009 ATCGCATTGCGATTTTCCAAAT
1 ATCGCATTGCGATTTTCCAAAT
* * * *
6006031 -TCGCGTTGCGATTTTTCGACT
1 ATCGCATTGCGATTTTCCAAAT
*
6006052 ATCGCAATGCGA
1 ATCGCATTGCGA
6006064 ATATGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (22 bp):
ATCGCATTGCGATTTTCCAAAT
Found at i:6006077 original size:20 final size:20
Alignment explanation
Indices: 6006052--6006103 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
6006042 TTTTTCGACT
6006052 ATCGCAATGCGAATATGTA-A
1 ATCGCAATGCGAATATG-ACA
* *
6006072 ATCGCAATGCGAGTATGACT
1 ATCGCAATGCGAATATGACA
6006092 ATCGCAATGCGA
1 ATCGCAATGCGA
6006104 TTTTCAAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGACA
Found at i:6006318 original size:22 final size:22
Alignment explanation
Indices: 6006264--6006320 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
6006254 TCTCTCACTC
* * *
6006264 TCTAAGGCGACATCCGTCCCCA
1 TCTACGGCGAAATCAGTCCCCA
*
6006286 TCTACGACGAAATCAGTCCCCA
1 TCTACGGCGAAATCAGTCCCCA
*
6006308 TCTTCGGCGAAAT
1 TCTACGGCGAAAT
6006321 TCGTCTATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.26, C:0.35, G:0.18, T:0.21
Consensus pattern (22 bp):
TCTACGGCGAAATCAGTCCCCA
Found at i:6008726 original size:20 final size:20
Alignment explanation
Indices: 6008662--6008727 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
6008652 GTTTACTTTT
*
6008662 GCAATGAGAAAATGACTATC
1 GCAATGCGAAAATGACTATC
*
6008682 GCAACGCGAAAATGACTATC
1 GCAATGCGAAAATGACTATC
**
6008702 GCAATGCGAATTTGACTATC
1 GCAATGCGAAAATGACTATC
6008722 GCAATG
1 GCAATG
6008728 AAAGAATCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (20 bp):
GCAATGCGAAAATGACTATC
Found at i:6009402 original size:42 final size:42
Alignment explanation
Indices: 6009332--6009412 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
6009322 TCCCCTATCA
*
6009332 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACCG
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCACCG
* ** *
6009374 TTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
6009413 ACATTCTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.38, G:0.19, T:0.21
Consensus pattern (42 bp):
TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCACCG
Found at i:6010831 original size:14 final size:14
Alignment explanation
Indices: 6010797--6010858 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
6010787 TTGCTTGTTT
*
6010797 AATTGATTTATAAA
1 AATTGATTTGTAAA
*
6010811 AAATGATTTGTAAA
1 AATTGATTTGTAAA
* *
6010825 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
6010840 TATTGATGTGTAAA
1 AATTGATTTGTAAA
6010854 TAATT
1 -AATT
6010859 CTTATTTGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 23 0.64
15 13 0.36
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:6011010 original size:20 final size:20
Alignment explanation
Indices: 6010957--6011010 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
6010947 AGGTACACTT
* **
6010957 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCAAAAGACAAAA
* *
6010977 TCGCAATGCGAAAGACAAAA
1 TCGCAACGCAAAAGACAAAA
*
6010997 TTGCAACGCAAAAG
1 TCGCAACGCAAAAG
6011011 TCAATTCGCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.13
Consensus pattern (20 bp):
TCGCAACGCAAAAGACAAAA
Found at i:6011078 original size:20 final size:20
Alignment explanation
Indices: 6011053--6011317 Score: 259
Period size: 20 Copynumber: 13.8 Consensus size: 20
6011043 GCGATTTTCT
* *
6011053 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
* *
6011073 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
* *
6011093 CGTTGCGATACTCAAATTTG
1 CGTTGCGATAGTCAAATTCG
6011113 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
6011133 CGTTGGGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCG
*
6011147 CGTTGCGATAGTCAAA-TAG
1 CGTTGCGATAGTCAAATTCG
6011166 CCGTTGCGATAGTCAAATTCG
1 -CGTTGCGATAGTCAAATTCG
* *
6011187 CGTTGTGATAGACAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
6011207 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
* *
6011227 TGTTGCAATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
6011247 CGTTGC-A-A-T---TTTTG
1 CGTTGCGATAGTCAAATTCG
* *
6011261 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
6011281 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
6011301 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
6011318 GAATGTGTAA
Statistics
Matches: 200, Mismatches: 31, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
14 19 0.09
15 1 0.00
16 2 0.01
17 2 0.01
18 2 0.01
19 2 0.01
20 170 0.85
21 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:6011143 original size:94 final size:94
Alignment explanation
Indices: 6011013--6011232 Score: 323
Period size: 94 Copynumber: 2.3 Consensus size: 94
6011003 CGCAAAAGTC
* * *
