Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01007283.1 Corchorus capsularis cultivar CVL-1 contig07304, 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: 76417
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Found at i:8750 original size:2 final size:2
Alignment explanation
Indices: 8738--8831 Score: 59
Period size: 2 Copynumber: 46.5 Consensus size: 2
8728 ATCAGTACAA
* * **
8738 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT -T TT AGG CC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * *
8779 AT GT CT CT GAT TT AT ACT AT AT AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT -AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT
8822 AT AT A- AT AT A
1 AT AT AT AT AT A
8832 ATAGACTTTC
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
1 3 0.04
2 66 0.89
3 5 0.07
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8815 original size:21 final size:20
Alignment explanation
Indices: 8791--8831 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
8781 GTCTCTGATT
8791 TATACTATATATATATATATA
1 TATACTATATATATA-ATATA
8812 TATACTATATATATAATATA
1 TATACTATATATATAATATA
8832 ATAGACTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TATACTATATATATAATATA
Found at i:9517 original size:21 final size:21
Alignment explanation
Indices: 9491--9533 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9481 GGTCTTAGGT
*
9491 TCAACTCTCACGGAATTTGAG
1 TCAACTCTCACGGAATGTGAG
9512 TCAACTCTCACGGAATGTGAG
1 TCAACTCTCACGGAATGTGAG
9533 T
1 T
9534 TTATTTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
TCAACTCTCACGGAATGTGAG
Found at i:10209 original size:16 final size:16
Alignment explanation
Indices: 10190--10245 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
10180 GATTGGGTTC
10190 GGGTCATTTTGGATTT
1 GGGTCATTTTGGATTT
* *
10206 GGGTCATTTCGGGTTT
1 GGGTCATTTTGGATTT
*
10222 GGGTCA-TTTGGATTC
1 GGGTCATTTTGGATTT
*
10237 GGGTAATTT
1 GGGTCATTT
10246 CAGATTCAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 11 0.33
16 22 0.67
ACGTcount: A:0.12, C:0.09, G:0.34, T:0.45
Consensus pattern (16 bp):
GGGTCATTTTGGATTT
Found at i:10235 original size:31 final size:32
Alignment explanation
Indices: 10184--10246 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
10174 CGGGTTGATT
* *
10184 GGGTTCGGGTCATTTTGGATTTGGGTCATTTC
1 GGGTTCGGGTCATTTTGGATTCGGGTAATTTC
*
10216 GGGTTTGGGTCA-TTTGGATTCGGGTAATTTC
1 GGGTTCGGGTCATTTTGGATTCGGGTAATTTC
10247 AGATTCAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.11, C:0.11, G:0.35, T:0.43
Consensus pattern (32 bp):
GGGTTCGGGTCATTTTGGATTCGGGTAATTTC
Found at i:23243 original size:9 final size:9
Alignment explanation
Indices: 23229--23253 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23219 ATCATCCTTT
23229 CCATGCTCC
1 CCATGCTCC
23238 CCATGCTCC
1 CCATGCTCC
23247 CCATGCT
1 CCATGCT
23254 TGTCTTCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (9 bp):
CCATGCTCC
Found at i:23304 original size:30 final size:30
Alignment explanation
Indices: 23264--23322 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23254 TGTCTTCAAG
23264 TCCATAATAAGTCCTT-GGCGCATCATTCCT
1 TCCATAATAAG-CCTTAGGCGCATCATTCCT
*
23294 TCCATGATAAGCCTTAGGCGCATCATTCC
1 TCCATAATAAGCCTTAGGCGCATCATTCC
23323 CTCCCCCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.31
Consensus pattern (30 bp):
TCCATAATAAGCCTTAGGCGCATCATTCCT
Found at i:23805 original size:33 final size:33
Alignment explanation
Indices: 23735--23842 Score: 121
Period size: 33 Copynumber: 3.2 Consensus size: 33
23725 TATGATCAAC
** *
23735 CAAAACAGATTT-GTTTTCATCACAATTAGCA-T
1 CAAAACAGATTTAG-TTTCATCACAAACAACACT
23767 ACAAAACAGATTTAGTTTCATCACAAACAACACT
1 -CAAAACAGATTTAGTTTCATCACAAACAACACT
* *
23801 CAAAACAGATTTAGTGTCATCGCAAACAACACAT
1 CAAAACAGATTTAGTTTCATCACAAACAACAC-T
23835 CTAAAACA
1 C-AAAACA
23843 CTCTTTGCAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
33 56 0.85
34 4 0.06
35 6 0.09
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (33 bp):
CAAAACAGATTTAGTTTCATCACAAACAACACT
Found at i:38057 original size:75 final size:76
Alignment explanation
Indices: 37917--38057 Score: 196
Period size: 75 Copynumber: 1.9 Consensus size: 76
37907 TCAACGCCGT
* * * *
37917 AAATTGACAGATTTGAAGAATTTGGAATTGATGAAGAATATGATCGTTGGAGGCAAATCTAAGTA
1 AAATTGACAGATTTGAAGAATTTGCAATTAATGAAGAAGATGACCGTTGGAGGCAAATCTAAGTA
37982 TTTAAGGAAAC
66 TTTAAGGAAAC
