Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold115
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: 1475684
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 2 of 10
Found at i:131679 original size:20 final size:20
Alignment explanation
Indices: 131654--131691 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
131644 CTGCCAAGGA
131654 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
131674 AATGTATTGATACATTAT
1 AATGTATCGATACATTAT
131692 ATCGATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:131713 original size:33 final size:33
Alignment explanation
Indices: 131658--131721 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
131648 CAAGGAAATG
*
131658 TATCGATACATTATTCAATGTATTGATACATTA
1 TATCGATACATTATTCAATGTATCGATACATTA
**
131691 TATCGATACATTGA-TCTTTGTATCGATACAT
1 TATCGATACATT-ATTCAATGTATCGATACAT
131722 CTGGAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (33 bp):
TATCGATACATTATTCAATGTATCGATACATTA
Found at i:140054 original size:20 final size:20
Alignment explanation
Indices: 140027--140102 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
140017 GTAAAAAGAC
140027 AAAATGTATCGATACATTGA
1 AAAATGTATCGATACATTGA
* *
140047 AGAATGTATCAATACA-TGCA
1 AAAATGTATCGATACATTG-A
* * *
140067 TACATG-ATCGATATATTGA
1 AAAATGTATCGATACATTGA
*
140086 AAAATGCATCGATACAT
1 AAAATGTATCGATACAT
140103 CTGGGTCAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
19 14 0.33
20 29 0.67
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.29
Consensus pattern (20 bp):
AAAATGTATCGATACATTGA
Found at i:140767 original size:28 final size:28
Alignment explanation
Indices: 140677--141440 Score: 875
Period size: 28 Copynumber: 26.7 Consensus size: 28
140667 TACTAACTTG
* * *
140677 TGTGGGCTTTAAAAAGAGTTGCCACCGACT
1 TGTGGGCTTT-GAAAG-GATGCCACTGACT
**
140707 CATGTGGGCTTTGAAAAAAGTGCCACTGACT
1 --TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
140738 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
140766 TGTGGGCTTTAAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
140795 TGTGGGCTTTGAAAGGGTGCCACTGACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
140823 TGCATGGGCTTTGAAAGGGTGCCACTAACT
1 TG--TGGGCTTTGAAAGGATGCCACTGACT
* *
140853 TGTGAGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
140881 TCTGGGCTTTTTAAAAGAGTGCCACTAACT
1 TGTGGGC-TTTGAAAGGA-TGCCACTGACT
*
140911 TCTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * **
140940 TGTGGGCCTTGAAAGGGTGCCACCAACCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
* *
140969 ACGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
140998 TATGGGCTTTGAAAGGACGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
141026 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
141054 TGTGGGCTTTGAAAGAATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
141082 TGTGGGCTTTGAAAAGAATGCCATTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
141111 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
141139 TGTGGGTTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
141167 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
141196 TGTGGGTTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
141224 TGTAGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
141252 TCTAGGCTTTGAAAAGAGTGCCACTGACA
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
141281 TGTGGGCTTTGAAAGGGTGCCATTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
141309 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
141337 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
141366 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
141394 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
141422 TGTGGGCTTTGAAAAGATG
1 TGTGGGCTTTGAAAGGATG
141441 AATGTTCTAG
Statistics
Matches: 636, Mismatches: 80, Indels: 36
0.85 0.11 0.05
Matches are distributed among these distances:
27 2 0.00
28 359 0.56
29 186 0.29
30 66 0.10
31 13 0.02
32 10 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:140775 original size:57 final size:57
