Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01013905.1 Corchorus capsularis cultivar CVL-1 contig13926, 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: 118535
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Found at i:112 original size:20 final size:20
Alignment explanation
Indices: 87--125 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
77 AAAAAGAGTA
87 CCAATTCGCAAATCAAATGT
1 CCAATTCGCAAATCAAATGT
*
107 CCAATTCGTAAATCAAATG
1 CCAATTCGCAAATCAAATG
126 CCTTGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (20 bp):
CCAATTCGCAAATCAAATGT
Found at i:289 original size:14 final size:14
Alignment explanation
Indices: 266--299 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
256 TAACTATGAT
*
266 ACTAATCTAAATGG
1 ACTAAACTAAATGG
280 ACTAAACTAAATGG
1 ACTAAACTAAATGG
294 ACTAAA
1 ACTAAA
300 GTTAATATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (14 bp):
ACTAAACTAAATGG
Found at i:657 original size:27 final size:27
Alignment explanation
Indices: 627--698 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
617 AAGTGAACTT
*
627 AAAATGACCAAAATACCCCTAAATACA
1 AAAATGACCAAAATACCCCTAAACACA
* * ***
654 AAAATGACCAAAATGCCCCTGAACGTG
1 AAAATGACCAAAATACCCCTAAACACA
681 AAAATGACCAAAATACCC
1 AAAATGACCAAAATACCC
699 ATATGTGACC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.50, C:0.26, G:0.10, T:0.14
Consensus pattern (27 bp):
AAAATGACCAAAATACCCCTAAACACA
Found at i:1389 original size:70 final size:69
Alignment explanation
Indices: 1134--1687 Score: 662
Period size: 70 Copynumber: 8.1 Consensus size: 69
1124 ACTTAGCTTA
* * * * * *
1134 TGGAAAAG-CCCT--TGCTTGGATGGAACCAAGGC-TAAACTAACCCATATGGAAACGAGTTTGG
1 TGGAAAAGCCCCTGATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAGTTTGA
*
1195 CTAG
66 CTTG
* * * * * * *
1199 TGGAAAAGCCCTTGCTGCTTGGATGGAACCAAGGC-TAAATTGACTCGTGTGGAAACGAGTTTGG
1 TGGAAAAGCCCCTGATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAGTTTGA
1263 CTTG
66 CTTG
* *
1267 TGGAAAAGCTCCTGATGCTTGGATGGAACCAAGGCTTGAACTGACTCGTATGGAAACGAGTTTGA
1 TGGAAAAGCCCCTGATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAGTTTGA
1332 CTTG
66 CTTG
* * *
1336 TGGAAAAGCCCCTGAATGCTTGGATAGAACCAAAGCTTGAACTGGCTCTTATGGAAACGAGTTTG
1 TGGAAAAGCCCCTG-ATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAGTTTG
1401 ACTTG
65 ACTTG
* * * *
1406 TGGAAAAGCCACTGCTGCTTGGATGGAACCAAGGCTTGAACTGACTCG--T--AAACGAGTTTGG
1 TGGAAAAGCCCCTGATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAGTTTGA
*
1467 CTTA
66 CTTG
* * *
1471 TGGAAAAACCCCTAAATGTTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAGTTTG
1 TGGAAAAGCCCCT-GATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAGTTTG
*
1536 GCTTG
65 ACTTG
* * *
1541 TGGAAAAGCCTCTGTTGCTTGGATGGAACCAAAGCTTGATCT-ACCTCGTATGGAAACGAGTTTG
1 TGGAAAAGCCCCTGATGCTTGGATGGAACCAAAGCTTGAACTGA-CTCGTATGGAAACGAGTTTG
1605 ACTTG
65 ACTTG
* * * *
1610 TGGAAAAGCCCTTGAATGCTTGGGTGGAACCAAAGTTTGAGCT-ACCTCGTATGGAAACGAGTTT
1 TGGAAAAGCCCCTG-ATGCTTGGATGGAACCAAAGCTTGAACTGA-CTCGTATGGAAACGAGTTT
*
1674 GACTTA
64 GACTTG
1680 TGGAAAAG
1 TGGAAAAG
1688 TCGAAGCATT
Statistics
Matches: 429, Mismatches: 48, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
65 33 0.08
66 34 0.08
67 1 0.00
68 81 0.19
69 132 0.31
70 148 0.34
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (69 bp):
TGGAAAAGCCCCTGATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAGTTTGA
CTTG
Found at i:1425 original size:139 final size:137
Alignment explanation
Indices: 1134--1687 Score: 705
Period size: 139 Copynumber: 4.1 Consensus size: 137
1124 ACTTAGCTTA
* * * * *
1134 TGGAAAAGCCCT-TGCTTGGATGGAACCAAGGC-TAAACTAACCCATATGGAAACGAGTTTGGCT
1 TGGAAAAGCCCTGTGCTTGGATGGAACCAAGGCTTGAACTGACTCGTATGGAAACGAGTTTGACT
* * * * * * *
1197 AGTGGAAAAGCCCTTG-CTGCTTGGATGGAACCAAGGC-TAAATTGACTCGTGTGGAAACGAGTT
66 TGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAGTT
*
1260 TGGCTTG
131 TGACTTG
1267 TGGAAAAGCTCCTGATGCTTGGATGGAACCAAGGCTTGAACTGACTCGTATGGAAACGAGTTTGA
1 TGGAAAAGC-CCTG-TGCTTGGATGGAACCAAGGCTTGAACTGACTCGTATGGAAACGAGTTTGA
* * *
1332 CTTGTGGAAAAGCCCCTGAATGCTTGGATAGAACCAAAGCTTGAACTGGCTCTTATGGAAACGAG
64 CTTGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAG
1397 TTTGACTTG
129 TTTGACTTG
*
1406 TGGAAAAGCCACTGCTGCTTGGATGGAACCAAGGCTTGAACTGACTCG--T--AAACGAGTTTGG
1 TGGAAAAGCC-CTG-TGCTTGGATGGAACCAAGGCTTGAACTGACTCGTATGGAAACGAGTTTGA
* * * *
1467 CTTATGGAAAAACCCCTAAATGTTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAG
64 CTTGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAG
*
1532 TTTGGCTTG
129 TTTGACTTG
* *
1541 TGGAAAAGCCTCTGTTGCTTGGATGGAACCAAAGCTTGATCT-ACCTCGTATGGAAACGAGTTTG
1 TGGAAAAGCC-CTG-TGCTTGGATGGAACCAAGGCTTGAACTGA-CTCGTATGGAAACGAGTTTG
* * * *
1605 ACTTGTGGAAAAGCCCTTGAATGCTTGGGTGGAACCAAAGTTTGAGCT-ACCTCGTATGGAAACG
63 ACTTGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAAGCTTGAACTGA-CTCGTATGGAAACG
*
1669 AGTTTGACTTA
127 AGTTTGACTTG
1680 TGGAAAAG
1 TGGAAAAG
1688 TCGAAGCATT
Statistics
Matches: 367, Mismatches: 41, Indels: 20
0.86 0.10 0.05
Matches are distributed among these distances:
133 9 0.02
134 4 0.01
135 119 0.32
136 20 0.05
137 42 0.11
138 20 0.05
139 153 0.42
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (137 bp):
TGGAAAAGCCCTGTGCTTGGATGGAACCAAGGCTTGAACTGACTCGTATGGAAACGAGTTTGACT
TGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGAGTT
TGACTTG
Found at i:1600 original size:274 final size:272
Alignment explanation
Indices: 1130--1687 Score: 761
Period size: 274 Copynumber: 2.0 Consensus size: 272
1120 ATGAACTTAG
* * * *
1130 CTTATGGAAAAGCC-CT--TGCTTGGATGGAACCAAGGC-TAAACTAACCCATATGGAAACGAGT
1 CTTATGGAAAAGCCACTGCTGCTTGGATGGAACCAAGGCTTGAACTGA--C-T-CGTAAACGAGT
* *** * * *
1191 TTGGCTAGTGGAAAAGCCCTTGCTGCTTGGATGGAACCAAGGCTAAATTGACTCGTGTGGAAACG
62 TTGGCTAGTGGAAAACCCCTAAATGCTTGGATGGAACCAAAGCTAAACTGACTCGTATGGAAACG
*
1256 AGTTTGGCTTGTGGAAAAGCTCCTGATGCTTGGATGGAACCAAGGCTTGAACTGACTCGTATGGA
127 AGTTTGGCTTGTGGAAAAGCTCCTGATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGA
** *
1321 AACGAGTTTGACTTGTGGAAAAGCCCCTGAATGCTTGGATAGAACCAAAGCTTGAACTGGCTCTT
192 AACGAGTTTGACTTGTGGAAAAGCCCCTGAATGCTTGGATAGAACCAAAGCTTGAACTACCTCGT
1386 ATGGAAACGAGTTTGA
257 ATGGAAACGAGTTTGA
*
1402 CTTGTGGAAAAGCCACTGCTGCTTGGATGGAACCAAGGCTTGAACTGACTCGTAAACGAGTTTGG
1 CTTATGGAAAAGCCACTGCTGCTTGGATGGAACCAAGGCTTGAACTGACTCGTAAACGAGTTTGG
* *
1467 CTTA-TGGAAAAACCCCTAAATGTTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACGA
66 C-TAGTGG-AAAACCCCTAAATGCTTGGATGGAACCAAAGC-TAAACTGACTCGTATGGAAACGA
* *
1531 GTTTGGCTTGTGGAAAAGC-CTCTGTTGCTTGGATGGAACCAAAGCTTGATCT-ACCTCGTATGG
128 GTTTGGCTTGTGGAAAAGCTC-CTGATGCTTGGATGGAACCAAAGCTTGAACTGA-CTCGTATGG
* * * * *
1594 AAACGAGTTTGACTTGTGGAAAAGCCCTTGAATGCTTGGGTGGAACCAAAGTTTGAGCTACCTCG
191 AAACGAGTTTGACTTGTGGAAAAGCCCCTGAATGCTTGGATAGAACCAAAGCTTGAACTACCTCG
1659 TATGGAAACGAGTTTGA
256 TATGGAAACGAGTTTGA
1676 CTTATGGAAAAG
1 CTTATGGAAAAG
1688 TCGAAGCATT
Statistics
Matches: 251, Mismatches: 26, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
272 30 0.12
273 33 0.13
274 162 0.65
275 20 0.08
276 6 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (272 bp):
CTTATGGAAAAGCCACTGCTGCTTGGATGGAACCAAGGCTTGAACTGACTCGTAAACGAGTTTGG
CTAGTGGAAAACCCCTAAATGCTTGGATGGAACCAAAGCTAAACTGACTCGTATGGAAACGAGTT
TGGCTTGTGGAAAAGCTCCTGATGCTTGGATGGAACCAAAGCTTGAACTGACTCGTATGGAAACG
AGTTTGACTTGTGGAAAAGCCCCTGAATGCTTGGATAGAACCAAAGCTTGAACTACCTCGTATGG
AAACGAGTTTGA
Found at i:3119 original size:21 final size:21
Alignment explanation
Indices: 3094--3150 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
3084 CTGAAAACCT
*
3094 TTTTGAGAAAAATCCTTTTTC
1 TTTTGAGAAAAATCCTTTTTA
* **
3115 TTTTGAAAAAAATAATTTTTA
1 TTTTGAGAAAAATCCTTTTTA
* *
3136 TTTTGGGAACAATCC
1 TTTTGAGAAAAATCC
3151 CTTCACCATC
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (21 bp):
TTTTGAGAAAAATCCTTTTTA
Found at i:3636 original size:19 final size:18
Alignment explanation
Indices: 3610--3647 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
3600 TTAGGCTGAG
3610 TTTTTTTTTTCTCTTCTT
1 TTTTTTTTTTCTCTTCTT
*
3628 TTTTCTTTTTTCTTTTCTT
1 TTTT-TTTTTTCTCTTCTT
3647 T
1 T
3648 GAGTTGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTTCTCTTCTT
Found at i:4306 original size:14 final size:13
Alignment explanation
Indices: 4287--4335 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
4277 TAAAAACCTC
4287 TTTGAAAACTCATT
1 TTTGAAAAC-CATT
4301 TTTGAAAACC-TT
1 TTTGAAAACCATT
*
4313 TCCTTGAAAACAATT
1 T--TTGAAAACCATT
4328 TTTGAAAA
1 TTTGAAAA
4336 ACGTTTCTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 3 0.10
13 8 0.26
14 17 0.55
15 3 0.10
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (13 bp):
TTTGAAAACCATT
Found at i:6937 original size:18 final size:18
Alignment explanation
Indices: 6894--6937 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
6884 TTTTATTAAC
6894 TACCA-TTTCTTACTAAT
1 TACCATTTTCTTACTAAT
*
6911 TATCC-TTTTCTTACTGAT
1 TA-CCATTTTCTTACTAAT
6929 TACCATTTT
1 TACCATTTT
6938 TACTTTTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.52
Consensus pattern (18 bp):
TACCATTTTCTTACTAAT
Found at i:7113 original size:22 final size:22
Alignment explanation
Indices: 7085--7195 Score: 89
Period size: 22 Copynumber: 5.4 Consensus size: 22
7075 TGATCACCTT
7085 TTACTCTTTACTGATTACTATC
1 TTACTCTTTACTGATTACTATC
* *
7107 TTACTC-TTACTAATTACCA-C
1 TTACTCTTTACTGATTACTATC
*
7127 TTA--C-----TGATTACTATT
1 TTACTCTTTACTGATTACTATC
7142 TTACTCTTTACTGATTACCT-TC
1 TTACTCTTTACTGATTA-CTATC
* *
7164 TTACTTTTTACTGATTACTATTT
1 TTACTCTTTACTGATTACTA-TC
7187 TTACTCTTT
1 TTACTCTTT
7196 TTTTTCTTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
14 7 0.10
15 3 0.04
17 1 0.01
18 1 0.01
20 4 0.06
21 13 0.19
22 29 0.42
23 11 0.16
ACGTcount: A:0.23, C:0.22, G:0.04, T:0.52
Consensus pattern (22 bp):
TTACTCTTTACTGATTACTATC
Found at i:7131 original size:35 final size:36
Alignment explanation
Indices: 7092--7160 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
7082 CTTTTACTCT
7092 TTACTGATTACTATCTTACTC-TTACTAATTACCAC
1 TTACTGATTACTATCTTACTCTTTACTAATTACCAC
* *
7127 TTACTGATTACTATTTTACTCTTTACTGATTACC
1 TTACTGATTACTATCTTACTCTTTACTAATTACC
7161 TTCTTACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 20 0.65
36 11 0.35
ACGTcount: A:0.26, C:0.23, G:0.04, T:0.46
Consensus pattern (36 bp):
TTACTGATTACTATCTTACTCTTTACTAATTACCAC
Found at i:7225 original size:26 final size:27
Alignment explanation
Indices: 7148--7278 Score: 120
Period size: 27 Copynumber: 5.1 Consensus size: 27
7138 TATTTTACTC
7148 TTTACTGATTACC---TTCTTA--CTT
1 TTTACTGATTACCATTTTCTTACTCTT
*
7170 TTTACTGATTACTA-TTT-TTACTCTTTT
1 TTTACTGATTACCATTTTCTTACTC--TT
* * *
7197 TTTTCTTATTACCATTTTCTTAATCTT
1 TTTACTGATTACCATTTTCTTACTCTT
7224 TTTACTGATTATCC-TTTTCTTACT-TT
1 TTTACTGATTA-CCATTTTCTTACTCTT
*
7250 TTTACTGAATACCATTTT-TTACTCTT
1 TTTACTGATTACCATTTTCTTACTCTT
7276 TTT
1 TTT
7279 TTTTATTGAA
Statistics
Matches: 89, Mismatches: 9, Indels: 18
0.77 0.08 0.16
Matches are distributed among these distances:
22 12 0.13
23 3 0.03
24 2 0.02
25 8 0.09
26 21 0.24
27 33 0.37
28 5 0.06
29 5 0.06
ACGTcount: A:0.18, C:0.18, G:0.03, T:0.60
Consensus pattern (27 bp):
TTTACTGATTACCATTTTCTTACTCTT
Found at i:7250 original size:54 final size:51
Alignment explanation
Indices: 7127--7278 Score: 124
Period size: 53 Copynumber: 3.0 Consensus size: 51
7117 TAATTACCAC
* * *
7127 TTACTGATTACTA-TTTTA-C-TCTTTACTGATTACC--TTCTT-A-CTTT
1 TTACTGATTACTATTTTTACCTTTTTTACTGAATACCATTTTTTAATCTTT
* * *
7171 TTACTGATTACTATTTTTACTCTTTTTTTTCTTATTACCATTTTCTTAATCTTT
1 TTACTGATTACTATTTTTAC-C-TTTTTTACTGAATACCATTTT-TTAATCTTT
*
7225 TTACTGATTATCCT-TTTCTTA-CTTTTTTACTGAATACCATTTTTTACTCTTT
1 TTACTGATTA--CTATTT-TTACCTTTTTTACTGAATACCATTTTTTAATCTTT
7277 TT
1 TT
7279 TTTTATTGAA
Statistics
Matches: 87, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
44 13 0.15
45 5 0.06
47 1 0.01
49 12 0.14
51 2 0.02
52 12 0.14
53 19 0.22
54 15 0.17
55 3 0.03
56 5 0.06
ACGTcount: A:0.19, C:0.18, G:0.03, T:0.59
Consensus pattern (51 bp):
TTACTGATTACTATTTTTACCTTTTTTACTGAATACCATTTTTTAATCTTT
Found at i:7297 original size:28 final size:28
Alignment explanation
Indices: 7168--7339 Score: 117
Period size: 28 Copynumber: 6.2 Consensus size: 28
7158 ACCTTCTTAC
* *
7168 TTTTTACTGATTACTATTTTTACTCTTT
1 TTTTTACTGAATACCATTTTTACTCTTT
* * *
7196 TTTTT-CTTATTACCA-TTTT-CT-TAATC
1 TTTTTACTGAATACCATTTTTACTCT--TT
* *
7222 TTTTTACTGATTATCC--TTTT-CT-TACT
1 TTTTTACTGAATA-CCATTTTTACTCT-TT
7248 TTTTTACTGAATACCATTTTTTACTCTTTT
1 TTTTTACTGAATACCA-TTTTTACTC-TTT
* *
7278 TTTTTATTGAATACCATTTTTATTCTTT
1 TTTTTACTGAATACCATTTTTACTCTTT
** * *
7306 TTACTACTGAATACCATTTTAACTCCTT
1 TTTTTACTGAATACCATTTTTACTCTTT
7334 TTTTTA
1 TTTTTA
7340 ACTTTAATTA
Statistics
Matches: 116, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
24 1 0.01
25 4 0.03
26 23 0.20
27 21 0.18
28 40 0.34
29 10 0.09
30 16 0.14
31 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTTACTGAATACCATTTTTACTCTTT
Found at i:7306 original size:81 final size:76
Alignment explanation
Indices: 7148--7310 Score: 204
Period size: 81 Copynumber: 2.1 Consensus size: 76
7138 TATTTTACTC
* * * *
7148 TTTACTGATTACCTTCTTACTTTTTACTGATTACTATTTTTACTCTTTTTTTTCTTATTACCATT
1 TTTACTGATTACCTTCTTACTTTTTACTGAATACCATTTTTACTCTTTTTTTTATTAATACCATT
7213 TTCTTAATCTT
66 TTCTTAATCTT
7224 TTTACTGATTATCCTTTTCTTACTTTTTTACTGAATACCATTTTTTACTCTTTTTTTTTATTGAA
1 TTTACTGATTA-CC--TTCTTAC-TTTTTACTGAATACCA-TTTTTACTC-TTTTTTTTATT-AA
*
7289 TACCA-TTT-TTATTCTT
59 TACCATTTTCTTAATCTT
7305 TTTACT
1 TTTACT
7311 ACTGAATACC
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
76 11 0.15
77 2 0.03
79 7 0.09
80 14 0.19
81 22 0.29
82 13 0.17
83 6 0.08
ACGTcount: A:0.19, C:0.17, G:0.03, T:0.61
Consensus pattern (76 bp):
TTTACTGATTACCTTCTTACTTTTTACTGAATACCATTTTTACTCTTTTTTTTATTAATACCATT
TTCTTAATCTT
Found at i:7402 original size:37 final size:37
Alignment explanation
Indices: 7310--7415 Score: 117
Period size: 38 Copynumber: 2.9 Consensus size: 37
7300 TTCTTTTTAC
* * *
7310 TACTGAATACCATTTTAACTCCTTTTTTTAACTTTAAT
1 TACTGAATACCATTTT-TCTACTCTTTTTAACTTTAAT
* * *
7348 TACTGACTACCACTTTTTCTACTCTTTTTATC-TTAGT
1 TACTGAATACCA-TTTTTCTACTCTTTTTAACTTTAAT
*
7385 TACTAAATACCATTTTT-TACTCTTTTTAACT
1 TACTGAATACCATTTTTCTACTCTTTTTAACT
7416 ACTTATTACC
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
35 12 0.21
36 5 0.09
37 14 0.25
38 22 0.39
39 4 0.07
ACGTcount: A:0.25, C:0.21, G:0.03, T:0.51
Consensus pattern (37 bp):
TACTGAATACCATTTTTCTACTCTTTTTAACTTTAAT
Found at i:7513 original size:18 final size:19
Alignment explanation
Indices: 7433--7514 Score: 69
Period size: 20 Copynumber: 4.2 Consensus size: 19
7423 ACCCTTTTTA
*
7433 TTTTTGAATACCATCTTTAC
1 TTTTTGATTACCATC-TTAC
* *
7453 TCTTCTTGAATACC-TCTTTCC
1 T-TT-TTGATTACCATC-TTAC
*
7474 TTTACTGATTACCATCTTAC
1 TTT-TTGATTACCATCTTAC
7494 TTTTTGATTACCAT-TTAC
1 TTTTTGATTACCATCTTAC
7512 TTT
1 TTT
7515 CCTCTTCTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
18 7 0.13
19 10 0.19
20 16 0.30
21 11 0.21
22 9 0.17
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTTGATTACCATCTTAC
Found at i:9303 original size:57 final size:57
Alignment explanation
Indices: 9205--9315 Score: 204
Period size: 58 Copynumber: 1.9 Consensus size: 57
9195 ACCGTAGTTC
*
9205 TAAACAAGATCTTTTTTTTTGTGTTTTACAGTAAGGAAAAAAGAAAGGGCGAAGATG
1 TAAACAAGATCTTTTTTTTTGTGTTTTACAGTAAAGAAAAAAGAAAGGGCGAAGATG
9262 TAAACAAGATCTCTTTTTTTTGTGTTTTACAGTAAAGAAAAAAGAAAGGGCGAA
1 TAAACAAGATCT-TTTTTTTTGTGTTTTACAGTAAAGAAAAAAGAAAGGGCGAA
9316 AATGGGAACA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
57 12 0.23
58 40 0.77
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (57 bp):
TAAACAAGATCTTTTTTTTTGTGTTTTACAGTAAAGAAAAAAGAAAGGGCGAAGATG
Found at i:11085 original size:20 final size:20
Alignment explanation
Indices: 11060--11098 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11050 AAAAAGAGTA
11060 CCAATTCGCAAATCAAATGT
1 CCAATTCGCAAATCAAATGT
*
11080 CCAATTCGTAAATCAAATG
1 CCAATTCGCAAATCAAATG
11099 CCTTGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (20 bp):
CCAATTCGCAAATCAAATGT
Found at i:11262 original size:14 final size:14
Alignment explanation
Indices: 11239--11272 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
11229 TAACTATGAT
*
11239 ACTAATCTAAATGG
1 ACTAAACTAAATGG
11253 ACTAAACTAAATGG
1 ACTAAACTAAATGG
11267 ACTAAA
1 ACTAAA
11273 GTTAATATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (14 bp):
ACTAAACTAAATGG
Found at i:11628 original size:27 final size:28
Alignment explanation
Indices: 11598--11670 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
11588 AAGTGAACTT
*
11598 AAAATGACCAAAATACCCCTAAATAAAA
1 AAAATGACCAAAATACCCCTAAACAAAA
* * ***
11626 AAAATGACCAAAATGCCCCTGAAC-GTG
1 AAAATGACCAAAATACCCCTAAACAAAA
11653 AAAATGACCAAAATACCC
1 AAAATGACCAAAATACCC
11671 ATATGTGACC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 17 0.45
28 21 0.55
ACGTcount: A:0.52, C:0.25, G:0.10, T:0.14
Consensus pattern (28 bp):
AAAATGACCAAAATACCCCTAAACAAAA
Found at i:20378 original size:38 final size:38
Alignment explanation
Indices: 20327--20404 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
20317 TAGGCGGGTC
* *
20327 TCTAGGGTTGATTTGGACCAATTACAACTAGATTCGTA
1 TCTAAGGTGGATTTGGACCAATTACAACTAGATTCGTA
20365 TCTAAGGTGGATTTGGACCAATTACAACTAGATTCGTA
1 TCTAAGGTGGATTTGGACCAATTACAACTAGATTCGTA
20403 TC
1 TC
20405 AATGTGATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (38 bp):
TCTAAGGTGGATTTGGACCAATTACAACTAGATTCGTA
Found at i:20851 original size:16 final size:16
Alignment explanation
Indices: 20830--20888 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
20820 ATTGGGCGGG
20830 TTCGGGTTCGGGTATT
1 TTCGGGTTCGGGTATT
*
20846 TTCGGGTTTGGGT-TAT
1 TTCGGGTTCGGGTAT-T
*
20862 GTC-GGTTCGGGTATT
1 TTCGGGTTCGGGTATT
*
20877 TTCAGGTTCGGG
1 TTCGGGTTCGGG
20889 CTCGGGTCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 12 0.33
16 24 0.67
ACGTcount: A:0.07, C:0.12, G:0.39, T:0.42
Consensus pattern (16 bp):
TTCGGGTTCGGGTATT
Found at i:22527 original size:45 final size:45
Alignment explanation
Indices: 22472--22560 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
22462 ATTACTTCTC
22472 CAGCTCATCATTAATCCAGGGTAGGGATCTTTTAGTAATTCCACA
1 CAGCTCATCATTAATCCAGGGTAGGGATCTTTTAGTAATTCCACA
* * *
22517 CAGCTTATCATTAATTCGGGGTAGGGATCTTTTAGTAATTCCAC
1 CAGCTCATCATTAATCCAGGGTAGGGATCTTTTAGTAATTCCAC
22561 TACTCTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (45 bp):
CAGCTCATCATTAATCCAGGGTAGGGATCTTTTAGTAATTCCACA
Found at i:27703 original size:36 final size:36
Alignment explanation
Indices: 27660--28810 Score: 1168
Period size: 36 Copynumber: 32.0 Consensus size: 36
27650 TTAATATCCC
* * *
27660 ACTTAATTACCCTGAATTAAGTTTTTTATTGATTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
* * * *
27696 ACTTAATTACCCTAAATTAAGTTTTTTACTGATCTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
* * * *
27732 ACTTAATTTCCCTGAATTAAGTC-CTTGCTGACTGTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTG-CTTTT
*
27768 ACTTAATTACCCTGAATTAAGTC-TTTGCTTG-TTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTAC-TGCTTTT
*
27803 ACTTAATTACCCTGAATTAAGTCTTTGT-TTG-TTTT
1 ACTTAATTACCCTGAATTAAGTCTTT-TACTGCTTTT
* **
27838 ACTTAATTACCCTGAATTAATTCTTTGCCTG-TTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
* *
27873 ACTTAATTACCCTGAATTAAG-CCTTTACTG--ATT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
* * *
27906 -CTTAATTACACTGAATTAAGTCTTTTACTGGTTCT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
*
27941 ACTTAATTACCCTGAATTAAGCCTTTATTGA-TG-TGTTT
1 ACTTAATTACCCTGAATTAAGTC-TT-TT-ACTGCT-TTT
* * *
27979 ACATAATTACCATGAATTAAGT-TTTTGACT-ATGTTT
1 ACTTAATTACCCTGAATTAAGTCTTTT-ACTGCT-TTT
* * *
28015 ACTTAATTACCCTGAATTAAGT-TCCTCACT-ATGTTT
1 ACTTAATTACCCTGAATTAAGTCT-TTTACTGCT-TTT
*
28051 ACTTAATTACCCTGAATTAAGT-TCTTGACTG-TGTTT
1 ACTTAATTACCCTGAATTAAGTCT-TTTACTGCT-TTT
* *
28087 ACTTAATTACCCTGAATTAAGTCTTTTACTGATGTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
* *
28123 ACTTAACTACCCTGAATTAAGTCTTTGACTGCCTTTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTG-C-TTTT
*
28161 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTCTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
* * * *
28197 ACTTAATTACCCTAAATTAAGCCTTTGACTACCCTTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACT--GCTTTT
* * *
28235 ACTTAATTTCCCTGAATTAAGTCATTTAACTTCTTTT
1 ACTTAATTACCCTGAATTAAGTC-TTTTACTGCTTTT
* * *
28272 ACTTAATTACCTTGAATTATGTCCTTTACTGCTTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
* ** *
28308 ACTTAATTTCCCAAAATTAAGTCCTTTACTGCTTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
* * * * * *
28344 ACTTAATTACCCTAAATCAGGTATGTGT--TGGTTTT
1 ACTTAATTACCCTGAATTAAGTCT-TTTACTGCTTTT
* * * *
28379 ACTTAATTACCCTGAATTAAATC-TGTGCTGGTTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
* * *
28414 ACTTAATTACCTTGAATTAA-T-TTTGTGCTGGTTTT
1 ACTTAATTACCCTGAATTAAGTCTTT-TACTGCTTTT
** *
28449 ACTTAATTACCCTGAATTAAGTCTGACTACCG-TGTTT
1 ACTTAATTACCCTGAATTAAGTCT-TTTACTGCT-TTT
* * *
28486 ACTTAATTACCCTGAATTAAGACTTTGACTG-TGTTC
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCT-TTT
* *
28522 ACTTAATTACCCTGAA--AAGTCCTTGACTGCTTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
* * *
28556 ACTTAATTACCCTAAATTAAGTCCTTTAGTGCTTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
28592 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
* *
28628 ACTTAATTACCCTGAATTAATTCCTTTAACTGCTTTT
1 ACTTAATTACCCTGAATTAAGT-CTTTTACTGCTTTT
*
28665 ACTTAATTACCCTGAATTAAGTCCTTTACTGCTTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
*
28701 ACTTAATTACCCTGAATTAAGTCCTTTAACTGCTTTT
1 ACTTAATTACCCTGAATTAAGT-CTTTTACTGCTTTT
* *
28738 ACTTAATTACCCTGAGTTAAGTCCTTTACTGCTTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
* *
28774 ACTTAATTTCCCTGAATTAAGTCTTTGACTGCTTTT
1 ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
28810 A
1 A
28811 AGCATGCATA
Statistics
Matches: 960, Mismatches: 117, Indels: 76