* * *
37993 AAATTGACAGATTTGACAG-ATTTGCATTTAATG-AGGAGATGACCGTTGGAGGCAGATCTAAGT
1 AAATTGACAGATTTGA-AGAATTTGCAATTAATGAAGAAGATGACCGTTGGAGGCAAATCTAAGT
38056 AT
65 AT
38058 ATAAAGACTC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
75 28 0.49
76 27 0.47
77 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (76 bp):
AAATTGACAGATTTGAAGAATTTGCAATTAATGAAGAAGATGACCGTTGGAGGCAAATCTAAGTA
TTTAAGGAAAC
Found at i:40834 original size:13 final size:13
Alignment explanation
Indices: 40802--40835 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
40792 TGAATGTGAG
40802 TTTCAAAAACAAT
1 TTTCAAAAACAAT
40815 TTT-AAAAACAAT
1 TTTCAAAAACAAT
40827 TTTCAAAAA
1 TTTCAAAAA
40836 TTGATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTCAAAAACAAT
Found at i:41368 original size:13 final size:13
Alignment explanation
Indices: 41352--41376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41342 TTTTCAACTT
41352 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
41365 TTTTTTTCTTTT
1 TTTTTTTCTTTT
41377 TCATTTTCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:42134 original size:26 final size:28
Alignment explanation
Indices: 42105--42157 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
42095 AATGCAATGC
42105 ATGCAAACA-AAA-AGAAAATG-AAAAAT
1 ATGCAAACATAAACA-AAAATGCAAAAAT
42131 ATGCAAACATAAACAAAAATGCAAAAA
1 ATGCAAACATAAACAAAAATGCAAAAA
42158 AATTTTACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 9 0.38
27 9 0.38
28 6 0.25
ACGTcount: A:0.68, C:0.11, G:0.09, T:0.11
Consensus pattern (28 bp):
ATGCAAACATAAACAAAAATGCAAAAAT
Found at i:49346 original size:33 final size:32
Alignment explanation
Indices: 49273--49346 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 32
49263 CTAATTGTGA
49273 TGAAAATAAATTTGTTTTGGTTGATCATAGCAT
1 TGAAAAT-AATTTGTTTTGGTTGATCATAGCAT
**
49306 TTCAAATAATTCTGTTTTGGTTGATCATAGCAT
1 TGAAAATAATT-TGTTTTGGTTGATCATAGCAT
49339 TGAAAATA
1 TGAAAATA
49347 GGACTATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 4 0.11
33 32 0.89
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (32 bp):
TGAAAATAATTTGTTTTGGTTGATCATAGCAT
Found at i:49357 original size:33 final size:33
Alignment explanation
Indices: 49287--49362 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
49277 AATAAATTTG
** ** *
49287 TTTTGGTTGATCATAGCATTTCAAATAATTCTG
1 TTTTGGTTGATCATAGCATTGAAAATAAGACTA
*
49320 TTTTGGTTGATCATAGCATTGAAAATAGGACTA
1 TTTTGGTTGATCATAGCATTGAAAATAAGACTA
49353 TTTTGGTTGA
1 TTTTGGTTGA
49363 AAAGAAAGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (33 bp):
TTTTGGTTGATCATAGCATTGAAAATAAGACTA
Found at i:49770 original size:30 final size:30
Alignment explanation
Indices: 49734--49792 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
49724 CTTCAAGGGG
49734 GAGGGAATGATGCGCCCAAGG-CTTATCATA
1 GAGGGAATGATGCG-CCAAGGACTTATCATA
49764 GAGGGAATGATGCGCCAAGGACTTATCAT
1 GAGGGAATGATGCGCCAAGGACTTATCAT
49793 GGACTTGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.20
Consensus pattern (30 bp):
GAGGGAATGATGCGCCAAGGACTTATCATA
Found at i:51462 original size:49 final size:49
Alignment explanation
Indices: 51399--51510 Score: 179
Period size: 49 Copynumber: 2.3 Consensus size: 49
51389 ATCATGACAA
*
51399 AAACAACACCTTCCGACCAGGAAGGGCAAATCAGGAATAAGACAAAATT
1 AAACAACACCTTCCGACCAGGAAGGGCAAAACAGGAATAAGACAAAATT
* **
51448 AAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAGACGGAATT
1 AAACAACACCTTCCGACCAGGAAGGGCAAAACAGGAATAAGACAAAATT
*
51497 AAACAATACCTTCC
1 AAACAACACCTTCC
51511 AAATGGGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 58 1.00
ACGTcount: A:0.45, C:0.24, G:0.19, T:0.12
Consensus pattern (49 bp):
AAACAACACCTTCCGACCAGGAAGGGCAAAACAGGAATAAGACAAAATT
Found at i:51519 original size:49 final size:49
Alignment explanation
Indices: 51399--51529 Score: 154
Period size: 49 Copynumber: 2.7 Consensus size: 49
51389 ATCATGACAA
* * * *
51399 AAACAACACCTTCCGACCAGGAAGGGCAAATCAGGAATAAGACAAAATT
1 AAACAACACCTTCCAAACGGGAAGGGCAAAACAGGAATAAGACAAAATT
* * **
51448 AAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAGACGGAATT
1 AAACAACACCTTCCAAACGGGAAGGGCAAAACAGGAATAAGACAAAATT
* * *
51497 AAACAATACCTTCCAAATGGGAAAGGACAAAAC
1 AAACAACACCTTCCAAACGGG-AAGGGCAAAAC
51530 GTGAATAGGG
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 62 0.86
50 10 0.14
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (49 bp):