6011013 AATTCGCGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
*
6011078 CGATAATCAAATTCACGTTGCGATACTCA
66 CGATAATCAAATTCACGTTGCGATACACA
* * *
6011107 AATTTGCGTTGCGATAGTCAAATTCGCGTTGGGATTTTCTCGTTGCGATAGTCAAATAGCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
* * * *
6011172 CGATAGTCAAATTCGCGTTGTGATAGACA
66 CGATAATCAAATTCACGTTGCGATACACA
* *
6011201 AATTCGCGTTGCGATAGTCATATTCGTGTTGC
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGC
6011233 AATAGTCAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 111 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (94 bp):
AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
CGATAATCAAATTCACGTTGCGATACACA
Found at i:6011151 original size:54 final size:54
Alignment explanation
Indices: 6011093--6011305 Score: 223
Period size: 54 Copynumber: 3.8 Consensus size: 54
6011083 ATCAAATTCA
* *
6011093 CGTTGCGATACTCAAATTTGCGTTGCGATAGTCAAATTCGCGTTGGGATTTTCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGGGATTTTCT
* ** *
6011147 CGTTGCGATAGTCAAA-TAGCCGTTGCGATAGTCAAATTCGCGTTGTGATAGACAAATTCG
1 CGTTGCGATAGTCAAATTCG-CGTTGCGATAGTCAAATTCGCGTTG-G---G--ATTTTCT
* * * **
6011207 CGTTGCGATAGTCATATTCGTGTTGCAATAGTCAAATTCGCGTTGCAATTTT-T
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGGGATTTTCT
* *
6011260 GAGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTG
1 -CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTG
6011306 CGATATTCAA
Statistics
Matches: 131, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
53 2 0.02
54 83 0.63
55 1 0.01
58 1 0.01
60 42 0.32
61 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGGGATTTTCT
Found at i:6011151 original size:74 final size:74
Alignment explanation
Indices: 6011073--6011211 Score: 208
Period size: 74 Copynumber: 1.9 Consensus size: 74
6011063 GTCAAATACC
* * *
6011073 CGTTGCGATAATCAAAT-TCACGTTGCGATACTCAAATTTGCGTTGCGATAGTCAAATTCGCGTT
1 CGTTGCGATAATCAAATAGC-CGTTGCGATACTCAAATTCGCGTTGCGATAGACAAATTCGCGTT
6011137 GGGATTTTCT
65 GGGATTTTCT
* * *
6011147 CGTTGCGATAGTCAAATAGCCGTTGCGATAGTCAAATTCGCGTTGTGATAGACAAATTCGCGTTG
1 CGTTGCGATAATCAAATAGCCGTTGCGATACTCAAATTCGCGTTGCGATAGACAAATTCGCGTTG
6011212 CGATAGTCAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 57 0.98
75 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (74 bp):
CGTTGCGATAATCAAATAGCCGTTGCGATACTCAAATTCGCGTTGCGATAGACAAATTCGCGTTG
GGATTTTCT
Found at i:6011173 original size:114 final size:114
Alignment explanation
Indices: 6011053--6011317 Score: 347
Period size: 114 Copynumber: 2.3 Consensus size: 114
6011043 GCGATTTTCT
* * *
6011053 CGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCACGTTGCGATACTCAAATTTGCGTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCACGTTGCGATACTCAAATTCGCGTTG
* ** * *
6011118 CGATAGTCAAATTCGCGTTGGGATTTTCT-CGTTGCGATAGTCAAATAGC-
66 CAATAGTCAAATTCGCGTTGCAATTTT-TGAGTTGCGATAATCAAAT-GCG
* * * * *
6011167 CGTTGCGATAGTCAAATTCGCGTTGTGATAGA-CAAATTCGCGTTGCGATAGTCATATTCGTGTT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATA-ATCAAATTCACGTTGCGATACTCAAATTCGCGTT
*
6011231 GCAATAGTCAAATTCGCGTTGCAATTTTTGAGTTGCGATAATCAAATTCG
65 GCAATAGTCAAATTCGCGTTGCAATTTTTGAGTTGCGATAATCAAATGCG
*
6011281 CGTTGCGATAGTCAAATTCGCGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAAT
6011318 GAATGTGTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
113 2 0.02
114 128 0.98
115 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (114 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCACGTTGCGATACTCAAATTCGCGTTG
CAATAGTCAAATTCGCGTTGCAATTTTTGAGTTGCGATAATCAAATGCG
Found at i:6011540 original size:140 final size:140
Alignment explanation
Indices: 6011288--6011557 Score: 504
Period size: 140 Copynumber: 1.9 Consensus size: 140
6011278 TCGCGTTGCG
*
6011288 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
* *
6011353 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTTCACATAA
66 TAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
6011418 AATACACATA
131 AATACACATA
6011428 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
*
6011493 TAGCAATATTCAAACTCGAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
6011558 TACAACGTTT
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 126 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
TAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:6014836 original size:20 final size:20
Alignment explanation
Indices: 6014808--6014904 Score: 176
Period size: 20 Copynumber: 4.8 Consensus size: 20
6014798 GAATCGTAGT
*
6014808 CATAATCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
6014828 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
6014848 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
*
6014868 CATATTCGCATTGTGATTTA
