Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008812.1 Hibiscus syriacus cultivar Beakdansim tig00111973_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: 944649
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:2130 original size:94 final size:95
Alignment explanation
Indices: 1962--2183 Score: 236
Period size: 94 Copynumber: 2.3 Consensus size: 95
1952 TACTAATGAG
* * * *
1962 GTAGTTTTGATACCATGGTGAGGGTATTGATAGCAGGTAACATCGAACCTAAATTTGGTATCGAT
1 GTAGTATTGATACCATGGTAAGGGTATCGATACCAGGTAACATCGAACCTAAATTTGGTATCGAT
* * * *
2027 ATCGAAA-GGGGTATCGGTACCCTAGCATA
66 ATCGAAAGGGGGTATAGATACCATAGCAGA
* * * *
2056 GTAGTATTGATACCATGGTAAGGGTATCGATACCAAGG-CACATCGAAGCTAATTTTTGTATCGA
1 GTAGTATTGATACCATGGTAAGGGTATCGATACC-AGGTAACATCGAACCTAAATTTGGTATCGA
* * *
2120 TA-CTGGAAGGGGGTATAGATACCATAGTAGG
65 TATC-GAAAGGGGGTATAGATACCATAGCAGA
* *
2151 GTAGTATAGATACCATGGTATA-TGTATCGATAC
1 GTAGTATTGATACCATGGTA-AGGGTATCGATAC
2184 TGAGGGCCAC
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 57 0.53
95 48 0.45
96 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (95 bp):
GTAGTATTGATACCATGGTAAGGGTATCGATACCAGGTAACATCGAACCTAAATTTGGTATCGAT
ATCGAAAGGGGGTATAGATACCATAGCAGA
Found at i:2178 original size:95 final size:94
Alignment explanation
Indices: 1970--2183 Score: 234
Period size: 95 Copynumber: 2.3 Consensus size: 94
1960 AGGTAGTTTT
* * * *
1970 GATACCATGGTGAGGGTATTGATAGC-AGGTAACATCGAACCTAAATTTGGTATCGATATCGAAA
1 GATACCATGGTAAGGGTATCGATACCAAGG-CACATCGAACCTAAATTTGGTATCGATATCGAAA
* * * * *
2034 GGGGTATCGGTACCCTAGCATAGTAGTATT
65 GGGGTATAGATACCATAGCAGAGTAGTATA
* * * * *
2064 GATACCATGGTAAGGGTATCGATACCAAGGCACATCGAAGCTAATTTTTGTATCGATACTGGAAG
1 GATACCATGGTAAGGGTATCGATACCAAGGCACATCGAACCTAAATTTGGTATCGATA-TCGAAA
* *
2129 GGGGTATAGATACCATAGTAGGGTAGTATA
65 GGGGTATAGATACCATAGCAGAGTAGTATA
*
2159 GATACCATGGTATA-TGTATCGATAC
1 GATACCATGGTA-AGGGTATCGATAC
2184 TGAGGGCCAC
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
94 47 0.47
95 52 0.52
96 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (94 bp):
GATACCATGGTAAGGGTATCGATACCAAGGCACATCGAACCTAAATTTGGTATCGATATCGAAAG
GGGTATAGATACCATAGCAGAGTAGTATA
Found at i:2803 original size:54 final size:54
Alignment explanation
Indices: 2505--2789 Score: 435
Period size: 54 Copynumber: 5.3 Consensus size: 54
2495 TTACCCAATA
2505 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
2559 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * * *
2613 GGCAATAAATGTGTATTTCACGGAATTCATCATATGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
2667 GGTACTAAGTGTGCATTTCATGGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * * * *
2721 GTCGCTAAGTGTGCATTTCACGGAATTCACCCTATATGGATGAATAACTGTTTT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
2775 GGCGCTAAGTGTGCA
1 GGCACTAAGTGTGCA
2790 AAGCACATAA
Statistics
Matches: 208, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 208 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:15224 original size:11 final size:11
Alignment explanation
Indices: 15208--15232 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15198 TGGATAAAAG
15208 TTTCTTTCTCT
1 TTTCTTTCTCT
15219 TTTCTTTCTCT
1 TTTCTTTCTCT
15230 TTT
1 TTT
15233 TCCCGTAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTTCTCT
Found at i:15977 original size:95 final size:92
Alignment explanation
Indices: 15801--16009 Score: 230
Period size: 95 Copynumber: 2.2 Consensus size: 92
15791 GGTACTGATG
* *
15801 AGGTAGTATCGATACCATGGTGAGGTATCAATACAGGTAACATCGAACCTAAATTTGGTATCGAT
1 AGGTAGTATCGATACCATGGTGAGGTATCAATACAGGTAACATCAAAACTAAATTTGGTATCGAT
* *
15866 ATCGAAAGGGGATATCGGTACCCATGGAT
66 ATCGAAAGGGGATATCGATA-CCATAG-T
* * *
15895 A-GTAGTATCGATACCATGGTGAGGGTATCGATACTAAGG-CACATCAAAAC-AAGTTTTGGTAT
1 AGGTAGTATCGATACCATGGTGA-GGTATCAATAC--AGGTAACATCAAAACTAA-ATTTGGTAT
*
15957 CGATAGT-GGAAGTGGG-TATCGATACCATAGT
62 CGATA-TCGAAAG-GGGATATCGATACCATAGT
15988 AGGATAGTATCGATACCATGGT
1 AGG-TAGTATCGATACCATGGT
16010 ATAGGTATTG
Statistics
Matches: 99, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
93 23 0.23
94 19 0.19
95 50 0.51
96 7 0.07
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (92 bp):
AGGTAGTATCGATACCATGGTGAGGTATCAATACAGGTAACATCAAAACTAAATTTGGTATCGAT
ATCGAAAGGGGATATCGATACCATAGT
Found at i:16536 original size:54 final size:54
Alignment explanation
Indices: 16347--16538 Score: 224
Period size: 54 Copynumber: 3.6 Consensus size: 54
16337 ATACCCAATA
* *
16347 GGCACTAAGTGTACATTTCACGGAATTCATCCTATGTGGATGAATAACTGTGTC
1 GGCACTAAGTGTACATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * * * *
16401 CGCACGAAGGGTGCATTTCACGGAATTCATTCTATGTGGATGAATAACCTTTTC
1 GGCACTAAGTGTACATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * ** * * *
16455 AGCACTATGTGCGCATTTCATGTAATTCATCCTATATGGATGAATAACCGTTTC
1 GGCACTAAGTGTACATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
16509 GGCACTAAGTGTACAATGT-ACGGAATTCAT
1 GGCACTAAGTGTAC-ATTTCACGGAATTCAT
16539 AATTTGTTTA
Statistics
Matches: 112, Mismatches: 25, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
54 109 0.97
55 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTACATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:17301 original size:18 final size:18
Alignment explanation
Indices: 17278--17323 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
17268 TAGTTTGATT
17278 AATGAACTAACATTATTC
1 AATGAACTAACATTATTC
*
17296 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
17314 AATGAACTAA
1 AATGAACTAA
17324 ATGCATGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:19083 original size:17 final size:17
Alignment explanation
Indices: 19063--19121 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
19053 AGTAGCTTAT
*
19063 TGAATGAACTAAATGCA
1 TGAATGAAATAAATGCA
* *
19080 TGAATGAAAT-ACTTCA
1 TGAATGAAATAAATGCA
*
19096 TTGAATAAAATAAATGCA
1 -TGAATGAAATAAATGCA
19114 TGAATGAA
1 TGAATGAA
19122 CTACTTCCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
16 4 0.12
17 25 0.76
18 4 0.12
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.27
Consensus pattern (17 bp):
TGAATGAAATAAATGCA
Found at i:19087 original size:34 final size:34
Alignment explanation
Indices: 19046--19128 Score: 114
Period size: 34 Copynumber: 2.4 Consensus size: 34
19036 CTTACTGACT
* * *
19046 TGAATGAAGTAGCTT-ATTGAATGAACTAAATGCA
1 TGAATGAAATA-CTTCATTGAATAAAATAAATGCA
19080 TGAATGAAATACTTCATTGAATAAAATAAATGCA
1 TGAATGAAATACTTCATTGAATAAAATAAATGCA
*
19114 TGAATGAACTACTTC
1 TGAATGAAATACTTC
19129 CTTAAATGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 3 0.07
34 41 0.93
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (34 bp):
TGAATGAAATACTTCATTGAATAAAATAAATGCA
Found at i:23272 original size:17 final size:17
Alignment explanation
Indices: 23250--23288 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
23240 AAAAATTACA
23250 TTTTGAATATTTTCACT
1 TTTTGAATATTTTCACT
*
23267 TTTTGAATATTTTGACT
1 TTTTGAATATTTTCACT
23284 TTTTG
1 TTTTG
23289 GTCAAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.08, G:0.10, T:0.62
Consensus pattern (17 bp):
TTTTGAATATTTTCACT
Found at i:24465 original size:31 final size:31
Alignment explanation
Indices: 24427--24490 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
24417 GTGACAAAAT
*
24427 ATGTCTTTTAGAGGCACATTTTGGATGAAAC
1 ATGTCTTTTAGAGGCACATTTCGGATGAAAC
* *
24458 ATGTCTTTTGGAGGCACCTTTCGGATGAAAC
1 ATGTCTTTTAGAGGCACATTTCGGATGAAAC
24489 AT
1 AT
24491 TGTGTCTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (31 bp):
ATGTCTTTTAGAGGCACATTTCGGATGAAAC
Found at i:24503 original size:34 final size:33
Alignment explanation
Indices: 24428--24527 Score: 107
Period size: 34 Copynumber: 3.0 Consensus size: 33
24418 TGACAAAATA
* *
24428 TGTCTTTTAGAGGCACATTTTGGATGAAACA---
1 TGTCTTTTGGAGGCAC-CTTTGGATGAAACATTG
24459 TGTCTTTTGGAGGCACCTTTCGGATGAAACATTG
1 TGTCTTTTGGAGGCACCTTT-GGATGAAACATTG
* * *
24493 TGTCTATTGGAGACACCCTTTGGATGAAGCATTG
1 TGTCTTTTGGAGGCA-CCTTTGGATGAAACATTG
24527 T
1 T
24528 TTCCTTTAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.05
31 25 0.42
34 26 0.44
35 5 0.08
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (33 bp):
TGTCTTTTGGAGGCACCTTTGGATGAAACATTG
Found at i:24540 original size:34 final size:34
Alignment explanation
Indices: 24473--24552 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
24463 TTTTGGAGGC
*
24473 ACCTTTCGGATGAAACATTGTGTCTATTGGAGACA
1 ACCTTT-GGATGAAACATTGTGTCTATTAGAGACA
* * *
24508 CCCTTTGGATGAAGCATTGTTTCCT-TTAGAGACA
1 ACCTTTGGATGAAACATTGTGT-CTATTAGAGACA
*
24542 ACCTTTAGATG
1 ACCTTTGGATG
24553 GCACATCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
34 31 0.82
35 7 0.18
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (34 bp):
ACCTTTGGATGAAACATTGTGTCTATTAGAGACA
Found at i:24959 original size:2 final size:2
Alignment explanation
Indices: 24952--24998 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
24942 GGAATGAAAC
24952 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24993 AT AT AT
1 AT AT AT
24999 GTGGACACCT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27279 original size:32 final size:32
Alignment explanation
Indices: 27243--27304 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
27233 TTCGACAATG
27243 ACATTACTATGCATTATATGAATGTGACACAA
1 ACATTACTATGCATTATATGAATGTGACACAA
** * * *
27275 ACATTGTTGTGCATTATCTTAATGTGACAC
1 ACATTACTATGCATTATATGAATGTGACAC
27305 TATGCTAGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (32 bp):
ACATTACTATGCATTATATGAATGTGACACAA
Found at i:29847 original size:17 final size:16
Alignment explanation
Indices: 29827--29886 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
29817 AGTAGCTTAT
29827 TGAATGAACGAAATGCA
1 TGAATGAAC-AAATGCA
* *
29844 TGAATGAA-ATACTTCA
1 TGAATGAACA-AATGCA
*
29860 TTGAATGAATAAAATGCA
1 -TGAATGAA-CAAATGCA
29878 TGAATGAAC
1 TGAATGAAC
29887 TACTTTCTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
15 1 0.03
16 4 0.12
17 24 0.71
18 4 0.12
19 1 0.03
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.25