AAACAACACCTTCCAAACGGGAAGGGCAAAACAGGAATAAGACAAAATT
Found at i:51604 original size:41 final size:41
Alignment explanation
Indices: 51556--52266 Score: 531
Period size: 41 Copynumber: 16.9 Consensus size: 41
51546 GTAATTAGAT
* * * *
51556 AACTAAACAACACCTTCCGGTGGGGAAGGGCGAATTGGGAA
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAA
* * *
51597 AAGTAAACAACACCTTCCGATGAGGAAGGGCGAACTGGTAAAGAGC
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGG----GA-A
*
51643 AACTAAACAACACCTCCCGATGAGGAAGGGCAAACTGGGAATTA
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGG-A--A
*
51687 GCAACTAAACAACACCCTCCGATGAGGAAGGGCAAACTGGG-A
1 --AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAA
**
51729 ATTTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAA
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAA
* * * * *
51770 AACCAAAAAACACGTTCTGATGGGGAAGGGCAAAC-GGG-A
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAA
**
51809 ATGTAAACAACACCTTCCGA-GTAGGAAGGGCAAACT-GGAA
1 AACTAAACAACACCTTCCGATG-AGGAAGGGCAAACTGGGAA
* * * *
51849 AAGC-AAACAACACCTT-CTAGTGTGGAAGGACGAACTGGGAA
1 AA-CTAAACAACACCTTCCGA-TGAGGAAGGGCAAACTGGGAA
* * * *
51890 AAGC-AAACAACACTTTCCGATGGGGAAGGGCGAACTGAGAAAAA
1 AA-CTAAACAACACCTTCCGATGAGGAAGGGCAAACTG-G--GAA
* * *
51934 GCAACTAAACAACACATTCTGATGA-GAAGGGCAAA-TCAGGAA
1 --AACTAAACAACACCTTCCGATGAGGAAGGGCAAACT-GGGAA
** * * * * *
51976 TTGC-AAAGAACACCTTCCGGTGGGGAAGGGCAAACTGATAATTAGAC
1 -AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTG------GGAA
* *
52023 AACTAAACAACCCCTTCCGGTGAGGAAGGGCAAGACT-GG-A
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAA-ACTGGGAA
*
52063 AACTAAACAACACC-TCCGGTGAGGAAGGGCAAGACT-GG-A
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAA-ACTGGGAA
* *
52102 AACTAAACAACACCTTCCGGTGAGGAAGGGCAAAAC-AGG-A
1 AACTAAACAACACCTTCCGATGAGGAAGGGC-AAACTGGGAA
* *
52142 AACTAAAAAACACCTTCCGATGAGGAAGGGCAAAATGGGAA
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAA
* * *
52183 AACTAAACAACACCTTCCGGTGGGGAAGGGCAAATTGGGAATTTGA
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGG-A----A
* * *
52229 CAACTAAACAACACCTTCTGACGGGGAAGGGCAAACTG
1 -AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTG
52267 AGCAATGACA
Statistics
Matches: 547, Mismatches: 77, Indels: 86
0.77 0.11 0.12
Matches are distributed among these distances:
38 1 0.00
39 73 0.13
40 143 0.26
41 148 0.27
42 9 0.02
43 1 0.00
44 4 0.01
45 12 0.02
46 92 0.17
47 61 0.11
48 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.14
Consensus pattern (41 bp):
AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAA
Found at i:51748 original size:40 final size:40
Alignment explanation
Indices: 51556--52223 Score: 505
Period size: 40 Copynumber: 16.0 Consensus size: 40
51546 GTAATTAGAT
* * * *
51556 AACTAAACAACACCTTCCGGTGGGGAAGGGCGAATTGGGAA
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGG-A
* *
51597 AAGTAAACAACACCTTCCGATGAGGAAGGGCGAACTGGTAAAGA
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGG----GA
*
51641 GCAACTAAACAACACCTCCCGATGAGGAAGGGCAAACTGGGAATTA
1 --AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGG----A
*
51687 GCAACTAAACAACACCCTCCGATGAGGAAGGGCAAACTGGGA
1 --AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGA
**
51729 ATTTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAA
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGG-A
* * * * *
51770 AACCAAAAAACACGTTCTGATGGGGAAGGGCAAAC-GGGA
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGA
** *
51809 ATGTAAACAACACCTTCCGA-GTAGGAAGGGCAAACTGGAA
1 AACTAAACAACACCTTCCGATG-AGGAAGGGCAAACTGGGA
* * * *
51849 AAGC-AAACAACACCTT-CTAGTGTGGAAGGACGAACTGGGAA
1 AA-CTAAACAACACCTTCCGA-TGAGGAAGGGCAAACTGGG-A
* * * *
51890 AAGC-AAACAACACTTTCCGATGGGGAAGGGCGAACTGAGAAAAAGC
1 AA-CTAAACAACACCTTCCGATGAGGAAGGGCAAACTG-G-----GA
* * *
51936 AACTAAACAACACATTCTGATGA-GAAGGGCAAA-TCAGG-
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACT-GGGA
* * * * *
51974 AATTGCAAAGAACACCTTCCGGTGGGGAAGGGCAAACTGATAATTAGA
1 AACT--AAACAACACCTTCCGATGAGGAAGGGCAAACTG------GGA
* *
52022 CAACTAAACAACCCCTTCCGGTGAGGAAGGGCAAGACT-GGA
1 -AACTAAACAACACCTTCCGATGAGGAAGGGCAA-ACTGGGA
*
52063 AACTAAACAACACC-TCCGGTGAGGAAGGGCAAGACT-GGA
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAA-ACTGGGA
* *
52102 AACTAAACAACACCTTCCGGTGAGGAAGGGCAAAAC-AGGA
1 AACTAAACAACACCTTCCGATGAGGAAGGGC-AAACTGGGA
* *
52142 AACTAAAAAACACCTTCCGATGAGGAAGGGCAAAATGGGAA