0.83 0.10 0.07
Matches are distributed among these distances:
32 19 0.02
33 13 0.01
34 36 0.04
35 173 0.18
36 497 0.52
37 134 0.14
38 81 0.08
39 7 0.01
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (36 bp):
ACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTT
Found at i:28559 original size:541 final size:534
Alignment explanation
Indices: 27660--28810 Score: 1400
Period size: 541 Copynumber: 2.1 Consensus size: 534
27650 TTAATATCCC
* ** * ** * * * *
27660 ACTTAATTACCCTGAATTAAGTTTTTTATTGATTTTACTTAATTACCCTAAATTAAGTTTTTTAC
1 ACTTAATTACCCTAAATTAAGTCCTTTACTCCTTTTACTTAATTTCCCTGAATTAAGTCTTTAAC
* * * * **
27725 TGATCTTACTTAATTTCCCTGAATTAAGTCCTTGCTGACTGTTACTTAATTACCCTGAATTAAGT
66 TGCTTTTACTTAATTACCCTGAATTAAGTCCTTACTGACTGTTACTTAATTACCCAAAATTAAGT
* * * * * *
27790 CTTTGCTTGTTTTACTTAATTACCCTGAATTAAGTCTTTGTTTGTTTTACTTAATTACCCTGAAT
131 CTTTACTTGTTTTACTTAATTACCCTAAATCAAGTATGTGTTGGTTTTACTTAATTACCCTGAAT
* *
27855 TAATTCTTTGCCTGTTTTACTTAATTACCCTGAATTAAGCCTTTACTGATTCTTAATTACACTGA
196 TAAATCTGTGCCTGTTTTACTTAATTACCCTGAATTAAGCCTTTACTGATTCTTAATTACACTGA
** * * *
27920 ATTAAGTCTTTTACTGGTTCTACTTAATTACCCTGAATTAAGCCTTTATTGATGTGTTTACATAA
261 ATTAAGTCTACTACCGGTTCTACTTAATTACCCTGAATTAAGAC-TTATTGATGTGTTCACATAA
** *
27985 TTACCATGAATTAAGTTTTTGACTATGTTTACTTAATTACCCTGAATTAAGTTCCTCACTA-TG-
325 TTACCATGAA-TAAGTCCTTGACTATGTTTACTTAATTACCCTAAATTAAG-TCCT--CTAGTGC
28048 TTTACTTAATTACCCTGAATTAAGT-TCTTGACTG-TGTTTACTTAATTACCCTGAATTAAGT-C
386 TTTACTTAATTACCCTGAATTAAGTCT-TTGACTGCT-TTTACTTAATTACCCTGAATTAAGTCC
*
28110 TTTTACTGATGTTACTTAACTACCCTGAATTAAGT-CTTTGACTGCCTTTTTACTTAATTACCCT
449 TTTAACTGATGTTACTTAACTACCCTGAATTAAGTCCTTT-ACTG-C-TTTTACTTAATTACCCT
*
28174 GAATTAAGT-CTTTTACTGCTCTT
511 GAATTAAGTCCTTTAACTGCTCTT
28197 ACTTAATTACCCTAAATTAAG-CCTTTGACTACCCTTTTACTTAATTTCCCTGAATTAAGTCATT
1 ACTTAATTACCCTAAATTAAGTCCTTT-ACT--CCTTTTACTTAATTTCCCTGAATTAAGTC-TT
* * * * *
28261 TAACTTCTTTTACTTAATTACCTTGAATTATGTCCTTTACTG-CTTTTACTTAATTTCCCAAAAT
62 TAACTGCTTTTACTTAATTACCCTGAATTAAGTCC-TTACTGACTGTTACTTAATTACCCAAAAT
*
28325 TAAGTCCTTTAC-TGCTTTTACTTAATTACCCTAAATCAGGTATGTGTTGGTTTTACTTAATTAC
126 TAAGT-CTTTACTTG-TTTTACTTAATTACCCTAAATCAAGTATGTGTTGGTTTTACTTAATTAC
* ** * *
28389 CCTGAATTAAATCTGTG-CTGGTTTTACTTAATTACCTTGAATTAA-TTTTGTGCTGGTTTTACT
189 CCTGAATTAAATCTGTGCCT-GTTTTACTTAATTACCCTGAATTAAGCCTT-TACT-G-ATT-CT
*
28452 TAATTACCCTGAATTAAGTCTGACTACCGTGTT-TACTTAATTACCCTGAATTAAGAC-T-TTGA
249 TAATTACACTGAATTAAGTCT-ACTACCG-GTTCTACTTAATTACCCTGAATTAAGACTTATTGA
* * *
28514 CTGTGTTCACTTAATTACCCTGAA-AAGTCCTTGACTGCT-TTTACTTAATTACCCTAAATTAAG
312 -TGTGTTCACATAATTACCATGAATAAGTCCTTGACT-ATGTTTACTTAATTACCCTAAATTAAG
* *
28577 TCCTTTAGTGCTTTTACTTAATTACCCTGAATTAAGTCTTTTACTGCTTTTACTTAATTACCCTG
375 TCCTCTAGTGC-TTTACTTAATTACCCTGAATTAAGTCTTTGACTGCTTTTACTTAATTACCCTG
* * * *
28642 AATTAATTCCTTTAACTGCTTTTACTTAATTACCCTGAATTAAGTCCTTTACTGCTTTTACTTAA
439 AATTAAGTCCTTTAACTGATGTTACTTAACTACCCTGAATTAAGTCCTTTACTGCTTTTACTTAA
*
28707 TTACCCTGAATTAAGTCCTTTAACTGCTTTT
504 TTACCCTGAATTAAGTCCTTTAACTGCTCTT
* * * *
28738 ACTTAATTACCCTGAGTTAAGTCCTTTACTGCTTTTACTTAATTTCCCTGAATTAAGTCTTTGAC
1 ACTTAATTACCCTAAATTAAGTCCTTTACTCCTTTTACTTAATTTCCCTGAATTAAGTCTTTAAC
28803 TGCTTTTA
66 TGCTTTTA
28811 AGCATGCATA
Statistics
Matches: 528, Mismatches: 61, Indels: 49
0.83 0.10 0.08
Matches are distributed among these distances:
536 3 0.01
537 22 0.04
538 14 0.03
539 54 0.10
540 89 0.17
541 218 0.41
542 49 0.09
543 27 0.05
544 22 0.04
545 27 0.05
546 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (534 bp):
ACTTAATTACCCTAAATTAAGTCCTTTACTCCTTTTACTTAATTTCCCTGAATTAAGTCTTTAAC
TGCTTTTACTTAATTACCCTGAATTAAGTCCTTACTGACTGTTACTTAATTACCCAAAATTAAGT
CTTTACTTGTTTTACTTAATTACCCTAAATCAAGTATGTGTTGGTTTTACTTAATTACCCTGAAT
TAAATCTGTGCCTGTTTTACTTAATTACCCTGAATTAAGCCTTTACTGATTCTTAATTACACTGA
ATTAAGTCTACTACCGGTTCTACTTAATTACCCTGAATTAAGACTTATTGATGTGTTCACATAAT
TACCATGAATAAGTCCTTGACTATGTTTACTTAATTACCCTAAATTAAGTCCTCTAGTGCTTTAC
TTAATTACCCTGAATTAAGTCTTTGACTGCTTTTACTTAATTACCCTGAATTAAGTCCTTTAACT
GATGTTACTTAACTACCCTGAATTAAGTCCTTTACTGCTTTTACTTAATTACCCTGAATTAAGTC
CTTTAACTGCTCTT
Found at i:31761 original size:14 final size:14
Alignment explanation
Indices: 31742--31771 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31732 AATATGCGAA
*
31742 GGACAATTTTTTTG
1 GGACAATATTTTTG
31756 GGACAATATTTTTG
1 GGACAATATTTTTG
31770 GG
1 GG
31772 CTTTTTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.27, T:0.43
Consensus pattern (14 bp):
GGACAATATTTTTG
Found at i:32486 original size:46 final size:46
Alignment explanation
Indices: 32419--32511 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
32409 TATCTCATAT
* * *
32419 TAAGGGAATTCCATCCAAATAAGATTTGGGTAATATTATGGTAATG
1 TAAGGGAATCCCAACCAAATAAGATTTGGGTAATATTACGGTAATG
*
32465 TAAGGGAATCCCAACCAAATAAGATTTGGGTGATATTACGGTAATG
1 TAAGGGAATCCCAACCAAATAAGATTTGGGTAATATTACGGTAATG
32511 T
1 T
32512 GAACATCAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (46 bp):
TAAGGGAATCCCAACCAAATAAGATTTGGGTAATATTACGGTAATG
Found at i:32722 original size:13 final size:13
Alignment explanation
Indices: 32704--32731 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32694 GATTTTTGCA
32704 ATCTATACTAATT
1 ATCTATACTAATT
32717 ATCTATACTAATT
1 ATCTATACTAATT
32730 AT
1 AT
32732 AATGTGAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.46
Consensus pattern (13 bp):
ATCTATACTAATT
Found at i:33204 original size:15 final size:16
Alignment explanation
Indices: 33179--33220 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
33169 TGATTTTTAA
33179 AATTA-AATTAATATT
1 AATTATAATTAATATT
*
33194 -ATTTTAATTAA-ATT
1 AATTATAATTAATATT
33208 AATTATAATTAAT
1 AATTATAATTAAT
33221 TATAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTATAATTAATATT
Found at i:33219 original size:10 final size:10
Alignment explanation
Indices: 33197--33226 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
33187 TAATATTATT
33197 TTAATTA-AA
1 TTAATTATAA
33206 TTAATTATAA
1 TTAATTATAA
33216 TTAATTATAA
1 TTAATTATAA
33226 T
1 T
33227 ATTTATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.35
10 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTAATTATAA
Found at i:33232 original size:19 final size:20
Alignment explanation
Indices: 33179--33238 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
33169 TGATTTTTAA
*
33179 AATTAAATTAA-TATTATTTT
1 AATTAAATTAATTATTA-ATT
33199 AATTAAATTAATTA-TAATT
1 AATTAAATTAATTATTAATT
*
33218 AATTATAA-TATTTATTAATT
1 AATTA-AATTAATTATTAATT
33238 A
1 A
33239 GTTTTTGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 12 0.34
20 21 0.60
21 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTAAATTAATTATTAATT
Found at i:34781 original size:6 final size:6
Alignment explanation
Indices: 34761--34855 Score: 52
Period size: 6 Copynumber: 14.5 Consensus size: 6
34751 GGCAATTGGG
*
34761 CGGGTT CGGG-T -GGGTT CGGGTT CGGGTACTT CGGGTT CGAGTATTTT
1 CGGGTT CGGGTT CGGGTT CGGGTT CGGG---TT CGGGTT CG-G---GTT
*
34808 CGGGTT CGGGTATTTT CGGGTT CGGGCT CGGG-T CGGGTT CGGGTT CGG
1 CGGGTT CGGG---T-T CGGGTT CGGGTT CGGGTT CGGGTT CGGGTT CGG
34856 ACCCGGGTCG
Statistics
Matches: 72, Mismatches: 3, Indels: 28
0.70 0.03 0.27
Matches are distributed among these distances:
4 3 0.04
5 7 0.10
6 43 0.60
7 2 0.03
9 8 0.11
10 9 0.12
ACGTcount: A:0.04, C:0.17, G:0.45, T:0.34
Consensus pattern (6 bp):
CGGGTT
Found at i:34782 original size:16 final size:16
Alignment explanation
Indices: 34761--34851 Score: 85
Period size: 16 Copynumber: 5.7 Consensus size: 16
34751 GGCAATTGGG
*
34761 CGGGTTCGGGTGGGTT
1 CGGGTTCGGGTAGGTT
*
34777 CGGGTTCGGGTA-CTT
1 CGGGTTCGGGTAGGTT
* **
34792 CGGGTTCGAGTATTTT
1 CGGGTTCGGGTAGGTT
**
34808 CGGGTTCGGGTATTTT
1 CGGGTTCGGGTAGGTT
* *
34824 CGGGTTCGGGCTCGGGT
1 CGGGTTCGGG-TAGGTT
34841 CGGGTTCGGGT
1 CGGGTTCGGGT
34852 TCGGACCCGG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
15 13 0.20
16 39 0.61
17 12 0.19
ACGTcount: A:0.04, C:0.16, G:0.45, T:0.34
Consensus pattern (16 bp):
CGGGTTCGGGTAGGTT
Found at i:34845 original size:17 final size:17
Alignment explanation
Indices: 34823--34874 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
34813 TCGGGTATTT
34823 TCGGGTTCGGGCTCGGG
1 TCGGGTTCGGGCTCGGG
* *
34840 TCGGGTTCGGGTTCGGAC
1 TCGGGTTCGGGCTCGG-G
*
34858 CCGGG-TCGGGCTCGGG
1 TCGGGTTCGGGCTCGGG
34874 T
1 T
34875 TCACTTTCGA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 24 0.86
18 4 0.14
ACGTcount: A:0.02, C:0.25, G:0.50, T:0.23
Consensus pattern (17 bp):
TCGGGTTCGGGCTCGGG
Found at i:34852 original size:23 final size:23
Alignment explanation
Indices: 34822--34876 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
34812 TTCGGGTATT
* *
34822 TTCGGGTTCGGGCTCGGGTCGGG
1 TTCGGGTTCGGACCCGGGTCGGG
34845 TTCGGGTTCGGACCCGGGTCGGG
1 TTCGGGTTCGGACCCGGGTCGGG
*
34868 CTCGGGTTC
1 TTCGGGTTC
34877 ACTTTCGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.02, C:0.25, G:0.47, T:0.25
Consensus pattern (23 bp):
TTCGGGTTCGGACCCGGGTCGGG
Found at i:35633 original size:5 final size:6
Alignment explanation
Indices: 35617--35682 Score: 70
Period size: 6 Copynumber: 11.8 Consensus size: 6
35607 TATTTTGATC
* *
35617 TCGGGT TCGGG- TCGGGT TCGGGT TCAGGT TTGGG- -CGGGT TCGGGT
1 TCGGGT TCGGGT TCGGGT TCGGGT TCGGGT TCGGGT TCGGGT TCGGGT
*
35662 TCGGGT ACGGG- -CGGGT TCGGG
1 TCGGGT TCGGGT TCGGGT TCGGG
35683 ACGTTGACTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
4 7 0.14
5 5 0.10
6 38 0.76
ACGTcount: A:0.03, C:0.17, G:0.53, T:0.27
Consensus pattern (6 bp):
TCGGGT
Found at i:35654 original size:22 final size:22
Alignment explanation
Indices: 35620--35682 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
35610 TTTGATCTCG
35620 GGTTCGGGTCGGGTTCGGGTTCA
1 GGTTCGGG-CGGGTTCGGGTTCA
* *
35643 GGTTTGGGCGGGTTCGGGTTCG
1 GGTTCGGGCGGGTTCGGGTTCA
*
35665 GGTACGGGCGGGTTCGGG
1 GGTTCGGGCGGGTTCGGG
35683 ACGTTGACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 29 0.81
23 7 0.19
ACGTcount: A:0.03, C:0.16, G:0.54, T:0.27
Consensus pattern (22 bp):
GGTTCGGGCGGGTTCGGGTTCA
Found at i:37078 original size:16 final size:16
Alignment explanation
Indices: 37057--37088 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37047 TCCTCCTCTC
*
37057 TACAATTATTAATAAT
1 TACAATTAATAATAAT
37073 TACAATTAATAATAAT
1 TACAATTAATAATAAT
37089 AATAGGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TACAATTAATAATAAT
Found at i:37719 original size:20 final size:22
Alignment explanation
Indices: 37673--37722 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
37663 CTCTTCAATT
*
37673 ATTAATAAAATCATAATTAATA
1 ATTAATAAAATCATAACTAATA
37695 ATTAATAAAAT-AT-ACTAATA
1 ATTAATAAAATCATAACTAATA
*
37715 CTTAATAA
1 ATTAATAA
37723 TCCTAACTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 13 0.50
21 2 0.08
22 11 0.42
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
ATTAATAAAATCATAACTAATA
Found at i:37776 original size:3 final size:3
Alignment explanation
Indices: 37770--37830 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