1 CATATTCGCATTGCGATTTA
6014888 CATATTCGCATTGCGAT
1 CATATTCGCATTGCGAT
6014905 AGTCGGAAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 74 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:6014944 original size:20 final size:21
Alignment explanation
Indices: 6014893--6014945 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
6014883 ATTTACATAT
6014893 TCGCATTGCGATAGTCGGAAAA
1 TCGCATTGCGATAGTC-GAAAA
* *
6014915 TCGCAATGCGATAGTC-AGAA
1 TCGCATTGCGATAGTCGAAAA
*
6014935 TCGCGTTGCGA
1 TCGCATTGCGA
6014946 ATCTGGAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 12 0.44
22 15 0.56
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAAA
Found at i:6015273 original size:3 final size:3
Alignment explanation
Indices: 6015265--6015332 Score: 120
Period size: 3 Copynumber: 22.7 Consensus size: 3
6015255 TACTTAAGAC
6015265 TAA TAA TAA TAA TAAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6015310 TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
6015333 GAGAGGTTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 58 0.92
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6018283 original size:20 final size:21
Alignment explanation
Indices: 6018232--6018283 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
6018222 TAAGAGTTAG
*
6018232 GGTATCGATA-CTGTAAGGGT
1 GGTATCGATACCTGTAAGGAT
*
6018252 AGTATC-AGTACCT-TAAGGAT
1 GGTATCGA-TACCTGTAAGGAT
6018272 GGTATCGATACC
1 GGTATCGATACC
6018284 CTTGAAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 1 0.04
20 22 0.85
21 3 0.12
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (21 bp):
GGTATCGATACCTGTAAGGAT
Found at i:6018712 original size:126 final size:126
Alignment explanation
Indices: 6018487--6018739 Score: 506
Period size: 126 Copynumber: 2.0 Consensus size: 126
6018477 TAGATATCGA
6018487 TCGAAGGCAAAGTTCGGATAGGCCATCGGAGTAAGAATTTCGAAAAGGGAACAAGAGATTTGTAT
1 TCGAAGGCAAAGTTCGGATAGGCCATCGGAGTAAGAATTTCGAAAAGGGAACAAGAGATTTGTAT
6018552 TGGCAAGTAACCAAGATGAGTGCATGCTATTAGGATTAAGTTATGTAAGGGAATTAAGACT
66 TGGCAAGTAACCAAGATGAGTGCATGCTATTAGGATTAAGTTATGTAAGGGAATTAAGACT
6018613 TCGAAGGCAAAGTTCGGATAGGCCATCGGAGTAAGAATTTCGAAAAGGGAACAAGAGATTTGTAT
1 TCGAAGGCAAAGTTCGGATAGGCCATCGGAGTAAGAATTTCGAAAAGGGAACAAGAGATTTGTAT
6018678 TGGCAAGTAACCAAGATGAGTGCATGCTATTAGGATTAAGTTATGTAAGGGAATTAAGACT
66 TGGCAAGTAACCAAGATGAGTGCATGCTATTAGGATTAAGTTATGTAAGGGAATTAAGACT
6018739 T
1 T
6018740 GCGATGAGTT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (126 bp):
TCGAAGGCAAAGTTCGGATAGGCCATCGGAGTAAGAATTTCGAAAAGGGAACAAGAGATTTGTAT
TGGCAAGTAACCAAGATGAGTGCATGCTATTAGGATTAAGTTATGTAAGGGAATTAAGACT
Found at i:6018931 original size:2 final size:2
Alignment explanation
Indices: 6018918--6018949 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
6018908 GTGATAATGT
6018918 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
6018950 GAACATGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6022384 original size:21 final size:21
Alignment explanation
Indices: 6022342--6022384 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6022332 TAGGATATTT
* *
6022342 AATTTGGAAAATCGTAATGCG
1 AATTTGGAAAATCGCAACGCG
6022363 AATTTGGAAAATCGCAACGCG
1 AATTTGGAAAATCGCAACGCG
6022384 A
1 A
6022385 TACTGACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (21 bp):
AATTTGGAAAATCGCAACGCG
Found at i:6022398 original size:20 final size:20
Alignment explanation
Indices: 6022373--6022487 Score: 124
Period size: 20 Copynumber: 5.7 Consensus size: 20
6022363 AATTTGGAAA
6022373 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
6022393 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
6022414 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
6022434 TTCGCAACGCGATACTTAAT
1 ATCGCAACGCGATACTGACT
* *
6022454 TTCGCAACGCAATACTGACT
1 ATCGCAACGCGATACTGACT
* *
6022474 TTCGCAACGAGATA
1 ATCGCAACGCGATA
6022488 ATACATAATC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 61 0.76
21 15 0.19
22 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:6022427 original size:41 final size:41
Alignment explanation
Indices: 6022370--6022507 Score: 188
Period size: 41 Copynumber: 3.4 Consensus size: 41
6022360 GCGAATTTGG
*
6022370 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
6022411 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATACT-T
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
** * *
6022451 AATTTCGCAACGCAATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
6022492 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
6022508 TTTCAAAGCG
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 34 0.41
41 48 0.59
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:6022702 original size:22 final size:22
Alignment explanation