Consensus pattern (16 bp):
TGAATGAACAAATGCA
Found at i:29850 original size:34 final size:34
Alignment explanation
Indices: 29810--29891 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
29800 CTTACTGACT
* *
29810 TGAATGAAGTAGCTT-ATTGAATGAACGAAATGCA
1 TGAATGAAATA-CTTCATTGAATGAACAAAATGCA
*
29844 TGAATGAAATACTTCATTGAATGAATAAAATGCA
1 TGAATGAAATACTTCATTGAATGAACAAAATGCA
*
29878 TGAATGAACTACTT
1 TGAATGAAATACTT
29892 TCTTAAATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 3 0.07
34 40 0.93
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (34 bp):
TGAATGAAATACTTCATTGAATGAACAAAATGCA
Found at i:29901 original size:34 final size:35
Alignment explanation
Indices: 29837--29908 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 35
29827 TGAATGAACG
*
29837 AAATGCATGAATGAAATACTTCATTGAATGAA-TA
1 AAATGCATGAATGAAATACTTCATTAAATGAAGTA
*
29871 AAATGCATGAATGAACTACTTTC-TTAAATGAAGTA
1 AAATGCATGAATGAAATAC-TTCATTAAATGAAGTA
29906 AAA
1 AAA
29909 GCTTAAATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 26 0.76
35 8 0.24
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (35 bp):
AAATGCATGAATGAAATACTTCATTAAATGAAGTA
Found at i:39857 original size:34 final size:34
Alignment explanation
Indices: 39816--39894 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 34
39806 CTTACTGACT
* *
39816 TGAATGAAGTAGCTT-ATTGAAT-GAACTAAATGCA
1 TGAATGAAATA-CTTCATTGAATGGAA-TAAATGAA
39850 TGAATGAAATACTTCATTGAATGGAATAAATGAA
1 TGAATGAAATACTTCATTGAATGGAATAAATGAA
*
39884 TGAATAAAATA
1 TGAATGAAATA
39895 GTTCCTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
33 3 0.08
34 34 0.85
35 3 0.08
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (34 bp):
TGAATGAAATACTTCATTGAATGGAATAAATGAA
Found at i:41032 original size:20 final size:20
Alignment explanation
Indices: 40996--41033 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
40986 ATCCTATACC
**
40996 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
41016 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
41034 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:43076 original size:6 final size:6
Alignment explanation
Indices: 43062--43107 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
43052 AGGCAGTCAG
* *
43062 AAAATT AAAAAT AAAAAT AAAAAT -AATA- AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
43108 ATACAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
5 6 0.18
6 22 0.65
7 6 0.18
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:43078 original size:7 final size:7
Alignment explanation
Indices: 43062--43110 Score: 64
Period size: 7 Copynumber: 6.9 Consensus size: 7
43052 AGGCAGTCAG
*
43062 AAAATTA
1 AAAATAA
43069 AAAAT-A
1 AAAATAA
43075 AAAATAAA
1 AAAAT-AA
43083 AATAATAA
1 AA-AATAA
43091 AAAATAA
1 AAAATAA
43098 AAAATAA
1 AAAATAA
43105 AAAATA
1 AAAATA
43111 CAATGTATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.15
7 23 0.59
8 7 0.18
9 3 0.08
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAATAA
Found at i:46685 original size:17 final size:17
Alignment explanation
Indices: 46665--46720 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
46655 AGTAGCTTAT
* *
46665 TGAATGAACTAAGTGCA
1 TGAATGAAATAAATGCA
* *
46682 TGAATGAAAT-ACTTCA
1 TGAATGAAATAAATGCA
46698 TTGAATGAAATAAATGCA
1 -TGAATGAAATAAATGCA
46716 TGAAT
1 TGAAT
46721 AAACTACTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 4 0.12
17 24 0.75
18 4 0.12
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.29
Consensus pattern (17 bp):
TGAATGAAATAAATGCA
Found at i:46704 original size:34 final size:34
Alignment explanation
Indices: 46663--46745 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
46653 GAAGTAGCTT
* *
46663 ATTGAATGAACTAAGTGCATGAATGAAA-TACTTC
1 ATTGAATGAAATAAATGCATGAAT-AAACTACTTC
46697 ATTGAATGAAATAAATGCATGAATAAACTACTTC
1 ATTGAATGAAATAAATGCATGAATAAACTACTTC
* * *
46731 CTTAAATGAAGTAAA
1 ATTGAATGAAATAAA
46746 AGCTTAAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 3 0.07
34 40 0.93
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (34 bp):
ATTGAATGAAATAAATGCATGAATAAACTACTTC
Found at i:46767 original size:17 final size:17
Alignment explanation
Indices: 46731--46785 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
46721 AAACTACTTC
*
46731 CTTAAATGAAGTAA-AAG
1 CTTAAATGAA-TAACATG
*
46748 CTTAAATGCAAT-GCATG
1 CTTAAATG-AATAACATG
*
46765 CTTTAATGAATAACATG
1 CTTAAATGAATAACATG
46782 CTTA
1 CTTA
46786 TTAAATGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 3 0.10
17 25 0.83
18 2 0.07
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (17 bp):
CTTAAATGAATAACATG
Found at i:49438 original size:28 final size:28
Alignment explanation
Indices: 49399--49452 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
49389 TAATGGTATA
49399 AAACATCATGTATGAAA-TCGAGAATTTT
1 AAACATCATGTATGAAACT-GAGAATTTT
*
49427 AAACATTATGTATGAAACTGAGAATT
1 AAACATCATGTATGAAACTGAGAATT
49453 GGGTTACTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.31
Consensus pattern (28 bp):
AAACATCATGTATGAAACTGAGAATTTT
Found at i:49630 original size:20 final size:22
Alignment explanation
Indices: 49598--49656 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 22
49588 AGCCGCACTC
* *
49598 TTTTCTCTCTTTTCTTCT-ATT
1 TTTTCCCTTTTTTCTTCTAATT
*
49619 TTTTTCC-TTTTTCTTCTAATT
1 TTTTCCCTTTTTTCTTCTAATT
49640 TTTTCCCTTTTTTCTTC
1 TTTTCCCTTTTTTCTTC
49657 ATCGTTTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 9 0.28
21 14 0.44
22 9 0.28
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTCCCTTTTTTCTTCTAATT
Found at i:50379 original size:29 final size:30
Alignment explanation
Indices: 50346--50420 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 30
50336 AAACTATGTA
50346 ATTGTAATTTATAAAAAAATT-GGATTGTT
1 ATTGTAATTTATAAAAAAATTCGGATTGTT
* * *
50375 ATTGTAATCTAT-AAAAAGTTCGGGTTGTT
1 ATTGTAATTTATAAAAAAATTCGGATTGTT
50404 ATTGTAGA-TTATAAAAA
1 ATTGTA-ATTTATAAAAA
50421 GTTTGGCCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
28 7 0.18
29 27 0.69
30 5 0.13
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.41
Consensus pattern (30 bp):
ATTGTAATTTATAAAAAAATTCGGATTGTT
Found at i:50529 original size:26 final size:28
Alignment explanation
Indices: 50458--50532 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
50448 AGATTACATA
*
50458 TTTATTCTGATTTATAAAAAATTTAGGTG
1 TTTATTATGATTTATAAAAAATTTA-GTG
* *
50487 TTTATTGTGATTAATAAAAAATTT-GT-
1 TTTATTATGATTTATAAAAAATTTAGTG
*
50513 TTTATTATAATTTATAAAAA
1 TTTATTATGATTTATAAAAA
50533 TTGAGACACT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 17 0.41
27 2 0.05
29 22 0.54
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.49
Consensus pattern (28 bp):
TTTATTATGATTTATAAAAAATTTAGTG
Found at i:50684 original size:50 final size:51
Alignment explanation
Indices: 50592--50696 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 51
50582 ATAAGATTAA
*
50592 TATTGTGACAATGACAATATTTTGTTTGTCACTTATAAAATAAAATTATTT
1 TATTGTGACAATGACAATATTTTGTTTGGCACTTATAAAATAAAATTATTT
50643 TATTGTGACAATGACAATA-TTTGTTTGGCACTTATAAAATAAAATTATTT
1 TATTGTGACAATGACAATATTTTGTTTGGCACTTATAAAATAAAATTATTT
50693 TATT
1 TATT
50697 ATTGTTGACG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 34 0.64
51 19 0.36
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (51 bp):
TATTGTGACAATGACAATATTTTGTTTGGCACTTATAAAATAAAATTATTT
Found at i:53801 original size:32 final size:32
Alignment explanation
Indices: 53724--53846 Score: 120
Period size: 32 Copynumber: 3.8 Consensus size: 32
53714 CATGGTACAT
* * *
53724 TGTTGTGTATTATCTGAATATGACACTAACAC
1 TGTTGTGCATTATCTGAATGTGACACTGACAC
* * * * * *
53756 TTTTGTTCTTTATCTGATTGTGACATTGACAG
1 TGTTGTGCATTATCTGAATGTGACACTGACAC
* * *
53788 TGTTGTGCATTATCTGAATGCGACACCGACAT
1 TGTTGTGCATTATCTGAATGTGACACTGACAC
* *
53820 TATTGTGCATTATCTGAATGTAACACT
1 TGTTGTGCATTATCTGAATGTGACACT
53847 CTACTAATAT
Statistics
Matches: 70, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (32 bp):
TGTTGTGCATTATCTGAATGTGACACTGACAC
Found at i:55421 original size:16 final size:15
Alignment explanation
Indices: 55393--55423 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
55383 CGAAAGAGCA
55393 TTATGCTAAAGAGTT
1 TTATGCTAAAGAGTT
55408 TTATGCTAAAAGAGTT
1 TTATGCT-AAAGAGTT
55424 ATGACCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (15 bp):
TTATGCTAAAGAGTT
Found at i:56336 original size:2 final size:2
Alignment explanation
Indices: 56329--56366 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
56319 ATGTGAATCG
56329 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56367 AATGATGTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58090 original size:55 final size:54
Alignment explanation
Indices: 58031--58403 Score: 437
Period size: 55 Copynumber: 6.8 Consensus size: 54
58021 CTATATGGTA
* * *
58031 ATTCATCAACTCATGATGAATTTCGT-AGTTATGCACACATAGTTCTTGCACGGCT
1 ATTCATCAACTCATGATGAATTTCGTGA-TT-TGCACACATAGTGCCTGTACGGCT
* * *
58086 ATTCATCAACTCGTGATGAATTTCGTGTAATTGCACACATAGTGCCTGTATGGCT
1 ATTCATCAACTCATGATGAATTTCGTG-ATTTGCACACATAGTGCCTGTACGGCT
* * **
58141 ATTCATCAACACATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTAATGCT
1 ATTCATCAACTCATGATGAATTTCGT-GATTTGCACACATAGTGCCTGTACGGCT
* *
58196 ATTCATCAACTCATGATGAATTTCATGGATTTGCACACATAGTGCCTGTACGACT
1 ATTCATCAACTCATGATGAATTTCGT-GATTTGCACACATAGTGCCTGTACGGCT
* * * *
58251 ATTCATCAACTCCTGATGAATTACGTAGAATTT-CACACATAGTGCATGTATGGCT
1 ATTCATCAACTCATGATGAATTTCGT-G-ATTTGCACACATAGTGCCTGTACGGCT
* *
58306 ATTCATCAACTCATGATGAATTAT-GTGGAATTGCACACATAGTGCATGTACGGCT
1 ATTCATCAACTCATGATGAATT-TCGT-GATTTGCACACATAGTGCCTGTACGGCT
* * * *
58361 ATTCATCAACTCACGATGAATTCCGTGGAATTGCACATATAGT
1 ATTCATCAACTCATGATGAATTTCGT-GATTTGCACACATAGT
58404 TTTTGTATTA
Statistics
Matches: 278, Mismatches: 33, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
54 3 0.01
55 268 0.96
56 6 0.02
57 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (54 bp):
ATTCATCAACTCATGATGAATTTCGTGATTTGCACACATAGTGCCTGTACGGCT