Alignment explanation
Indices: 140677--141440 Score: 907
Period size: 57 Copynumber: 13.3 Consensus size: 57
140667 TACTAACTTG
* * * *
140677 TGTGGGCTTTAAAAAGAGTTGCCACCGACTCATGTGGGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTT-GAAAG-GATGCCACTGACT--TGTGGGCTTTGAAAAGAGTGCCACTGACT
* *
140738 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
* * * *
140795 TGTGGGCTTTGAAAGGGTGCCACTGACCTGCATGGGCTTTG-AAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCCACTGACT
* * * * *
140853 TGTGAGCTTTGAAAGGATGCCACTAACTTCTGGGCTTTTTAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC-TTTGAAAAGAGTGCCACTGACT
* * * **
140911 TCTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCCTTG-AAAGGGTGCCACCAACCT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA-CT
* * * * * *
140969 ACGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAGGA-CGCCACTAACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
* * * *
141026 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGAATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
* *
141082 TGTGGGCTTTGAAAAGAATGCCATTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
* *
141139 TGTGGGTTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
* * * * *
141196 TGTGGGTTTTGAAAGGGTGCCACTGACTTGTAGGCTTTG-AAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
* * * * * * *
141252 TCTAGGCTTTGAAAAGAGTGCCACTGACATGTGGGCTTTG-AAAGGGTGCCATTGATT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
*
141309 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
*
141366 TGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
*
141422 TGTGGGCTTTGAAAAGATG
1 TGTGGGCTTTGAAAGGATG
141441 AATGTTCTAG
Statistics
Matches: 616, Mismatches: 72, Indels: 35
0.85 0.10 0.05
Matches are distributed among these distances:
55 4 0.01
56 170 0.28
57 275 0.45
58 102 0.17
59 51 0.08
60 4 0.01
61 10 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (57 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
Found at i:141142 original size:85 final size:85
Alignment explanation
Indices: 140677--141438 Score: 938
Period size: 85 Copynumber: 8.9 Consensus size: 85
140667 TACTAACTTG
* * **
140677 TGTGGGCTTTAAAAAGAGTTGCCACCGACTCATGTGGGCTTTGAAAAAAGTGCCACTGACTTGTG
1 TGTGGGCTTT-GAAAGAG-TGCCACTGACT--TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTG
* *
140742 GGCTTTGAAAGGA-TGCCACTAACT
61 GGCTTTGAAAAGAGTGCCACTGACT
* *
140766 TGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACCTGCATGGG
1 TGTGGGCTTT-GAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG--TGGG
* *
140831 CTTTG-AAAGGGTGCCACTAACT
63 CTTTGAAAAGAGTGCCACTGACT
* * * * * * *
140853 TGTGAGCTTTGAAAG-GATGCCACTAACTTCTGGGCTTTTTAAAAGAGTGCCACTAACTTCTGGG
1 TGTGGGCTTTGAAAGAG-TGCCACTGACTTGTGGGC--TTTGAAAGGGTGCCACTGACTTGTGGG
*
140917 CTTTGAAAGGAGTGCCACTGACT
63 CTTTGAAAAGAGTGCCACTGACT
* * ** * *
140940 TGTGGGCCTTGAAAGGGTGCCACCAACCTACGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGC
1 TGTGGGCTTTGAAAGAGTGCCACTGA-CT-TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
141005 TTTGAAAGGA-CGCCACTAACT
64 TTTGAAAAGAGTGCCACTGACT
* * ** *
141026 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAATGCCACTAACTTGTGGGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
* *
141091 TGAAAAGAATGCCATTGACT
66 TGAAAAGAGTGCCACTGACT
* * *
141111 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGTTTTGAAAGGATGCCACTAACTTGTGGGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
141176 TGAAAAGAGTGCCACTGACT
66 TGAAAAGAGTGCCACTGACT
* * * * * *
141196 TGTGGGTTTTGAAAGGGTGCCACTGACTTGTAGGCTTTGAAAGGGTGCCACTAACTTCTAGGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
*
141261 TGAAAAGAGTGCCACTGACA
66 TGAAAAGAGTGCCACTGACT
* * * *
141281 TGTGGGCTTTGAAAGGGTGCCATTGATTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
*
141346 TGAAAAGGGTGCCACTGACT
66 TGAAAAGAGTGCCACTGACT
141366 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
141431 TGAAAAGA
66 TGAAAAGA
141439 TGAATGTTCT
Statistics