Indices: 6022674--6022717 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6022664 CACTCTCTCA
6022674 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
6022696 CCCATCTCCGACGAAATTCGTC
1 CCCATCTCCGACGAAATCCGTC
6022718 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.43, G:0.14, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:6023019 original size:20 final size:20
Alignment explanation
Indices: 6022996--6023038 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
6022986 GATAGTAAAA
6022996 TTCGCGTTGCGATTGTCATT
1 TTCGCGTTGCGATTGTCATT
* *
6023016 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTGTCATT
6023036 TTC
1 TTC
6023039 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.19, G:0.21, T:0.51
Consensus pattern (20 bp):
TTCGCGTTGCGATTGTCATT
Found at i:6024380 original size:18 final size:18
Alignment explanation
Indices: 6024359--6024406 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
6024349 TCCACTTCGT
6024359 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
6024377 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
6024395 GAGCCATCACCT
1 GAGCCATCACCT
6024407 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:6024972 original size:20 final size:20
Alignment explanation
Indices: 6024947--6024992 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
6024937 TAGTTTACTT
6024947 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
** * *
6024967 TCGCAACGTGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
6024987 TCGCAA
1 TCGCAA
6024993 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:6025001 original size:19 final size:19
Alignment explanation
Indices: 6024958--6025012 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
6024948 CGCAACACGA
6024958 AAATGACTATCGCAACGTGG
1 AAATGACTATCGCAAC-TGG
*
6024978 AAATGGCTATCGCAA-TGCG
1 AAATGACTATCGCAACTG-G
**
6024997 AAATGAAAATCGCAAC
1 AAATGACTATCGCAAC
6025013 GACAAAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 13 0.45
20 14 0.48
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (19 bp):
AAATGACTATCGCAACTGG
Found at i:6025067 original size:19 final size:19
Alignment explanation
Indices: 6025056--6025233 Score: 115
Period size: 20 Copynumber: 9.7 Consensus size: 19
6025046 GCGATTTGTG
*
6025056 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
6025075 TTTCGCATTGCGA-TTT--
1 TTTCGCATTGCGATTTTCA
*
6025091 TGTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
6025108 TTTCGCATTGCGA-TTT--
1 TTTCGCATTGCGATTTTCA
*
6025124 TGTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
***
6025141 TTTCGCATTGCGATAGCCA
1 TTTCGCATTGCGATTTTCA
* **
6025160 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCATTGCGATTTTCA
**
6025180 TTTCCGCATTGCGATAGTCA
1 TTT-CGCATTGCGATTTTCA
* **
6025200 TTTTCGCGTTGCGATAGTCA
1 -TTTCGCATTGCGATTTTCA
*
6025220 TTTTCGCGTTGCGA
1 -TTTCGCATTGCGA
6025234 AAGTAAGTTT
Statistics
Matches: 135, Mismatches: 12, Indels: 23
0.79 0.07 0.14
Matches are distributed among these distances:
14 12 0.09
15 6 0.04
16 8 0.06
17 8 0.06
18 6 0.04
19 30 0.22
20 62 0.46
21 3 0.02
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.42
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:6025101 original size:14 final size:14
Alignment explanation
Indices: 6025082--6025138 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6025072 TCATTTCGCA
6025082 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
6025096 TTGCGATTTTCATTTCG
1 TTGCGA-TTT--TGTCG
6025113 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
6025129 TTGCGATTTT
1 TTGCGATTTT
6025139 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.17
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:6025103 original size:33 final size:33
Alignment explanation
Indices: 6025061--6025154 Score: 188
Period size: 33 Copynumber: 2.8 Consensus size: 33
6025051 TTGTGTTTCG
6025061 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
6025094 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
6025127 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
6025155 AGCCATTTCC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:6025244 original size:20 final size:20
Alignment explanation
Indices: 6025127--6025253 Score: 148
Period size: 20 Copynumber: 6.4 Consensus size: 20
6025117 GCGATTTTGT
**
6025127 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATAGTCATTTTCG
* * *
6025146 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTTTCG
*
6025166 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTTCG
*
6025186 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
6025206 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* * *
6025226 CGTTGCGAAAGTAAGTTTCG
1 CGTTGCGATAGTCATTTTCG