37760 TAACTATTTC
* * *
37770 ATA ATA AT- TTA ATTA ATA ATA ATA ATA ATA CTA CATA ATT A-A ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
37815 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
37831 CAACTAATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 2 0.04
3 41 0.85
4 5 0.10
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:37839 original size:30 final size:30
Alignment explanation
Indices: 37745--37841 Score: 99
Period size: 30 Copynumber: 3.1 Consensus size: 30
37735 TATCCTAAAC
* *
37745 TTAAATAATTAATAATAACTATTTCATA-ATAA
1 TTAAATAA-TAATAATAA-TAATACA-ACATAA
* *
37777 TTTAATTAATAATAATAATAATACTACATAA
1 -TTAAATAATAATAATAATAATACAACATAA
37808 TTAAATAATAATAATAATAATAACAAC-TAA
1 TTAAATAATAATAATAATAAT-ACAACATAA
37838 TTAA
1 TTAA
37842 TCATTAAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
30 28 0.50
31 12 0.21
32 9 0.16
33 7 0.12
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (30 bp):
TTAAATAATAATAATAATAATACAACATAA
Found at i:38849 original size:99 final size:99
Alignment explanation
Indices: 38658--38835 Score: 243
Period size: 99 Copynumber: 1.8 Consensus size: 99
38648 ATACAAAACT
* * * *
38658 GCTATCTATAAAGTTGGTTAAGCATTAAACTTCTTCATCTTATATTCACTAAGTACTCTAGATTT
1 GCTATCTATAAAGTTGGTTAAACATTAAACTTCTTCATCTTATATCCACTAACTACTCAAGATTT
* * *
38723 ATTCAATCAATGTGATTTAAATTTTTTTTTTCAA
66 ATTCAATCAACGTAATTCAAATTTTTTTTTTCAA
* *
38757 GCTATCTGTAAAGTTGGTTAAACATTAAACTTCTTCATC-T-TATCCACTAACTACTCAAGGTTT
1 GCTATCTATAAAGTTGGTTAAACATTAAACTTCTTCATCTTATATCCACTAACTACTCAAGATTT
* *
38820 ATTCAATTAGCGTAAT
66 ATTCAATCAACGTAAT
38836 CCTCATCTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
97 31 0.45
98 1 0.01
99 37 0.54
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.42
Consensus pattern (99 bp):
GCTATCTATAAAGTTGGTTAAACATTAAACTTCTTCATCTTATATCCACTAACTACTCAAGATTT
ATTCAATCAACGTAATTCAAATTTTTTTTTTCAA
Found at i:40367 original size:9 final size:9
Alignment explanation
Indices: 40353--40391 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
40343 ATTTTCAACA
40353 TAATTTAAT
1 TAATTTAAT
**
40362 TAATTTCTT
1 TAATTTAAT
40371 TAATTTAAT
1 TAATTTAAT
*
40380 TAATTAAAT
1 TAATTTAAT
40389 TAA
1 TAA
40392 AAGAAATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (9 bp):
TAATTTAAT
Found at i:52981 original size:15 final size:15
Alignment explanation
Indices: 52923--52981 Score: 82
Period size: 15 Copynumber: 3.9 Consensus size: 15
52913 CACAACATGA
* *
52923 TTGTTCGCACCATGG
1 TTGTTTGCACCATTG
52938 TTGTTTGCACCATTG
1 TTGTTTGCACCATTG
*
52953 TGGTTTGCACCATTG
1 TTGTTTGCACCATTG
*
52968 TTGTTTGCGCCATT
1 TTGTTTGCACCATT
52982 CACCCTAGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.12, C:0.22, G:0.24, T:0.42
Consensus pattern (15 bp):
TTGTTTGCACCATTG
Found at i:55182 original size:9 final size:9
Alignment explanation
Indices: 55168--55206 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
55158 ATTTTCAACA
55168 TAATTTAAT
1 TAATTTAAT
**
55177 TAATTTCTT
1 TAATTTAAT
55186 TAATTTAAT
1 TAATTTAAT
*
55195 TAATTAAAT
1 TAATTTAAT
55204 TAA
1 TAA
55207 AAGAAATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (9 bp):
TAATTTAAT
Found at i:62630 original size:36 final size:36
Alignment explanation
Indices: 62590--62665 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
62580 CAGCATCAGA
* *
62590 CTGATCAACCACCACCTCCTGTTGTGCAACCTCAAT
1 CTGATCAACCACCACCTCCTATTGTACAACCTCAAT
*
62626 CTGATCAGCCACCACCTCCTATTGTACAACCTCAAT
1 CTGATCAACCACCACCTCCTATTGTACAACCTCAAT
62662 CTGA
1 CTGA
62666 ACCGCCACCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.25
Consensus pattern (36 bp):
CTGATCAACCACCACCTCCTATTGTACAACCTCAAT
Found at i:62673 original size:36 final size:36
Alignment explanation
Indices: 62598--62680 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
62588 GACTGATCAA
* * *
62598 CCACCACCTCCTGTTGTGCAACCTCAATCTGATCAG
1 CCACCACCTCCTATTGTACAACCTCAATCTGAACAG
*
62634 CCACCACCTCCTATTGTACAACCTCAATCTGAACCG
1 CCACCACCTCCTATTGTACAACCTCAATCTGAACAG
*
62670 CCACCTCCTCC
1 CCACCACCTCC
62681 AGCTCCTGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.23, C:0.45, G:0.10, T:0.23
Consensus pattern (36 bp):
CCACCACCTCCTATTGTACAACCTCAATCTGAACAG
Found at i:65651 original size:60 final size:59
Alignment explanation
Indices: 65453--65895 Score: 412
Period size: 60 Copynumber: 7.6 Consensus size: 59
65443 CCAAAACATG
* * * * * *
65453 GCAAAA-CTAACCCTTTGACTGAAAGGGTATCTTTGGGAAGT-AAAATTAAACT-AAAT
1 GCAAAAGCTGACCCTTCGACCGGAAGGGTATTTTTGGAAAGTGAAAATTAAACTGAAAT
* * * * * *
65509 GCAAAAAGCTTACCCTTTGATCGAAAGGGCA---TGGGAAAGT-AAAATTAAACT-AAAT
1 GC-AAAAGCTGACCCTTCGACCGGAAGGGTATTTTTGGAAAGTGAAAATTAAACTGAAAT
* **
65564 ACAAAAAGCTGACCCTTCGATTGGAAGGGTATTTTTGGAAAGTGAAAATTAAACTCGAAAT
1 GC-AAAAGCTGACCCTTCGACCGGAAGGGTATTTTTGGAAAGTGAAAATTAAACT-GAAAT
* *
65625 GCAAAAGCTGACGCTTCGACCAGAAGGGTATTTTTGGAAAGTG---A--AAACT-AAAT
1 GCAAAAGCTGACCCTTCGACCGGAAGGGTATTTTTGGAAAGTGAAAATTAAACTGAAAT
* * * *
65678 GCAGATAGCTGACCTTTCGACCGGAAGGGTATTTTTGAAAAGT-AAAATCAAACTCGAAAT
1 GCA-AAAGCTGACCCTTCGACCGGAAGGGTATTTTTGGAAAGTGAAAATTAAACT-GAAAT
* * * * *
65738 GCAAAAGCTGACTCTTTGACTGGAAGGATATTGTTGGAAAGTGAAAATTAAACTTGAAAT
1 GCAAAAGCTGACCCTTCGACCGGAAGGGTATTTTTGGAAAGTGAAAATTAAAC-TGAAAT
* * * * * *
65798 GTAAAAGCTGACTCTTCGACTGGAAGGGTATTGTTGGAAAGTGAAAATTAAAATTTAAAT
1 GCAAAAGCTGACCCTTCGACCGGAAGGGTATTTTTGGAAAGTGAAAATT-AAACTGAAAT
* *
65858 GTAAAAGCTGACCCTTCGATCGGAAGGGTATTTTTGGA
1 GCAAAAGCTGACCCTTCGACCGGAAGGGTATTTTTGGA
65896 TAGTTCTTCT
Statistics
Matches: 327, Mismatches: 41, Indels: 34
0.81 0.10 0.08
Matches are distributed among these distances:
53 7 0.02
54 34 0.10
55 52 0.16
56 3 0.01
57 5 0.02
58 32 0.10
59 42 0.13
60 143 0.44
61 9 0.03
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.26
Consensus pattern (59 bp):
GCAAAAGCTGACCCTTCGACCGGAAGGGTATTTTTGGAAAGTGAAAATTAAACTGAAAT
Found at i:65779 original size:113 final size:114
Alignment explanation
Indices: 65555--65895 Score: 351
Period size: 113 Copynumber: 2.9 Consensus size: 114
65545 AAGTAAAATT
** * *
65555 AAACTAAATACAAAAAGCTGACCCTTCGATTGGAAGGGTATTTTTGGAAAGTGAAAATTAAACTC
1 AAACTAAATACAAAAAGCTGACCCTTCGACCGGAAGGGTATTTTTGAAAAGTGAAAATCAAACTC
* *
65620 GAAATGCAAAAGCTGACGCTTCGACCAGAAGGGTATTTTTGGAAAGTGA
66 GAAATGCAAAAGCTGACGCTTCGACCAGAAGGATATTGTTGGAAAGTGA
* * * *
65669 AAACTAAATGCAGATAGCTGACCTTTCGACCGGAAGGGTATTTTTGAAAAGT-AAAATCAAACTC
1 AAACTAAATACAAAAAGCTGACCCTTCGACCGGAAGGGTATTTTTGAAAAGTGAAAATCAAACTC
* * **
65733 GAAATGCAAAAGCTGACTCTTTGACTGGAAGGATATTGTTGGAAAGTGA
66 GAAATGCAAAAGCTGACGCTTCGACCAGAAGGATATTGTTGGAAAGTGA
* * * * * * *
65782 AAATTAAACTTGAAATGTAAAAGCTGACTCTTCGACTGGAAGGGTATTGTTGGAAAGTGAAAATT
1 AAACTAAA--T-ACA---AAAAGCTGACCCTTCGACCGGAAGGGTATTTTTGAAAAGTGAAAATC
* ** * * * * * *
65847 AAAATTTAAATGTAAAAGCTGACCCTTCGATCGGAAGGGTATTTTTGGA
60 AAACTCGAAATGCAAAAGCTGACGCTTCGACCAGAAGGATATTGTTGGA
65896 TAGTTCTTCT
Statistics
Matches: 185, Mismatches: 35, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
113 61 0.33
114 45 0.24
115 1 0.01
116 1 0.01
119 33 0.18
120 44 0.24
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (114 bp):
AAACTAAATACAAAAAGCTGACCCTTCGACCGGAAGGGTATTTTTGAAAAGTGAAAATCAAACTC
GAAATGCAAAAGCTGACGCTTCGACCAGAAGGATATTGTTGGAAAGTGA
Found at i:71966 original size:62 final size:62
Alignment explanation
Indices: 71862--72333 Score: 588
Period size: 62 Copynumber: 7.6 Consensus size: 62
71852 ACCGACCTGG
* * ** * *
71862 GGTCTGAAACTGAA-AAGACCAGTTTGTGGTTGACTTCAAAAACTAAGAAAGACCTGTTTGA
1 GGTCTGAAATTAAAGAAGACCAGTCCGTGGTTGACTTTAAAAACTAAGAAAGACCTGTCTGA
* * * * *
71923 GGTTTGAAACTAAAGAAGATCAGTCCGTGGTTGACTTTAAAAACTGAGAAAGACTTGTCTGA
1 GGTCTGAAATTAAAGAAGACCAGTCCGTGGTTGACTTTAAAAACTAAGAAAGACCTGTCTGA
* * * * * *
71985 GGGCTGAAATTGAAGAAGGCCAGTCCGTGGTTGACTTTAAAAACTAACAAAGACTTGCCTGA
1 GGTCTGAAATTAAAGAAGACCAGTCCGTGGTTGACTTTAAAAACTAAGAAAGACCTGTCTGA
* * *
72047 GGTCTGAAATTGAAGAAGACCAGTCCATGGTCGACTTTAAAAACTAAGAAAGACCTGTCTGA
1 GGTCTGAAATTAAAGAAGACCAGTCCGTGGTTGACTTTAAAAACTAAGAAAGACCTGTCTGA
* * * *
72109 GGTCTAAAATTAAAGAAGACCAGTTCGTGGTCGACTTTAAAAACTAAGAAAGACCTATCTGA
1 GGTCTGAAATTAAAGAAGACCAGTCCGTGGTTGACTTTAAAAACTAAGAAAGACCTGTCTGA
* ** * ** *
72171 GGTCTGAAATTAAAGAGGACCAGTATGTGGTCGACTTTAAAAACTAAGAAAGACCCATCTAA
1 GGTCTGAAATTAAAGAAGACCAGTCCGTGGTTGACTTTAAAAACTAAGAAAGACCTGTCTGA
* * * *
72233 GGTCTGAAATTAAAGAAGACTAGTCCATAGTTGACTTT-AAAACTGAGAAAGACCTGTCTGA
1 GGTCTGAAATTAAAGAAGACCAGTCCGTGGTTGACTTTAAAAACTAAGAAAGACCTGTCTGA
* * *
72294 GGTCTGAAATTGAAGAAGACCAATCCGTGGTTCACTTTAA
1 GGTCTGAAATTAAAGAAGACCAGTCCGTGGTTGACTTTAA
72334 GAAAAGATTT
Statistics
Matches: 356, Mismatches: 53, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
61 63 0.18
62 293 0.82
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (62 bp):
GGTCTGAAATTAAAGAAGACCAGTCCGTGGTTGACTTTAAAAACTAAGAAAGACCTGTCTGA
Found at i:72101 original size:34 final size:32
Alignment explanation
Indices: 72062--72163 Score: 81
Period size: 34 Copynumber: 3.2 Consensus size: 32
72052 GAAATTGAAG
72062 AAGACCAGTCCATGGTCGACTTTAAAAACTAAGA
1 AAGACCAGT-C-TGGTCGACTTTAAAAACTAAGA
* * *
72096 AAGACCTGTCTGAG--G--TCT-AAAATTAA-A
1 AAGACCAGTCTG-GTCGACTTTAAAAACTAAGA
72123 GAAGACCAGTTCGTGGTCGACTTTAAAAACTAAGA
1 -AAGACCAG-TC-TGGTCGACTTTAAAAACTAAGA
72158 AAGACC
1 AAGACC
72164 TATCTGAGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 20
0.67 0.08 0.26
Matches are distributed among these distances:
27 1 0.02
28 14 0.27
29 5 0.10
30 2 0.04
31 2 0.04
32 2 0.04
33 4 0.08
34 21 0.40
35 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (32 bp):
AAGACCAGTCTGGTCGACTTTAAAAACTAAGA
Found at i:73356 original size:14 final size:15
Alignment explanation
Indices: 73339--73371 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
73329 GAAAACAGGG
*
73339 ATTATGAA-ATAACA
1 ATTATGAAGAAAACA
73353 ATTATGAAGAAAACA
1 ATTATGAAGAAAACA
73368 ATTA
1 ATTA
73372 AACTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (15 bp):
ATTATGAAGAAAACA
Found at i:73444 original size:13 final size:13
Alignment explanation
Indices: 73426--73467 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
73416 AAAGCAGATT
73426 ATAAAGCAAATCA
1 ATAAAGCAAATCA
* *
73439 ATAAAGCAGATTA
1 ATAAAGCAAATCA
73452 ATAAAGCAAA-CA
1 ATAAAGCAAATCA
73464 ATAA
1 ATAA
73468 TTATAAAGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
12 5 0.20
13 20 0.80
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.17
Consensus pattern (13 bp):
ATAAAGCAAATCA
Found at i:73444 original size:25 final size:25
Alignment explanation
Indices: 73415--73467 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 25
73405 AATCTAAATC
73415 TAAAGCAGATT-ATAAAGCAAATCAA
1 TAAAGCAGATTAATAAAGCAAA-CAA
73440 TAAAGCAGATTAATAAAGCAAACAA
1 TAAAGCAGATTAATAAAGCAAACAA
73465 TAA
1 TAA
73468 TTATAAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.19
Consensus pattern (25 bp):
TAAAGCAGATTAATAAAGCAAACAA
Found at i:80523 original size:14 final size:15
Alignment explanation
Indices: 80506--80538 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