Matches: 593, Mismatches: 69, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
84 39 0.07
85 326 0.55
86 76 0.13
87 98 0.17
88 31 0.05
89 23 0.04
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (85 bp):
TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
TGAAAAGAGTGCCACTGACT
Found at i:142700 original size:20 final size:21
Alignment explanation
Indices: 142647--142708 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 21
142637 TCTAGACCCC
*
142647 TTTCTGTTTTTTTTG-CTATT
1 TTTCTGTTTTTTTTGTTTATT
142667 TTTCT-TGTTTTTTTGTTTATT
1 TTTCTGT-TTTTTTTGTTTATT
142688 TTT-TGTTTTTTTTGTTT-TT
1 TTTCTGTTTTTTTTGTTTATT
142707 TT
1 TT
142709 GGGTGTGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 5 0.13
20 25 0.66
21 8 0.21
ACGTcount: A:0.03, C:0.05, G:0.10, T:0.82
Consensus pattern (21 bp):
TTTCTGTTTTTTTTGTTTATT
Found at i:142709 original size:8 final size:9
Alignment explanation
Indices: 142651--142708 Score: 64
Period size: 9 Copynumber: 6.0 Consensus size: 9
142641 GACCCCTTTC
142651 TGTTTTTTT
1 TGTTTTTTT
142660 TGCTATTTTTCT
1 TG-T-TTTTT-T
142672 TG-TTTTTT
1 TGTTTTTTT
142680 TGTTTATTTTT
1 TG-TT-TTTTT
142691 TGTTTTTTT
1 TGTTTTTTT
142700 TGTTTTTTT
1 TGTTTTTTT
142709 GGGTGTGAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
8 3 0.07
9 21 0.49
10 4 0.09
11 12 0.28
12 3 0.07
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.83
Consensus pattern (9 bp):
TGTTTTTTT
Found at i:148709 original size:9 final size:9
Alignment explanation
Indices: 148695--148720 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
148685 AGGGTGACCT
148695 TGTGATGGG
1 TGTGATGGG
148704 TGTGATGGG
1 TGTGATGGG
148713 TGTGATGG
1 TGTGATGG
148721 AATAGCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.54, T:0.35
Consensus pattern (9 bp):
TGTGATGGG
Found at i:151203 original size:13 final size:13
Alignment explanation
Indices: 151185--151210 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
151175 CAATTTTTTG
151185 TGTATCGATACAT
1 TGTATCGATACAT
151198 TGTATCGATACAT
1 TGTATCGATACAT
151211 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:151228 original size:32 final size:33
Alignment explanation
Indices: 151165--151228 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
151155 TACAAGCCAA
** * *
151165 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCAATACAT
151198 TGTATCGATAC-ATACTTGGTGTATCAATACA
1 TGTATCGATACAATACTTGGTGTATCAATACA
151229 AGTTTGGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCAATACAT
Found at i:158321 original size:13 final size:13
Alignment explanation
Indices: 158303--158328 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
158293 ACACCAAAGT
158303 ATGTATCGATACA
1 ATGTATCGATACA
158316 ATGTATCGATACA
1 ATGTATCGATACA
158329 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:158326 original size:33 final size:33
Alignment explanation
Indices: 158284--158348 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
158274 TAGCCAAACT
* *
158284 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
158317 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
158349 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:164527 original size:13 final size:13
Alignment explanation
Indices: 164509--164534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
164499 ACATTTTTCT
164509 TTGTATCGATACA
1 TTGTATCGATACA
164522 TTGTATCGATACA
1 TTGTATCGATACA
164535 GGGGGTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:164689 original size:20 final size:20
Alignment explanation
Indices: 164646--164691 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
164636 AAATCCTTTG
164646 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
164667 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
164687 CAAAA
1 CAAAA
164692 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:166401 original size:58 final size:60
Alignment explanation
Indices: 166337--166477 Score: 250
Period size: 60 Copynumber: 2.4 Consensus size: 60
166327 ATATGTGTGC
*
166337 AAATTACCTTATTAAGGGGGAGA-TATTTTTTAAAAGGGGAGAATGC-GTAAATTTGCTA