*
6025246 TGTTGCGA
1 CGTTGCGA
6025254 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 10 0.11
20 83 0.89
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:6025698 original size:42 final size:42
Alignment explanation
Indices: 6025601--6025689 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
6025591 GACTCACCTG
* * * *
6025601 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCACAAGAGTCCCCCCCAACCGTTCAAGAGGCCACTA
* *
6025643 TCATCCCACAAGAGTCCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCACAAGAGTCCCCCCCAACCGTTCAAGAGGCCACTA
6025685 TCATC
1 TCATC
6025690 GTTGAAGAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.24, C:0.43, G:0.15, T:0.19
Consensus pattern (42 bp):
TCATCCCACAAGAGTCCCCCCCAACCGTTCAAGAGGCCACTA
Found at i:6027133 original size:14 final size:14
Alignment explanation
Indices: 6027099--6027137 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
6027089 TTGATTGTTT
6027099 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
6027113 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
6027127 TGTTGATTTGT
1 AATTGATTTGT
6027138 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:6027325 original size:20 final size:20
Alignment explanation
Indices: 6027300--6027347 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
6027290 AATGAAAATT
*
6027300 GTTGCGATAGCCATTTTCGG
1 GTTGCGATAGCCATTTTCGC
6027320 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
6027340 GTTGCGAT
1 GTTGCGAT
6027348 TTCCCCATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.15, C:0.21, G:0.29, T:0.35
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:6027748 original size:20 final size:20
Alignment explanation
Indices: 6027579--6027747 Score: 209
Period size: 20 Copynumber: 8.4 Consensus size: 20
6027569 TTTAGAATCT
* *
6027579 CGTTGCGAAAGTCAGAATCT
1 CGTTGCGAAAGTCAGTATCG
6027599 CGTTGCGAAAGTCA-TAATCG
1 CGTTGCGAAAGTCAGT-ATCG
*
6027619 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
*
6027639 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
6027659 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
6027679 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
** *
6027699 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--AAGTCAGTATCG
6027720 CGTTGCGATAA-TCAGTATCG
1 CGTTGCGA-AAGTCAGTATCG
*
6027740 CATTGCGA
1 CGTTGCGA
6027748 TTTTCCAAAT
Statistics
Matches: 133, Mismatches: 11, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
19 1 0.01
20 116 0.87
21 14 0.11
22 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGTATCG
Found at i:6027767 original size:41 final size:42
Alignment explanation
Indices: 6027635--6027769 Score: 127
Period size: 41 Copynumber: 3.3 Consensus size: 42
6027625 GAAAGTCAGA
* * *** *
6027635 ATCGCGTTGCGA-AAGTCAGAATCGCGTTGCGAAAGTC-AGT
1 ATCGCGTTGCGATAAGTCAGTATCGCATTGCGATTTTCAAAT
* ** *
6027675 ATCGCGTTGCGA-AAGTCAGTATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAAGTCAGTATCGCATTGCGATTTTCAAAT
6027716 ATCGCGTTGCGATAA-TCAGTATCGCATTGCGATTTTCCAAAT
1 ATCGCGTTGCGATAAGTCAGTATCGCATTGCGATTTT-CAAAT
*
6027758 -TCGCATTGCGAT
1 ATCGCGTTGCGAT
6027770 TTACTTATTT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
40 32 0.40
41 45 0.56
42 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
ATCGCGTTGCGATAAGTCAGTATCGCATTGCGATTTTCAAAT
Found at i:6028004 original size:12 final size:12
Alignment explanation
Indices: 6027985--6028018 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6027975 CTCTCCGGCG
6027985 ACATCCGTTCCT
1 ACATCCGTTCCT
*
6027997 ATATCCGTTCCT
1 ACATCCGTTCCT
6028009 ACATCC-TTCC
1 ACATCCGTTCC
6028019 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:6028814 original size:9 final size:9
Alignment explanation
Indices: 6028802--6028831 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6028792 TATAATCCTG
6028802 AAGAAGAAA
1 AAGAAGAAA
*
6028811 AAGAAGAAG
1 AAGAAGAAA
6028820 AAGAAGAAA
1 AAGAAGAAA
6028829 AAG
1 AAG
6028832 TCCCCGAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (9 bp):
AAGAAGAAA
Found at i:6029429 original size:19 final size:18
Alignment explanation
Indices: 6029407--6029498 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
6029397 GGAAATTACT
6029407 ATCGCAATGCGAAATGAAA
1 ATCGCAAT-CGAAATGAAA
*
6029426 ATCGCAA-CG--A-GATA
1 ATCGCAATCGAAATGAAA
6029440 ATCGCAATGCGAAATGAAA
1 ATCGCAAT-CGAAATGAAA
*
6029459 ATCGCAA-CG--A-GAGA
1 ATCGCAATCGAAATGAAA
*
6029473 ATCGTAATACGAAATGAAA
1 ATCGCAAT-CGAAATGAAA
6029492 ATCGCAA
1 ATCGCAA
6029499 CGAGATAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 19 0.33
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 26 0.46
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (18 bp):
ATCGCAATCGAAATGAAA