80496 GAAAACAGGG
*
80506 ATTATGAA-ATAACA
1 ATTATGAAGAAAACA
80520 ATTATGAAGAAAACA
1 ATTATGAAGAAAACA
80535 ATTA
1 ATTA
80539 AACTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (15 bp):
ATTATGAAGAAAACA
Found at i:80611 original size:13 final size:13
Alignment explanation
Indices: 80593--80634 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
80583 AAAGCAGATT
80593 ATAAAGCAAATCA
1 ATAAAGCAAATCA
* *
80606 ATAAAGCAGATTA
1 ATAAAGCAAATCA
*
80619 ATAAATCAAA-CA
1 ATAAAGCAAATCA
80631 ATAA
1 ATAA
80635 TTATAAAGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.62, C:0.12, G:0.07, T:0.19
Consensus pattern (13 bp):
ATAAAGCAAATCA
Found at i:80611 original size:25 final size:25
Alignment explanation
Indices: 80582--80634 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
80572 AATCTAAATC
80582 TAAAGCAGATT-ATAAAGCAAATCAA
1 TAAAGCAGATTAATAAAGCAAA-CAA
*
80607 TAAAGCAGATTAATAAATCAAACAA
1 TAAAGCAGATTAATAAAGCAAACAA
80632 TAA
1 TAA
80635 TTATAAAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.58, C:0.11, G:0.09, T:0.21
Consensus pattern (25 bp):
TAAAGCAGATTAATAAAGCAAACAA
Found at i:82485 original size:5 final size:5
Alignment explanation
Indices: 82475--82504 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
82465 GTTAAGTGTT
*
82475 TTTTA TTTTA TTTTA TTTTA TTTTA CTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
82505 GGCATAGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:83254 original size:18 final size:18
Alignment explanation
Indices: 83231--83268 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
83221 ATCAAGTAGT
83231 GCAAGGAAACATGGACAA
1 GCAAGGAAACATGGACAA
* *
83249 GCAAGGAAGCATGGATAA
1 GCAAGGAAACATGGACAA
83267 GC
1 GC
83269 TTAAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.32, T:0.08
Consensus pattern (18 bp):
GCAAGGAAACATGGACAA
Found at i:87978 original size:98 final size:98
Alignment explanation
Indices: 87828--88023 Score: 268
Period size: 98 Copynumber: 2.0 Consensus size: 98
87818 ACCTTTTTCG
* * *
87828 ATTCTTTCGACCAAACTCTTGTGCTTGGGAGATCTTAAAATTTAATACCTTCAATTTCGTCATTA
1 ATTCTTCCGACCAAACTCTTGTGCTTGGGAGATCTTAAAATTGAATACCTTCAATTTCGACATTA
87893 GACATGCTTCATTCACTTGAGGAGACACTTACA
66 GACATGCTTCATTCACTTGAGGAGACACTTACA
* * * * * * *
87926 ATTCTTCCGTCCAAAGTCTTGTG-TTATGGAGATTTTGAAATTGAATAGCTTCAATTTTGACATT
1 ATTCTTCCGACCAAACTCTTGTGCTT-GGGAGATCTTAAAATTGAATACCTTCAATTTCGACATT
**
87990 AGACATGCTTCATTCACTTGAGGAGGTACTTACA
65 AGACATGCTTCATTCACTTGAGGAGACACTTACA
88024 GTTATTCTGC
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
97 2 0.02
98 83 0.98
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (98 bp):
ATTCTTCCGACCAAACTCTTGTGCTTGGGAGATCTTAAAATTGAATACCTTCAATTTCGACATTA
GACATGCTTCATTCACTTGAGGAGACACTTACA
Found at i:94637 original size:35 final size:34
Alignment explanation
Indices: 94596--94676 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
94586 AAGGAAGAAC
*
94596 TTGATATGGAAAAGATTATT-TTGATATGTCTTATT
1 TTGATATGGAAAAG-TT-TTATTGATAGGTCTTATT
94631 TTGATAT-GAAGAAGTTTTATTGATAGGTCTTATT
1 TTGATATGGAA-AAGTTTTATTGATAGGTCTTATT
94665 TTGATA-GGAAAA
1 TTGATATGGAAAA
94677 AGAACTAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
33 4 0.10
34 28 0.67
35 10 0.24
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.44
Consensus pattern (34 bp):
TTGATATGGAAAAGTTTTATTGATAGGTCTTATT
Found at i:96031 original size:11 final size:11
Alignment explanation
Indices: 96007--96059 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
95997 TTGACAACGT
96007 AACAAAAACAA
1 AACAAAAACAA
* *
96018 AACGAAAACGA
1 AACAAAAACAA
96029 AACAAAAACAA
1 AACAAAAACAA
*
96040 AA-AAACAAAAA
1 AACAAA-AACAA
*
96051 AACAGAAAC
1 AACAAAAAC
96060 GATGCCAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
10 3 0.09
11 28 0.85
12 2 0.06
ACGTcount: A:0.77, C:0.17, G:0.06, T:0.00
Consensus pattern (11 bp):
AACAAAAACAA
Found at i:98592 original size:20 final size:21
Alignment explanation
Indices: 98567--98614 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
98557 TAAAATTATC
* *
98567 AATTAAAAAGAAAGC-AATTA
1 AATTAAAAACAAAGCAAAGTA
98587 AATTAAAAACAAAGCAAAGTA
1 AATTAAAAACAAAGCAAAGTA
98608 AATTAAA
1 AATTAAA
98615 TCTAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.67, C:0.06, G:0.08, T:0.19
Consensus pattern (21 bp):
AATTAAAAACAAAGCAAAGTA
Found at i:99995 original size:11 final size:11
Alignment explanation
Indices: 99979--100010 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
99969 GGTCTTCAAT
*
99979 TCTTCAAATTA
1 TCTTCAAATAA
99990 TCTTCAAATAA
1 TCTTCAAATAA
100001 TCTTCAAATA
1 TCTTCAAATA
100011 TGAACTCCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (11 bp):
TCTTCAAATAA
Found at i:99995 original size:19 final size:18
Alignment explanation
Indices: 99958--99996 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
99948 TTCTTGAAAT
*
99958 AATTCTTCAATGGTCTTC
1 AATTCTTCAATGATCTTC
*
99976 AATTCTTCAAATTATCTTC
1 AATTCTTC-AATGATCTTC
99995 AA
1 AA
99997 ATAATCTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.44
Consensus pattern (18 bp):
AATTCTTCAATGATCTTC
Found at i:100927 original size:24 final size:23
Alignment explanation
Indices: 100883--100927 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
100873 GCTTTCACCC
*
100883 ATCTCATTGGGATGGCGTTGGAG
1 ATCTCATTGGGATGACGTTGGAG
* *
100906 ATCTTATTGGGGATGACTTTGG
1 ATCTCATT-GGGATGACGTTGG
100928 CGCTCATTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.18, C:0.11, G:0.36, T:0.36
Consensus pattern (23 bp):
ATCTCATTGGGATGACGTTGGAG
Found at i:101410 original size:64 final size:63
Alignment explanation
Indices: 101309--101607 Score: 359
Period size: 64 Copynumber: 4.7 Consensus size: 63
101299 ACATAAGGTG
* * * * * *
101309 ACATTCGGAACGCATAAGCAGTTCGAGCACGTCTCTTCTTGCCGAAA-TGTTTCTATCAAAAGTC
1 ACATTGGGAACACAT-AGGAGTTCGAGCGCGTCTCTTCTCGCC-AAAGTGTTTCCATCAAAAGTC
** * * *
101373 ACATTGGGAACACATAGGCAGTTCGAGCGTTTCTCTTCTTGCCAAAGTGTTTCCATTACAAGTC
1 ACATTGGGAACACATAGG-AGTTCGAGCGCGTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTC
101437 ACATTGGGAACACATAAGGAGTTC-AGACGCGTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTC
1 ACATTGGGAACACAT-AGGAGTTCGAG-CGCGTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTC
* * * * *
101501 ACATTGGGAACACATAGGTAGTTCGGGCGCGTCTCTTCTCGCCGAAGTGTTTCCATTACAAGTA
1 ACATTGGGAACACATAGG-AGTTCGAGCGCGTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTC
* *
101565 ACATTGGGAACACATAAGGAGTTCAAGCGTGTCTCTTCTCGCC
1 ACATTGGGAACACAT-AGGAGTTCGAGCGCGTCTCTTCTCGCC
101608 CAATTTTGAA
Statistics
Matches: 206, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
63 10 0.05
64 189 0.92
65 7 0.03
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (63 bp):
ACATTGGGAACACATAGGAGTTCGAGCGCGTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTC
Found at i:101537 original size:128 final size:129
Alignment explanation
Indices: 101309--101607 Score: 435
Period size: 128 Copynumber: 2.3 Consensus size: 129
101299 ACATAAGGTG
* * * * * *
101309 ACATTCGGAACGCATAAGCAGTTC-GAGCACGTCTCTTCTTGCCGAAATGTTTCTATCAAAAGTC
1 ACATTGGGAACACATAAGGAGTTCAGAGCGCGTCTCTTCTCGCCGAAATGTTTCCATCAAAAGTC
** * *
101373 ACATTGGGAACACATAGGCAGTTCGAGCGTTTCTCTTCTTGCCAAAGTGTTTCCATTACAAGTC
66 ACATTGGGAACACATAGGCAGTTCGAGCGCGTCTCTTCTCGCCAAAGTGTTTCCATTACAAGTA
101437 ACATTGGGAACACATAAGGAGTTCAGA-CGCGTCTCTTCTCGCC-AAAGTGTTTCCATCAAAAGT
1 ACATTGGGAACACATAAGGAGTTCAGAGCGCGTCTCTTCTCGCCGAAA-TGTTTCCATCAAAAGT
* * *
101500 CACATTGGGAACACATAGGTAGTTCGGGCGCGTCTCTTCTCGCCGAAGTGTTTCCATTACAAGTA
65 CACATTGGGAACACATAGGCAGTTCGAGCGCGTCTCTTCTCGCCAAAGTGTTTCCATTACAAGTA
*
101565 ACATTGGGAACACATAAGGAGTTCA-AGCGTGTCTCTTCTCGCC
1 ACATTGGGAACACATAAGGAGTTCAGAGCGCGTCTCTTCTCGCC
101608 CAATTTTGAA
Statistics
Matches: 154, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
127 4 0.03
128 148 0.96
129 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (129 bp):
ACATTGGGAACACATAAGGAGTTCAGAGCGCGTCTCTTCTCGCCGAAATGTTTCCATCAAAAGTC
ACATTGGGAACACATAGGCAGTTCGAGCGCGTCTCTTCTCGCCAAAGTGTTTCCATTACAAGTA
Found at i:101992 original size:16 final size:17
Alignment explanation
Indices: 101971--102003 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
101961 AATTTGGGAA
101971 ATTAATC-CTCAACTTT
1 ATTAATCACTCAACTTT
101987 ATTAATCAACTCAACTT
1 ATTAATC-ACTCAACTT
102004 CCACTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTAATCACTCAACTTT
Found at i:102760 original size:76 final size:77
Alignment explanation
Indices: 102623--102860 Score: 325
Period size: 84 Copynumber: 3.0 Consensus size: 77
102613 AGTCCTTGGG
* * * * * *
102623 TGCATCATACGGTGACAATTTTATACTAGGAAATTTATACTTCCAAATTTCTTTTATTTCCTCCC
1 TGCA-CATAGGGTGATAA-TTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTCCC
102688 TATGAGACTCATC-
64 TATGAGACTCATCA
102701 TGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTCCCTA
1 TGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTCCCTA
102766 TGAGACTCATCCGCACA
66 TGAGACTCAT-----CA
*
102783 TCCGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTAATTTCCTCCC
1 T--GCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTCCC
102848 TATGAGACTCATC
64 TATGAGACTCATC
102861 CGCATATACT
Statistics
Matches: 145, Mismatches: 7, Indels: 15
0.87 0.04 0.09
Matches are distributed among these distances:
76 54 0.37
77 11 0.08
78 4 0.03
79 1 0.01
81 1 0.01
82 1 0.01
84 73 0.50
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (77 bp):
TGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTCCCTA
TGAGACTCATCA
Found at i:102800 original size:84 final size:84
Alignment explanation
Indices: 102697--103876 Score: 497
Period size: 84 Copynumber: 14.6 Consensus size: 84
102687 CTATGAGACT
* *
102697 CATCTGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTC
1 CATCCGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTAATTTCCTC
102762 CCTATGAGACTCATCCGCA
66 CCTATGAGACTCATCCGCA
102781 CATCCGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTAATTTCCTC
1 CATCCGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTAATTTCCTC
102846 CCTATGAGACTCATCCGCA
66 CCTATGAGACTCATCCGCA
* ** * * * *** * ***
102865 TATACTTC-CA-A--AT-TTATTTTA-A-TTGGCTCCCTATGTCACTCATCCGGACATAGGGAC-
1 CAT-CCGCACATAGGGTGATAATTTACACTTGG--AAGTTTGT-ACT--TCC--A-A-A-TTTCT
* * * * * * *
102922 TAAATTT--ACACT-TGGGAATTTATACTCCCA
55 TTAATTTCCTCCCTATGAG-ACTCAT-C-CGCA
* *** * * ** * * * *
102952 AATTTCTTTA-AT-TGCT-A-AATTTACACTTGGGAA-TTTACACTCCCAAACTTCTTTACTTTG
1 CA--TCCGCACATAGGGTGATAATTTACACTT-GGAAGTTTGTACTTCCAAATTTCTTTAATTTC
**
103012 CTCCCTATGTCACTCAT---C-
63 CTCCCTATGAGACTCATCCGCA
* * * * **
103030 CA---G-ACATAGGG-GCTAAATTTACACTTGGAAATTTATACTTCCAAATTTATTTTAATTGGC
1 CATCCGCACATAGGGTGAT-AATTTACACTTGGAAGTTTGTACTTCCAAATTT-CTTTAATTTCC
** *
103090 TCCCTATGTCACTCATCCGGA
64 TCCCTATGAGACTCATCCGCA
** * * * ** *
103111 CATAGGGAC-TA-----A-AA-TTACACTTGGGAA-TTTATACTCCCAAATTTCTTTACGTTGCT
1 CATCCGCACATAGGGTGATAATTTACACTT-GGAAGTTTGTACTTCCAAATTTCTTTAATTTCCT
** *
103167 CCCTATGTCACTCATCCGGA
65 CCCTATGAGACTCATCCGCA