1 AAATTACCTTATTAAGGGGGAGATTATTTTTTAAAAGGGAAGAATGCAGTAAATTTGCTA
*
166395 AAATTACCTTATTAAGGGGGAGATTTTTTTTTAAAAGGGAAGAATGCAGTAAATTTGCTA
1 AAATTACCTTATTAAGGGGGAGATTATTTTTTAAAAGGGAAGAATGCAGTAAATTTGCTA
166455 AAATTACCTTATTAAGGGGGAGA
1 AAATTACCTTATTAAGGGGGAGA
166478 ATGTACGAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
58 23 0.29
59 21 0.27
60 35 0.44
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (60 bp):
AAATTACCTTATTAAGGGGGAGATTATTTTTTAAAAGGGAAGAATGCAGTAAATTTGCTA
Found at i:167175 original size:13 final size:13
Alignment explanation
Indices: 167157--167182 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
167147 ACACCAAAGT
167157 ATGTATCGATACA
1 ATGTATCGATACA
167170 ATGTATCGATACA
1 ATGTATCGATACA
167183 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:167180 original size:33 final size:33
Alignment explanation
Indices: 167138--167202 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
167128 TAGCCAAACT
* *
167138 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
167171 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
167203 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:170621 original size:20 final size:20
Alignment explanation
Indices: 170596--170633 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
170586 GTATTGATAC
*
170596 AATGTATCGATACATTTCGT
1 AATGTATCAATACATTTCGT
170616 AATGTATCAATACATTTC
1 AATGTATCAATACATTTC
170634 CTTGGCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCAATACATTTCGT
Found at i:170698 original size:13 final size:13
Alignment explanation
Indices: 170680--170704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
170670 ACAACACTTA
170680 TGTATCGATACAT
1 TGTATCGATACAT
170693 TGTATCGATACA
1 TGTATCGATACA
170705 AATTGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:171459 original size:21 final size:21
Alignment explanation
Indices: 171435--171490 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
171425 TTTTAACTAG
* * *
171435 ATGTATCAATACATTTGGATA
1 ATGTATCGATACATTTGAAGA
171456 ATGTATCGATACA-TTGAAGA
1 ATGTATCGATACATTTGAAGA
171476 ATGTATCGATACATT
1 ATGTATCGATACATT
171491 CATACATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACATTTGAAGA
Found at i:171499 original size:20 final size:20
Alignment explanation
Indices: 171455--171506 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
171445 ACATTTGGAT
*
171455 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTCAAG
171475 AATGTATCGATACATTCATA-
1 AATGTATCGATACATTCA-AG
*
171495 CATGTATCGATA
1 AATGTATCGATA
171507 TTGTTAGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAG
Found at i:171837 original size:13 final size:13
Alignment explanation
Indices: 171819--171843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
171809 ATGTTGCACA
171819 GTATCGATACATT
1 GTATCGATACATT
171832 GTATCGATACAT
1 GTATCGATACAT
171844 GTTGCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:171838 original size:33 final size:33
Alignment explanation
Indices: 171796--171861 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
171786 TACACATTTA
171796 ATTGTATCGATACATGTTGCACAGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
**
171829 ATTGTATCGATACATGTTGCATTGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
171862 TTGAAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACATGTTGCACAGTATCGATAC
Found at i:171952 original size:13 final size:13
Alignment explanation
Indices: 171934--171959 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
171924 TACACACAGT
171934 ATGTATCGATACA
1 ATGTATCGATACA
171947 ATGTATCGATACA
1 ATGTATCGATACA
171960 CCATAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:171976 original size:33 final size:32
Alignment explanation
Indices: 171916--171979 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
171906 TAGCTAAACT
**
171916 TGTATCGATACACACAGTATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
171948 TGTATCGATACACCATAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