Found at i:6029449 original size:33 final size:33
Alignment explanation
Indices: 6029407--6029507 Score: 175
Period size: 33 Copynumber: 3.1 Consensus size: 33
6029397 GGAAATTACT
6029407 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
*
6029440 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
* *
6029473 ATCGTAATACGAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
6029506 AT
1 AT
6029508 AACGTGTAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGATA
Found at i:6030053 original size:20 final size:19
Alignment explanation
Indices: 6030026--6030147 Score: 111
Period size: 20 Copynumber: 6.8 Consensus size: 19
6030016 TCTTTTGGTT
6030026 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
6030045 GATAATGAAAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
6030066 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
6030085 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
6030099 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
6030118 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
6030132 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6030148 TGCGATTTTG
Statistics
Matches: 83, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
14 21 0.25
16 4 0.05
17 4 0.05
19 22 0.27
20 30 0.36
21 2 0.02
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:6030094 original size:14 final size:14
Alignment explanation
Indices: 6030075--6030130 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
6030065 GGAAATGACT
6030075 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
6030089 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
6030108 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
6030122 ATCGCAACG
1 ATCGCAACG
6030131 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:6030112 original size:33 final size:33
Alignment explanation
Indices: 6030026--6030147 Score: 163
Period size: 33 Copynumber: 3.5 Consensus size: 33
6030016 TCTTTTGGTT
6030026 GAAATGAAAATCGCAACGAGATAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGAG---A-G--AATCGCAACGC
**
6030065 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6030099 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6030132 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6030148 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
33 47 0.60
34 11 0.14
36 1 0.01
37 1 0.01
40 18 0.23
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:6030170 original size:19 final size:19
Alignment explanation
Indices: 6030148--6030232 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 19
6030138 AAAATCGCAA
** *
6030148 TGCGATTTTGGTTTCTCGT
1 TGCGATTTTCATTTCGCGT
6030167 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
6030186 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
*
6030200 TGCGATAGTT-ATTTCCGCGT
1 TGCGAT-TTTCATTT-CGCGT
6030220 TGCGATTTTCATT
1 TGCGATTTTCATT
6030233 CTCGAAACTA
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
14 10 0.19
17 5 0.10
19 24 0.46
20 13 0.25
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:6030200 original size:33 final size:34
Alignment explanation
Indices: 6030161--6030226 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
6030151 GATTTTGGTT
*
6030161 TCTCGTTGCGAT-TTTCATTT-CGCGTTGCGATTC
1 TCTCGTTGCGATAGTT-ATTTCCGCGTTGCGATTC
6030194 TCTCGTTGCGATAGTTATTTCCGCGTTGCGATT
1 TCTCGTTGCGATAGTTATTTCCGCGTTGCGATT
6030227 TTCATTCTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 16 0.53
34 14 0.47
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (34 bp):
TCTCGTTGCGATAGTTATTTCCGCGTTGCGATTC
Found at i:6030807 original size:20 final size:20
Alignment explanation
Indices: 6030741--6030811 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
6030731 CGATAGTAAG
*
6030741 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACCT
* *
6030761 AATTTGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACCT
* * *
6030782 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACCT
6030802 ATTCGCATTG
1 ATTCGCATTG
6030812 TGAATTATGA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 24 0.59
21 17 0.41
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACCT
Found at i:6030837 original size:21 final size:21
Alignment explanation
Indices: 6030813--6030866 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
6030803 TTCGCATTGT
*
6030813 GAATTATGAAAATCGCAACGC
1 GAATTACGAAAATCGCAACGC
* *
6030834 GAA-TACGTAAATCGCAATGC
1 GAATTACGAAAATCGCAACGC
*
6030854 GAATTAGGAAAAT
1 GAATTACGAAAAT
6030867 TGCATTGCGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.20
Consensus pattern (21 bp):
GAATTACGAAAATCGCAACGC
Found at i:6030875 original size:21 final size:21
Alignment explanation