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGG-A
* * *
52183 AACTAAACAACACCTTCCGGTGGGGAAGGGCAAATTGGGA
1 AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGA
52223 A
1 A
52224 TTTGACAACT
Statistics
Matches: 517, Mismatches: 66, Indels: 89
0.77 0.10 0.13
Matches are distributed among these distances:
38 4 0.01
39 72 0.14
40 149 0.29
41 145 0.28
42 6 0.01
44 3 0.01
45 11 0.02
46 93 0.18
47 28 0.05
48 3 0.01
49 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.13
Consensus pattern (40 bp):
AACTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGA
Found at i:51939 original size:293 final size:286
Alignment explanation
Indices: 51556--52266 Score: 738
Period size: 293 Copynumber: 2.4 Consensus size: 286
51546 GTAATTAGAT
* * * * *
51556 AACTAAACAACACCTTCCGGTGGGGAAGGGCGAATTGGGAAAAGTAAACAACACCTTCCGATGAG
1 AACTAAACAACACCTT-CAGTGAGGAAGGGCGAAATGGGAAAAGCAAACAACACCTTCCGATGGG
* * *
51621 GAAGGGCGAACTGGTAAAGAGCAACTAAACAACACCTCCCGATGAGGAAGGGCAAACTGGGAATT
65 GAAGGGCGAACTGG-AAAAAGCAACTAAACAACACCTTCTGATGAGGAAGGGCAAACTGGGAATT
*
51686 AGCAACTAAACAACACCCTCCGATGAGGAAGGGCAAACTGGGAATT-TAAACAACACCTTCCGAT
129 -G---C-AAACAACACCCTCCGATGAGGAAGGGCAAACTGAGAATTATAAACAACACCTTCCGAT
* * * **
51750 GAGGAAGGGCAA-ACTGGGAAAACCAAAAAACACGTTCTGATGGGGAAGGGCAA-ACGGGAATGT
189 GAGGAAGGGCAAGACT-GG-AAACCAAAAAACAC-CTCCGATGAGGAAGGGCAAGACGGGAAACT
*
51813 AAACAACACCTTCCGAGT-AGGAAGGGC-AAACTGGAA
251 AAACAACACCTTCCG-GTGAGGAAGGGCAAAACAGG-A
* * * *
51849 AAGC-AAACAACACCTTCTAGTGTGGAAGGACGAACTGGGAAAAGCAAACAACACTTTCCGATGG
1 AA-CTAAACAACACCTTC-AGTGAGGAAGGGCGAAATGGGAAAAGCAAACAACACCTTCCGATGG
* *
51913 GGAAGGGCGAACTGAGAAAAAGCAACTAAACAACACATTCTGATGA-GAAGGGCAAA-TCAGGAA
64 GGAAGGGCGAACTG-GAAAAAGCAACTAAACAACACCTTCTGATGAGGAAGGGCAAACT-GGGAA
* * * * * *
51976 TTGCAAAGAACACCTTCCGGTGGGGAAGGGCAAACTGATAATTAGACAACTAAACAACCCCTTCC
127 TTGCAAACAACACCCTCCGATGAGGAAGGGCAAACTGAGAATT-----A-TAAACAACACCTTCC
* * * * *
52041 GGTGAGGAAGGGCAAGACTGGAAACTAAACAACACCTCCGGTGAGGAAGGGCAAGACTGGAAACT
186 GATGAGGAAGGGCAAGACTGGAAACCAAAAAACACCTCCGATGAGGAAGGGCAAGACGGGAAACT
52106 AAACAACACCTTCCGGTGAGGAAGGGCAAAACAGGA
251 AAACAACACCTTCCGGTGAGGAAGGGCAAAACAGGA
* * * *
52142 AACTAAAAAACACCTTCCGATGAGGAAGGGCAAAATGGGAAAA-CTAAACAACACCTTCCGGTGG
1 AACTAAACAACACCTTCAG-TGAGGAAGGGCGAAATGGGAAAAGC-AAACAACACCTTCCGATGG
* * *** * *
52206 GGAAGGGCAAATTGGGAATTTGACAACTAAACAACACCTTCTGACGGGGAAGGGCAAACTG
64 GGAAGGGCGAACT-GGAAAAAG-CAACTAAACAACACCTTCTGATGAGGAAGGGCAAACTG
52267 AGCAATGACA
Statistics
Matches: 349, Mismatches: 47, Indels: 42
0.80 0.11 0.10
Matches are distributed among these distances:
287 33 0.09
288 1 0.00
291 2 0.01
292 37 0.11
293 202 0.58
294 60 0.17
295 13 0.04
296 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.14
Consensus pattern (286 bp):
AACTAAACAACACCTTCAGTGAGGAAGGGCGAAATGGGAAAAGCAAACAACACCTTCCGATGGGG
AAGGGCGAACTGGAAAAAGCAACTAAACAACACCTTCTGATGAGGAAGGGCAAACTGGGAATTGC
AAACAACACCCTCCGATGAGGAAGGGCAAACTGAGAATTATAAACAACACCTTCCGATGAGGAAG
GGCAAGACTGGAAACCAAAAAACACCTCCGATGAGGAAGGGCAAGACGGGAAACTAAACAACACC
TTCCGGTGAGGAAGGGCAAAACAGGA
Found at i:52154 original size:79 final size:81
Alignment explanation
Indices: 51556--52216 Score: 412
Period size: 81 Copynumber: 7.9 Consensus size: 81
51546 GTAATTAGAT
* * * * * * *
51556 AACTAAACAACACCTTCCGGTGGGGAAGGGCGAATTGGGAAAAGTAAACAACACCTTCCGATGAG
1 AACTAAAAAACACCTTCCGATGAGGAAGGGCAAAATGGGAAAACTAAACAACACCTTCCGGTGAG
*
51621 GAAGGGCGAACTGGTAA-AGAGC
66 GAAGGGC-AA-----AACAG-GA
* * * *
51643 AACTAAACAACACCTCCCGATGAGGAAGGGCAAACTGGGAATTAGCAACTAAACAACACCCTCCG
1 AACTAAAAAACACCTTCCGATGAGGAAGGGCAAAATGGG-A--A--AACTAAACAACACCTTCCG
* *
51708 ATGAGGAAGGGC-AAACTGGGA
61 GTGAGGAAGGGCAAAAC-AGGA
** * * * * * * * *
51729 ATTTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAAAACCAAAAAACACGTTCTGATGGG
1 AACTAAAAAACACCTTCCGATGAGGAAGGGCAAAATGGGAAAACTAAACAACACCTTCCGGTGAG
*
51794 GAAGGGC-AAACGGGA
66 GAAGGGCAAAACAGGA
** * * **
51809 ATGTAAACAACACCTTCCGA-GTAGGAAGGGCAAACT-GGAAAAGC-AAACAACACCTTCTAGTG
1 AACTAAAAAACACCTTCCGATG-AGGAAGGGCAAAATGGGAAAA-CTAAACAACACCTTCCGGTG
* * * *
51871 TGGAAGGAC-GAACTGGGAA
64 AGGAAGGGCAAAAC-AGG-A
* * * * * * * *
51890 AAGC-AAACAACACTTTCCGATGGGGAAGGGCGAACTGAGAAAAAGCAACTAAACAACACATTCT
1 AA-CTAAAAAACACCTTCCGATGAGGAAGGGCAAAATG-G--GAA--AACTAAACAACACCTTCC
* *
51954 GATGA-GAAGGGCAAATCAGG-
60 GGTGAGGAAGGGCAAAACAGGA
* * * * ** * *