171980 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:178172 original size:13 final size:13
Alignment explanation
Indices: 178152--178190 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
178142 ACAGTATTCT
178152 CTGTATCGATACA
1 CTGTATCGATACA
*
178165 -TAGTATCGTTACA
1 CT-GTATCGATACA
178178 CTGTATCGATACA
1 CTGTATCGATACA
178191 AGGGGATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:178365 original size:22 final size:21
Alignment explanation
Indices: 178322--178362 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
178312 CAAATTTCTT
178322 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAATACATC
178344 GTTTTTCA-TCAAAAT-CATC
1 GTTTTTCACTCAAAATACATC
178363 ATCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTTTTCACTCAAAATACATC
Found at i:180671 original size:13 final size:13
Alignment explanation
Indices: 180653--180677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
180643 ATGTTGCACA
180653 GTATCGATACATT
1 GTATCGATACATT
180666 GTATCGATACAT
1 GTATCGATACAT
180678 GTTGCATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:180672 original size:33 final size:33
Alignment explanation
Indices: 180630--180695 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
180620 TACACATTTA
180630 ATTGTATCGATACATGTTGCACAGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
**
180663 ATTGTATCGATACATGTTGCATGGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
180696 TTGAAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACATGTTGCACAGTATCGATAC
Found at i:186996 original size:13 final size:13
Alignment explanation
Indices: 186976--187014 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
186966 ACAGTATTCT
186976 CTGTATCGATACA
1 CTGTATCGATACA
*
186989 -TAGTATCGTTACA
1 CT-GTATCGATACA
187002 CTGTATCGATACA
1 CTGTATCGATACA
187015 AGGGGATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:187189 original size:22 final size:21
Alignment explanation
Indices: 187146--187186 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
187136 CAAATTTCTT
187146 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAATACATC
187168 GTTTTTCA-TCAAAAT-CATC
1 GTTTTTCACTCAAAATACATC
187187 ATCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTTTTCACTCAAAATACATC
Found at i:189494 original size:13 final size:13
Alignment explanation
Indices: 189476--189500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
189466 ATGTTGCACA
189476 GTATCGATACATT
1 GTATCGATACATT
189489 GTATCGATACAT
1 GTATCGATACAT
189501 GTTGCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:189495 original size:33 final size:33
Alignment explanation
Indices: 189453--189518 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
189443 TACACATTTA
189453 ATTGTATCGATACATGTTGCACAGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
**
189486 ATTGTATCGATACATGTTGCATTGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
189519 TTGAAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACATGTTGCACAGTATCGATAC
Found at i:194288 original size:20 final size:20
Alignment explanation
Indices: 194259--194426 Score: 115
Period size: 20 Copynumber: 7.8 Consensus size: 20
194249 GTAAAAAAAT
194259 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
194279 AGAATATATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
194299 TA-CATGTATTGATACATTGA
1 -AGAATGTATCGATACATTGA
*
194319 AAAATGTATCGATACATCTGGGTAAAAAGA
1 AGAATGTATCGATACA--T---T-----GA
*
194349 CAGAATGTATCAATACATTGA
1 -AGAATGTATCGATACATTGA
*
194370 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
194390 TA-CATGTATCGATATATTGA
1 -AGAATGTATCGATACATTGA
*
194410 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
194427 CTGGGTAAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 30
0.71 0.10 0.18
Matches are distributed among these distances:
19 2 0.02
20 90 0.78
21 4 0.03
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 2 0.02
31 14 0.12
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:194380 original size:91 final size:91
Alignment explanation