** * * * * * * *
103187 CATAGGGAC-TA-----A-ATTTTATACTTGGAAATTTCTACCTCCAAATTTCTTTTATTTCCTC
1 CATCCGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTAATTTCCTC
* *
103245 CCTATGAGGCTCATCTGCA
66 CCTATGAGACTCATCCGCA
* *
103264 CATCCGCACATAAGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTC
1 CATCCGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTAATTTCCTC
103329 CCTATGAGACT--T-----
66 CCTATGAGACTCATCCGCA
* * * * * *
103341 -ATCCACACATAGGGTGACAATTTACCCTTGGGAAATTTATACTTCCAAATTTCTTTTATTTCC-
1 CATCCGCACATAGGGTGATAATTTACACTT-GGAAGTTTGTACTTCCAAATTTCTTTAATTTCCT
103404 CCTCTATGAGACTCAT-----
65 CC-CTATGAGACTCATCCGCA
* * * * * *
103420 C-T--GCACATATGATGATAATTTACACTTGGAAGTTTGTACTTCCGAATTTCTTTCATTTCTTT
1 CATCCGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTAATTTCCTC
* * **
103482 CTTATGGGACTCATCCGTG
66 CCTATGAGACTCATCCGCA
* * * * *
103501 CATCCGCACATTGGATGATAATTTACAATTAGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTC
1 CATCCGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTAATTTCCTC
103566 CCTATGAGACT--T-----
66 CCTATGAGACTCATCCGCA
* * *
103578 -ATCCGCACATAGGGTGATAATTTACCCTTGGAAATTTTTACTTCCAAATTTCTTTAATTT-CTC
1 CATCCGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTAATTTCCTC
*
103641 CCTATGAGACTCATCTGCA
66 CCTATGAGACTCATCCGCA
103660 CATCCGCACATCCGCATTTAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAA---C-TT-
1 CATCCG--CA----CA--TAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTA
* * *
103720 -CTT--T--CTATGGGACTCATCTGCA
58 ATTTCCTCCCTATGAGACTCATCCGCA
* * * * * ***
103742 CATCCGCACATAGGATGGTAATTTACATTTGGAAGTTTGTACTTTCAAATTTCTTTCTATGGGAC
1 CATCCGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTT-AAT-TTCC
** *
103807 T--C-ATCCG-CGCATCCGCA
64 TCCCTATGAGACTCATCCGCA
* * * *
103824 CATCCGCACATAGGATGGTAATTTACACTTGGAAGTTTGCATTTCCAAATTTC
1 CATCCGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTC
103877 GTTTGTTTTG
Statistics
Matches: 862, Mismatches: 142, Indels: 186
0.72 0.12 0.16
Matches are distributed among these distances:
72 1 0.00
73 2 0.00
74 36 0.04
75 18 0.02
76 190 0.22
77 162 0.19
78 15 0.02
79 4 0.00
80 12 0.01
81 8 0.01
82 89 0.10
83 14 0.02
84 215 0.25
85 18 0.02
86 4 0.00
87 13 0.02
88 9 0.01
89 10 0.01
90 2 0.00
91 38 0.04
92 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (84 bp):
CATCCGCACATAGGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTAATTTCCTC
CCTATGAGACTCATCCGCA
Found at i:102896 original size:48 final size:47
Alignment explanation
Indices: 102820--102910 Score: 128
Period size: 48 Copynumber: 1.9 Consensus size: 47
102810 TGGAAGTTTG
* *
102820 TACTTCCAAATTTCTTTAATTTCCTCCCTATGAGACTCATCCGCATA
1 TACTTCCAAATTTCTTTAATTGCCTCCCTATGACACTCATCCGCATA
* * *
102867 TACTTCCAAATTTATTTTAATTGGCTCCCTATGTCACTCATCCG
1 TACTTCCAAATTT-CTTTAATTGCCTCCCTATGACACTCATCCG
102911 GACATAGGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 13 0.34
48 25 0.66
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.40
Consensus pattern (47 bp):
TACTTCCAAATTTCTTTAATTGCCTCCCTATGACACTCATCCGCATA
Found at i:102972 original size:45 final size:45
Alignment explanation
Indices: 102921--103006 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
102911 GACATAGGGA
* *
102921 CTAAATTTACACTTGGGAATTTATACTCCCAAATTTCTTTAATTG
1 CTAAATTTACACTTGGGAATTTACACTCCCAAACTTCTTTAATTG
102966 CTAAATTTACACTTGGGAATTTACACTCCCAAACTTCTTTA
1 CTAAATTTACACTTGGGAATTTACACTCCCAAACTTCTTTA
103007 CTTTGCTCCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (45 bp):
CTAAATTTACACTTGGGAATTTACACTCCCAAACTTCTTTAATTG
Found at i:103116 original size:77 final size:77
Alignment explanation
Indices: 102965--103655 Score: 462
Period size: 76 Copynumber: 8.9 Consensus size: 77
102955 TTCTTTAATT
* * * * *
102965 GCTAAATTTACACTTGGGAATTTACACTCCCAAACTTC-TTTACTTTGCTCCCTATGTCACTCAT
1 GCTAAATTTACACTTGGAAATTTATACTTCCAAATTTCTTTTAATTTGCTCCCTATGTCACTCAT
*
103029 CCAGACATAGGG
66 CCGGACATAGGG
* *
103041 GCTAAATTTACACTTGGAAATTTATACTTCCAAATTTATTTTAATTGGCTCCCTATGTCACTCAT
1 GCTAAATTTACACTTGGAAATTTATACTTCCAAATTTCTTTTAATTTGCTCCCTATGTCACTCAT
103106 CCGGACATAGGG
66 CCGGACATAGGG
* * * * **
103118 ACTAAAATTACACTTGGGAATTTATACTCCCAAATTTC-TTTACGTTGCTCCCTATGTCACTCAT
1 GCTAAATTTACACTTGGAAATTTATACTTCCAAATTTCTTTTAATTTGCTCCCTATGTCACTCAT
103182 CCGGACATAGGG
66 CCGGACATAGGG
* * * * *
103194 ACTAAATTTTATACTTGGAAATTTCTACCTCCAAATTTCTTTT-ATTTCCTCCCTATGAGGCTCA
1 GCTAAA-TTTACACTTGGAAATTTATACTTCCAAATTTCTTTTAATTTGCTCCCTAT---G-TCA
* *
103258 TCTGCACATCCGCACATAAGGT
61 -CT---CATCCGGACAT-AGGG
* * * * ** *
103280 GAT-AATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTT-ATTTCCTCCCTATGAGACTTAT
1 GCTAAATTTACACTTGGAAATTTATACTTCCAAATTTCTTTTAATTTGCTCCCTATGTCACTCAT
**
103343 CCACACATA-GG
66 CCGGACATAGGG
* * **
103354 G-TGACAATTTACCCTTGGGAAATTTATACTTCCAAATTTCTTTT-ATTT-CCCCTCTATGAGAC
1 GCT-A-AATTTACACTT-GGAAATTTATACTTCCAAATTTCTTTTAATTTGCTCC-CTATGTCAC
* * **
103416 TCATCTGCACATATGAT
62 TCATCCGGACATA-GGG
* * * * * * *
103433 GAT-AATTTACACTTGGAAGTTTGTACTTCCGAATTTC-TTTCATTT-CTTTCTTATGGGACTCA
1 GCTAAATTTACACTTGGAAATTTATACTTCCAAATTTCTTTTAATTTGC-TCCCTAT--G--TCA
* * *
103495 TCCGTGCATCCGCACATTGGAT
61 --C-T-CATCCGGACATAGG-G
* * * * * * ** *
103517 GAT-AATTTACAATTAGAAGTTTGTACTTCCAAATTTCTTTT-ATTTCCTCCCTATGAGACTTAT
1 GCTAAATTTACACTTGGAAATTTATACTTCCAAATTTCTTTTAATTTGCTCCCTATGTCACTCAT
*
103580 CCGCACATAGGG
66 CCGGACATAGGG
* * * **
103592 TGAT-AATTTACCCTTGGAAATTTTTACTTCCAAATTTC-TTTAATTT-CTCCCTATGAGACTCA
1 -GCTAAATTTACACTTGGAAATTTATACTTCCAAATTTCTTTTAATTTGCTCCCTATGTCACTCA
103654 TC
65 TC
103656 TGCACATCCG
Statistics
Matches: 505, Mismatches: 75, Indels: 71
0.78 0.12 0.11
Matches are distributed among these distances:
73 1 0.00
74 2 0.00
75 24 0.05
76 172 0.34
77 164 0.32
78 5 0.01
79 3 0.01
80 5 0.01
81 4 0.01
82 4 0.01
83 2 0.00
84 99 0.20
85 16 0.03
86 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (77 bp):
GCTAAATTTACACTTGGAAATTTATACTTCCAAATTTCTTTTAATTTGCTCCCTATGTCACTCAT
CCGGACATAGGG
Found at i:103196 original size:76 final size:76
Alignment explanation
Indices: 102966--103396 Score: 383
Period size: 77 Copynumber: 5.5 Consensus size: 76
102956 TCTTTAATTG
* * * *
102966 CTAAATTTACACTTGGGAATTTACACTCCCAAACTTCTTTACTTTGCTCCCTATGTCACTCATCC
1 CTAAATTTACACTTGGAAATTTATACTCCCAAATTTCTTTACATTGCTCCCTATGTCACTCATCC
* *
103031 AGACATAGGGG
66 GGACATAGGGA
* *
103042 CTAAATTTACACTTGGAAATTTATACTTCCAAATTTATTTTA-ATTGGCTCCCTATGTCACTCAT
1 CTAAATTTACACTTGGAAATTTATACTCCCAAATTT-CTTTACATT-GCTCCCTATGTCACTCAT
103106 CCGGACATAGGGA
64 CCGGACATAGGGA
* * *
103119 CTAAAATTACACTTGGGAATTTATACTCCCAAATTTCTTTACGTTGCTCCCTATGTCACTCATCC
1 CTAAATTTACACTTGGAAATTTATACTCCCAAATTTCTTTACATTGCTCCCTATGTCACTCATCC
103184 GGACATAGGGA
66 GGACATAGGGA
* * * *
103195 CTAAATTTTATACTTGGAAATTTCTAC-CTCCAAATTTCTTTTA-TTTCCTCCCTATGAGGCTCA
1 CTAAA-TTTACACTTGGAAATTTATACTC-CCAAATTTC-TTTACATTGCTCCCTAT---G-TCA
*
103258 TCTGCACATCCGCACATAAGGTGA
59 -CT---CATCCGGACAT-AGG-GA
* * * * * ** *
103282 -T-AATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTA-TTTCCTCCCTATGAGACTTATC
1 CTAAATTTACACTTGGAAATTTATACTCCCAAATTTC-TTTACATTGCTCCCTATGTCACTCATC
**
103344 CACACATAGGG-
65 CGGACATAGGGA
* *
103355 -TGACAATTTACCCTTGGGAAATTTATACTTCCAAATTTCTTT
1 CT-A-AATTTACACTT-GGAAATTTATACTCCCAAATTTCTTT
103397 TATTTCCCCT
Statistics
Matches: 303, Mismatches: 31, Indels: 42
0.81 0.08 0.11
Matches are distributed among these distances:
73 1 0.00
74 1 0.00
75 3 0.01
76 97 0.32
77 125 0.41
78 4 0.01
79 2 0.01
80 2 0.01
81 4 0.01
82 2 0.01
84 44 0.15
85 12 0.04
86 4 0.01
87 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (76 bp):
CTAAATTTACACTTGGAAATTTATACTCCCAAATTTCTTTACATTGCTCCCTATGTCACTCATCC
GGACATAGGGA
Found at i:103246 original size:153 final size:153
Alignment explanation
Indices: 102966--103250 Score: 446
Period size: 153 Copynumber: 1.9 Consensus size: 153
102956 TCTTTAATTG
* *
102966 CTAAATTTACACTTGGGAATTTACACTCCCAAACTTCTTTACTTTGCTCCCTATGTCACTCATCC
1 CTAAAATTACACTTGGGAATTTACACTCCCAAACTTCTTTACGTTGCTCCCTATGTCACTCATCC
* * *
103031 AGACATAGGGGCTAAATTTACACTTGGAAATTTATACTTCCAAATTTATTTTAATTGGCTCCCTA
66 AGACATAGGGACTAAATTTACACTTGGAAATTTATACCTCCAAATTTATTTTAATTGCCTCCCTA
103096 TGTCACTCATCCGGACATAGGGA
131 TGTCACTCATCCGGACATAGGGA
* *
103119 CTAAAATTACACTTGGGAATTTATACTCCCAAATTTCTTTACGTTGCTCCCTATGTCACTCATCC
1 CTAAAATTACACTTGGGAATTTACACTCCCAAACTTCTTTACGTTGCTCCCTATGTCACTCATCC
* * * * *
103184 GGACATAGGGACTAAATTTTATACTTGGAAATTTCTACCTCCAAATTTCTTTT-ATTTCCTCCCT
66 AGACATAGGGACTAAA-TTTACACTTGGAAATTTATACCTCCAAATTTATTTTAATTGCCTCCCT
103248 ATG
130 ATG
103251 AGGCTCATCT
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
153 87 0.73
154 32 0.27
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (153 bp):
CTAAAATTACACTTGGGAATTTACACTCCCAAACTTCTTTACGTTGCTCCCTATGTCACTCATCC
AGACATAGGGACTAAATTTACACTTGGAAATTTATACCTCCAAATTTATTTTAATTGCCTCCCTA
TGTCACTCATCCGGACATAGGGA
Found at i:103353 original size:161 final size:160
Alignment explanation
Indices: 103103--103662 Score: 466
Period size: 161 Copynumber: 3.5 Consensus size: 160
103093 CTATGTCACT
* * * * * *
103103 CATCCGGACATAGG-GACTAAAATTACACTTGGGAA-TTTATACTCCCAAATTTC-TTTACGTTG
1 CATCCGCACATAGGTGA-T-AATTTACACTT-GGAAGTTTGTACTTCCAAATTTCTTTTA-TTTC
** * * * * *
103165 CTCCCTATGTCACTCATCCGGACATAGGGACT-A-AATTTTATACTTGGAAATTTCTACCTCCAA
62 CTCCCTATGAGACTTATCCGCACATAGGGA-TGACAA-TTTACACTTGGAAATTTATACTTCCAA
103228 ATTTCTTTTATTTCCTCCCTATGAGGCTCATCTGCA
125 ATTTCTTTTATTTCCTCCCTATGAGGCTCATCTGCA
103264 CATCCGCACATAAGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTC
1 CATCCGCACAT-AGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTC
* *
103329 CCTATGAGACTTATCCACACATAGGG-TGACAATTTACCCTTGGGAAATTTATACTTCCAAATTT
65 CCTATGAGACTTATCCGCACATAGGGATGACAATTTACACTT-GGAAATTTATACTTCCAAATTT
*
103393 CTTTTATTTCC-CCTCTATGAGACTCATCTGCA
129 CTTTTATTTCCTCC-CTATGAGGCTCATCTGCA
* * * * *
103425 CAT------AT-GATGATAATTTACACTTGGAAGTTTGTACTTCCGAATTTCTTTCATTTCTTTC
1 CATCCGCACATAGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTCC
* * * * * * * *
103483 TTATGGGACTCATCCGTGCATCCGCACAT-TGGATGATAATTTACAATTAGAAGTTTGTACTTCC
66 CTATGAGA--C-T---T--ATCCGCACATAGGGATGACAATTTACACTTGGAAATTTATACTTCC
103547 AAATTTCTTTTATTTCCTCCCTATGA-G---A-CT---
123 AAATTTCTTTTATTTCCTCCCTATGAGGCTCATCTGCA
* * * * *
103577 TATCCGCACATAGGGTGATAATTTACCCTTGGAAATTTTTACTTCCAAATTTCTTTAATTT-CTC
1 CATCCGCACATA-GGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTC
* *
103641 CCTATGAGACTCATCTGCACAT
65 CCTATGAGACTTATCCGCACAT
103663 CCGCACATCC
Statistics
Matches: 328, Mismatches: 45, Indels: 62
0.75 0.10 0.14
Matches are distributed among these distances:
151 9 0.03
152 2 0.01
153 54 0.16
155 5 0.02
156 3 0.01
157 1 0.00
158 2 0.01
159 10 0.03
160 94 0.29
161 138 0.42
162 8 0.02
163 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (160 bp):
CATCCGCACATAGGTGATAATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTCC
CTATGAGACTTATCCGCACATAGGGATGACAATTTACACTTGGAAATTTATACTTCCAAATTTCT
TTTATTTCCTCCCTATGAGGCTCATCTGCA