51974 AATTGCAAAGAACACCTTCCGGTGGGGAAGGGCAAACTGATAATTAGACAACTAAACAACCCCTT
1 AACT--AAAAAACACCTTCCGATGAGGAAGGGC--A---A-AATGGGAAAACTAAACAACACCTT
* *
52039 CCGGTGAGGAAGGGCAAGACTGGA
58 CCGGTGAGGAAGGGCAAAACAGGA
* * *
52063 AACTAAACAACACC-TCCGGTGAGGAAGGGCAAGACT-GG-AAACTAAACAACACCTTCCGGTGA
1 AACTAAAAAACACCTTCCGATGAGGAAGGGCAA-AATGGGAAAACTAAACAACACCTTCCGGTGA
52125 GGAAGGGCAAAACAGGA
65 GGAAGGGCAAAACAGGA
*
52142 AACTAAAAAACACCTTCCGATGAGGAAGGGCAAAATGGGAAAACTAAACAACACCTTCCGGTGGG
1 AACTAAAAAACACCTTCCGATGAGGAAGGGCAAAATGGGAAAACTAAACAACACCTTCCGGTGAG
52207 GAAGGGCAAA
66 GAAGGGCAAA
52217 TTGGGAATTT
Statistics
Matches: 468, Mismatches: 71, Indels: 76
0.76 0.12 0.12
Matches are distributed among these distances:
79 83 0.18
80 61 0.13
81 95 0.20
82 1 0.00
83 2 0.00
84 3 0.01
85 5 0.01
86 85 0.18
87 82 0.18
88 13 0.03
89 4 0.01
90 2 0.00
91 1 0.00
92 31 0.07
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.13
Consensus pattern (81 bp):
AACTAAAAAACACCTTCCGATGAGGAAGGGCAAAATGGGAAAACTAAACAACACCTTCCGGTGAG
GAAGGGCAAAACAGGA
Found at i:53062 original size:51 final size:50
Alignment explanation
Indices: 52986--53154 Score: 270
Period size: 50 Copynumber: 3.4 Consensus size: 50
52976 AATCCAAAAA
*
52986 TTTCATTTTT-TTTCACCAA-TTAATCACAAATTCCATTTTTTAGTCAAAAGT
1 TTTCATTTTTATTT-A-CAAGTTAATCACAAATTCCATTTTTTA-TCAAAAGG
*
53037 TTTCATTTTTATTTACAAGTTAATCACAAATTCCGTTTTTTATCAAAAGG
1 TTTCATTTTTATTTACAAGTTAATCACAAATTCCATTTTTTATCAAAAGG
53087 TTTCATTTTTATTTACAAGTTAATCACAAATTCCATTTTTTATCAAAAGG
1 TTTCATTTTTATTTACAAGTTAATCACAAATTCCATTTTTTATCAAAAGG
*
53137 TTTCATTTTTCTTTACAA
1 TTTCATTTTTATTTACAA
53155 ATCAATCAAA
Statistics
Matches: 112, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
50 76 0.68
51 33 0.29
52 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.48
Consensus pattern (50 bp):
TTTCATTTTTATTTACAAGTTAATCACAAATTCCATTTTTTATCAAAAGG
Found at i:56485 original size:10 final size:10
Alignment explanation
Indices: 56465--56498 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
56455 ATTTAGGTGA
56465 GGAAGGGAAAG
1 GGAA-GGAAAG
56476 GGAAGGAAAG
1 GGAAGGAAAG
56486 GGAAGGAAAG
1 GGAAGGAAAG
56496 GGA
1 GGA
56499 GGGAGGGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 19 0.83
11 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (10 bp):
GGAAGGAAAG
Found at i:62009 original size:40 final size:40
Alignment explanation
Indices: 61953--62035 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
61943 CCAAACCGTT
**
61953 AATCTATGAGTTAAACCCAGTGAAATCTCATTACAATTCA
1 AATCTATGAGGCAAACCCAGTGAAATCTCATTACAATTCA
61993 AATCTATGAGGCAAACCCAGTGAAATCTCATTACAATTCA
1 AATCTATGAGGCAAACCCAGTGAAATCTCATTACAATTCA
62033 AAT
1 AAT
62036 AAATCTCTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (40 bp):
AATCTATGAGGCAAACCCAGTGAAATCTCATTACAATTCA
Found at i:62191 original size:20 final size:20
Alignment explanation
Indices: 62166--62206 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
62156 ATTACCGAAA
62166 CGCTAATATATGAGCCAAAC
1 CGCTAATATATGAGCCAAAC
* *
62186 CGCTAATCTATGAGTCAAAC
1 CGCTAATATATGAGCCAAAC
62206 C
1 C
62207 TAGTTAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.22
Consensus pattern (20 bp):
CGCTAATATATGAGCCAAAC
Found at i:62245 original size:40 final size:40
Alignment explanation
Indices: 62190--62272 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
62180 CCAAACCGCT
* * *
62190 AATCTATGAGTCAAACCTAGTTAAATCTCATTACAATTCA
1 AATCTATGAGGCAAACCCAGTGAAATCTCATTACAATTCA
*
62230 AATCTATGAGGCAAACCCAGTGAAATCTTATTACAATTCA
1 AATCTATGAGGCAAACCCAGTGAAATCTCATTACAATTCA
62270 AAT
1 AAT
62273 AAATCTCTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (40 bp):
AATCTATGAGGCAAACCCAGTGAAATCTCATTACAATTCA
Found at i:62345 original size:237 final size:236
Alignment explanation
Indices: 61925--62381 Score: 842
Period size: 237 Copynumber: 1.9 Consensus size: 236
61915 AGAAATACAT
* *
61925 CGAAAGCTAATATATAAGCCAAACCGTTAATCTATGAGTTAAACCCAGTGAAATCTCATTACAAT
1 CGAAAGCTAATATATAAGCCAAACCGCTAATCTATGAGTCAAACCCAGTGAAATCTCATTACAAT
61990 TCAAATCTATGAGGCAAACCCAGTGAAATCTCATTACAATTCAAATAAATCTCTGTGCCCAAACA
66 TCAAATCTATGAGGCAAACCCAGTGAAATCTCATTACAATTCAAATAAATCTCTGTGCCCAAACA
62055 TCTAAATGAGAATTCAACCCAAACTAGAAATTATACCATAAATAAACTACCTACCTACCAAATAA
131 TCTAAATGAGAATTCAACCCAAACTAGAAATTATACCATAAATAAACTACCTACCTACCAAATAA
62120 ACAAACAAATTACAAACAAACTCACGGAATAGCTACATTAC
196 ACAAACAAATTACAAACAAACTCACGGAATAGCTACATTAC