Indices: 6030804--6030876 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
6030794 ATTTACGTAT
* * *
6030804 TCGCATTGTGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
6030825 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
6030845 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
6030866 TTGCATTGCGA
1 TCGCAATGCGA
6030877 TAGTCAGTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 17 0.41
21 24 0.59
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:6030909 original size:16 final size:16
Alignment explanation
Indices: 6030888--6030919 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6030878 AGTCAGTATC
6030888 GCATTGCGATTTTCCA
1 GCATTGCGATTTTCCA
6030904 GCATTGCGATTTTCCA
1 GCATTGCGATTTTCCA
6030920 AATTCGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (16 bp):
GCATTGCGATTTTCCA
Found at i:6030995 original size:21 final size:22
Alignment explanation
Indices: 6030943--6030995 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
6030933 ATTTACTTAT
6030943 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
6030964 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
6030985 TCGCATTGCGA
1 TCGCATTGCGA
6030996 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:6031976 original size:23 final size:22
Alignment explanation
Indices: 6031933--6031986 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
6031923 GTCAAGCTTA
6031933 TAAAATTTTATTTAAAAAAACT
1 TAAAATTTTATTTAAAAAAACT
* * *
6031955 TAAAATTATTATTTCAATAAACC
1 TAAAATT-TTATTTAAAAAAACT
*
6031978 TAATATTTT
1 TAAAATTTT
6031987 TCTTAAGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAAATTTTATTTAAAAAAACT
Found at i:6032354 original size:20 final size:21
Alignment explanation
Indices: 6032315--6032355 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6032305 AATTTTTTAG
6032315 AGTTATTTTGAAATAAAAAAT
1 AGTTATTTTGAAATAAAAAAT
6032336 AGTT-TTTTGAAA-AATAAAAT
1 AGTTATTTTGAAATAA-AAAAT
6032356 TTAAGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 13 0.68
21 4 0.21
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (21 bp):
AGTTATTTTGAAATAAAAAAT
Found at i:6034636 original size:60 final size:60
Alignment explanation
Indices: 6034542--6034727 Score: 266
Period size: 60 Copynumber: 3.1 Consensus size: 60
6034532 CGATCTTGCA
*
6034542 TCACTCCCACCAAGCTATCATTATGACTTTCACCAACACTACCACTCTCAGTGTGTTGAT
1 TCACTCCCACCAAGCTATCATTATGACTTTCACCAACACTACCACTCTCAGTATGTTGAT
* * * * *
6034602 TCACTCCCACTAAGCTATCATTATGACTTCCACCAACACTACCA-TTTCCAGTTTGCTGAT
1 TCACTCCCACCAAGCTATCATTATGACTTTCACCAACACTACCACTCT-CAGTATGTTGAT
* * * *
6034662 TCTCTTCCACCAAGCTATCATTTTGGCTTTCACCAACACTACCACTCTCAGTATGTTGAT
1 TCACTCCCACCAAGCTATCATTATGACTTTCACCAACACTACCACTCTCAGTATGTTGAT
6034722 TCACTC
1 TCACTC
6034728 TACTGCTAGA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
59 2 0.02
60 104 0.96
61 2 0.02
ACGTcount: A:0.25, C:0.33, G:0.09, T:0.32
Consensus pattern (60 bp):
TCACTCCCACCAAGCTATCATTATGACTTTCACCAACACTACCACTCTCAGTATGTTGAT
Found at i:6036298 original size:20 final size:21
Alignment explanation
Indices: 6036273--6036324 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
6036263 TTTTCCCAAT
*
6036273 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
6036293 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
6036314 TCGCAATGCGA
1 TCGCAATGCGA
6036325 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:6036338 original size:20 final size:20
Alignment explanation
Indices: 6036313--6036427 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
6036303 AATTGGGAAA
*
6036313 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
6036333 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* * *
6036354 ATTGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
6036374 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
6036394 TTCACAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
6036414 TTCGCAACGCGATA
1 ATCGCAACGCGATA
6036428 ATACATAATC
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.03
20 61 0.79
21 12 0.16
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:6036643 original size:22 final size:22
Alignment explanation
Indices: 6036615--6036658 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6036605 CACTCTCTCA
*
6036615 CCCATCTCCGACGAAATTCGTC
1 CCCATCTCCGACGAAATCCGTC
*
6036637 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
6036659 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:6037199 original size:14 final size:14
Alignment explanation
Indices: 6037180--6037215 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6037170 ATTGTTTAAT
6037180 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
6037194 TGATTTGTAAATGC
1 TGATTTGTAAAAGA
6037208 TGATTTGT
1 TGATTTGT