Found at i:58200 original size:110 final size:110
Alignment explanation
Indices: 58031--58403 Score: 484
Period size: 110 Copynumber: 3.4 Consensus size: 110
58021 CTATATGGTA
* * * * * **
58031 ATTCATCAACTCATGATGAATTTCGTAG-TTATGCACACATAGTTCTTGCACGGCTATTCATCAA
1 ATTCATCAACTCATGATGAATTCCGTGGATT-TGCACACATAGTGCATGTAATGCTATTCATCAA
* * *
58095 CTCGTGATGAATTTCGTGTAATTGCACACATAGTGCCTGTATGGCT
65 CTCATGATGAATTTCGTGGAATTGCACACATAGTGCCTGTACGGCT
* *
58141 ATTCATCAACACATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTAATGCTATTCATCAAC
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTAATGCTATTCATCAAC
* * *
58206 TCATGATGAATTTCATGGATTTGCACACATAGTGCCTGTACGACT
66 TCATGATGAATTTCGTGGAATTGCACACATAGTGCCTGTACGGCT
* * *
58251 ATTCATCAACTCCTGATGAATTACGTAGAATTT-CACACATAGTGCATGT-ATGGCTATTCATCA
1 ATTCATCAACTCATGATGAATTCCGT-GGATTTGCACACATAGTGCATGTAAT-GCTATTCATCA
*
58314 ACTCATGATGAATTAT-GTGGAATTGCACACATAGTGCATGTACGGCT
64 ACTCATGATGAATT-TCGTGGAATTGCACACATAGTGCCTGTACGGCT
* * *
58361 ATTCATCAACTCACGATGAATTCCGTGGAATTGCACATATAGT
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGT
58404 TTTTGTATTA
Statistics
Matches: 229, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
109 6 0.03
110 215 0.94
111 8 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (110 bp):
ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTAATGCTATTCATCAAC
TCATGATGAATTTCGTGGAATTGCACACATAGTGCCTGTACGGCT
Found at i:58290 original size:165 final size:165
Alignment explanation
Indices: 58031--58403 Score: 525
Period size: 165 Copynumber: 2.3 Consensus size: 165
58021 CTATATGGTA
* * * *
58031 ATTCATCAACTCATGATGAATTTCGTAG-TTATGCACACATAGTTCTTGCACGGCTATTCATCAA
1 ATTCATCAACTCATGATGAATTTCGTGGATT-TGCACACATAGTGCCTGCACGACTATTCATCAA
* * *
58095 CTCGTGATGAATTTCGTGTAATTGCACACATAGTGCCTGTATGGCTATTCATCAACACATGATGA
65 CTCCTGATGAATTACGTGTAATTGCACACATAGTGCATGTATGGCTATTCATCAACACATGATGA
* * * *
58160 ATTCCGTGGATTTGCACACATAGTGCCTGTAATGCT
130 ATTACGTGGAATTGCACACATAGTGCATGTAAGGCT
* *
58196 ATTCATCAACTCATGATGAATTTCATGGATTTGCACACATAGTGCCTGTACGACTATTCATCAAC
1 ATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCCTGCACGACTATTCATCAAC
* *
58261 TCCTGATGAATTACGTAG-AATTTCACACATAGTGCATGTATGGCTATTCATCAACTCATGATGA
66 TCCTGATGAATTACGT-GTAATTGCACACATAGTGCATGTATGGCTATTCATCAACACATGATGA
* *
58325 ATTATGTGGAATTGCACACATAGTGCATGTACGGCT
130 ATTACGTGGAATTGCACACATAGTGCATGTAAGGCT
* * * *
58361 ATTCATCAACTCACGATGAATTCCGTGGAATTGCACATATAGT
1 ATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGT
58404 TTTTGTATTA
Statistics
Matches: 184, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
165 181 0.98
166 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (165 bp):
ATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCCTGCACGACTATTCATCAAC
TCCTGATGAATTACGTGTAATTGCACACATAGTGCATGTATGGCTATTCATCAACACATGATGAA
TTACGTGGAATTGCACACATAGTGCATGTAAGGCT
Found at i:62349 original size:20 final size:20
Alignment explanation
Indices: 62294--62356 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
62284 TCATTTCTTG
*
62294 AAAGGGATCGATCATTTTTCA
1 AAAGGGATCGATC-CTTTTCA
** * * *
62315 TGAGGGATTGGTCCTTTTGA
1 AAAGGGATCGATCCTTTTCA
*
62335 AAAGGGATCGATCCTTTGCA
1 AAAGGGATCGATCCTTTTCA
62355 AA
1 AA
62357 CAGAAACTGT
Statistics
Matches: 30, Mismatches: 12, Indels: 1
0.70 0.28 0.02
Matches are distributed among these distances:
20 21 0.70
21 9 0.30
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (20 bp):
AAAGGGATCGATCCTTTTCA
Found at i:66963 original size:20 final size:20
Alignment explanation
Indices: 66932--66981 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
66922 TATGCTACTT
*
66932 CAACTGCCTTGACGCATAAA
1 CAACTACCTTGACGCATAAA
*
66952 CAATTACCTTGACGCATAAA
1 CAACTACCTTGACGCATAAA
66972 CAACTACCTT
1 CAACTACCTT
66982 TATGTCTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.30, G:0.10, T:0.24
Consensus pattern (20 bp):
CAACTACCTTGACGCATAAA
Found at i:80398 original size:35 final size:34
Alignment explanation
Indices: 80300--80424 Score: 133
Period size: 35 Copynumber: 3.6 Consensus size: 34
80290 TTTAACTCGA
* *
80300 TCAAACTGGTAATTCTTTATATAGGTTCAGACTA
1 TCAAACTGGTAATTCCTTATATAGGTTCAGACTG
* *** *
80334 TAAAACTGGTAATTCCTTACGGCAGGTTCAGCTCTG
1 TCAAACTGGTAATTCCTTA-TATAGGTTCAG-ACTG
* *
80370 TCAAAGTGGTAATTCCTTATATATGTTCAGACTG
1 TCAAACTGGTAATTCCTTATATAGGTTCAGACTG
*
80404 ATCAAGCTGGTAATTCCTTAT
1 -TCAAACTGGTAATTCCTTAT
80425 GGATCTAAGG
Statistics
Matches: 72, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
34 20 0.28
35 33 0.46
36 19 0.26
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (34 bp):
TCAAACTGGTAATTCCTTATATAGGTTCAGACTG
Found at i:86058 original size:74 final size:74
Alignment explanation
Indices: 85978--86140 Score: 258
Period size: 74 Copynumber: 2.2 Consensus size: 74
85968 GTTAAAAGAC
*
85978 TAGGGGTATCGGTACCTCTACG-GGGGTATCGGTACCCATAAGGCATTCTATTTTTCTCGGAGCC
1 TAGGGGTATCGGTACC-CTACGTGGGGTATCGGTACCCATAAGGCAATCTATTTTTCTCGGAGCC
86042 AAAACTT-GCA
65 AAAA-TTGGCA
* **
86052 TAGGGGTATCGGTACCCTATGTGGGGTATCGGTACCCATTGGGCAATCTATTTTTCTCGGAGCCA
1 TAGGGGTATCGGTACCCTACGTGGGGTATCGGTACCCATAAGGCAATCTATTTTTCTCGGAGCCA
86117 AAATTGGCA
66 AAATTGGCA
86126 TAGGGGTATCGGTAC
1 TAGGGGTATCGGTAC
86141 ACCCTATGAG
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
73 6 0.07
74 77 0.93
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (74 bp):
TAGGGGTATCGGTACCCTACGTGGGGTATCGGTACCCATAAGGCAATCTATTTTTCTCGGAGCCA
AAATTGGCA
Found at i:95898 original size:3 final size:3
Alignment explanation
Indices: 95890--95936 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
95880 TAGTATGATT
*
95890 ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
95937 TATTATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:95941 original size:3 final size:3
Alignment explanation
Indices: 95935--95965 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
95925 AATAATAATA
95935 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
95966 CTAATATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:108057 original size:25 final size:24
Alignment explanation
Indices: 108024--108079 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
108014 CTATGCTTGA
*
108024 AGAAAAAAAGGAACAAATAAAAAG
1 AGAAAAAAAGGAAAAAATAAAAAG
* *
108048 ATGAAAAAAATGAAAAAATGAAAAG
1 A-GAAAAAAAGGAAAAAATAAAAAG
108073 AGAAAAA
1 AGAAAAA
108080 TGAGGGTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.75, C:0.02, G:0.16, T:0.07
Consensus pattern (24 bp):
AGAAAAAAAGGAAAAAATAAAAAG
Found at i:108058 original size:17 final size:17
Alignment explanation
Indices: 108038--108071 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
108028 AAAAAGGAAC
108038 AAAT-AAAAAGATGAAAA
1 AAATGAAAAA-ATGAAAA
108055 AAATGAAAAAATGAAAA
1 AAATGAAAAAATGAAAA
108072 GAGAAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAATGAAAAAATGAAAA
Found at i:109293 original size:91 final size:92
Alignment explanation
Indices: 109179--109345 Score: 264
Period size: 91 Copynumber: 1.8 Consensus size: 92
109169 AAAGAGATGG
* * *
109179 ATCAACATTACCAATGGAGAGTTCATAATGAAAAGAACTCATCC-AACGAGGAAGAAGAAGTTCA
1 ATCAACATTACCAATGAAGAGTTCATAATGAAAAGAACGCATCCGAAAGAGGAAGAAGAAGTTCA
109243 TAATGAGAAGAACTTATTCAACTTCGC
66 TAATGAGAAGAACTTATTCAACTTCGC
** * *
109270 ATCAACATTTTCAATGAAGAGTTCATAATGAGAAGAACGCATCCGAAAGAGGGAGAAGAAGTTCA
1 ATCAACATTACCAATGAAGAGTTCATAATGAAAAGAACGCATCCGAAAGAGGAAGAAGAAGTTCA
109335 TAATGAGAAGA
66 TAATGAGAAGA
109346 GCTTGTTCGA
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
91 39 0.57
92 29 0.43
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.21
Consensus pattern (92 bp):
ATCAACATTACCAATGAAGAGTTCATAATGAAAAGAACGCATCCGAAAGAGGAAGAAGAAGTTCA
TAATGAGAAGAACTTATTCAACTTCGC
Found at i:109760 original size:3 final size:3
Alignment explanation
Indices: 109721--109779 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
109711 GATTAAAATA
* * *
109721 TAT TA- TAT TAAT TAT TAT ATAC TA- TAG TAT GAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
109766 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
109780 CTAATATCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 4 0.08
3 39 0.81
4 5 0.10
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:119970 original size:12 final size:12
Alignment explanation
Indices: 119940--119979 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
119930 AGGAGATGGT
*
119940 GCTGGAGCCGGA
1 GCTGGAGCCAGA
119952 G-TCGGAGCCAGA
1 GCT-GGAGCCAGA
119964 GCTGGAGCCAGA
1 GCTGGAGCCAGA
119976 GCTG
1 GCTG
119980 CTCGTGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.20, C:0.25, G:0.45, T:0.10
Consensus pattern (12 bp):
GCTGGAGCCAGA
Found at i:120939 original size:24 final size:24
Alignment explanation
Indices: 120912--121047 Score: 73
Period size: 24 Copynumber: 5.7 Consensus size: 24
120902 ATATATCAAA
*
120912 ATCAAAACATAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
* *
120936 ATCATATCAGAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
* * * *
120960 AACAGATCAG-AATCCAAGTCAAGT
1 ATCAAAACAGAAAT-CAGGTCAAGT
* * *
120984 ATCAGATCAG-AATCCATGTC-AGAT
1 ATCAAAACAGAAAT-CAGGTCAAG-T
* * *
121008 ATCAGATCAG-AATCCATGTCAAGT
1 ATCAAAACAGAAAT-CAGGTCAAGT
* *
121032 ATCAGATCAGAAATCA
1 ATCAAAACAGAAATCA
121048 AATCGAAAAT
Statistics
Matches: 100, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.05
24 90 0.90
25 5 0.05
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAAATCAGGTCAAGT
Found at i:121014 original size:48 final size:47
Alignment explanation
Indices: 120929--121043 Score: 160
Period size: 48 Copynumber: 2.4 Consensus size: 47
120919 CATAAATCAG
*
120929 GTCAAGTATCATATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAG-AATCAGGTCAAGTAACAGATCAGAATCCAA
* * *
120977 GTCAAGTATCAGATCAGAATCCATGTC-AGATATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAAT-CAGGTCAAG-TAACAGATCAGAATCCAA
121025 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
121044 ATCAAATCGA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