Indices: 194212--194437 Score: 364
Period size: 91 Copynumber: 2.5 Consensus size: 91
194202 ATTTTAACTA
* * * * *
194212 ATGTATCGATACATTCATACATGTATCGATACATCT-GGTAAAAAAATAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAACAGAATGTATCAATACAT
194276 TGAAGAATATATCGATACATTCATAC
66 TGAAGAATATATCGATACATTCATAC
* *
194302 ATGTATTGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCAATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAACAGAATGTATCAATACAT
*
194367 TGAAGAATGTATCGATACATTCATAC
66 TGAAGAATATATCGATACATTCATAC
*
194393 ATGTATCGATATATTGAAAAATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
194438 TGTGACTTTT
Statistics
Matches: 125, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
90 32 0.26
91 93 0.74
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAACAGAATGTATCAATACAT
TGAAGAATATATCGATACATTCATAC
Found at i:195129 original size:18 final size:18
Alignment explanation
Indices: 195106--195140 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
195096 AAAACTAATT
195106 AAACAAAAGTAATATTTA
1 AAACAAAAGTAATATTTA
195124 AAACAAAAGTAATATTT
1 AAACAAAAGTAATATTT
195141 TGAAGGTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (18 bp):
AAACAAAAGTAATATTTA
Found at i:195413 original size:16 final size:17
Alignment explanation
Indices: 195373--195423 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
195363 GAAACCGATC
195373 AACTCGAAACCCGAAAT-
1 AACTCG-AACCCGAAATG
195390 AACTCGAACCCGAAATG
1 AACTCGAACCCGAAATG
* *
195407 ATC-CGAACCTGAAATG
1 AACTCGAACCCGAAATG
195423 A
1 A
195424 CTCAAACAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
16 23 0.74
17 8 0.26
ACGTcount: A:0.43, C:0.27, G:0.16, T:0.14
Consensus pattern (17 bp):
AACTCGAACCCGAAATG
Found at i:196251 original size:16 final size:16
Alignment explanation
Indices: 196226--196266 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
196216 TAAACCCGAT
*
196226 TGACCCGAATTTGAAA
1 TGACCTGAATTTGAAA
196242 TGACCTGAATTTGAAA
1 TGACCTGAATTTGAAA
*
196258 TGACTTGAA
1 TGACCTGAA
196267 CCCGAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (16 bp):
TGACCTGAATTTGAAA
Found at i:196586 original size:21 final size:21
Alignment explanation
Indices: 196542--196580 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
196532 GCTAACTCGA
196542 AATAGTATTTTTAATTAAAAT
1 AATAGTATTTTTAATTAAAAT
*
196563 AATA-TATTTTTATTTAAA
1 AATAGTATTTTTAATTAAA
196581 TTTAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
AATAGTATTTTTAATTAAAAT
Found at i:197096 original size:14 final size:15
Alignment explanation
Indices: 197077--197108 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
197067 AAAATACTAA
197077 CTTTTC-TTTTTTTT
1 CTTTTCATTTTTTTT
197091 CTTTTCATTTTTTTT
1 CTTTTCATTTTTTTT
197106 CTT
1 CTT
197109 ACCAAGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTTTCATTTTTTTT
Found at i:198534 original size:23 final size:22
Alignment explanation
Indices: 198508--198557 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
198498 TAATTCTAAC
* *
198508 ATATGATAATATAGATAATAATA
1 ATATAATAATATAGAT-ATAAAA
*
198531 ATATAATAATATATATATAAAA
1 ATATAATAATATAGATATAAAA
198553 ATATA
1 ATATA
198558 TTAAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
ATATAATAATATAGATATAAAA
Found at i:198541 original size:14 final size:14
Alignment explanation
Indices: 198513--198555 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
198503 CTAACATATG
198513 ATAATATAGATAATA
1 ATAATATA-ATAATA
198528 ATAATATAATAAT-
1 ATAATATAATAATA
*
198541 ATATATATAAAAATA
1 ATA-ATATAATAATA
198556 TATTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 14 0.56
15 8 0.32
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
ATAATATAATAATA
Found at i:198546 original size:12 final size:12
Alignment explanation
Indices: 198508--198574 Score: 59
Period size: 12 Copynumber: 5.7 Consensus size: 12
198498 TAATTCTAAC
*
198508 ATATGATAATAT
1 ATATAATAATAT
*
198520 AGATAATAATA-
1 ATATAATAATAT
198531 ATATAATAATAT
1 ATATAATAATAT
*
198543 ATAT-ATAAAAAT
1 ATATAAT-AATAT
*
198555 ATATTAA-AATTT