Found at i:103522 original size:237 final size:237
Alignment explanation
Indices: 103045--103662 Score: 734
Period size: 237 Copynumber: 2.6 Consensus size: 237
103035 ATAGGGGCTA
* * * ** ** * *
103045 AATTTACACTTGGAAATTTATACTTCCAAATTTATTTTAATTGGCTCCCTATGTCACTCATCCGG
1 AATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTT-ATTTCCTCCCTATGAGACTTATCCGC
* * * *
103110 ACATA-GG-GACTAAAATTACACTTGGG-AATTTATACTCCCAAATTTC-TTTACGTTGCTCCCT
65 ACATAGGGTGAC--AATTTACCCTTGGGAAATTTATACTTCCAAATTTCTTTTA--TTTCTCCCT
** * * *
103171 ATGTCACTCATCCGGACATAGGGACTAAATTTTATACTTGGAAATTTCTACCTCCAAATTTCTTT
126 ATGAGACTCATCTGCACATAGGGACTAAATTTTACACTTGGAAATTTCTACCTCCAAATTTCTTT
* *
103236 TATTTCCTCCCTATGAGGCTCATCTGCACATCCGCACATAAGGTGAT
191 CATTTCCTCCCTATGAGGCTCATCCGCACATCCGCACATAAGGTGAT
*
103283 AATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTCCCTATGAGACTTATCCACA
1 AATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTCCCTATGAGACTTATCCGCA
*
103348 CATAGGGTGACAATTTACCCTTGGGAAATTTATACTTCCAAATTTCTTTTATTTCCCCTCTATGA
66 CATAGGGTGACAATTTACCCTTGGGAAATTTATACTTCCAAATTTCTTTTATTTCTCC-CTATGA
* * * * *
103413 GACTCATCTGCACATA-TGA-TGATAA-TTTACACTTGGAAGTTTGTACTTCCGAATTTCTTTCA
130 GACTCATCTGCACATAGGGACT-A-AATTTTACACTTGGAAATTTCTACCTCCAAATTTCTTTCA
* * * ** *
103475 TTTCTTTCTTATG-GGACTCATCCGTGCATCCGCACAT-TGGATGAT
193 TTTCCTCCCTATGAGG-CTCATCCGCACATCCGCACATAAGG-TGAT
* *
103520 AATTTACAATTAGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTCCCTATGAGACTTATCCGCA
1 AATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTCCCTATGAGACTTATCCGCA
* * *
103585 CATAGGGTGATAATTTACCCTT-GGAAATTTTTACTTCCAAATTTCTTTAATTTCTCCCTATGAG
66 CATAGGGTGACAATTTACCCTTGGGAAATTTATACTTCCAAATTTCTTTTATTTCTCCCTATGAG
103649 ACTCATCTGCACAT
131 ACTCATCTGCACAT
103663 CCGCACATCC
Statistics
Matches: 331, Mismatches: 40, Indels: 21
0.84 0.10 0.05
Matches are distributed among these distances:
235 21 0.06
236 37 0.11
237 190 0.57
238 76 0.23
239 7 0.02
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (237 bp):
AATTTACACTTGGAAGTTTGTACTTCCAAATTTCTTTTATTTCCTCCCTATGAGACTTATCCGCA
CATAGGGTGACAATTTACCCTTGGGAAATTTATACTTCCAAATTTCTTTTATTTCTCCCTATGAG
ACTCATCTGCACATAGGGACTAAATTTTACACTTGGAAATTTCTACCTCCAAATTTCTTTCATTT
CCTCCCTATGAGGCTCATCCGCACATCCGCACATAAGGTGAT
Found at i:103734 original size:82 final size:80
Alignment explanation
Indices: 103642--103872 Score: 294
Period size: 74 Copynumber: 2.9 Consensus size: 80
103632 TAATTTCTCC
* * *
103642 CTATGAGACTCATCTGCACATCCGCACATCCGCATTTAGGGTGATAATTTACACTTGGAAGTTTG
1 CTATGGGACTCATCTGCACATCCGCACATCCGCA--TAGGATGGTAATTTACACTTGGAAGTTTG
103707 TACTTCCAAACTTCTTT
64 TACTTCCAAACTTCTTT
*
103724 CTATGGGACTCATCTGCACATCCG--CA----CATAGGATGGTAATTTACATTTGGAAGTTTGTA
1 CTATGGGACTCATCTGCACATCCGCACATCCGCATAGGATGGTAATTTACACTTGGAAGTTTGTA
* *
103783 CTTTCAAATTTCTTT
66 CTTCCAAACTTCTTT
* *
103798 CTATGGGACTCATCCGCGCATCCGCACATCCGCACATAGGATGGTAATTTACACTTGGAAGTTTG
1 CTATGGGACTCATCTGCACATCCGCACATCCG--CATAGGATGGTAATTTACACTTGGAAGTTTG
* *
103863 CATTTCCAAA
64 TACTTCCAAA
103873 TTTCGTTTGT
Statistics
Matches: 129, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
74 63 0.49
76 4 0.03
80 2 0.02
82 60 0.47
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (80 bp):
CTATGGGACTCATCTGCACATCCGCACATCCGCATAGGATGGTAATTTACACTTGGAAGTTTGTA
CTTCCAAACTTCTTT
Found at i:103876 original size:82 final size:83
Alignment explanation
Indices: 103734--104223 Score: 284
Period size: 92 Copynumber: 5.5 Consensus size: 83
103724 CTATGGGACT
* *
103734 CATCTGCACATCCGCACATAGGATGGTAATTTACATTTGGAAGTTTGTACTTTCAAATTTCTTT-
1 CATCCGCACATCCGCACATAGGATGGTAATTTACACTTGGAAGTTTGTA-TTTCAAATTTCTTTC
* *
103798 CT-ATGGGACTCATCCGCG
65 CTCATGGGACTCATCAGCA
*
103816 CATCCGCACATCCGCACATAGGATGGTAATTTACACTTGGAAGTTTGCATTTCCAAATTTCGTTT
1 CATCCGCACATCCGCACATAGGATGGTAATTTACACTTGGAAGTTTGTATTT-CAAATTTC----
103881 GTTTTGTCCTCATGGGACTCATCAGCA
61 ---TT-TCCTCATGGGACTCATCAGCA
* * * * **
103908 CATCCGTACGTCCGCACATTGGATGATAATTTACACTTGGAAAATTGTATTTTCAAATTTCTTTT
1 CATCCGCACATCCGCACATAGGATGGTAATTTACACTTGGAAGTTTGTA-TTTCAAATTTC----
* *
103973 GTTTTCTCCTTATGGAACTCATCAGCACATTTGCA
61 ---TT-TCCTCATGGGACTCAT-----CA---GCA
* * *
104008 CATCCGCACATCCGCACATTGGATGATAATTTACACTTGGAAGTTTGTACTTTCGAATTTCTTTC
1 CATCCGCACATCCGCACATAGGATGGTAATTTACACTTGGAAGTTTGTA-TTTCAAATTTCTTTC
* * **** * ** *
104073 GT-TTCTTTCTTATGGGACT
65 CTCATGGGACTCATCAG-CA
* * * * * *
104092 CATCCGCGCATCCGCACATTGGATGATAATTTACAATTAGAAGTTTGTACTTCCAAATTTCTTTT
1 CATCCGCACATCCGCACATAGGATGGTAATTTACACTTGGAAGTTTGTA-TTTCAAATTTC-TTT
*
104157 GCTTTCTCCGTATGGGACTCATCCGCA
64 -C---CT-C--ATGGGACTCATCAGCA
* * * *
104184 CATCCGGACATCCGCACATTGGATGATAATCTACACTTGG
1 CATCCGCACATCCGCACATAGGATGGTAATTTACACTTGG
104224 GAATTTATAC
Statistics
Matches: 326, Mismatches: 52, Indels: 50
0.76 0.12 0.12
Matches are distributed among these distances:
81 3 0.01
82 54 0.17
83 1 0.00
84 57 0.17
85 3 0.01
86 1 0.00
89 3 0.01
90 1 0.00
91 7 0.02
92 125 0.38
93 11 0.03
97 2 0.01
100 58 0.18
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (83 bp):
CATCCGCACATCCGCACATAGGATGGTAATTTACACTTGGAAGTTTGTATTTCAAATTTCTTTCC
TCATGGGACTCATCAGCA
Found at i:103965 original size:92 final size:92
Alignment explanation
Indices: 103799--104223 Score: 454
Period size: 92 Copynumber: 4.6 Consensus size: 92
103789 AATTTCTTTC
* * * * *
103799 TATGGGACTCATCCGCGCATCCGCACATCCGCACATAGGATGGTAATTTACACTTGGAAGTTTGC
1 TATGGGACTCATCAGCACATCCGCACATCCGCACATTGGATGATAATTTACACTTGGAAGTTTGT
* * *
103864 ATTTCCAAATTTCGTTTGTTTTGTCCT
66 ACTTCCAAATTTCTTTTGTTTTCTCCT
* * * **
103891 CATGGGACTCATCAGCACATCCGTACGTCCGCACATTGGATGATAATTTACACTTGGAAAATTGT
1 TATGGGACTCATCAGCACATCCGCACATCCGCACATTGGATGATAATTTACACTTGGAAGTTTGT
* *
103956 ATTTTCAAATTTCTTTTGTTTTCTCCT
66 ACTTCCAAATTTCTTTTGTTTTCTCCT
*
103983 TATGGAACTCATCAGCACATTTGCACATCCGCACATCCGCACATTGGATGATAATTTACACTTGG
1 TATGGGACTCAT-----CA---GCACATCCGCACATCCGCACATTGGATGATAATTTACACTTGG
* * * *
104048 AAGTTTGTACTTTCGAATTTCTTTCG-TTTCTTTCT
58 AAGTTTGTACTTCCAAATTTCTTTTGTTTTC-TCCT
* * *
104083 TATGGGA--C-T-----CATCCGCGCATCCGCACATTGGATGATAATTTACAATTAGAAGTTTGT
1 TATGGGACTCATCAGCACATCCGCACATCCGCACATTGGATGATAATTTACACTTGGAAGTTTGT
* *
104140 ACTTCCAAATTTCTTTTGCTTTCTCCG
66 ACTTCCAAATTTCTTTTGTTTTCTCCT
* * *
104167 TATGGGACTCATCCGCACATCCGGACATCCGCACATTGGATGATAATCTACACTTGG
1 TATGGGACTCATCAGCACATCCGCACATCCGCACATTGGATGATAATTTACACTTGG
104224 GAATTTATAC
Statistics
Matches: 278, Mismatches: 37, Indels: 36
0.79 0.11 0.10
Matches are distributed among these distances:
84 69 0.25
85 4 0.01
86 1 0.00
87 1 0.00
92 124 0.45
97 3 0.01
98 1 0.00
99 4 0.01
100 71 0.26
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (92 bp):
TATGGGACTCATCAGCACATCCGCACATCCGCACATTGGATGATAATTTACACTTGGAAGTTTGT
ACTTCCAAATTTCTTTTGTTTTCTCCT
Found at i:104037 original size:100 final size:100
Alignment explanation
Indices: 103905--104095 Score: 285
Period size: 100 Copynumber: 1.9 Consensus size: 100
103895 GGACTCATCA
* * *
103905 GCACATCCGTACGTCCGCACATTGGATGATAATTTACACTTGGAAAATTGTATTTTCAAATTTCT
1 GCACATCCGCACATCCGCACATTGGATGATAATTTACACTTGGAAAATTGTACTTTCAAATTTCT
*
103970 TTTGTTT-TCTCCTTATGGAACTCATCAGCACATTT
66 TTCGTTTCT-TCCTTATGGAACTCATCAGCACATTT
** *
104005 GCACATCCGCACATCCGCACATTGGATGATAATTTACACTTGGAAGTTTGTACTTTCGAATTTCT
1 GCACATCCGCACATCCGCACATTGGATGATAATTTACACTTGGAAAATTGTACTTTCAAATTTCT
* *
104070 TTCGTTTCTTTCTTATGGGACTCATC
66 TTCGTTTCTTCCTTATGGAACTCATC
104096 CGCGCATCCG
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 80 0.99
101 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (100 bp):
GCACATCCGCACATCCGCACATTGGATGATAATTTACACTTGGAAAATTGTACTTTCAAATTTCT
TTCGTTTCTTCCTTATGGAACTCATCAGCACATTT
Found at i:104151 original size:84 final size:84
Alignment explanation
Indices: 104008--104194 Score: 277
Period size: 84 Copynumber: 2.2 Consensus size: 84
103998 CACATTTGCA
* * * *
104008 CATCCGCACATCCGCACATTGGATGATAATTTACACTTGGAAGTTTGTACTTTCGAATTTCTTTC
1 CATCCGCACATCCGCACATTGGATGATAATTTACAATTAGAAGTTTGTACTTCCAAATTTCTTTC
* *
104073 G-TTTCTTTCTTATGGGACT
66 GCTTTC-TCCGTATGGGACT
* *
104092 CATCCGCGCATCCGCACATTGGATGATAATTTACAATTAGAAGTTTGTACTTCCAAATTTCTTTT
1 CATCCGCACATCCGCACATTGGATGATAATTTACAATTAGAAGTTTGTACTTCCAAATTTCTTTC
104157 GCTTTCTCCGTATGGGACT
66 GCTTTCTCCGTATGGGACT
*
104176 CATCCGCACATCCGGACAT
1 CATCCGCACATCCGCACAT
104195 CCGCACATTG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 88 0.96
85 4 0.04
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (84 bp):
CATCCGCACATCCGCACATTGGATGATAATTTACAATTAGAAGTTTGTACTTCCAAATTTCTTTC
GCTTTCTCCGTATGGGACT
Found at i:104269 original size:92 final size:92
Alignment explanation
Indices: 104092--104271 Score: 215
Period size: 92 Copynumber: 2.0 Consensus size: 92
104082 TTATGGGACT
* * *
104092 CATCCGCGCATCCGCACATTGGATGATAATTTACAATTAGAAGTTTGTACTTCCAAATTTCTTTT
1 CATCCGCGCATCCGCACATTGGATGATAATCTACAATTAGAAGTTTATACTTCCAAACTTCTTTT
* * *
104157 GCTTTCTCCGTATGGGACTCATCCGCA
66 ACTTTCTCCCTATGGCACTCATCCGCA
* *
104184 CATCCG-GACATCCGCACATTGGATGATAATCTACACTTGGGAA-TTTATAC-TCCTAAACTTC-
1 CATCCGCG-CATCCGCACATTGGATGATAATCTACAATT-AGAAGTTTATACTTCC-AAACTTCT
*
104245 TTTACTTTGCTCCCTATGTCACTCATC
63 TTTACTTT-CTCCCTATGGCACTCATC
104272 TAGACATAGG
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
91 11 0.15
92 61 0.81
93 3 0.04
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.34
Consensus pattern (92 bp):
CATCCGCGCATCCGCACATTGGATGATAATCTACAATTAGAAGTTTATACTTCCAAACTTCTTTT
ACTTTCTCCCTATGGCACTCATCCGCA
Found at i:104271 original size:276 final size:274
Alignment explanation
Indices: 103734--104271 Score: 668
Period size: 276 Copynumber: 2.0 Consensus size: 274
103724 CTATGGGACT
* * *
103734 CATCTGCACATCCGCACATAGGATGGTAATTTACATTTGGAAGTTTGTACTTTCAAATTTCTTTC
1 CATCCGCACATCCGCACATAGGATGATAATTTACACTTGGAAGTTTGTACTTTCAAATTTCTTTC
* * * *
103799 TATGGGACTCATCCGCGCATCCGCACATCCGCACATAGGATGGTAATTTACACTTGGAAGTTTGC
66 TATCGGACTCATCCGCGCATCCGCACATCCGCACATAGGATGATAATTTACAATTAGAAGTTTGC
* * * * *
103864 ATTTCCAAATTTCGTTTGTTTTGTCCTCATGGGACTCATCAGCACATCCGTACGTCCGCACATTG
131 ACTTCCAAATTTCGTTTGCTTTCTCCTCATGGGACTCATCAGCACATCCGGACATCCGCACATTG
* * * * ** * *
103929 GATGATAATTTACACTTGGAAAATTGTATTTTCAAATTTCTTTTGTTTTCTCCTTATGGAACTCA
196 GATGATAATCTACACTTGGAAAATTGTATCTCCAAACTTCTTTACTTTGCTCCCTATGGAACTCA
103994 TCAGCACATTTGCA
261 TCAGCACATTTGCA
* *
104008 CATCCGCACATCCGCACATTGGATGATAATTTACACTTGGAAGTTTGTACTTTCGAATTTCTTTC
1 CATCCGCACATCCGCACATAGGATGATAATTTACACTTGGAAGTTTGTACTTTCAAATTTCTTTC
* *** * ** * * *
104073 GTTTCTTTCTTATGGGACTCATCCGCGCATCCGCACATTGGATGATAATTTACAATTAGAAGTTT
66 -TATCGGACTCATCCG-CGCATCCGCACATCCGCACATAGGATGATAATTTACAATTAGAAGTTT
* * *
104138 GTACTTCCAAATTTCTTTTGCTTTCTCCGT-ATGGGACTCATCCGCACATCCGGACATCCGCACA
129 GCACTTCCAAATTTCGTTTGCTTTCTCC-TCATGGGACTCATCAGCACATCCGGACATCCGCACA
* **
104202 TTGGATGATAATCTACACTTGG-GAATT-TATACTCCTAAACTTCTTTACTTTGCTCCCTATGTC
193 TTGGATGATAATCTACACTTGGAAAATTGTAT-CTCC-AAACTTCTTTACTTTGCTCCCTATGGA
104265 ACTCATC
256 ACTCATC
104272 TAGACATAGG
Statistics