47 5 0.08
48 56 0.92
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (47 bp):
GTCAAGTATCAGATCAGAATCAGGTCAAGTAACAGATCAGAATCCAA
Found at i:121060 original size:48 final size:47
Alignment explanation
Indices: 120929--121060 Score: 151
Period size: 48 Copynumber: 2.7 Consensus size: 47
120919 CATAAATCAG
* *
120929 GTCAAGTATCATATCAGAAATCAGGTCAAGTAA-CAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAAATCAAGTCAA--AATCAGATCAGAATCCAA
* * *
120977 GTCAAGTATCAGATCAG-AATCCATGTCAGATATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAAAT-CAAGTCA-AAATCAGATCAGAATCCAA
*
121025 GTCAAGTATCAGATCAGAAATCAAATCGAAAATCAG
1 GTCAAGTATCAGATCAGAAATCAAGTC-AAAATCAG
121061 GTAAAATATT
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
47 4 0.06
48 63 0.88
49 5 0.07
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (47 bp):
GTCAAGTATCAGATCAGAAATCAAGTCAAAATCAGATCAGAATCCAA
Found at i:123442 original size:13 final size:13
Alignment explanation
Indices: 123424--123501 Score: 101
Period size: 13 Copynumber: 6.2 Consensus size: 13
123414 AACGGTCAAC
123424 GGTCAACGGGTCG
1 GGTCAACGGGTCG
123437 GGTCAACGGGTCG
1 GGTCAACGGGTCG
123450 GGT---CGGGTCG
1 GGTCAACGGGTCG
*
123460 GGTCAACTGGTCG
1 GGTCAACGGGTCG
123473 GGT-AAGCGGGTCG
1 GGTCAA-CGGGTCG
*
123486 GGTAAACGGGTCG
1 GGTCAACGGGTCG
123499 GGT
1 GGT
123502 TATGACCGGT
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
10 10 0.17
12 2 0.03
13 44 0.76
14 2 0.03
ACGTcount: A:0.14, C:0.19, G:0.49, T:0.18
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:124708 original size:76 final size:76
Alignment explanation
Indices: 124623--124768 Score: 292
Period size: 76 Copynumber: 1.9 Consensus size: 76
124613 AATCAATGGT
124623 TTTGAGTACGAGATTCGTTTTGAACACAAACCGCATTGGAATATAAAATACGGACAAGCTGGTTA
1 TTTGAGTACGAGATTCGTTTTGAACACAAACCGCATTGGAATATAAAATACGGACAAGCTGGTTA
124688 TATACTTTTGG
66 TATACTTTTGG
124699 TTTGAGTACGAGATTCGTTTTGAACACAAACCGCATTGGAATATAAAATACGGACAAGCTGGTTA
1 TTTGAGTACGAGATTCGTTTTGAACACAAACCGCATTGGAATATAAAATACGGACAAGCTGGTTA
124764 TATAC
66 TATAC
124769 AACGAGTTTG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (76 bp):
TTTGAGTACGAGATTCGTTTTGAACACAAACCGCATTGGAATATAAAATACGGACAAGCTGGTTA
TATACTTTTGG
Found at i:125203 original size:13 final size:14
Alignment explanation
Indices: 125174--125210 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
125164 TCGGCTACAG
125174 GAAAAA-AACTTTGT
1 GAAAAACAA-TTTGT
125188 GAAAAACAATTT-T
1 GAAAAACAATTTGT
125201 GAAAAACAAT
1 GAAAAACAAT
125211 AGTATATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.50
14 9 0.41
15 2 0.09
ACGTcount: A:0.57, C:0.08, G:0.11, T:0.24
Consensus pattern (14 bp):
GAAAAACAATTTGT
Found at i:125733 original size:22 final size:22
Alignment explanation
Indices: 125708--125768 Score: 81
Period size: 20 Copynumber: 2.9 Consensus size: 22
125698 GGTACTGGAT
125708 GAACAATATCGATACTAAGCAA
1 GAACAATATCGATACTAAGCAA
* *
125730 GAACAATATCGATACT-A-TAT
1 GAACAATATCGATACTAAGCAA
*
125750 GAACAATATCGATATTAAG
1 GAACAATATCGATACTAAG
125769 TGCACAGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.47
21 2 0.06
22 16 0.47
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.25
Consensus pattern (22 bp):
GAACAATATCGATACTAAGCAA
Found at i:125755 original size:20 final size:22
Alignment explanation
Indices: 125706--125768 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
125696 TCGGTACTGG
125706 ATGAACAATATCGATACTAAGC
1 ATGAACAATATCGATACTAAGC
* *
125728 AAGAACAATATCGATACT-A-T
1 ATGAACAATATCGATACTAAGC
*
125748 ATGAACAATATCGATATTAAG
1 ATGAACAATATCGATACTAAG
125769 TGCACAGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 16 0.46
21 2 0.06
22 17 0.49
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (22 bp):
ATGAACAATATCGATACTAAGC
Found at i:128081 original size:2 final size:2
Alignment explanation
Indices: 128074--128138 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
128064 ACAAAATGTG
128074 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
128116 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
128139 TGTTTTTTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:134172 original size:19 final size:19
Alignment explanation
Indices: 134136--134172 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
134126 TTTTTATATT
134136 TATTAAAAAATCATATTAG
1 TATTAAAAAATCATATTAG
134155 TATTCAAAAAATCA-ATTA
1 TATT-AAAAAATCATATTA
134173 AAAACTTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (19 bp):
TATTAAAAAATCATATTAG
Found at i:135354 original size:8 final size:8
Alignment explanation
Indices: 135341--135366 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
135331 TAACTTTGAG
135341 TATAAAAT
1 TATAAAAT
135349 TATAAAAT
1 TATAAAAT
135357 TATAAAAT
1 TATAAAAT
135365 TA
1 TA
135367 AATAAATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TATAAAAT
Found at i:136062 original size:28 final size:29
Alignment explanation
Indices: 136026--136093 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
136016 AAAAATCTTA
136026 AAACAAAAATTTCTCTTTTATTACGCTTT
1 AAACAAAAATTTCTCTTTTATTACGCTTT
*
136055 AAACAAAAATTTCTCTTTTATTACTCTTT
1 AAACAAAAATTTCTCTTTTATTACGCTTT
136084 AAACAAAAAT
1 AAACAAAAAT
136094 GTCCATGGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.41, C:0.16, G:0.01, T:0.41
Consensus pattern (29 bp):
AAACAAAAATTTCTCTTTTATTACGCTTT
Found at i:146820 original size:22 final size:22
Alignment explanation
Indices: 146771--146819 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
146761 TTCTTTGTGC
146771 ATTTTTCTTTTACATTTTCTGG
1 ATTTTTCTTTTACATTTTCTGG
* *
146793 ATTTTTTTTTTA-ATTTTTTGG
1 ATTTTTCTTTTACATTTTCTGG
*
146814 TTTTTT
1 ATTTTT
146820 TCTCTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.12, C:0.06, G:0.08, T:0.73
Consensus pattern (22 bp):
ATTTTTCTTTTACATTTTCTGG
Found at i:146858 original size:13 final size:14
Alignment explanation
Indices: 146835--146867 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
146825 TTCTTAGTGC
146835 CTTTTTCTTATGTT
1 CTTTTTCTTATGTT
*
146849 CTTTTT-TTATTTT
1 CTTTTTCTTATGTT
146862 CTTTTT
1 CTTTTT
146868 GATGCAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (14 bp):
CTTTTTCTTATGTT
Found at i:147419 original size:26 final size:26
Alignment explanation
Indices: 147348--147419 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
147338 TATTATGGAT
*
147348 GGATTTTGATGGAAATATAACAAGATAA
1 GGATTTTGAT-G-AATAAAACAAGATAA
* * * *
147376 GGATTGTAATGAAGAAAACAA-ATCA
1 GGATTTTGATGAATAAAACAAGATAA
147401 GGATTTTGATGTAATAAAA
1 GGATTTTGATG-AATAAAA
147420 AGTTGACTTG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
25 12 0.34
26 14 0.40
27 1 0.03
28 8 0.23
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.28
Consensus pattern (26 bp):
GGATTTTGATGAATAAAACAAGATAA
Found at i:152156 original size:16 final size:16
Alignment explanation
Indices: 152122--152168 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 16
152112 ATAACATCTC
152122 TATCCATTTCATTTCT
1 TATCCATTTCATTTCT
152138 TATCC-TTTCATTTCT
1 TATCCATTTCATTTCT
152153 T-T--ATTTCATTTCT
1 TATCCATTTCATTTCT
152166 TAT
1 TAT
152169 TTCCATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 11 0.38
14 2 0.07
15 11 0.38
16 5 0.17
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (16 bp):
TATCCATTTCATTTCT
Found at i:152161 original size:13 final size:13
Alignment explanation
Indices: 152127--152194 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 13
152117 ATCTCTATCC
152127 ATTTCATTTCTTAT
1 ATTTCATTTCTT-T
*
152141 CCTTTCATTTCTTT
1 -ATTTCATTTCTTT
152155 ATTTCATTTC-TT
1 ATTTCATTTCTTT
** *
152167 ATTTCCATTTAATC
1 ATTT-CATTTCTTT
152181 ATTT-ATTTCTTT
1 ATTTCATTTCTTT
152193 AT
1 AT
152195 ATTGTGCAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
12 13 0.30
13 14 0.32
14 6 0.14
15 11 0.25
ACGTcount: A:0.19, C:0.18, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:152366 original size:6 final size:6
Alignment explanation
Indices: 152355--152388 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
152345 GTACTGCAAC
*
152355 AAAAGA AAAAGA AATAAGA AAAACA AAAAGA AAA
1 AAAAGA AAAAGA AA-AAGA AAAAGA AAAAGA AAA
152389 CAAAAGACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:152373 original size:13 final size:12
Alignment explanation
Indices: 152355--152393 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
152345 GTACTGCAAC
*
152355 AAAAGAAAAAGA
1 AAAAGAAAAACA
152367 AATAAGAAAAACA
1 AA-AAGAAAAACA
152380 AAAAG-AAAACA
1 AAAAGAAAAACA
152391 AAA
1 AAA
152394 GACATCTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 9 0.36
12 5 0.20
13 11 0.44
ACGTcount: A:0.82, C:0.05, G:0.10, T:0.03
Consensus pattern (12 bp):
AAAAGAAAAACA
Found at i:153806 original size:24 final size:24
Alignment explanation
Indices: 153779--153831 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
153769 ATATGCGTGA
153779 CTCTTTGTGATCCACAAGACATGT
1 CTCTTTGTGATCCACAAGACATGT
*
153803 CTCTTTGTGATTCACAAGACATGT
1 CTCTTTGTGATCCACAAGACATGT
153827 CTCTT
1 CTCTT
153832 GATGTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (24 bp):
CTCTTTGTGATCCACAAGACATGT
Found at i:156091 original size:12 final size:13
Alignment explanation
Indices: 156063--156115 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
156053 ATCTCTATCC
156063 ATTTCATTTCTTT
1 ATTTCATTTCTTT
156076 ATTTCATTTC-TT
1 ATTTCATTTCTTT
** *
156088 ATTTCCATTTAATC
1 ATTT-CATTTCTTT
156102 ATTTC-TTTCTTT
1 ATTTCATTTCTTT
156114 AT
1 AT
156116 ATTGTGCAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
12 12 0.36
13 16 0.48
14 5 0.15
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:158372 original size:12 final size:13
Alignment explanation
Indices: 158344--158396 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
158334 ATCTCTATCC
158344 ATTTCATTTCTTT
1 ATTTCATTTCTTT
158357 ATTTCATTTC-TT
1 ATTTCATTTCTTT
** *
158369 ATTTCCATTTAATC
1 ATTT-CATTTCTTT
158383 ATTTC-TTTCTTT
1 ATTTCATTTCTTT
158395 AT
1 AT
158397 ATTGTGCAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