6037216 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:6037347 original size:19 final size:19
Alignment explanation
Indices: 6037332--6037380 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
6037322 ATCGCAACGA
6037332 GAAAATCGCAATGCAAAAT
1 GAAAATCGCAATGCAAAAT
*
6037351 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCAAAAT
6037370 GAAAATCGCAA
1 GAAAATCGCAA
6037381 CTAAAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCAAAAT
Found at i:6037444 original size:20 final size:20
Alignment explanation
Indices: 6037419--6037456 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6037409 TCGCATTGCG
6037419 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
6037439 ATTTTCGTGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
6037457 TCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.18, G:0.26, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:6038540 original size:24 final size:24
Alignment explanation
Indices: 6038513--6038566 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6038503 GTATTCAAAA
* *
6038513 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
6038537 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
6038561 TTTGAT
1 TTTGAT
6038567 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:6038758 original size:12 final size:12
Alignment explanation
Indices: 6038741--6038765 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6038731 ATATAATCCT
6038741 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6038753 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6038765 G
1 G
6038766 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:6041080 original size:19 final size:19
Alignment explanation
Indices: 6041058--6041155 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
6041048 AGAAATTACT
6041058 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
6041077 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
6041091 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
6041110 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
6041124 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
6041143 ATCGCAACGCGAA
1 ATCGCAATGCGAA
6041156 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:6041100 original size:33 final size:33
Alignment explanation
Indices: 6041058--6041151 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
6041048 AGAAATTACT
6041058 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
6041091 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
6041124 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
6041152 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:6041173 original size:19 final size:20
Alignment explanation
Indices: 6041151--6041193 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6041141 AAATCGCAAC
6041151 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
6041170 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
6041190 GCGA
1 GCGA
6041194 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:6041178 original size:14 final size:14
Alignment explanation
Indices: 6041179--6041212 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6041169 TGCGATTTTC
6041179 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
6041193 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
6041207 ATTTTC
1 ATTTTC
6041213 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:6041353 original size:14 final size:14
Alignment explanation
Indices: 6041334--6041370 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6041324 CATCAATTAA
6041334 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
6041348 ACAAATCACCTTTT
1 ACAAATCAACTTTT
6041362 ACAAATCAA
1 ACAAATCAA
6041371 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6042812 original size:42 final size:42
Alignment explanation
Indices: 6042766--6042845 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
6042756 CGATGACAGT
* * *
6042766 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
6042808 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
6042846 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:6044935 original size:33 final size:33
Alignment explanation
Indices: 6044879--6044976 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 33
6044869 CGAGATAATT
*
6044879 AGAATCGCAACGCGGAAATGACTATCGCAACGAG
1 AGAATCGCAACGC-GAAATGACTATCGCAACCAG
* *
6044913 AGAATCGCAATGCGAAATGACTATCGCGACCAG
1 AGAATCGCAACGCGAAATGACTATCGCAACCAG
* **
6044946 ACAATCGCAACGCGAAATGAAAATCGCAACC
1 AGAATCGCAACGCGAAATGACTATCGCAACC
6044977 GCGAAATAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 44 0.79
34 12 0.21
ACGTcount: A:0.40, C:0.26, G:0.22, T:0.12
Consensus pattern (33 bp):
AGAATCGCAACGCGAAATGACTATCGCAACCAG
Done.