Matches: 221, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
274 63 0.29
275 13 0.06
276 144 0.65
277 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (274 bp):
CATCCGCACATCCGCACATAGGATGATAATTTACACTTGGAAGTTTGTACTTTCAAATTTCTTTC
TATCGGACTCATCCGCGCATCCGCACATCCGCACATAGGATGATAATTTACAATTAGAAGTTTGC
ACTTCCAAATTTCGTTTGCTTTCTCCTCATGGGACTCATCAGCACATCCGGACATCCGCACATTG
GATGATAATCTACACTTGGAAAATTGTATCTCCAAACTTCTTTACTTTGCTCCCTATGGAACTCA
TCAGCACATTTGCA
Found at i:104348 original size:77 final size:75
Alignment explanation
Indices: 104215--104729 Score: 570
Period size: 77 Copynumber: 6.7 Consensus size: 75
104205 GATGATAATC
* * * * **
104215 TACACTTGGGAATTTATAC-TCCTAAACTTCTTTACTTTGCTCCCTATGTCACTCATCTAGACAT
1 TACACTTGGAAATTTATACTTCC-AAATTTATTTA-ATTGCTCCCTATGTCACTCATCCGGACAT
104279 AGGGGCTAAATT
64 AGGGGCTAAATT
104291 TACACTTGGAAATTTATACTTCCAAATTTATTTTAATTGGCTCCCTATGTCACTCATCCGGACAT
1 TACACTTGGAAATTTATACTTCCAAATTTA-TTTAATT-GCTCCCTATGTCACTCATCCGGACAT
* *
104356 AGGGACTAAAAT
64 AGGGGCTAAATT
* * * * * *
104368 TATACTTGGGAATTTATACTCCCAAATTTCTTTACGTTGCTCCCTATGTCACTTATCCGGACATA
1 TACACTTGGAAATTTATACTTCCAAATTTATTTA-ATTGCTCCCTATGTCACTCATCCGGACATA
*
104433 GGGACTAAATTT
65 GGGGCTAAA-TT
* * * * *
104445 TATACTTGGAAATTTCTACCTCCAAATTTTTTTTATTTGCTCCCTATGTCACTCATCCGGACATA
1 TACACTTGGAAATTTATACTTCCAAA-TTTATTTAATTGCTCCCTATGTCACTCATCCGGACATA
*
104510 GGGTCTAAATT
65 GGGGCTAAATT
**
104521 TACACTTGGAAATTTATACTTCCAAATTTCATTTAATTGCTCCCTATGTTGCTCATCCGGACATA
1 TACACTTGGAAATTTATACTTCCAAATTT-ATTTAATTGCTCCCTATGTCACTCATCCGGACATA
*
104586 GGGTGAC-AATTT
65 GGG-G-CTAAATT
** * * *
104598 TGTACTTGGAAATTTATACTTCCAAATTTCATTTAGTTGCTCCTTGTGTCACTCATCCGGACATA
1 TACACTTGGAAATTTATACTTCCAAATTT-ATTTAATTGCTCCCTATGTCACTCATCCGGACATA
104663 -GGG-TGACAATCT
65 GGGGCT-A-AAT-T
* * *
104675 TACACTTGGAAATTTATACTTCCGAATTTCATTTAATTTCTTCCCTATGTTACTC
1 TACACTTGGAAATTTATACTTCCAAATTT-ATTTAATTGC-TCCCTATGTCACTC
104730 TTAGGGACAA
Statistics
Matches: 377, Mismatches: 48, Indels: 26
0.84 0.11 0.06
Matches are distributed among these distances:
75 5 0.01
76 127 0.34
77 226 0.60
78 19 0.05
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (75 bp):
TACACTTGGAAATTTATACTTCCAAATTTATTTAATTGCTCCCTATGTCACTCATCCGGACATAG
GGGCTAAATT
Found at i:104487 original size:153 final size:153
Alignment explanation
Indices: 104215--104729 Score: 621
Period size: 153 Copynumber: 3.4 Consensus size: 153
104205 GATGATAATC
* * * * **
104215 TACACTTGGGAATTTATACTCCTAAACTTC-TTTACTTTGCTCCCTATGTCACTCATCTAGACAT
1 TACACTTGGAAATTTATACTCCCAAATTTCATTTACATTGCTCCCTATGTCACTCATCCGGACAT
* * *
104279 AGGGGCTAAA-TTTACACTTGGAAATTTATACTTCCAAATTTATTTTAATTGGCTCCCTATGTCA
66 A-GGGCTAAATTTTATACTTGGAAATTTATACTTCCAAATTT-TTTTTATTTGCTCCCTATGTCA
104343 CTCATCCGGACATAGGGACTAAAAT
129 CTCATCCGGACATAGGGACTAAAAT
* * * *
104368 TATACTTGGGAATTTATACTCCCAAATTTC-TTTACGTTGCTCCCTATGTCACTTATCCGGACAT
1 TACACTTGGAAATTTATACTCCCAAATTTCATTTACATTGCTCCCTATGTCACTCATCCGGACAT
* *
104432 AGGGACTAAATTTTATACTTGGAAATTTCTACCTCCAAATTTTTTTTATTTGCTCCCTATGTCAC
66 AGGG-CTAAATTTTATACTTGGAAATTTATACTTCCAAATTTTTTTTATTTGCTCCCTATGTCAC
* *
104497 TCATCCGGACATAGGGTCTAAATT
130 TCATCCGGACATAGGGACTAAAAT
* **
104521 TACACTTGGAAATTTATACTTCCAAATTTCATTTA-ATTGCTCCCTATGTTGCTCATCCGGACAT
1 TACACTTGGAAATTTATACTCCCAAATTTCATTTACATTGCTCCCTATGTCACTCATCCGGACAT
* ** * * *
104585 AGGG-TGACAATTTTGTACTTGGAAATTTATACTTCCAAATTTCATTTAGTTGCTCCTTGTGTCA
66 AGGGCT-A-AATTTTATACTTGGAAATTTATACTTCCAAATTTTTTTTATTTGCTCCCTATGTCA
**
104649 CTCATCCGGACATAGGGTGAC-AATCT
129 CTCATCCGGACATA-GG-GACTAAAAT
* * * *
104675 TACACTTGGAAATTTATACTTCCGAATTTCATTTA-ATTTCTTCCCTATGTTACTC
1 TACACTTGGAAATTTATACTCCCAAATTTCATTTACATTGC-TCCCTATGTCACTC
104730 TTAGGGACAA
Statistics
Matches: 319, Mismatches: 35, Indels: 14
0.87 0.10 0.04
Matches are distributed among these distances:
151 1 0.00
152 4 0.01
153 224 0.70
154 75 0.24
155 15 0.05
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (153 bp):
TACACTTGGAAATTTATACTCCCAAATTTCATTTACATTGCTCCCTATGTCACTCATCCGGACAT
AGGGCTAAATTTTATACTTGGAAATTTATACTTCCAAATTTTTTTTATTTGCTCCCTATGTCACT
CATCCGGACATAGGGACTAAAAT
Found at i:104684 original size:230 final size:230
Alignment explanation
Indices: 104192--104729 Score: 664
Period size: 230 Copynumber: 2.3 Consensus size: 230
104182 CACATCCGGA
* * * * * * *
104192 CATCCGCACATTGGATGATAATC-TACACTTGGGAATTTATA-CTCCTAAA-CTTCTTTACTTTG
1 CATCCGGACATAGGGTGACAATCTTACACTTGGAAATTTATACCTCC-AAATTTTTTTTA-TTTG
*
104254 CTCCCTATGTCACTCATCTAGACATAGGGGCTAAATTTACACTTGGAAATTTATACTTCCAAATT
64 CTCCCTATGTCACTCATCCAGACATAGGGGCTAAATTTACACTTGGAAATTTATACTTCCAAATT
*
104319 TATTTTAATTGGCTCCCTATGTCACTCATCCGGACATAGGGACTAAAATTATACTTGGGAATTTA
129 TATTTTAATTGGCTCCCTATGTCACTCATCCGGACATAGGGACTAAAATTATACTTGGAAATTTA
104384 TACTCCCAAATTTCTTTACGTTGCTCCCTATGTCACT
194 TACTCCCAAATTTCTTTACGTTGCTCCCTATGTCACT
* * * *
104421 TATCCGGACATA-GG-GACTAAATTTTATACTTGGAAATTTCTACCTCCAAATTTTTTTTATTTG
1 CATCCGGACATAGGGTGAC--AATCTTACACTTGGAAATTTATACCTCCAAATTTTTTTTATTTG
* *
104484 CTCCCTATGTCACTCATCCGGACATAGGGTCTAAATTTACACTTGGAAATTTATACTTCCAAATT
64 CTCCCTATGTCACTCATCCAGACATAGGGGCTAAATTTACACTTGGAAATTTATACTTCCAAATT
** ** *
104549 TCA-TTTAATT-GCTCCCTATGTTGCTCATCCGGACATAGGGTGAC-AATTTTGTACTTGGAAAT
129 T-ATTTTAATTGGCTCCCTATGTCACTCATCCGGACATA-GG-GACTAAAATTATACTTGGAAAT
* * *
104611 TTATACTTCCAAATTTCATTTA-GTTGCTCCTTGTGTCACT
191 TTATACTCCCAAATTTC-TTTACGTTGCTCCCTATGTCACT
* * * *
104651 CATCCGGACATAGGGTGACAATCTTACACTTGGAAATTTATACTTCCGAATTTCATTTAATTT-C
1 CATCCGGACATAGGGTGACAATCTTACACTTGGAAATTTATACCTCCAAATTT-TTTTTATTTGC
*
104715 TTCCCTATGTTACTC
65 -TCCCTATGTCACTC
104730 TTAGGGACAA
Statistics
Matches: 264, Mismatches: 32, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
227 2 0.01
228 1 0.00
229 37 0.14
230 181 0.69
231 40 0.15
232 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (230 bp):
CATCCGGACATAGGGTGACAATCTTACACTTGGAAATTTATACCTCCAAATTTTTTTTATTTGCT
CCCTATGTCACTCATCCAGACATAGGGGCTAAATTTACACTTGGAAATTTATACTTCCAAATTTA
TTTTAATTGGCTCCCTATGTCACTCATCCGGACATAGGGACTAAAATTATACTTGGAAATTTATA
CTCCCAAATTTCTTTACGTTGCTCCCTATGTCACT
Found at i:111855 original size:20 final size:20
Alignment explanation
Indices: 111832--111873 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
111822 TCCTAATCCT
* *
111832 AAAAGCCTAACATTAATAGC
1 AAAAGCCTAACACTAAAAGC
*
111852 AAAAGTCTAACACTAAAAGC
1 AAAAGCCTAACACTAAAAGC
111872 AA
1 AA
111874 GTTCAAGTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.19, G:0.10, T:0.17
Consensus pattern (20 bp):
AAAAGCCTAACACTAAAAGC
Found at i:112275 original size:22 final size:23
Alignment explanation
Indices: 112214--112275 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
112204 TCCATTTTGT
112214 CTCATGCATTT-ATGAAAATTTTCA
1 CTCATGCATTTCATG-AAA-TTTCA
* *
112238 TTCAT-CATGTCATGAAA-TTCA
1 CTCATGCATTTCATGAAATTTCA
112259 CTCATGCATTTCATGAA
1 CTCATGCATTTCATGAA
112276 TAAACTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 8 0.25
22 10 0.31
23 7 0.22
24 7 0.22
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (23 bp):
CTCATGCATTTCATGAAATTTCA
Found at i:114427 original size:14 final size:14
Alignment explanation
Indices: 114378--114431 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
114368 ATAATTCCTC
114378 GAAGAAAAAAG-GA
1 GAAGAAAAAAGAGA
*
114391 CAAAGAAGAAAATGAGA
1 -GAAGAA-AAAA-GAGA
114408 -AA-AAAAAAGAGA
1 GAAGAAAAAAGAGA
114420 GAAGAAAAAAGA
1 GAAGAAAAAAGA
114432 AAAAAATGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 4 0.12
13 6 0.18
14 15 0.44
15 6 0.18
16 1 0.03
17 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.24, T:0.02
Consensus pattern (14 bp):
GAAGAAAAAAGAGA
Found at i:114527 original size:13 final size:14
Alignment explanation
Indices: 114497--114534 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
114487 GTGTATTGTT
114497 CAAAA-GATTTTCA
1 CAAAATGATTTTCA
*
114510 CAAAATGGTTTTCA
1 CAAAATGATTTTCA
114524 -AAAATGATTTT
1 CAAAATGATTTT
114535 TCGAAACTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (14 bp):
CAAAATGATTTTCA
Found at i:117995 original size:38 final size:35
Alignment explanation
Indices: 117944--118023 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 35
117934 TTCAGAGTTA
**
117944 TCTTTCAAGTTATCAAAGGT-GACCATTGACCGGTCC
1 TCTTTCAAGTTATC-AA-GTAGACCACAGACCGGTCC
*
117980 TCTTTCAGTAGTTATCAAGTAGACCACAGATCGGTCC
1 TCTTTCA--AGTTATCAAGTAGACCACAGACCGGTCC
118017 TCTTTCA
1 TCTTTCA
118024 TCATTAGTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
36 9 0.24
37 22 0.58
38 7 0.18
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (35 bp):
TCTTTCAAGTTATCAAGTAGACCACAGACCGGTCC
Found at i:118232 original size:48 final size:48
Alignment explanation
Indices: 118180--118473 Score: 364
Period size: 48 Copynumber: 6.2 Consensus size: 48
118170 AATAGTCAAG
* *
118180 CTCACTCCCATGTAAGTCAGAAATCTCTTCGACCCAGGTTGGTCTTTC
1 CTCACTTCCATGTAAGTCAGAAATCTCTTCGACCCAAGTTGGTCTTTC
* *
118228 CTCACTTCCATGTTAGTCAGAAATCTCTTCAACCCAAGTTGGTCTTTC
1 CTCACTTCCATGTAAGTCAGAAATCTCTTCGACCCAAGTTGGTCTTTC
* *
118276 CTCACTTCCATGTGAGTCAGAAATCTCTTCGACCCAGGTTGGTCTTTC
1 CTCACTTCCATGTAAGTCAGAAATCTCTTCGACCCAAGTTGGTCTTTC
** * * *
118324 CTCACTTCCGCG-AGAGTCAGAAATCTTTTCGACCCAGGTTGGTTTTTC
1 CTCACTTCCATGTA-AGTCAGAAATCTCTTCGACCCAAGTTGGTCTTTC
** * *
118372 CTCACTTCCACATGAGTCAGAAATCTCTTCGACCCAACTTGGTCTTTC
1 CTCACTTCCATGTAAGTCAGAAATCTCTTCGACCCAAGTTGGTCTTTC
* * * *
118420 CTCACTT-C---TATGTCAGCAATCTCTTCGACCAAAGTTCGTCTTTC
1 CTCACTTCCATGTAAGTCAGAAATCTCTTCGACCCAAGTTGGTCTTTC
*
118464 CTCGCTTCCA
1 CTCACTTCCA
118474 CGAGAGTCCC
Statistics
Matches: 216, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
44 36 0.17
45 1 0.00
47 1 0.00
48 178 0.82
ACGTcount: A:0.20, C:0.31, G:0.15, T:0.33
Consensus pattern (48 bp):
CTCACTTCCATGTAAGTCAGAAATCTCTTCGACCCAAGTTGGTCTTTC
Found at i:118414 original size:144 final size:140
Alignment explanation
Indices: 118194--118481 Score: 414
Period size: 144 Copynumber: 2.0 Consensus size: 140
118184 CTCCCATGTA
** *
118194 AGTCAGAAATCTCTTCGACCCAGGTTGGTCTTTCCTCACTTCCATGTTAGTCAGAAATCTCTTCA
1 AGTCAGAAATCTCTTCGACCCAGGTTGGTCTTTCCTCACTTCCACATGAGTCAGAAATCTCTTCA
* * * * *
118259 ACCCAAGTTGGTCTTTCCTCACTTCCATGTGAGTCAGAAATCTCTTCGACCCAGGTTGGTCTTTC
66 ACCCAACTTGGTCTTTCCTCACTT-C-TAT--GTCAGAAATCTCTTCGACCAAAGTTCGTCTTTC
*
118324 CTCACTTCCGCGAG
127 CTCACTTCCACGAG
* * *
118338 AGTCAGAAATCTTTTCGACCCAGGTTGGTTTTTCCTCACTTCCACATGAGTCAGAAATCTCTTCG
1 AGTCAGAAATCTCTTCGACCCAGGTTGGTCTTTCCTCACTTCCACATGAGTCAGAAATCTCTTCA
* *
118403 ACCCAACTTGGTCTTTCCTCACTTCTATGTCAGCAATCTCTTCGACCAAAGTTCGTCTTTCCTCG
66 ACCCAACTTGGTCTTTCCTCACTTCTATGTCAGAAATCTCTTCGACCAAAGTTCGTCTTTCCTCA
118468 CTTCCACGAG
131 CTTCCACGAG
118478 AGTC
1 AGTC
118482 CCAAAAGTTG
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
140 45 0.35
142 2 0.02
143 1 0.01
144 82 0.63
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.33
Consensus pattern (140 bp):
AGTCAGAAATCTCTTCGACCCAGGTTGGTCTTTCCTCACTTCCACATGAGTCAGAAATCTCTTCA
ACCCAACTTGGTCTTTCCTCACTTCTATGTCAGAAATCTCTTCGACCAAAGTTCGTCTTTCCTCA
CTTCCACGAG
Done.