12 12 0.36
13 16 0.48
14 5 0.15
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:163370 original size:10 final size:10
Alignment explanation
Indices: 163363--163388 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
163353 ACTAAATGTC
163363 ATGCAATGAA
1 ATGCAATGAA
163373 ATGCAATGAA
1 ATGCAATGAA
163383 ATGCAA
1 ATGCAA
163389 ACTAAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (10 bp):
ATGCAATGAA
Found at i:163675 original size:24 final size:24
Alignment explanation
Indices: 163625--163681 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
163615 AGGCGGATAT
* * *
163625 TCAGGGGTCTCAGAATGGTGCGGA
1 TCAGGAGTCTCAGAACGGTGCGAA
* *
163649 TCAGGAGTCTCGGAACGGTGTGAA
1 TCAGGAGTCTCAGAACGGTGCGAA
*
163673 TCAAGAGTC
1 TCAGGAGTC
163682 GGGTAATCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.37, T:0.21
Consensus pattern (24 bp):
TCAGGAGTCTCAGAACGGTGCGAA
Found at i:164905 original size:20 final size:21
Alignment explanation
Indices: 164882--164925 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
164872 GAGAAAAAGT
164882 AAAAGTTAA-AATGAAATAGA
1 AAAAGTTAAGAATGAAATAGA
*
164902 AAAAGTTAAGGATGAAATAGA
1 AAAAGTTAAGAATGAAATAGA
164923 AAA
1 AAA
164926 TAAAAAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (21 bp):
AAAAGTTAAGAATGAAATAGA
Found at i:164919 original size:26 final size:25
Alignment explanation
Indices: 164863--164937 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
164853 AGAAGATGAA
* *
164863 GAAATGAAAGAGAAAAAGTAAAAGTT
1 GAAATGAAA-AGAAAAAGTTAAAGAT
* *
164889 AAAATGAAATAGAAAAAGTTAAGGAT
1 GAAATGAAA-AGAAAAAGTTAAAGAT
*
164915 GAAATAGAAAATAAAAAGTTAAA
1 GAAAT-GAAAAGAAAAAGTTAAA
164938 AAATTGATAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 36 0.90
27 4 0.10
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (25 bp):
GAAATGAAAAGAAAAAGTTAAAGAT
Found at i:171986 original size:25 final size:25
Alignment explanation
Indices: 171958--172014 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
171948 CACGAACCAC
171958 CTTAGCT-CGCTAGCTCCTCTCGACG
1 CTTAGCTAC-CTAGCTCCTCTCGACG
171983 CTTAGCTACCTAGCTCCTCTCGACG
1 CTTAGCTACCTAGCTCCTCTCGACG
172008 CTTAGCT
1 CTTAGCT
172015 TACCACTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.14, C:0.39, G:0.18, T:0.30
Consensus pattern (25 bp):
CTTAGCTACCTAGCTCCTCTCGACG
Found at i:175108 original size:18 final size:18
Alignment explanation
Indices: 175085--175130 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
175075 CAAAAGTAAG
175085 ACGAGGTGGGGATAGAAC
1 ACGAGGTGGGGATAGAAC
175103 ACGAGGTGGGGATAGAAC
1 ACGAGGTGGGGATAGAAC
175121 ACGAGG-GGGG
1 ACGAGGTGGGG
175131 TGGTAGAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.30, C:0.11, G:0.50, T:0.09
Consensus pattern (18 bp):
ACGAGGTGGGGATAGAAC
Found at i:181483 original size:20 final size:20
Alignment explanation
Indices: 181454--181492 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
181444 ATTTCACTAC
*
181454 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
181474 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
181493 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:200368 original size:45 final size:47
Alignment explanation
Indices: 200245--200373 Score: 138
Period size: 49 Copynumber: 2.8 Consensus size: 47
200235 ATATAAATTT
* *
200245 CTTACC-TTTTATCCCATAAGCTCATAAGCTTATTTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
* * ** *
200291 CTTACCATTTAAAATTCCATAAGCTCGTAAGCTTTTTTTTTTCAATATA
1 CTTACCATTT--AATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
* *
200340 CTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTT
200374 GCATGGTTAC
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
45 22 0.32
46 6 0.09
47 3 0.04
48 2 0.03
49 36 0.52
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (47 bp):
CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
Found at i:204438 original size:17 final size:16
Alignment explanation
Indices: 204422--204483 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
204412 CATTTTTTTC
204422 TCTTTTTCTTTTCTTT
1 TCTTTTTCTTTTCTTT
* *
204438 CTCGTTTTCATTT-TTT
1 -TCTTTTTCTTTTCTTT
* * *
204454 TCTTCTTCGTTTCATT
1 TCTTTTTCTTTTCTTT
*
204470 TCATTTTCTTTTCT
1 TCTTTTTCTTTTCT
204484 ATATTTTCTT
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
15 9 0.26
16 15 0.44
17 10 0.29
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.71
Consensus pattern (16 bp):
TCTTTTTCTTTTCTTT
Found at i:204456 original size:21 final size:22
Alignment explanation
Indices: 204430--204480 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
204420 TCTCTTTTTC
204430 TTTTCTTTC-TCGTTTTCATTT-
1 TTTTCTTTCTTCG-TTTCATTTA
204451 TTTTC-TTCTTCGTTTCATTTCA
1 TTTTCTTTCTTCGTTTCATTT-A
204473 TTTTCTTT
1 TTTTCTTT
204481 TCTATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 11 0.42
21 8 0.31
22 5 0.19
23 2 0.08
ACGTcount: A:0.06, C:0.20, G:0.04, T:0.71
Consensus pattern (22 bp):
TTTTCTTTCTTCGTTTCATTTA
Found at i:204505 original size:15 final size:14
Alignment explanation
Indices: 204472--204504 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
204462 GTTTCATTTC
204472 ATTTTCTTTTCTAT
1 ATTTTCTTTTCTAT
204486 ATTTTCTTTTTCTA-
1 ATTTTC-TTTTCTAT
204500 ATTTT
1 ATTTT
204505 TATTCTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTTCTTTTCTAT
Found at i:212571 original size:2 final size:2
Alignment explanation
Indices: 212564--212620 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
212554 TTTCTTTATG
* * *
212564 TA TA TA TA TG TA TG CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
212606 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
212621 TTCCCTACAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:215381 original size:21 final size:20
Alignment explanation
Indices: 215357--215396 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
215347 AAAAACTAGT
215357 ATTAGAAAATAAAAACAGAAA
1 ATTAGAAAATAAAAA-AGAAA
* *
215378 ATTATAAATTAAAAAAGAA
1 ATTAGAAAATAAAAAAGAA
215397 GGACAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
ATTAGAAAATAAAAAAGAAA
Found at i:216683 original size:42 final size:42
Alignment explanation
Indices: 216631--216827 Score: 193
Period size: 42 Copynumber: 4.7 Consensus size: 42
216621 TGACCTAAGG
*
216631 TGATGCTGATCCAACTCCTTATGTGATGGACGAGCCAAATGA
1 TGATGTTGATCCAACTCCTTATGTGATGGACGAGCCAAATGA
* *
216673 TGATGTTGATCCAACTCTTTATATGATGGACGAGCCAAATGA
1 TGATGTTGATCCAACTCCTTATGTGATGGACGAGCCAAATGA
* * * * *
216715 TGATGCTGCT-CATGCTCCTTATGTGATGGACAAGCAAAATGA
1 TGATGTTGATCCA-ACTCCTTATGTGATGGACGAGCCAAATGA
* * ** ** *
216757 TTATGCTT-ATACAACTCCTTATGTGATATATTAGCCAAA-GT
1 TGATG-TTGATCCAACTCCTTATGTGATGGACGAGCCAAATGA
* * *
216798 TGGTGTTGTTCTAACTCCTTATGTGATGGA
1 TGATGTTGATCCAACTCCTTATGTGATGGA
216828 AACAAGCTAA
Statistics
Matches: 124, Mismatches: 27, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
40 2 0.02
41 23 0.19
42 96 0.77
43 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (42 bp):
TGATGTTGATCCAACTCCTTATGTGATGGACGAGCCAAATGA
Found at i:216967 original size:91 final size:91
Alignment explanation
Indices: 216848--217023 Score: 264
Period size: 91 Copynumber: 1.9 Consensus size: 91
216838 AGTGGAAGTG
* **
216848 GAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGAATGAGTTCTTCTTGTTATCAACTC
1 GAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGAATGAGTTATTCTCATTATCAACT-
216913 T-CCACCAGAAATATTGATCCAAGGTT
65 TGCCACCAGAAATATTGATCCAAGGTT
* * *
216939 GAACAAGTTCTTCTCATTATGAATTTATTCTCCCTCATCGGATGAGTTATTCTCATTATGAACTT
1 GAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGAATGAGTTATTCTCATTATCAACTT
* *
217004 GCCACTAGAAATGTTGATCC
66 GCCACCAGAAATATTGATCC
217024 CTCAAGTGAG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
90 1 0.01
91 75 0.99
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (91 bp):
GAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGAATGAGTTATTCTCATTATCAACTT
GCCACCAGAAATATTGATCCAAGGTT
Found at i:217203 original size:91 final size:91
Alignment explanation
Indices: 217071--217427 Score: 403
Period size: 91 Copynumber: 3.9 Consensus size: 91
217061 GAATCGAGCT
* * * * * * *
217071 AAGGTTGAGCAATTTTTTCTCATTATAAACTT-TGTGTCCCTCATTGGATGAGTTTTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCT-TCTCCCTCGTTGGATGAGTTCTTCTCATTA
* *
217135 TAAACTCTTCACTAGAAATATTGATCC
65 TAAACTCTCCACTAGAAATGTTGATCC
* *
217162 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTTGATGAGTTCTTATCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
* ** * *
217227 AAACCCTAAACTAAAAATGTTGTTCC
66 AAACTCTCCACTAGAAATGTTGATCC
* * * *
217253 AAGATTGAACAAGTTCTTCTCATTATGATCTTCTTCTCCTTCGTTGGATGAGTTTTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
* * *
217318 GAACTCTCCACTGGAAATGTTGAGCC
66 AAACTCTCCACTAGAAATGTTGATCC
* * * ** **
217344 AAGGTTGAA-AAGTTCTTTTCATTAAGAACTTCTTTTCCCTCGTCAGATGCCTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
* *
217408 GAACTCTCCACTGGAAATGT
66 AAACTCTCCACTAGAAATGT
217428 GGACTAGTTT
Statistics
Matches: 225, Mismatches: 40, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
90 65 0.29
91 159 0.71
92 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.39
Consensus pattern (91 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
AAACTCTCCACTAGAAATGTTGATCC
Found at i:219719 original size:29 final size:28
Alignment explanation
Indices: 219686--219749 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
219676 TTACTTGGGA
219686 AGGTAATGTCTTTAAGGTTAATTTTGAGG
1 AGGTAATGTCTTTAAGGTTAA-TTTGAGG
* * *
219715 AGGTAATGTGTTTCAGGTTAATTTGGGG
1 AGGTAATGTCTTTAAGGTTAATTTGAGG
219743 AGGTAAT
1 AGGTAAT
219750 ACGTTTCAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 13 0.41
29 19 0.59
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.39
Consensus pattern (28 bp):
AGGTAATGTCTTTAAGGTTAATTTGAGG
Found at i:219748 original size:28 final size:29
Alignment explanation
Indices: 219680--219761 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 29
