Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold346
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: 67731
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:2720 original size:91 final size:93
Alignment explanation
Indices: 2611--2778 Score: 286
Period size: 91 Copynumber: 1.8 Consensus size: 93
2601 CCCCTAAGGT
*
2611 AACTCGGACTCAACTCAACGAGCTCGGGCA-TCGCATCCATAAGTGAA-TCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
2674 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGAATGCCTAGTTACATCTCACG
* *
2702 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
2767 GAGTTCGAATGC
66 GAGTTCGAATGC
2779 TCAACCATCT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 28 0.39
92 16 0.23
93 27 0.38
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGAATGCCTAGTTACATCTCACG
Found at i:2768 original size:46 final size:46
Alignment explanation
Indices: 2607--2773 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
2597 CCCGCCCCTA
* *
2607 AGGT-AACTCGGACTCAACTCAACGAGCTCGGGCA-TCGCATCCAT
1 AGGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
* *
2651 AAGTGAA-TCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
*
2698 CA--CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 -AGGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
2743 AGGTGAACTCGGACTCAACTCAACGAGTTCG
1 AGGTGAACTCGGACTCAACTCAACGAGTTCG
2774 AATGCTCAAC
Statistics
Matches: 102, Mismatches: 7, Indels: 26
0.76 0.05 0.19
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 29 0.28
45 3 0.03
46 30 0.29
47 27 0.26
48 3 0.03
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
AGGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:3233 original size:30 final size:30
Alignment explanation
Indices: 3199--3258 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
3189 ATTTAATATG
*
3199 AACTTTGGAAAAATTACACTTTTGCGCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
3229 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
3259 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:10969 original size:39 final size:40
Alignment explanation
Indices: 10924--11131 Score: 116
Period size: 40 Copynumber: 5.2 Consensus size: 40
10914 CGGGGTTTAG
* * *
10924 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
10963 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
11003 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
11043 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * * *
11084 CCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
11125 CC-GATAT
1 CCGGATAT
11132 CCTTCGATAA
Statistics
Matches: 149, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 18 0.12
40 66 0.44
41 62 0.42
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:11074 original size:41 final size:41
Alignment explanation
Indices: 10947--11131 Score: 252
Period size: 40 Copynumber: 4.6 Consensus size: 41
10937 CTCGCACAAG
* * * * * *
10947 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
10987 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
11027 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
11068 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
11109 GCCTTCGGGACTTAGCCC-GATAT
1 GCCTTCGGGACTTAGCCCGGATAT
11132 CCTTCGATAA
Statistics
Matches: 132, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 64 0.48
41 62 0.47
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:24251 original size:28 final size:28
Alignment explanation
Indices: 24219--24302 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
24209 AACTTCGACC
24219 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
24247 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
24269 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
24297 ACGTGT
1 ACGTGT
24303 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:24289 original size:50 final size:49
Alignment explanation
Indices: 24171--24360 Score: 209
Period size: 50 Copynumber: 3.8 Consensus size: 49
24161 TGAGGTCGCA
* * * * **
24171 TGTGTAGTACTAAGTGCGGGCTACTATGCGTACCCGATAACTTCGACCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACG
* **
24222 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
24272 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * **
24321 TGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
24361 CCTTTTCTAC
Statistics
Matches: 118, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
49 40 0.34
50 45 0.38
51 33 0.28
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:25959 original size:14 final size:14
Alignment explanation
Indices: 25940--25994 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 14
25930 TTTCCCTTTT
25940 TCATTTCACACAAC
1 TCATTTCACACAAC
25954 TCATTTCACACACATCTC
1 TCATTTCACACA-A---C
25972 TTCATTTCACACAAC
1 -TCATTTCACACAAC
25987 TCATTTCA
1 TCATTTCA
25995 TACACATCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 20 0.56
15 2 0.06
18 2 0.06
19 12 0.33
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (14 bp):
TCATTTCACACAAC
Found at i:25976 original size:19 final size:19
Alignment explanation
Indices: 25954--26012 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
25944 TTCACACAAC
25954 TCATTTCACACACATCTCT
1 TCATTTCACACACATCTCT
25973 TCATTTCACACA-A---C-
1 TCATTTCACACACATCTCT
*
25987 TCATTTCATACACATCTCT
1 TCATTTCACACACATCTCT
26006 TCATTTC
1 TCATTTC
26013 TCTCTTCCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 11 0.32
15 2 0.06
18 2 0.06
19 19 0.56
ACGTcount: A:0.27, C:0.34, G:0.00, T:0.39
Consensus pattern (19 bp):
TCATTTCACACACATCTCT
Found at i:25976 original size:33 final size:33
Alignment explanation
Indices: 25939--26012 Score: 139
Period size: 33 Copynumber: 2.2 Consensus size: 33
25929 CTTTCCCTTT
25939 TTCATTTCACACAACTCATTTCACACACATCTC
1 TTCATTTCACACAACTCATTTCACACACATCTC
*
25972 TTCATTTCACACAACTCATTTCATACACATCTC
1 TTCATTTCACACAACTCATTTCACACACATCTC
26005 TTCATTTC
1 TTCATTTC
26013 TCTCTTCCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (33 bp):
TTCATTTCACACAACTCATTTCACACACATCTC
Found at i:30650 original size:13 final size:13
Alignment explanation
Indices: 30632--30656 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30622 GAGAAATCGC
30632 ACATGGGCGTGTT
1 ACATGGGCGTGTT
30645 ACATGGGCGTGT
1 ACATGGGCGTGT
30657 CTCTATCGAG
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:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (13 bp):
ACATGGGCGTGTT
Found at i:32168 original size:26 final size:26
Alignment explanation
Indices: 32110--32161 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
32100 ATACTGTAAT
*
32110 TATGGCAGCTAGACAACAAATTTATG
1 TATGGCAGCTAGACAACAAATATATG
*
32136 TATGGCAGCTCAG-CTACAAATATATG
1 TATGGCAGCT-AGACAACAAATATATG
32162 AGTGGCACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (26 bp):
TATGGCAGCTAGACAACAAATATATG
Found at i:32339 original size:25 final size:25
Alignment explanation
Indices: 32292--32348 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
32282 TAAGATATAC
* *
32292 TATGTTATGATTTGATGTAATATGA
1 TATGTTATGATTCGATATAATATGA
* *
32317 TTTGTTATGATTCGATATGATATGA
1 TATGTTATGATTCGATATAATATGA
32342 TATGTTA
1 TATGTTA
32349 AGATAATATC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (25 bp):
TATGTTATGATTCGATATAATATGA
Found at i:32340 original size:5 final size:5
Alignment explanation
Indices: 32268--32345 Score: 52
Period size: 5 Copynumber: 15.6 Consensus size: 5
32258 CGGGTAGGAC
* * * * * *
32268 ATGAT ATGGT ATGAT AAGAT AT-ACT ATGTT ATGAT TTGAT GTAAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGA-T ATGAT ATGAT ATGAT ATGAT ATGAT
* *
32318 TTGTT ATGAT -TCGAT ATGAT ATGAT ATG
1 ATGAT ATGAT AT-GAT ATGAT ATGAT ATG
32346 TTAAGATAAT
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
4 2 0.04
5 51 0.94
6 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.44
Consensus pattern (5 bp):
ATGAT
Found at i:36016 original size:25 final size:25
Alignment explanation
Indices: 35936--36073 Score: 95
Period size: 25 Copynumber: 5.5 Consensus size: 25
35926 GTAACACACA
*
35936 ACAAAGGCTTT-CAGAGAGAATTTGCC
1 ACAAAGGCTTTCCAGAGAG--TTCGCC
* ** * *
35962 ACAAAGGGTTTCTTG-TAGTTCACC
1 ACAAAGGCTTTCCAGAGAGTTCGCC
* * *
35986 ATAAAGGCTTTCTAGAGAGTTCGCT
1 ACAAAGGCTTTCCAGAGAGTTCGCC
*
36011 ACAAAGGTTTTCCA-ATG-GATTCGCC
1 ACAAAGGCTTTCCAGA-GAG-TTCGCC
* *
36036 ACAAAGGCTTTCCAGAGAATTCTCC
1 ACAAAGGCTTTCCAGAGAGTTCGCC
*
36061 ACAAAAGCTTTCC
1 ACAAAGGCTTTCC
36074 CTAAAATTCG
Statistics
Matches: 86, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
24 18 0.21
25 54 0.63