* * *
62161 CGAAACGCTAATATATGAGCCAAACCGCTAATCTATGAGTCAAACCTAGTTAAATCTCATTACAA
1 CGAAA-GCTAATATATAAGCCAAACCGCTAATCTATGAGTCAAACCCAGTGAAATCTCATTACAA
*
62226 TTCAAATCTATGAGGCAAACCCAGTGAAATCTTATTACAATTCAAATAAATCTCTGTGCCCAAAC
65 TTCAAATCTATGAGGCAAACCCAGTGAAATCTCATTACAATTCAAATAAATCTCTGTGCCCAAAC
*
62291 ATCTAAATGAGAATTCAACCCAAACTAGAAATTATACTATAAATAAACTACCTACCTACCAAATA
130 ATCTAAATGAGAATTCAACCCAAACTAGAAATTATACCATAAATAAACTACCTACCTACCAAATA
62356 AACAAACAAATTACAAACAAACTCAC
195 AACAAACAAATTACAAACAAACTCAC
62382 ATTCCGTGAG
Statistics
Matches: 213, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
236 5 0.02
237 208 0.98
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.24
Consensus pattern (236 bp):
CGAAAGCTAATATATAAGCCAAACCGCTAATCTATGAGTCAAACCCAGTGAAATCTCATTACAAT
TCAAATCTATGAGGCAAACCCAGTGAAATCTCATTACAATTCAAATAAATCTCTGTGCCCAAACA
TCTAAATGAGAATTCAACCCAAACTAGAAATTATACCATAAATAAACTACCTACCTACCAAATAA
ACAAACAAATTACAAACAAACTCACGGAATAGCTACATTAC
Found at i:65361 original size:239 final size:227
Alignment explanation
Indices: 64907--65371 Score: 741
Period size: 239 Copynumber: 2.0 Consensus size: 227
64897 TTTAAAAGGT
*
64907 GAGTGGCGGCTTAAAAAGTGGAAATAAAAAAATTGAAAATGTTTTTTTTTTAAATTTTAAAGTGG
1 GAGTGGCGGCTTAAAAAGTGGAAATAAAAAAATTGAAAATGTTTTTTTTTTAAATTTTAAAGTGA
* * * * *
64972 TATATTTAATAATTGATTTTAAAAATTTTTAAATCATTTTTTTAGAAAAGACACGTGTTAGTATA
66 TATATTTAATAATTGATTTTAAAAACTTTTAAATAATTTTTTTAAAAAAGACACGTGTCAGCATA
*
65037 TTATTGGTGCGTGTAAGGTAAACACTACTCGATATCCTAAAACGACACAATACGATAACGTTTGG
131 TTATTGGTGCGTGTAAGGTAAACACTACTCGATATCCTAAAACGACACAACACGATAACGTTTGG
*
65102 TCCTAAATTGACACAACAACTAACGACAGAAC
196 TCCTAAATTAACACAACAACTAACGACAGAAC
65134 GAGTGGCGGCTTAAAAAGTGGAAATAAAAAAATTGAAAATGTTTTTATTTTTTAAATTTTAAAGT
1 GAGTGGCGGCTTAAAAAGTGGAAATAAAAAAATTGAAAATG-TTTT-TTTTTTAAATTTTAAAGT
65199 GATATATTTAATAATTGATTTTGATAATTATTAAAACTTTTAAATAATTTTTTTTAAAAAAGACA
64 GATATATTTAATAATTGA---T--T--TTA--AAAACTTTTAAATAA-TTTTTTTAAAAAAGACA
*
65264 CGTGTCAGCATATTATTGGTGCGTGTAAGGTAAACACTACTCGATATCCTAAAACGACATAACAC
119 CGTGTCAGCATATTATTGGTGCGTGTAAGGTAAACACTACTCGATATCCTAAAACGACACAACAC
65329 GATAACGTTTGGTCCTAAATTAACACAACAACTAACGACAGAA
184 GATAACGTTTGGTCCTAAATTAACACAACAACTAACGACAGAA
65372 TCCGAATTAT
Statistics
Matches: 217, Mismatches: 9, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
227 41 0.19
228 4 0.02
229 35 0.16
232 1 0.00
234 1 0.00
236 3 0.01
238 13 0.06
239 119 0.55
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (227 bp):
GAGTGGCGGCTTAAAAAGTGGAAATAAAAAAATTGAAAATGTTTTTTTTTTAAATTTTAAAGTGA
TATATTTAATAATTGATTTTAAAAACTTTTAAATAATTTTTTTAAAAAAGACACGTGTCAGCATA
TTATTGGTGCGTGTAAGGTAAACACTACTCGATATCCTAAAACGACACAACACGATAACGTTTGG
TCCTAAATTAACACAACAACTAACGACAGAAC
Found at i:66803 original size:3 final size:3
Alignment explanation
Indices: 66795--66825 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
66785 CCTTTCTATA
66795 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
66826 GTATTATTAC
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:67056 original size:19 final size:21
Alignment explanation
Indices: 67032--67079 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
67022 GTTTGAATGG
67032 GTTCTTCATTGTTCCT-A-AT
1 GTTCTTCATTGTTCCTGATAT
** *
67051 GTTCTTTGTTGTTCTTGATAT
1 GTTCTTCATTGTTCCTGATAT
67072 GTTCTTCA
1 GTTCTTCA
67080 AAAAGTGGAC
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.12, C:0.17, G:0.15, T:0.56
Consensus pattern (21 bp):
GTTCTTCATTGTTCCTGATAT
Found at i:67183 original size:16 final size:16
Alignment explanation
Indices: 67161--67203 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
67151 AGAATAGTAA
67161 TAATTTTAATA-ATTT
1 TAATTTTAATATATTT
67176 TGAATTTTAAGTATATTT
1 T-AATTTTAA-TATATTT
*
67194 TAATGTTAAT
1 TAATTTTAAT
67204 TTTTTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 1 0.04
16 9 0.38
17 9 0.38
18 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (16 bp):
TAATTTTAATATATTT
Found at i:70098 original size:440 final size:435
Alignment explanation
Indices: 69194--70392 Score: 1776
Period size: 440 Copynumber: 2.7 Consensus size: 435
69184 TAGATCATGC
* * * * * * * *
69194 AATAACTATTAAACGACACTTGAATAACTTCAATCGGACACGTGGATCGAAAATTATACGATATT
1 AATAACTTTTTAACGACACTTGAACAACCTCAATTGGACAAGTGGACCGAAAATTATACAATATT
* * * *** *
69259 AAATAGACCGTCAATCGAAACCACAAAATTTTGGAAGCATTTTTTAGAATCAAAACATTAAAATT