219670 TTAGGTTTAC
* * *
219680 TTGGGAAGGTAATGTCTTTAAGGTTAATT
1 TTGGGGAGGTAATGTGTTTCAGGTTAATT
*
219709 TTGAGGAGGTAATGTGTTTCAGGTTAA-T
1 TTGGGGAGGTAATGTGTTTCAGGTTAATT
**
219737 TTGGGGAGGTAATACGTTTCAGGTT
1 TTGGGGAGGTAATGTGTTTCAGGTT
219762 GTCTTCTTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 23 0.50
29 23 0.50
ACGTcount: A:0.24, C:0.05, G:0.32, T:0.39
Consensus pattern (29 bp):
TTGGGGAGGTAATGTGTTTCAGGTTAATT
Found at i:224371 original size:25 final size:25
Alignment explanation
Indices: 224326--224373 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
224316 TATCCTGAAT
*
224326 ATTTAATTTAAATTAATTAATAATG
1 ATTTAATTTAAATTAAATAATAATG
*
224351 ATTTAA-TTAATTTGAAATAATAA
1 ATTTAATTTAAATT-AAATAATAA
224374 AATCCCTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
ATTTAATTTAAATTAAATAATAATG
Found at i:224964 original size:23 final size:24
Alignment explanation
Indices: 224938--224992 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
224928 CTAATGCACA
224938 ACAAAAAATAATAA-TTTTCCATG
1 ACAAAAAATAATAATTTTTCCATG
*
224961 ACAAAAAATAATAATTTTTCCGTG
1 ACAAAAAATAATAATTTTTCCATG
224985 ACAAAAAA
1 ACAAAAAA
224993 ATAAAAATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (24 bp):
ACAAAAAATAATAATTTTTCCATG
Found at i:227815 original size:721 final size:721
Alignment explanation
Indices: 226385--227827 Score: 2861
Period size: 721 Copynumber: 2.0 Consensus size: 721
226375 CAAATTTTTT
226385 TTGGCACAAGTCCACCCAAGACTTTATCGAGCTAGAAGGTAGTCCATTAAGCCATGCTCTCGCGT
1 TTGGCACAAGTCCACCCAAGACTTTATCGAGCTAGAAGGTAGTCCATTAAGCCATGCTCTCGCGT
226450 GATCTTACAAAGAATATGGAAATAACTTCAATTTGAGTACATCTTCATGTACACCTTGTTGTCAA
66 GATCTTACAAAGAATATGGAAATAACTTCAATTTGAGTACATCTTCATGTACACCTTGTTGTCAA
226515 AAGGAGTTACAGACTTCCAAAAATGCTCGAACATGTTGTCTTACATCCTCATGAGGAGCACCGCC
131 AAGGAGTTACAGACTTCCAAAAATGCTCGAACATGTTGTCTTACATCCTCATGAGGAGCACCGCC
226580 AAACTGTCCAACATGTCGACCATAACCGGTTTGATCTCGAAGTGGCCTGCCTAAATCTTGGAAGC
196 AAACTGTCCAACATGTCGACCATAACCGGTTTGATCTCGAAGTGGCCTGCCTAAATCTTGGAAGC
226645 TACAATAGCAGGCTTAAGGTCATCCAATCTGGGAGCTAAGTGATCTTTAATAGTTCATGGTCTTG
261 TACAATAGCAGGCTTAAGGTCATCCAATCTGGGAGCTAAGTGATCTTTAATAGTTCATGGTCTTG
226710 GAACATTCTTTGTTTTTTTATTTGTCCTGGCATTTAATTCTTCAGGTTCCTCCACTTTATTTTGA
326 GAACATTCTTTGTTTTTTTATTTGTCCTGGCATTTAATTCTTCAGGTTCCTCCACTTTATTTTGA
226775 ACTTCCTATATAGCTTCTTGAGCTCCTTGAACATATCTTCTTTGACGGAAATTTTTTTTCGATCT
391 ACTTCCTATATAGCTTCTTGAGCTCCTTGAACATATCTTCTTTGACGGAAATTTTTTTTCGATCT
226840 CAAATTCAAAATGAGATAATGGTTCCTTGGGACTTCTACAAGTCATATAATCGCACAACACTTCG
456 CAAATTCAAAATGAGATAATGGTTCCTTGGGACTTCTACAAGTCATATAATCGCACAACACTTCG
*
226905 AAAGGGTAAACAAAAATAGTGAATAAATCTATAAAAATTATAATAATAAAGAAACAAGATAATTC
521 AAAGGGTAAACAAAAATAGTGAATAAATCTATAAAAATTATAATAATAAAGAAAAAAGATAATTC
226970 TATAACACAACTTTTAAAAAAACCAATTGCCAATCCCTGGCAACGGCGCCAAAAACTTGATCGCA
586 TATAACACAACTTTTAAAAAAACCAATTGCCAATCCCTGGCAACGGCGCCAAAAACTTGATCGCA
227035 TGTAAATGTGTGTTTTGTGGGACGCAAGTCTGTGCAAGTATACACAATTGATCAAGTAATATAGT
651 TGTAAATGTGTGTTTTGTGGGACGCAAGTCTGTGCAAGTATACACAATTGATCAAGTAATATAGT
227100 AGTTAG
716 AGTTAG
227106 TTGGCACAAGTCCACCCAAGACTTTATCGAGCTAGAAGGTAGTCCATTAAGCCATGCTCTCGCGT
1 TTGGCACAAGTCCACCCAAGACTTTATCGAGCTAGAAGGTAGTCCATTAAGCCATGCTCTCGCGT
227171 GATCTTACAAAGAATATGGAAATAACTTCAATTTGAGTACATCTTCATGTACACCTTGTTGTCAA
66 GATCTTACAAAGAATATGGAAATAACTTCAATTTGAGTACATCTTCATGTACACCTTGTTGTCAA
227236 AAGGAGTTACAGACTTCCAAAAATGCTCGAACATGTTGTCTTACATCCTCATGAGGAGCACCGCC
131 AAGGAGTTACAGACTTCCAAAAATGCTCGAACATGTTGTCTTACATCCTCATGAGGAGCACCGCC
227301 AAACTGTCCAACATGTCGACCATAACCGGTTTGATCTCGAAGTGGCCTGCCTAAATCTTGGAAGC
196 AAACTGTCCAACATGTCGACCATAACCGGTTTGATCTCGAAGTGGCCTGCCTAAATCTTGGAAGC
227366 TACAATAGCAGGCTTAAGGTCATCCAATCTGGGAGCTAAGTGATCTTTAATAGTTCATGGTCTTG
261 TACAATAGCAGGCTTAAGGTCATCCAATCTGGGAGCTAAGTGATCTTTAATAGTTCATGGTCTTG
227431 GAACATTCTTTGTTTTTTTATTTGTCCTGGCATTTAATTCTTCAGGTTCCTCCACTTTATTTTGA
326 GAACATTCTTTGTTTTTTTATTTGTCCTGGCATTTAATTCTTCAGGTTCCTCCACTTTATTTTGA
227496 ACTTCCTATATAGCTTCTTGAGCTCCTTGAACATATCTTCTTTGACGGAAATTTTTTTTCGATCT
391 ACTTCCTATATAGCTTCTTGAGCTCCTTGAACATATCTTCTTTGACGGAAATTTTTTTTCGATCT
227561 CAAATTCAAAATGAGATAATGGTTCCTTGGGACTTCTACAAGTCATATAATCGCACAACACTTCG
456 CAAATTCAAAATGAGATAATGGTTCCTTGGGACTTCTACAAGTCATATAATCGCACAACACTTCG
227626 AAAGGGTAAACAAAAATAGTGAATAAATCTATAAAAATTATAATAATAAAGAAAAAAGATAATTC
521 AAAGGGTAAACAAAAATAGTGAATAAATCTATAAAAATTATAATAATAAAGAAAAAAGATAATTC
227691 TATAACACAACTTTTAAAAAAA-CAATTGCCAATCCCTGGCAACGGCGCCAAAAACTTGATCGCA
586 TATAACACAACTTTTAAAAAAACCAATTGCCAATCCCTGGCAACGGCGCCAAAAACTTGATCGCA
227755 TGTAAATGTGTGTTTTGTGGGACGCAAGTCTGTGCAAGTATACACAATTGATCAAAGTAATATAG
651 TGTAAATGTGTGTTTTGTGGGACGCAAGTCTGTGCAAGTATACACAATTGATC-AAGTAATATAG
227820 TAGTTAG
715 TAGTTAG
227827 T
1 T
227828 GAGTATCGTC
Statistics
Matches: 720, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
720 95 0.13
721 625 0.87
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (721 bp):
TTGGCACAAGTCCACCCAAGACTTTATCGAGCTAGAAGGTAGTCCATTAAGCCATGCTCTCGCGT
GATCTTACAAAGAATATGGAAATAACTTCAATTTGAGTACATCTTCATGTACACCTTGTTGTCAA
AAGGAGTTACAGACTTCCAAAAATGCTCGAACATGTTGTCTTACATCCTCATGAGGAGCACCGCC
AAACTGTCCAACATGTCGACCATAACCGGTTTGATCTCGAAGTGGCCTGCCTAAATCTTGGAAGC
TACAATAGCAGGCTTAAGGTCATCCAATCTGGGAGCTAAGTGATCTTTAATAGTTCATGGTCTTG
GAACATTCTTTGTTTTTTTATTTGTCCTGGCATTTAATTCTTCAGGTTCCTCCACTTTATTTTGA
ACTTCCTATATAGCTTCTTGAGCTCCTTGAACATATCTTCTTTGACGGAAATTTTTTTTCGATCT
CAAATTCAAAATGAGATAATGGTTCCTTGGGACTTCTACAAGTCATATAATCGCACAACACTTCG
AAAGGGTAAACAAAAATAGTGAATAAATCTATAAAAATTATAATAATAAAGAAAAAAGATAATTC
TATAACACAACTTTTAAAAAAACCAATTGCCAATCCCTGGCAACGGCGCCAAAAACTTGATCGCA
TGTAAATGTGTGTTTTGTGGGACGCAAGTCTGTGCAAGTATACACAATTGATCAAGTAATATAGT
AGTTAG
Found at i:229748 original size:28 final size:28
Alignment explanation
Indices: 229692--229749 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
229682 GCCTCTGTAA
* * *
229692 GTAGATTTCCTTCACCTTTCCCCTGTAT
1 GTAGATTTCATTCACCTTGCCCCTATAT
* *
229720 GTAGATTTCATTTACCTTGCCCTTATAT
1 GTAGATTTCATTCACCTTGCCCCTATAT
229748 GT
1 GT
229750 GAATGGTGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.17, C:0.26, G:0.12, T:0.45
Consensus pattern (28 bp):
GTAGATTTCATTCACCTTGCCCCTATAT
Found at i:241014 original size:15 final size:15
Alignment explanation
Indices: 240991--241025 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
240981 CCTCTCAAAA
*
240991 GATGAATTGGCTACC
1 GATGTATTGGCTACC
241006 GATGTATTGGCTACC
1 GATGTATTGGCTACC
241021 GATGT
1 GATGT
241026 TATCCTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (15 bp):
GATGTATTGGCTACC
Found at i:241380 original size:15 final size:15
Alignment explanation
Indices: 241357--241391 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
241347 TCCTCTCAAA
*
241357 GATGAATTGGCTACC
1 GATGTATTGGCTACC
241372 GATGTATTGGCTACC
1 GATGTATTGGCTACC
241387 GATGT
1 GATGT
241392 TATCCTGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (15 bp):
GATGTATTGGCTACC
Found at i:255236 original size:18 final size:19
Alignment explanation
Indices: 255208--255253 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
255198 TCAAAGAGGT
255208 TTATA-TTTAATTTTA-TA
1 TTATATTTTAATTTTAGTA
255225 TTATATTTTAATTTTAGTA
1 TTATATTTTAATTTTAGTA
255244 TTA-ATTTTAA
1 TTATATTTTAA
255254 ATAAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.19
18 17 0.63
19 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTATATTTTAATTTTAGTA
Found at i:255247 original size:12 final size:12
Alignment explanation
Indices: 255232--255367 Score: 91
Period size: 13 Copynumber: 10.8 Consensus size: 12
255222 ATATTATATT
*
255232 TTAATTTTAGTA
1 TTAATTTTAATA
255244 TTAATTTTAA-A
1 TTAATTTTAATA
* *
255255 -TAAATTAAATA
1 TTAATTTTAATA
255266 TTAATTTTTTAATA
1 TTAA--TTTTAATA
*
255280 TTATATTATAGATA
1 TTA-ATTTTA-ATA
255294 TTAATTTTAATA
1 TTAATTTTAATA
255306 TTAATTTTGTAA-A
1 TTAA-TTT-TAATA
* *
255319 -TAAATTAAATA
1 TTAATTTTAATA
255330 TTAATTTTTAATA
1 TTAA-TTTTAATA
*
255343 TTATATTATAGATA
1 TTA-ATTTTA-ATA
255357 TTTAATTTTAA
1 -TTAATTTTAA
255368 ATCATATAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
10 9 0.09
11 5 0.05
12 25 0.26
13 27 0.28
14 27 0.28
15 4 0.04
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:255306 original size:40 final size:37
Alignment explanation
Indices: 255262--255345 Score: 107
Period size: 40 Copynumber: 2.2 Consensus size: 37
255252 AAATAAATTA
* *
255262 AATATTAATTTTTTAATATTATATTATAGATATTAA-TTTT
1 AATATTAATTTTGTAA-A-TAAATTA-A-ATATTAATTTTT
255302 AATATTAATTTTGTAAATAAATTAAATATTAATTTTT
1 AATATTAATTTTGTAAATAAATTAAATATTAATTTTT
255339 AATATTA
1 AATATTA
255346 TATTATAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
36 7 0.17
37 12 0.29
38 6 0.15
39 1 0.02
40 15 0.37
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (37 bp):
AATATTAATTTTGTAAATAAATTAAATATTAATTTTT
Found at i:255330 original size:64 final size:61
Alignment explanation
Indices: 255213--255367 Score: 233
Period size: 64 Copynumber: 2.5 Consensus size: 61
255203 GAGGTTTATA
* * *
255213 TTTAATTTTATATTAT--ATTTTAATTTTAGTATTAATTTTAAATAAATTAAATATTAATTT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTAAATAAATTAAATATTAA-TT
255273 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTGTAAATAAATTAAATATTAATT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAA-TTT-TAAATAAATTAAATATTAATT
255336 TTTAATATTATATTATAGATATTTAATTTTAA
1 TTTAATATTATATTATAGATA-TTAATTTTAA
255368 ATCATATAAA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
60 15 0.17
62 17 0.20
63 26 0.30
64 29 0.33
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (61 bp):
TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTAAATAAATTAAATATTAATT
Found at i:255420 original size:19 final size:20
Alignment explanation
Indices: 255376--255428 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
255366 AAATCATATA
*
255376 AATTA-TTTTATATATTATT
1 AATTATTTTTATTTATTATT
*
255395 AA-AATTTTTATTTATT-TT
1 AATTATTTTTATTTATTATT
255413 AATTATTTTTTATTTA
1 AATTA-TTTTTATTTA