26 13 0.15
27 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (25 bp):
ACAAAGGCTTTCCAGAGAGTTCGCC
Found at i:36065 original size:50 final size:49
Alignment explanation
Indices: 35936--36065 Score: 120
Period size: 50 Copynumber: 2.6 Consensus size: 49
35926 GTAACACACA
* * *
35936 ACAAAGGCTTTCAGAGAGAATT-TGCCACAAAGGGTTTCTTGTAGTTCACC
1 ACAAAGGCTTTC-CAGAGAATTCT-CCACAAAGGGTTTCATGGAGTTCACC
* * * * * * *
35986 ATAAAGGCTTTCTAGAGAGTTCGCTACAAAGGTTTTCCAATGGA-TTCGCC
1 ACAAAGGCTTTCCAGAGAATTCTCCACAAAGGGTTT-C-ATGGAGTTCACC
36036 ACAAAGGCTTTCCAGAGAATTCTCCACAAA
1 ACAAAGGCTTTCCAGAGAATTCTCCACAAA
36066 AGCTTTCCCT
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
49 18 0.29
50 42 0.67
51 3 0.05
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (49 bp):
ACAAAGGCTTTCCAGAGAATTCTCCACAAAGGGTTTCATGGAGTTCACC
Found at i:36081 original size:25 final size:25
Alignment explanation
Indices: 36029--36083 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
36019 TTTCCAATGG
* *
36029 ATTCGCCACAAAGGCTTTCCAGAGA
1 ATTCGCCACAAAAGCTTTCCAGAAA
* **
36054 ATTCTCCACAAAAGCTTTCCCTAAA
1 ATTCGCCACAAAAGCTTTCCAGAAA
36079 ATTCG
1 ATTCG
36084 TGTTTACTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (25 bp):
ATTCGCCACAAAAGCTTTCCAGAAA
Found at i:36774 original size:23 final size:23
Alignment explanation
Indices: 36748--36793 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
36738 GAGCTATAAG
*
36748 ACTTACAAGAACGCTAAATTATC
1 ACTTACAAGAACACTAAATTATC
36771 ACTTACAAGAACACTAAATTATC
1 ACTTACAAGAACACTAAATTATC
36794 TATCTTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.26
Consensus pattern (23 bp):
ACTTACAAGAACACTAAATTATC
Found at i:45079 original size:60 final size:59
Alignment explanation
Indices: 44986--45231 Score: 284
Period size: 60 Copynumber: 4.1 Consensus size: 59
44976 CAACTTACTA
* * * * *
44986 CTTTAAAGTGAACTTGTACACTTTTTTGAAGTGGCTTTACCTCTTGAATGTAATTTGCTT
1 CTTTAAAGTGAACTTGCACACTTCTTTAAAGTGGCTTTACCTATT-AAGGTAATTTGCTT
*
45046 CTTTAAAGTGAACTTGCACACTTCTTTAAAGTGG-TAGT-CACT-TTAAGGTAATTTGCTT
1 CTTTAAAGTGAACTTGCACACTTCTTTAAAGTGGCT-TTAC-CTATTAAGGTAATTTGCTT
* ** * *
45104 ATTTAAA-ACATACTTGCACACTTCTTTAAAGTGGCTTTACCTATTTAGGGTAACTTGCTT
1 CTTTAAAGTGA-ACTTGCACACTTCTTTAAAGTGGCTTTACCTA-TTAAGGTAATTTGCTT
** *
45164 CTTTAAAGTGAACTTGCACACTTCTTTAAAGTGATTTTACTTATTCAAGGTAATTTGCTT
1 CTTTAAAGTGAACTTGCACACTTCTTTAAAGTGGCTTTACCTATT-AAGGTAATTTGCTT
45224 CTTTAAAG
1 CTTTAAAG
45232 CAAACTTACG
Statistics
Matches: 158, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
57 1 0.01
58 45 0.28
59 8 0.05
60 103 0.65
61 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (59 bp):
CTTTAAAGTGAACTTGCACACTTCTTTAAAGTGGCTTTACCTATTAAGGTAATTTGCTT
Found at i:49693 original size:17 final size:18
Alignment explanation
Indices: 49671--49705 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
49661 GATATGATAC
*
49671 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
49688 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
49706 CTGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:50002 original size:23 final size:22
Alignment explanation
Indices: 49972--50016 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
49962 AAATTAAATC
49972 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
49995 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
50017 AAGATTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:50031 original size:18 final size:19
Alignment explanation
Indices: 49995--50040 Score: 85
Period size: 18 Copynumber: 2.5 Consensus size: 19
49985 AATCATATCT
49995 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50014 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
50032 TCTAAGATT
1 TCTAAGATT
50041 ATATTTCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50437 original size:45 final size:45
Alignment explanation
Indices: 50382--50655 Score: 225
Period size: 45 Copynumber: 6.1 Consensus size: 45
50372 GGAAGGCGAT
* * **
50382 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACATTGAGGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGAGGCCAA
*
50427 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGAGGCCAA
** * ** * * *
50472 ATCTACT-TCTTCAATCTGCTCCTTGTCTAATACTGAGATGTCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGAGGCCAA
* *
50516 ATCTGTTATC-TCTGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTC-GATCTGCTCCCCGTCTAATACAGAGAGGCCAA
* * * * * * * *
50561 ATCTGTCATCTTGGATCTACT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-AGGCCAA
* * *
50606 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGAGGCCAA
50653 ATC
1 ATC
50656 ATCTTGGATC
Statistics
Matches: 177, Mismatches: 41, Indels: 20
0.74 0.17 0.08
Matches are distributed among these distances:
43 6 0.03
44 43 0.24
45 97 0.55
46 2 0.01
47 18 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGAGGCCAA
Found at i:50727 original size:78 final size:78
Alignment explanation
Indices: 50598--50889 Score: 433
Period size: 78 Copynumber: 3.7 Consensus size: 78
50588 TAAACACATG
*
50598 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
*
50663 ATCTTCTTCAATA
66 ATCTGCTTCAATA
* * * *
50676 AAGGTCCA-ATCTGTTATGTCTTTGATTTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTG
1 AAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
50740 GATCTGCTTCAATA
65 GATCTGCTTCAATA
* * *
50754 AAGGTCAGATCTGTTGTGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
* *
50819 ATCTGCTTTAATG
66 ATCTGCTTCAATA
* * **
50832 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
50890 TGTTTCTTCG
Statistics
Matches: 194, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 2 0.01
78 190 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (78 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
ATCTGCTTCAATA
Found at i:51236 original size:364 final size:365
Alignment explanation
Indices: 50547--51748 Score: 1820
Period size: 364 Copynumber: 3.3 Consensus size: 365
50537 CCCCGTCTAA
* * * *
50547 TACAGAGATGCCAAATCTGTCATCTTGGATCTACTTC-GATGTAAACACATGAAGGTCAGATCTG
1 TACAGAGATGCCAAA----TCATCTTAGATCTGCTTCAG-CGTAAACACGTGAAGGTCAGATCTG
* * * *
50611 CTATGTCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTTCTTCAATA
61 CTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCAATG
* * *
50676 AAGGTCCAATCTGTTATGTCTTTGATTTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGG
126 AAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
*
50741 ATCTGCTTCAATAAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGC
191 ATCTGCTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGC
*
50806 CAAATCATCTTGGATCTGCTTTAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCG
256 CAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCG
50871 AATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAG
321 AATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAG
50916 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAGATCTGCTATG
1 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAGATCTGCTATG
50981 TCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTACTT-AATGAAGGT
66 TCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAGGT
* *
51045 CCAATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGATATGCCAAATCATCTTGGATCTG
131 CCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
*
51110 CTTCAATGAAGGTCAAATCTGTTGTGTCTTCGATCTGCTC-CCTGTCTAATACAGAGATGCCAAA
196 CTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCTCC-GTCTAATACAGAGATGCCAAA
* *
51174 TCTTCTTAGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATA
260 TCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATA
* *
51239 TGGAGATGCCAAATCTATTTCTTCGATTTTTTCTCTGACAG
325 TGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAG
*
51280 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTTAGATCTGCTATG
1 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAGATCTGCTATG
* *
51345 TCTTCGATCTGTTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT
66 TCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAGGT
*
51410 CCAATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
131 CCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
51475 CTTCAATGAAGGTCAGATCTGTTGTGTCTGT-GATCTGCTCTCCGTCTAATACAGAGATGCCAAA
196 CTTCAATGAAGGTCAGATCTGTTGTGTCT-TCGATCTGCTCTCCGTCTAATACAGAGATGCCAAA
51539 TCATCTTGGATCTGCTTCAATGAA-G---G---T-C-A-------GATCTGCTCTCCGTCGAATA
260 TCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATA
* * *
51588 TGGAGATGTCAAATTTGTTTCTTCGATTTGTTCTCTGATAG
325 TGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAG
* * * *
51629 TACAGAGATGCCAAATCATTTTAGATCTGCTTCAGCGTAAACACGTGAAAG-CCGAATATGCTAT
1 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAG-ATCTGCTAT
* *** ** *
51693 GTCTTCGATCTACTCCTTGTC-AACGCA-AGGATGCAAAATCATCTTGGATCTACTTC
65 GTCTTCGATCTGCTCCCCATCTAATACAGA-GATGCCAAATCATCTTGGATCTACTTC
51749 GATGTGAAGA
Statistics
Matches: 778, Mismatches: 48, Indels: 35
0.90 0.06 0.04
Matches are distributed among these distances:
347 1 0.00
348 30 0.04
349 129 0.17
356 1 0.00
357 1 0.00
358 1 0.00
361 1 0.00
363 2 0.00
364 346 0.44
365 247 0.32
366 4 0.01
369 15 0.02
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (365 bp):
TACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAGATCTGCTATG
TCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAGGT
CCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
CTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAAT
CATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATAT
GGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAG
Found at i:51254 original size:78 final size:78
Alignment explanation
Indices: 50961--51253 Score: 430
Period size: 78 Copynumber: 3.8 Consensus size: 78
50951 CGTAAACACG
**
50961 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTT
*
51026 GGATCTACTT-AA
66 GGATCTGCTTCAA
* *
51038 TGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGATATGCCAAATCATCT
1 TGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCT
51102 TGGATCTGCTTCAA
65 TGGATCTGCTTCAA
* * * *
51116 TGAAGGTCAAATCTGTTGTGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTTCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTT
*
51181 AGATCTGCTTCAA
66 GGATCTGCTTCAA
* **
51194 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCC-GTCGAATATGGAGATGCCAAATC
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-CCTGTCTAATACAGAGATGCCAAATC
51254 TATTTCTTCG
Statistics
Matches: 197, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
77 69 0.35
78 126 0.64
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (78 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCAA
Found at i:51384 original size:88 final size:78
Alignment explanation
Indices: 51325--51573 Score: 403
Period size: 78 Copynumber: 3.2 Consensus size: 78
51315 CGTAAACACG
* * * *
51325 TGAAGGTTAGATCTGCTATGTCTTCGATCTGTTCCCCATCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
51390 GGATCTGCTTCAA
66 GGATCTGCTTCAA
*
51403 TGAAGGTCCA-ATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 TGAAGGT-CAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
51467 TGGATCTGCTTCAA
65 TGGATCTGCTTCAA
* *
51481 TGAAGGTCAGATCTGTTGTGTCTGT-GATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
1 TGAAGGTCAGATCTGTTATGTCT-TCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
51545 TGGATCTGCTTCAA
65 TGGATCTGCTTCAA
51559 TGAAGGTCAGATCTG
1 TGAAGGTCAGATCTG
51574 CTCTCCGTCG
Statistics
Matches: 160, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
77 2 0.01
78 156 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (78 bp):
TGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCAA
Found at i:51425 original size:442 final size:436
Alignment explanation
Indices: 50595--51573 Score: 1178
Period size: 442 Copynumber: 2.2 Consensus size: 436
50585 ATGTAAACAC
* *
50595 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATCT
* * * * * *
50660 TGGATCTTCTTCAATAAAGGTCCAATCTGTTATGTCTTTGATTTGCTCCCCGTCTAATATAGAGA
65 TGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
* * *
50725 TGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCTCCG
130 TGCCAAATCATCTTAGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCG
* * ** * * *
50790 TCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTTAATGAAGGTCAGATCTGCTATGTCTTC
195 TCGAATACAGAGATGCCAAATCATCTTCGATCTGCTTTAATGAAGGTCAGAGATGCAATATCTTA
* * * * * ** *
50855 GATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACA
260 GATCTGCTCTCCGTCAAACACGGAGAGGCCAAATCTGTTTCTTCGATCTGTTCTCCCACAATACA
50920 GAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAGATCTGCTATGTCTT
325 GAGATGCCAAATCATCTTAGATCTGCTT-A-C---AACAC-TGAAGGTCAGATCTGCTATGTCTT
*
50985 CGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTACTT-A