66 AGATAGACCGACAATCGAGACCACAAAATTTCATAATCATTTTTTAGAATCAAAACATTAAAATT
* *
69324 GCCTTGTGAGTTCTTCATGAAAGTTGTAGATCATGAAATCACATTTTAATAGACACTTGAATCAC
131 GACTTCTGAGTTCTTCATGAAAGTTGTAGATCATGAAATCACATTTTAATAGACACTTGAATCAC
* * *
69389 CTTAATCGAACAAATAGAACAAAAAATTAAAAAATAAAAGCTGAAGCATTAAATCGTCCAACCCA
196 CTTAATCGGACAAATAGAACAAAAAA-TAAAAAATAAAAGCTGAACCGTTAAATCGTCCAACCCA
*
69454 TAATTGTAAAGGATTAAATAGCATAAAGCATAAAAGTATGAGGATCATTTGATAAATAATCTAGC
260 TAATTGTAAAGGATTAAATAGCATAAAGCATAAAAGTATGAGGATCATTTGATAAATAAGCTAGC
* * *
69519 AAAAAAATATTTGTTTATGGAGACCGAACATAAAAATTTCCTCTTGAACTCTCCACGAAACTCAT
325 AAAAAAAAATTTGTTTAGGGAGACCAAACATAAAAATTTCCTCTTGAACTCTCCACGAAACTCAT
* *
69584 TAATCAAATTAGCTTTCAGGCCCTTAACGCAAGTCGTAGATCACAT
390 TAATCAAATAAGCTTTCAGGCCCTTAACGCAAATCGTAGATCACAT
* * *
69630 AATAACCTTTTAACCGACACTTGAACAACCTCAATTTGACAAATGGACCGAAAATTATACAATAT
1 AATAACTTTTTAA-CGACACTTGAACAACCTCAATTGGACAAGTGGACCGAAAATTATACAATAT
* * * *
69695 TAGATAGAGCGACAATCGAGACCACAAAATTTCATAATCATATTTTCGAATC-AAACGTTAAAAT
65 TAGATAGACCGACAATCGAGACCACAAAATTTCATAATCATTTTTTAGAATCAAAACATTAAAAT
* * * *
69759 TGGCTTTTGAGTTCTTCATGAAAGTTGTAGATCATGAAATCACATTTTAATAGACGCTTGAATTA
130 TGACTTCTGAGTTCTTCATGAAAGTTGTAGATCATGAAATCACATTTTAATAGACACTTGAATCA
69824 CCTTAATCGGACAAATAGAACAAAAAATAAAAAATAAAAGCTGAACCGTTAAATCGTCCAACCCA
195 CCTTAATCGGACAAATAGAACAAAAAATAAAAAATAAAAGCTGAACCGTTAAATCGTCCAACCCA
*
69889 TAATTGTAAAGGATTAAATAGCATAAAGCATAAAAGTATGAGAATCATTTGATAAATAAGCTAGC
260 TAATTGTAAAGGATTAAATAGCATAAAGCATAAAAGTATGAGGATCATTTGATAAATAAGCTAGC
69954 AAAAAAAAAAAAAATTTGTTTAGGGAGACCAAACATAAAAATTTCCTCTTGAACTCTCCACGAAA
325 -----AAAAAAAAATTTGTTTAGGGAGACCAAACATAAAAATTTCCTCTTGAACTCTCCACGAAA
* *
70019 CTCATTAATCCAAATAAGCTTTCAGG-CCTTAATGCAAATTGTAGATCACAT
385 CTCATTAAT-CAAATAAGCTTTCAGGCCCTTAACGCAAATCGTAGATCACAT
*
70070 AATAACTTTTTAACTGACACTTGAACAACCTCAATTGGACAAGTGGACTGAAAATTATACAATAT
1 AATAACTTTTTAAC-GACACTTGAACAACCTCAATTGGACAAGTGGACCGAAAATTATACAATAT
* *
70135 TAGATAGACCGACAATCGAGACCACAAAATTTCATAATTATTTTTTAGAATCAAAACAATAAAAT
65 TAGATAGACCGACAATCGAGACCACAAAATTTCATAATCATTTTTTAGAATCAAAACATTAAAAT
* * *
70200 TGACTTCTGAGTTCTTCATGAAAGTTGTAGATCATAAAATTATC-TTTTAATAAACACTTGAATC
130 TGACTTCTGAGTTCTTCATGAAAGTTGTAGATCATGAAATCA-CATTTTAATAGACACTTGAATC
* * *
70264 ACCTTAATCTGTCGGCAAATAGAATAAGAAATATAAAAATAAAAGCTG-ACGCGTTAAATCGTCC
194 ACCTTAATC-G--GACAAATAGAACAAAAAATA-AAAAATAAAAGCTGAAC-CGTTAAATCGTCC
* *
70328 AACCCATAATTGTAAAGGATTAAATAGCATAAAGTATAAAAGTATGAGGATCATTCGATAAATAA
254 AACCCATAATTGTAAAGGATTAAATAGCATAAAGCATAAAAGTATGAGGATCATTTGATAAATAA
70393 TCCAATAAAA
Statistics
Matches: 687, Mismatches: 61, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
435 99 0.14
436 108 0.16
437 85 0.12
439 1 0.00
440 195 0.28
441 89 0.13
442 2 0.00
444 19 0.03
445 89 0.13
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (435 bp):
AATAACTTTTTAACGACACTTGAACAACCTCAATTGGACAAGTGGACCGAAAATTATACAATATT
AGATAGACCGACAATCGAGACCACAAAATTTCATAATCATTTTTTAGAATCAAAACATTAAAATT
GACTTCTGAGTTCTTCATGAAAGTTGTAGATCATGAAATCACATTTTAATAGACACTTGAATCAC
CTTAATCGGACAAATAGAACAAAAAATAAAAAATAAAAGCTGAACCGTTAAATCGTCCAACCCAT
AATTGTAAAGGATTAAATAGCATAAAGCATAAAAGTATGAGGATCATTTGATAAATAAGCTAGCA
AAAAAAAATTTGTTTAGGGAGACCAAACATAAAAATTTCCTCTTGAACTCTCCACGAAACTCATT
AATCAAATAAGCTTTCAGGCCCTTAACGCAAATCGTAGATCACAT
Found at i:70763 original size:69 final size:71
Alignment explanation
Indices: 70689--70834 Score: 251
Period size: 73 Copynumber: 2.1 Consensus size: 71
70679 CGCAGATATA
70689 TATTGAATAACATAAAAATACT-A-AACGAATAACATAAAGAAAACCTAGAGAGAGATACAGCTT
1 TATTGAATAACATAAAAATACTAAGAACGAATAACATAAAGAAAACCTAGAGAGAGATACAGCTT
70752 GTTTAT
66 GTTTAT
*
70758 TATTGAATAACATAAAAATACTAAATGAATGAATAACATAAAGAAAACCTAGAGAGAGATACAGC
1 TATTGAATAACATAAAAATACT-AA-GAACGAATAACATAAAGAAAACCTAGAGAGAGATACAGC
70823 TTGTTTAT
64 TTGTTTAT
70831 TATT
1 TATT
70835 TTTTTAGGAA
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
69 22 0.31
71 1 0.01
73 49 0.68
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (71 bp):
TATTGAATAACATAAAAATACTAAGAACGAATAACATAAAGAAAACCTAGAGAGAGATACAGCTT
GTTTAT
Found at i:75626 original size:64 final size:64
Alignment explanation
Indices: 75489--76079 Score: 734
Period size: 64 Copynumber: 9.3 Consensus size: 64
75479 GAAAATTTCC
* * * * *
75489 AGAAGTACACCAGAATATGGCTTATCAATAGTTTTCAGAA-TCGATCGGAAGACGATCTTGTCA
1 AGAAGTACACCAGAAGATGGTTTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTCA
* * *
75552 AGAAGTACACCAGAAGATGGTTTATCAAGAGATTTCAGAAGTTGATCGGAAGACGATCTTATCA
1 AGAAGTACACCAGAAGATGGTTTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTCA
* * * * *
75616 AGAAATACACCAGAATATGGCTTATCAAGAGTTTTCAGAAGTTGATTGGAAGACGATCTTGTCA
1 AGAAGTACACCAGAAGATGGTTTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTCA
* * * * * *
75680 AGAAGTACACCAGAAGATGGTTTCTCAAGAGCTTTCAAAAGTTGATCGGAAGATGGTCCTGTAA
1 AGAAGTACACCAGAAGATGGTTTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTCA
* * *
75744 AGAAGTTCACCAAAAGATGGTTTCTCAATAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTCA
1 AGAAGTACACCAGAAGATGGTTTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTCA
*
75808 AGAAATACACCAGAAGATGGTTTCTCAAGAGTTTTCAGAAGTTGATCGG-A-A-GA-C--G--A
1 AGAAGTACACCAGAAGATGGTTTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTCA
* * * *
75864 A-AAGTACACAAGAAGATGGTTTCTTAAAGAGATTTCAAAAGTTGATCGGAAGACGATCTTGTCA
1 AGAAGTACACCAGAAGATGGTTTC-TCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTCA
* * * * *
75928 AGAAATACACCGGAAGATGGTTTCTCAGAGAGTTTTCAGAAGTCGATCGAAAGACGATCTTGTTA
1 AGAAGTACACCAGAAGATGGTTTCTCA-AGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTCA
* * * * *
75993 AGGAGTACACCAGAAGATGGTCTCTTAAAGAGTTTTCAGAAGTGGATCGGAAGACGATATTGTCA
1 AGAAGTACACCAGAAGATGGTTTC-TCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTCA
* *
76058 AGAAGTTCACCGGAAGATGGTT
1 AGAAGTACACCAGAAGATGGTT
76080 CTTTTTGAGG
Statistics
Matches: 452, Mismatches: 63, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
55 20 0.04
56 24 0.05
57 1 0.00
58 2 0.00
59 2 0.00
60 2 0.00
61 2 0.00
62 2 0.00
63 37 0.08
64 236 0.52
65 122 0.27
66 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (64 bp):
AGAAGTACACCAGAAGATGGTTTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTCA
Found at i:75910 original size:56 final size:55
Alignment explanation
Indices: 75813--75919 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 55
75803 TGTCAAGAAA
* * * *
75813 TACACCAGAAGATGGTTTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGAAAAG
1 TACACAAGAAGATGGTTTCTAAAGAGATTTCAAAAGTTGATCGGAAGACGAAAAG
75868 TACACAAGAAGATGGTTTCTTAAAGAGATTTCAAAAGTTGATCGGAAGACGA
1 TACACAAGAAGATGGTTTC-TAAAGAGATTTCAAAAGTTGATCGGAAGACGA
75920 TCTTGTCAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 18 0.38
56 29 0.62
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (55 bp):
TACACAAGAAGATGGTTTCTAAAGAGATTTCAAAAGTTGATCGGAAGACGAAAAG
Found at i:75976 original size:65 final size:65
Alignment explanation
Indices: 75865--76079 Score: 286
Period size: 65 Copynumber: 3.3 Consensus size: 65
75855 GGAAGACGAA
** * * *
75865 AAGTACACAAGAAGATGGTTTCTTAAAGAGATTTCAAAAGTTGATCGGAAGACGATCTTGTCAAG
1 AAGTACACCGGAAGATGGTTTCTTAAAGAGTTTTCAGAAGTCGATCGGAAGACGATCTTGTCAAG
* * * * *
75930 AAATACACCGGAAGATGGTTTCTCAGAGAGTTTTCAGAAGTCGATCGAAAGACGATCTTGTTAAG
1 AAGTACACCGGAAGATGGTTTCTTAAAGAGTTTTCAGAAGTCGATCGGAAGACGATCTTGTCAAG
* * * * *
75995 GAGTACACCAGAAGATGGTCTCTTAAAGAGTTTTCAGAAGTGGATCGGAAGACGATATTGTCAAG
1 AAGTACACCGGAAGATGGTTTCTTAAAGAGTTTTCAGAAGTCGATCGGAAGACGATCTTGTCAAG
*
76060 AAGTTCACCGGAAGATGGTT
1 AAGTACACCGGAAGATGGTT
76080 CTTTTTGAGG
Statistics
Matches: 126, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
65 126 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (65 bp):
AAGTACACCGGAAGATGGTTTCTTAAAGAGTTTTCAGAAGTCGATCGGAAGACGATCTTGTCAAG
Found at i:76265 original size:50 final size:50
Alignment explanation
Indices: 76168--76417 Score: 385
Period size: 50 Copynumber: 5.0 Consensus size: 50
76158 TCAAGTTGAT
76168 CGGAAGACGGTCCTTTTAAGATTGGAATTGGAAGACAATTCGAAGGATAAC
1 CGGAAGACGGTCCTTTTAAGATT-GAATTGGAAGACAATTCGAAGGATAAC
76219 CGGAAGACGGTCCTTTTAAGATTGAATTGGAAGACAATTCGAAGGATAAGC
1 CGGAAGACGGTCCTTTTAAGATTGAATTGGAAGACAATTCGAAGGATAA-C
* * *
76270 C-GAAGACGGTCCTTTTAAGATCGAATTGGAAGACAATTCGTAGGATAAG
1 CGGAAGACGGTCCTTTTAAGATTGAATTGGAAGACAATTCGAAGGATAAC
** * *
76319 CGGAAGACGACCCTTTTAAGATTGAATTGGAAGACAGTTCGAAGGATAAG
1 CGGAAGACGGTCCTTTTAAGATTGAATTGGAAGACAATTCGAAGGATAAC
* * *
76369 CGGAAGATGGTCCTTTTAAGATGGAATTGGAAGACAGTTCGAAGGATAA
1 CGGAAGACGGTCCTTTTAAGATTGAATTGGAAGACAATTCGAAGGATAA
Statistics
Matches: 185, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
49 1 0.01
50 159 0.86
51 25 0.14
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (50 bp):
CGGAAGACGGTCCTTTTAAGATTGAATTGGAAGACAATTCGAAGGATAAC
Done.