255429 AGTTTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 5 0.18
19 13 0.46
20 10 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
AATTATTTTTATTTATTATT
Found at i:255921 original size:31 final size:31
Alignment explanation
Indices: 255884--255943 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
255874 TAGTTGTATG
* *
255884 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGAAAAACTAA
255915 AATTATTTAAATCTCAGTATTGAAAAACT
1 AATTATTTAAATCTCAGTATTGAAAAACT
255944 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGAAAAACTAA
Found at i:257074 original size:46 final size:46
Alignment explanation
Indices: 257002--257213 Score: 259
Period size: 46 Copynumber: 4.6 Consensus size: 46
256992 AAATGAATGA
* * *
257002 ATAAATGAAAATGCATAACGATGCATTATCGACT-TGAAAGGATTCC
1 ATAAATGAAAATGCATAAAGGTGCATTATCG-CTATGAAAGGATGCC
* * *
257048 ATAAATGAAAATGCATAAAGGGGCATTATCGGTATGAAATGATGCC
1 ATAAATGAAAATGCATAAAGGTGCATTATCGCTATGAAAGGATGCC
* *
257094 ATAAATAAAAATGCATAACA-GTGCATTATCGGTATGAAAGGATGCC
1 ATAAATGAAAATGCATAA-AGGTGCATTATCGCTATGAAAGGATGCC
* *
257140 ATAAATGAAAATGCATAACGGTGCATTATCGGC-ATGAAATGATGCC
1 ATAAATGAAAATGCATAAAGGTGCATTATC-GCTATGAAAGGATGCC
* * *
257186 ACAAATGAAAATGCATGACGGTGCATTA
1 ATAAATGAAAATGCATAAAGGTGCATTA
257214 ACAGTATTAA
Statistics
Matches: 147, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
45 1 0.01
46 144 0.98
47 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.24
Consensus pattern (46 bp):
ATAAATGAAAATGCATAAAGGTGCATTATCGCTATGAAAGGATGCC
Found at i:257105 original size:92 final size:92
Alignment explanation
Indices: 257002--257213 Score: 311
Period size: 92 Copynumber: 2.3 Consensus size: 92
256992 AAATGAATGA
*
257002 ATAAATGAAAATGCATAACGATGCATTATCGACT-TGAAAGGATTCCATAAATGAAAATGCATAA
1 ATAAATGAAAATGCATAACGATGCATTATCG-CTATGAAAGGATGCCATAAATGAAAATGCATAA
*
257066 AGGGGCATTATCGGTATGAAATGATGCC
65 AGGGGCATTATCGGCATGAAATGATGCC
* *
257094 ATAAATAAAAATGCATAAC-AGTGCATTATCGGTATGAAAGGATGCCATAAATGAAAATGCATAA
1 ATAAATGAAAATGCATAACGA-TGCATTATCGCTATGAAAGGATGCCATAAATGAAAATGCATAA
* *
257158 CGGTGCATTATCGGCATGAAATGATGCC
65 AGGGGCATTATCGGCATGAAATGATGCC
* * *
257186 ACAAATGAAAATGCATGACGGTGCATTA
1 ATAAATGAAAATGCATAACGATGCATTA
257214 ACAGTATTAA
Statistics
Matches: 107, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
91 2 0.02
92 105 0.98
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.24
Consensus pattern (92 bp):
ATAAATGAAAATGCATAACGATGCATTATCGCTATGAAAGGATGCCATAAATGAAAATGCATAAA
GGGGCATTATCGGCATGAAATGATGCC
Found at i:263496 original size:18 final size:19
Alignment explanation
Indices: 263450--263497 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
263440 CGATGAACAT
263450 TATCGATACTGATGCAATTAG
1 TATCGATACTGATG--ATTAG
* *
263471 TATTGATACTGATG-TTGG
1 TATCGATACTGATGATTAG
263489 TATCGATAC
1 TATCGATAC
263498 CATGGATTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 11 0.46
21 13 0.54
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (19 bp):
TATCGATACTGATGATTAG
Found at i:264113 original size:46 final size:46
Alignment explanation
Indices: 263997--264242 Score: 368
Period size: 46 Copynumber: 5.4 Consensus size: 46
263987 AAATGAATGA
* * * *
263997 ATAAATGAAAATGCATAACGGTGCATTATCGACATG-ACGGATTCC
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
* *
264042 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGTC
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
264088 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
*
264134 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATACC
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
* * * * *
264180 ATAAATGAAAATGCATAACGATGAATTATAGACAAGAAATGATGCC
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
*
264226 ACAAATGAAAATGCATA
1 ATAAATGAAAATGCATA
264243 GGGGTGTATT
Statistics
Matches: 186, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
45 35 0.19
46 151 0.81
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.22
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
Found at i:267180 original size:15 final size:14
Alignment explanation
Indices: 267150--267188 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
267140 TTTCATTAAA
267150 ATTATTTTTA-ATT
1 ATTATTTTTATATT
267163 ATTATTTTTATCATT
1 ATTATTTTTAT-ATT
*
267178 ATTATTATTAT
1 ATTATTTTTAT
267189 TAAATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.43
15 13 0.57
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTTTTATATT
Found at i:268088 original size:15 final size:14
Alignment explanation
Indices: 268058--268096 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
268048 TTTCATTAAA
268058 ATTATTTTTA-ATT
1 ATTATTTTTATATT
268071 ATTATTTTTATCATT
1 ATTATTTTTAT-ATT
*
268086 ATTATTATTAT
1 ATTATTTTTAT
268097 TAAATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.43
15 13 0.57
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTTTTATATT
Found at i:268758 original size:908 final size:908
Alignment explanation
Indices: 266997--269727 Score: 5266
Period size: 908 Copynumber: 3.0 Consensus size: 908
266987 CGCCAAACAT
266997 GTATAGCATGTCTTACATAAAAAAATCATGAAACCCCTTCGAAATCAAACACGAATCATAAGTGA
1 GTATAG-ATGTCTTACATAAAAAAATCATGAAACCCCTTCGAAATCAAACACGAATCATAAGTGA
267062 GAGAACCATTAGGGTGAATGCAATTAATAGAGTTGGTCCTTCTCCTGTTGGAGGTCACTGTATAC
65 GAGAACCATTAGGGTGAATGCAATTAATAGAGTTGGTCCTTCTCCTGTTGGAGGTCACTGTATAC
267127 ACTAATTTTTCACTTTCATTAAAATTATTTTTAATTATTATTTTTATCATTATTATTATTATTAA
130 ACTAATTTTTCACTTTCATTAAAATTATTTTTAATTATTATTTTTATCATTATTATTATTATTAA
267192 ATAAATAAATTACAAGACCCGAAGGCCCATTTTCCAACCAGAATCGGCCCATTTACAACCCGGAG
195 ATAAATAAATTACAAGACCCGAAGGCCCATTTTCCAACCAGAATCGGCCCATTTACAACCCGGAG
267257 CCCAAACCAATTGAAGACCCAAACCAGACTCGATTAGGAAACCCAATATGAACCCTAAACCCAAT
260 CCCAAACCAATTGAAGACCCAAACCAGACTCGATTAGGAAACCCAATATGAACCCTAAACCCAAT
*
267322 CTAGGGTTTTCATCATCTAAGCCAGTCGTCTCAGCATCACAGCCGATGGATCAGGCTTGGATCCA
325 CTAGGGTTTTCATCATCTAAGCCAGTCGCCTCAGCATCACAGCCGATGGATCAGGCTTGGATCCA
267387 ACGACCCAAATGGTTCCAGACGAAACCCTAGGGTTATGATTCCCTAGGGACCACGCGGCCGTTGT
390 ACGACCCAAATGGTTCCAGACGAAACCCTAGGGTTATGATTCCCTAGGGACCACGCGGCCGTTGT
*
267452 CGTTGCTTCCAGAACATCCAACGCCGAAGCCTTTGACGCCAGGTGGTCCAAACAACTGCTACCGA
455 CGTTGCTTCCAGAACATCCAACGCCGAAGCCTCTGACGCCAGGTGGTCCAAACAACTGCTACCGA
*
267517 CGTTGTTGCTGCCATGCCAAGCCTCCACTGAAGACTCTAGAAGGCCCACGTCATTTGCTCTATGG
520 CGTTGTTGCTGCCACGCCAAGCCTCCACTGAAGACTCTAGAAGGCCCACGTCATTTGCTCTATGG
267582 TGAGTCACCACCATAGCTATGGTGACTCACCGTACTTTATCCTTGTGACCGGTCCAAGGCGAGAC
585 TGAGTCACCACCATAGCTATGGTGACTCACCGTACTTTATCCTTGTGACCGGTCCAAGGCGAGAC
267647 TCGGTGTTGGCTATAAAGCCTCAGTTCACCTGCAAAAAAGGAAGGGAGCGAGCAAGAACGGAGAG
650 TCGGTGTTGGCTATAAAGCCTCAGTTCACCTGCAAAAAAGGAAGGGAGCGAGCAAGAACGGAGAG
267712 AACAAAAAACGACGAGGAAACAGAGAGCAACAAACAAACACCCACATCCAGCAGTAAGCCAAAAA
715 AACAAAAAACGACGAGGAAACAGAGAGCAACAAACAAACACCCACATCCAGCAGTAAGCCAAAAA
267777 CAGAAAATAAAGAGAGAAAAACCAAGAGATTTACCTCGTTGGAGCCTCCTTACGCTGTTGAAACC
780 CAGAAAATAAAGAGAGAAAAACCAAGAGATTTACCTCGTTGGAGCCTCCTTACGCTGTTGAAACC
267842 GAAACATCGAAGGTAGATCTATGCGTTTTGGTAAGATTTTATGCTAAAACAACCTTAGATTCGG
845 GAAACATCGAAGGTAGATCTATGCGTTTTGGTAAGATTTTATGCTAAAACAACCTTAGATTCGG
267906 GTATAGATGTCTTACATAAAAAAATCATGAAACCCCTTCGAAATCAAACACGAATCATAAGTGAG
1 GTATAGATGTCTTACATAAAAAAATCATGAAACCCCTTCGAAATCAAACACGAATCATAAGTGAG
*
267971 AGAACCATTAGGGTGAATGCAATTAATAGAGTTGGTCCTTCTCCTGTTGGAGGTCACTATATACA
66 AGAACCATTAGGGTGAATGCAATTAATAGAGTTGGTCCTTCTCCTGTTGGAGGTCACTGTATACA
268036 CTAATTTTTCACTTTCATTAAAATTATTTTTAATTATTATTTTTATCATTATTATTATTATTAAA
131 CTAATTTTTCACTTTCATTAAAATTATTTTTAATTATTATTTTTATCATTATTATTATTATTAAA
268101 TAAATAAATTACAAGACCCGAAGGCCCATTTTCCAACCAGAATCGGCCCATTTACAACCCGGAGC
196 TAAATAAATTACAAGACCCGAAGGCCCATTTTCCAACCAGAATCGGCCCATTTACAACCCGGAGC
268166 CCAAACCAATTGAAGACCCAAACCAGACTCGATTAGGAAACCCAATATGAACCCTAAACCCAATC
261 CCAAACCAATTGAAGACCCAAACCAGACTCGATTAGGAAACCCAATATGAACCCTAAACCCAATC
268231 TAGGGTTTTCATCATCTAAGCCAGTCGCCTCAGCATCACAGCCGATGGATCAGGCTTGGATCCAA
326 TAGGGTTTTCATCATCTAAGCCAGTCGCCTCAGCATCACAGCCGATGGATCAGGCTTGGATCCAA
268296 CGACCCAAATGGTTCCAGACGAAACCCTAGGGTTATGATTCCCTAGGGACCACGCGGCCGTTGTC
391 CGACCCAAATGGTTCCAGACGAAACCCTAGGGTTATGATTCCCTAGGGACCACGCGGCCGTTGTC
*
268361 GTTGCTTCCAGAACATCCAACGCCGAAGCCTCTGACGCCAGGTGGTCCAAACAACTGCTACCAAC
456 GTTGCTTCCAGAACATCCAACGCCGAAGCCTCTGACGCCAGGTGGTCCAAACAACTGCTACCGAC
268426 GTTGTTGCTGCCACGCCAAGCCTCCACTGAAGACTCTAGAAGGCCCACGTCATTTGCTCTATGGT
521 GTTGTTGCTGCCACGCCAAGCCTCCACTGAAGACTCTAGAAGGCCCACGTCATTTGCTCTATGGT
268491 GAGTCACCACCATAGCTATGGTGACTCACCGTACTTTATCCTTGTGACCGGTCCAAGGCGAGACT
586 GAGTCACCACCATAGCTATGGTGACTCACCGTACTTTATCCTTGTGACCGGTCCAAGGCGAGACT
268556 CGGTGTTGGCTATAAAGCCTCAGTTCACCTGCAAAAAAGGAAGGGAGCGAGCAAGAACGGAGAGA
651 CGGTGTTGGCTATAAAGCCTCAGTTCACCTGCAAAAAAGGAAGGGAGCGAGCAAGAACGGAGAGA
*
268621 ACAAAAAATGACGAGGAAACAGAGAGCAACAAACAAACACCCACATCCAGCAGTAAGCCAAAAAC
716 ACAAAAAACGACGAGGAAACAGAGAGCAACAAACAAACACCCACATCCAGCAGTAAGCCAAAAAC
*
268686 AGAAAATAAAGAGAGAAAAACCAAGAGATTTACCTCATTGGAGCCTCCTTACGCTGTTGAAACCG
781 AGAAAATAAAGAGAGAAAAACCAAGAGATTTACCTCGTTGGAGCCTCCTTACGCTGTTGAAACCG
268751 AAACATCGAAGGTAGATCTATGCGTTTTGGTAAGATTTTATGCTAAAACAACCTTAGATTCGG
846 AAACATCGAAGGTAGATCTATGCGTTTTGGTAAGATTTTATGCTAAAACAACCTTAGATTCGG
268814 GTATAGATGTCTTACATAAAAAAATCATGAAACCCCTTCGAAATCAAACACGAATCATAAGTGAG
1 GTATAGATGTCTTACATAAAAAAATCATGAAACCCCTTCGAAATCAAACACGAATCATAAGTGAG
268879 AGAACCATTAGGGTGAATGCAATTAATAGAGTTGGTCCTTCTCCTGTTGGAGGTCACTGTATACA
66 AGAACCATTAGGGTGAATGCAATTAATAGAGTTGGTCCTTCTCCTGTTGGAGGTCACTGTATACA
*
268944 CTAATTTTTCACTTTTATTAAAATTATTTTTAATTATTATTTTTATCATTATTATTATTATTAAA
131 CTAATTTTTCACTTTCATTAAAATTATTTTTAATTATTATTTTTATCATTATTATTATTATTAAA
*
269009 TAAATAAATTACAAGACCCAAAGGCCCATTTTCCAACCAGAATCGGCCCATTTACAACCCGGAGC
196 TAAATAAATTACAAGACCCGAAGGCCCATTTTCCAACCAGAATCGGCCCATTTACAACCCGGAGC
269074 CCAAACCAATTGAAGACCCAAACCAGACTCGATTAGGAAACCCAATATGAACCCTAAACCCAATC
261 CCAAACCAATTGAAGACCCAAACCAGACTCGATTAGGAAACCCAATATGAACCCTAAACCCAATC
* *
269139 TAGGGTTTTCATCATCTAAGCCAGCCGCCTCAGCATCACAGCCGATGGATCAGGCTTTGATCCAA