384 CGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCA
*
51037 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGATATGCCAAATCATC
1 ATGAAGGT-CAGATCTGTTATGTCTTCGATCTGCTCCC-GTCTAATACAGAGATGCCAAATCATC
* *
51101 TTGGATCTGCTTCAATGAAGGTCAAATCTGTTGTGTCTTCGATCTGCTCCCTGTCTAATACAGAG
64 TTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAG
* *
51166 ATGCCAAATCTTCTTAGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCC
129 ATGCCAAATCATCTTAGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCC
** * **
51231 GTCGAATATGGAGATGCCAAATCTATTTCTTCGAT-T-TTTTCTCTGACA-GTACAGAGATGCCA
194 GTCGAATACAGAGATGCCAAATC-A--TCTTCGATCTGCTTT-AATGA-AGGT-CAGAGATG-C-
** *
51293 AATCATCTTAGATCTGCT-TCAGCGT-AAACACGTGA-AGGTTAGATCTGCTATGTCTTCGATCT
251 AAT-ATCTTAGATCTGCTCTC--CGTCAAACACG-GAGAGGCCAAATCTG-T-T-TCTTCGATCT
*
51355 GTTC-CCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT-C-A-A-TGAAGGTCCA-A
309 GTTCTCCCA-C-AATACAGAGATGCCAAATCATCTTAGATCTGCTTACAACACTGAAGGT-CAGA
* * *
51414 TCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTC
371 TCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTACTTC
51479 A
436 A
*
51480 ATGAAGGTCAGATCTGTTGTGTCTGT-GATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCAGATCTGTTATGTCT-TCGATCTGCTC-CCGTCTAATACAGAGATGCCAAATCATC
*
51544 TTGGATCTGCTTCAATGAAGGTCAGATCTG
64 TTGGATCTGCTTCAATGAAGGTCAAATCTG
51574 CTCTCCGTCG
Statistics
Matches: 466, Mismatches: 47, Indels: 47
0.83 0.08 0.08
Matches are distributed among these distances:
441 3 0.01
442 261 0.56
443 92 0.20
444 10 0.02
445 15 0.03
446 1 0.00
447 4 0.01
448 24 0.05
449 7 0.02
450 3 0.01
451 14 0.03
452 32 0.07
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (436 bp):
ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCGTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCAATGAAGGTCAAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGAT
GCCAAATCATCTTAGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGT
CGAATACAGAGATGCCAAATCATCTTCGATCTGCTTTAATGAAGGTCAGAGATGCAATATCTTAG
ATCTGCTCTCCGTCAAACACGGAGAGGCCAAATCTGTTTCTTCGATCTGTTCTCCCACAATACAG
AGATGCCAAATCATCTTAGATCTGCTTACAACACTGAAGGTCAGATCTGCTATGTCTTCGATCTA
CTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCA
Found at i:58084 original size:46 final size:46
Alignment explanation
Indices: 58034--58205 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
58024 TGGTTGAGCA
58034 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
58080 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
58125 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
58173 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58206 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 15 0.14
46 48 0.44
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58190 original size:93 final size:92
Alignment explanation
Indices: 58031--58200 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
58021 GGATGGTTGA
* *
58031 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58096 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGT-CGAGTTCGTGAGATGTAACTAG
*
58124 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58189 TGAGTCGAGTTC
66 TGAGTCGAGTTC
58201 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 7 0.09
93 67 0.91
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCGAGTTCGTGAGATGTAACTAG
Found at i:65617 original size:46 final size:46
Alignment explanation
Indices: 65567--65739 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
65557 TGGTTGAGCA
65567 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65613 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
65658 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
65706 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65740 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65723 original size:93 final size:93
Alignment explanation
Indices: 65564--65734 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
65554 GGATGGTTGA
* *
65564 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65629 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
65657 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65722 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
65735 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Done.