326 TAGGGTTTTCATCATCTAAGCCAGTCGCCTCAGCATCACAGCCGATGGATCAGGCTTGGATCCAA
*
269204 CGACCCAAATGGTTCCAGACGAAACCCTAGGGTTATGATTCCCTAGGGACCACGCGGCTGTTGTC
391 CGACCCAAATGGTTCCAGACGAAACCCTAGGGTTATGATTCCCTAGGGACCACGCGGCCGTTGTC
**
269269 GTTGCTTTTAGAACATCCAACGCCGAAGCCTCTGACGCCAGGTGGTCCAAACAACTGCTACCGAC
456 GTTGCTTCCAGAACATCCAACGCCGAAGCCTCTGACGCCAGGTGGTCCAAACAACTGCTACCGAC
*
269334 GTTGTTGCTGCCACGCCAAGCCTCCACTGAAGACTCTAGAAGGCCCACGTCATTTTCTCTATGGT
521 GTTGTTGCTGCCACGCCAAGCCTCCACTGAAGACTCTAGAAGGCCCACGTCATTTGCTCTATGGT
269399 GAGTCACCACCATAGCTATGGTGACTCACCGTACTTTATCCTTGTGACCGGTCCAAGGCGAGACT
586 GAGTCACCACCATAGCTATGGTGACTCACCGTACTTTATCCTTGTGACCGGTCCAAGGCGAGACT
*
269464 CGGTGTTGGCTATAAAGCCTCAGTTCACCTG-TAAAAAGGAAGGGAGCGAGCAAGAACGGAGAGA
651 CGGTGTTGGCTATAAAGCCTCAGTTCACCTGCAAAAAAGGAAGGGAGCGAGCAAGAACGGAGAGA
* * * *
269528 ACAAAAAGCAACGAGGAAACAGAGAGCAACAAACAAACACCCACATCAAGCAGTAAGCCAAAAAT
716 ACAAAAAACGACGAGGAAACAGAGAGCAACAAACAAACACCCACATCCAGCAGTAAGCCAAAAAC
269593 AGAAAATAAAGAGAGAAAAACCAAGAGATTTACCTCGTTGGAGCCTCCTTACGCTGTTGAAACCG
781 AGAAAATAAAGAGAGAAAAACCAAGAGATTTACCTCGTTGGAGCCTCCTTACGCTGTTGAAACCG
269658 AAACATCGAAGGTAGATCTATGCGTTTTGGTAAGATTTTATGCTAAAACAACCTTAGATTCGG
846 AAACATCGAAGGTAGATCTATGCGTTTTGGTAAGATTTTATGCTAAAACAACCTTAGATTCGG
269721 GTATAGA
1 GTATAGA
269728 AAAATAGAGG
Statistics
Matches: 1798, Mismatches: 24, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
907 226 0.13
908 1566 0.87
909 6 0.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (908 bp):
GTATAGATGTCTTACATAAAAAAATCATGAAACCCCTTCGAAATCAAACACGAATCATAAGTGAG
AGAACCATTAGGGTGAATGCAATTAATAGAGTTGGTCCTTCTCCTGTTGGAGGTCACTGTATACA
CTAATTTTTCACTTTCATTAAAATTATTTTTAATTATTATTTTTATCATTATTATTATTATTAAA
TAAATAAATTACAAGACCCGAAGGCCCATTTTCCAACCAGAATCGGCCCATTTACAACCCGGAGC
CCAAACCAATTGAAGACCCAAACCAGACTCGATTAGGAAACCCAATATGAACCCTAAACCCAATC
TAGGGTTTTCATCATCTAAGCCAGTCGCCTCAGCATCACAGCCGATGGATCAGGCTTGGATCCAA
CGACCCAAATGGTTCCAGACGAAACCCTAGGGTTATGATTCCCTAGGGACCACGCGGCCGTTGTC
GTTGCTTCCAGAACATCCAACGCCGAAGCCTCTGACGCCAGGTGGTCCAAACAACTGCTACCGAC
GTTGTTGCTGCCACGCCAAGCCTCCACTGAAGACTCTAGAAGGCCCACGTCATTTGCTCTATGGT
GAGTCACCACCATAGCTATGGTGACTCACCGTACTTTATCCTTGTGACCGGTCCAAGGCGAGACT
CGGTGTTGGCTATAAAGCCTCAGTTCACCTGCAAAAAAGGAAGGGAGCGAGCAAGAACGGAGAGA
ACAAAAAACGACGAGGAAACAGAGAGCAACAAACAAACACCCACATCCAGCAGTAAGCCAAAAAC
AGAAAATAAAGAGAGAAAAACCAAGAGATTTACCTCGTTGGAGCCTCCTTACGCTGTTGAAACCG
AAACATCGAAGGTAGATCTATGCGTTTTGGTAAGATTTTATGCTAAAACAACCTTAGATTCGG
Found at i:268994 original size:15 final size:14
Alignment explanation
Indices: 268966--269004 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
268956 TTTTATTAAA
268966 ATTATTTTTA-ATT
1 ATTATTTTTATATT
268979 ATTATTTTTATCATT
1 ATTATTTTTAT-ATT
*
268994 ATTATTATTAT
1 ATTATTTTTAT
269005 TAAATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.43
15 13 0.57
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTTTTATATT
Found at i:270670 original size:2 final size:2
Alignment explanation
Indices: 270663--270701 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
270653 TATAAGTATC
*
270663 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
270702 TTGTTTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:270682 original size:14 final size:14
Alignment explanation
Indices: 270665--270723 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
270655 TAAGTATCTA
270665 TATATATATATATT
1 TATATATATATATT
*
270679 TATATATATATATA
1 TATATATATATATT
* *
270693 TATATATATTTGTT
1 TATATATATATATT
*
270707 TA-ATAATATTTATT
1 TATAT-ATATATATT
270721 TAT
1 TAT
270724 TTTTAATATC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
13 2 0.05
14 36 0.95
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TATATATATATATT
Found at i:280774 original size:32 final size:32
Alignment explanation
Indices: 280738--280799 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
280728 TCTGTAAACA
* *
280738 AGAAGTATCTCTACGAGATGAGCATAACAACG
1 AGAAGTATCTCTACCAGATAAGCATAACAACG
280770 AGAAGTATCTCTACCAGATAAGCATAACAA
1 AGAAGTATCTCTACCAGATAAGCATAACAA
280800 TCATTTCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (32 bp):
AGAAGTATCTCTACCAGATAAGCATAACAACG
Found at i:284954 original size:22 final size:22
Alignment explanation
Indices: 284929--284982 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
284919 TCTACACTCT
284929 TCAAAGATGATAGATTCTCTCC
1 TCAAAGATGATAGATTCTCTCC
**
284951 TCAAAGATGATAGATTCTCTTT
1 TCAAAGATGATAGATTCTCTCC
284973 TCAAAGATGA
1 TCAAAGATGA
284983 AAACCTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (22 bp):
TCAAAGATGATAGATTCTCTCC
Found at i:285471 original size:73 final size:73
Alignment explanation
Indices: 285333--285923 Score: 903
Period size: 73 Copynumber: 8.0 Consensus size: 73
285323 TTATTTCTCA
* * *
285333 CATCTGTAAGACCTACAGTGCATGATGTTTTTAAAAAAGCCTTCGAGAGCTTTTTGATTTTAAAG
1 CATCTGTAAGACCTACAGTGCATGATG-TTTTCAAAAAGCCTTCGGGAGCTTTTTGATTCTAAAG
285398 CCTCAGGGT
65 CCTCAGGGT
* * * *
285407 CATCTGTAAGACCTACAATGCTTGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTCTAAAGC
285472 CTCAGGGT
66 CTCAGGGT
* ** *
285480 CATCTATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAACCTAAATC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTCTAAAGC
285545 CTCAGGGT
66 CTCAGGGT
* * *
285553 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCGTTTGGGAGCTTTTTTATTCTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTCTAAAGC
285618 CTCAGGGT
66 CTCAGGGT
* *
285626 CATCTGTAAGACCTACAGTGTATGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTGATTCTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTCTAAAGC
285691 CTCAGGGT
66 CTCAGGGT
* *
285699 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTGATCCTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTCTAAAGC
285764 CTCAGGGT
66 CTCAGGGT
* * *
285772 CATCTGTAAGACCTATAGTGCATGATGTTTTCAAAAAGCCTTCTGGAGCTTTTTGATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTCTAAAGC
285837 CTCAGGGT
66 CTCAGGGT
* * * * *
285845 CATCTGTAAGACCGACAGTGCATGATGTTTTCAAAAAAAAACCTTCGGGAGTTTTTTTATTTTAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTC---AAAAAGCCTTCGGGAGCTTTTTGATTCTAA
*
285910 AGCCTCAGAGT
63 AGCCTCAGGGT
285921 CAT
1 CAT
285924 TCATAAGACC
Statistics
Matches: 475, Mismatches: 39, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
73 411 0.87
74 25 0.05
76 39 0.08
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (73 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTCTAAAGC
CTCAGGGT
Found at i:286099 original size:3 final size:3
Alignment explanation
Indices: 286082--286137 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
286072 TTTCATTAAA
* *
286082 ATT ATT -TT AATT ATT ATT TTT ATC ATT ATT ATT ATT ATAT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
286128 ATT ATT ATT A
1 ATT ATT ATT A
286138 AATAAATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 39 0.85
4 5 0.11
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:287800 original size:2 final size:2
Alignment explanation
Indices: 287793--287838 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
287783 ATCATAGTCT
287793 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
287835 TA TA
1 TA TA
287839 ATAATATTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:294412 original size:31 final size:31
Alignment explanation
Indices: 294374--294458 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
294364 CCAGGGACCT
294374 TATTGCAAACGGACTAAATGTTGAGGAACCA
1 TATTGCAAACGGACTAAATGTTGAGGAACCA
*
294405 TATTGCAAACGGACTAAATGTTGAGGGACCA
1 TATTGCAAACGGACTAAATGTTGAGGAACCA
*
294436 TAATGCAAACGGACTAAATGTTG
1 TATTGCAAACGGACTAAATGTTG
294459 GGGATTATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (31 bp):
TATTGCAAACGGACTAAATGTTGAGGAACCA
Found at i:295600 original size:16 final size:17
Alignment explanation
Indices: 295564--295600 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
295554 AGTACTTTCG
*
295564 ATTTGCAAAATTGACCT
1 ATTTGCAAAATAGACCT
295581 ATTTGCAAAATAGA-CT
1 ATTTGCAAAATAGACCT
295597 ATTT
1 ATTT
295601 AAGAAAACCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (17 bp):
ATTTGCAAAATAGACCT
Found at i:295743 original size:27 final size:26
Alignment explanation
Indices: 295713--295770 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
295703 TTATTTATTA
*
295713 ATAAAAAAATTTATCTCTTAAAATTTT
1 ATAAAAAAATTT-TCTCCTAAAATTTT
***
295740 ATAAATTCATTTTCTCCTAAAATTTT
1 ATAAAAAAATTTTCTCCTAAAATTTT
295766 A-AAAA
1 ATAAAA
295771 TTCACCCCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.12
26 14 0.54
27 9 0.35
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (26 bp):
ATAAAAAAATTTTCTCCTAAAATTTT
Found at i:295761 original size:26 final size:27
Alignment explanation
Indices: 295721--295774 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
295711 TAATAAAAAA
* *
295721 ATTTATCTCTTAAAATTTTATAAATTC
1 ATTTATCTCCTAAAATTTTAAAAATTC
295748 ATTT-TCTCCTAAAATTTTAAAAATTC
1 ATTTATCTCCTAAAATTTTAAAAATTC
295774 A
1 A
295775 CCCCTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTATCTCCTAAAATTTTAAAAATTC
Found at i:295821 original size:2 final size:2
Alignment explanation
Indices: 295814--295842 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
295804 TGTACTCTAA
295814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
295843 ATTTATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:296013 original size:31 final size:31
Alignment explanation
Indices: 295922--296028 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 31
295912 CTTTTAAAAC
* * **
295922 TTGCAATATAATCCCCCAACATTTAGTTTGT
1 TTGCAATATGATCCCACAACATTTAGTCCGT
* * * *
295953 TTGTAATATGGTCCCTCAA-ATTTACTCCGT
1 TTGCAATATGATCCCACAACATTTAGTCCGT
295983 TTGCAATATGATCCCACAACATTTAGTCCGT
1 TTGCAATATGATCCCACAACATTTAGTCCGT
*
296014 TCGCAATATGATCCC
1 TTGCAATATGATCCC
296029 TGACGTAACT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
30 24 0.38
31 39 0.62
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (31 bp):
TTGCAATATGATCCCACAACATTTAGTCCGT
Done.