1 ATA-TAATAATAT
198567 ATATAATA
1 ATATAATA
198575 TAAATTATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
11 15 0.34
12 27 0.61
13 1 0.02
14 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (12 bp):
ATATAATAATAT
Found at i:198569 original size:24 final size:24
Alignment explanation
Indices: 198540--198590 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
198530 AATATAATAA
198540 TATATATATAAAAATATATTAAAATT
1 TATATA-ATAAAAAT-TATTAAAATT
* *
198566 TATATAATATAAATTATTAATATT
1 TATATAATAAAAATTATTAAAATT
198590 T
1 T
198591 TAAAATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.43
25 7 0.30
26 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TATATAATAAAAATTATTAAAATT
Found at i:198605 original size:20 final size:19
Alignment explanation
Indices: 198580--198618 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
198570 TAATATAAAT
*
198580 TATTAATATTTTAAAATTTA
1 TATTAATA-TATAAAATTTA
198600 TATTAATATATAAAATTTA
1 TATTAATATATAAAATTTA
198619 AAAAATAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATATATAAAATTTA
Found at i:203219 original size:153 final size:155
Alignment explanation
Indices: 203052--203351 Score: 353
Period size: 154 Copynumber: 1.9 Consensus size: 155
203042 ATTTTTAATG
* *
203052 TAAAAGTACCTGATA-CCTCTAAAGGACATAAAAAATGATTTTAAAAAGGATAAACCTATCCT-A
1 TAAAAGTACCTGATACCCT-TAAAGGAC-TAAAAAAGGATCTTAAAAAGGATAAACCTATCCTAA
* *
203115 ATATCCACCTT-AACATAAAAATGGA-CCTGGTAATGACCTAGGAGTTGATTCT-GAAAAATTAT
64 ATATCCACCTTGAACATAAAAACGGATCC-AGTAATGACCTAGGAGTTGATTCTAG-AAAATTAT
*
203177 G-AAATGCTCC-TAGGAGATACCTTCGATA
127 GAAAATGC-CCTTAGAAGATACCTTCGATA
** * * * *
203205 TAAAAGTATTTGATACCCTTAAAGGACTGAAAAAGGATCTTAAAAGGGATGAACCTATCTTAAAT
1 TAAAAGTACCTGATACCCTTAAAGGACTAAAAAAGGATCTTAAAAAGGATAAACCTATCCTAAAT
* ** * * *
203270 ATCTACCTTGGGCATAAAAGCGGATCCAGTGATGACCTAGGAGTTGGTTCTAGAAAATTATGAAA
66 ATCCACCTTGAACATAAAAACGGATCCAGTAATGACCTAGGAGTTGATTCTAGAAAATTATGAAA
203335 ATGCCCTTAGAAGATAC
131 ATGCCCTTAGAAGATAC
203352 TTTTGACGTA
Statistics
Matches: 123, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
152 28 0.23
153 32 0.26
154 45 0.37
155 18 0.15
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (155 bp):
TAAAAGTACCTGATACCCTTAAAGGACTAAAAAAGGATCTTAAAAAGGATAAACCTATCCTAAAT
ATCCACCTTGAACATAAAAACGGATCCAGTAATGACCTAGGAGTTGATTCTAGAAAATTATGAAA
ATGCCCTTAGAAGATACCTTCGATA
Found at i:204702 original size:12 final size:13
Alignment explanation
Indices: 204669--204701 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
204659 ACTTTTCTAC
*
204669 TTTTTCTTCTCTT
1 TTTTTTTTCTCTT
204682 TTTTTTTTCTCTT
1 TTTTTTTTCTCTT
204695 TTTTTTT
1 TTTTTTT
204702 CACTTGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTCTCTT
Found at i:205421 original size:166 final size:166
Alignment explanation
Indices: 205147--206058 Score: 701
Period size: 166 Copynumber: 5.5 Consensus size: 166
205137 ATCAATATAT
* * * * ** * *
205147 AGAAAAAATTCAAAATTCAT-AAAATAATTTAAATTTTTTAAAACTGATTTAATGGGAGTTTAAT
1 AGAAAAAATTCAAAACTCATGAAAATAAATT-AATTTTTGAAAACTAATTTAATATGAATTAAAT
* * * * * *
205211 GAAA-ATA-TTAGATGAATTTAAAAAATTTTAAATCGAGAAAAATCCTCCTAAAAATATTTATGG
65 -AAATATATTTA-ATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCCTAAAAACATTTATAG
* *
205274 AATAGAAAACTTAGT-TTCTCAAAAATAGGAAAATTTCAA
128 AATAGAAAACTTAGTATT-TCGAAAATAAGAAAATTTCAA
* * *
205313 AGAAAAAGTACAAAACTCATGAAAATAAATTAATTTTTCAAAACTAATTTAATATGAATTAAATA
1 AGAAAAAATTCAAAACTCATGAAAATAAATTAATTTTTGAAAACTAATTTAATATGAATTAAATA
* * * * * *
205378 AATATATTTTATGAATTTTAAAATTTAAAAACCAAGAAAAATCCT-CTCGAAAATATTTATAGAG
66 AATATATTTAATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCCT-AAAAACATTTATAGAA
* * * *
205442 CAGAAAA-TTCTGTATTTCGAAAATAAGAGAATTTTAA
130 TAGAAAACTT-AGTATTTCGAAAATAAGAAAATTTCAA
* * * **
205479 GGAAAAAATTCAAAACTTATGAAAATAAATTAATTTTTGAAAAATAATTTGCTATGAATTAAATA
1 AGAAAAAATTCAAAACTCATGAAAATAAATTAATTTTTGAAAACTAATTTAATATGAATTAAATA
* * *
205544 AATATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAAAGCC-CCTGAAAAAGCATTTCTAG
66 AATATATTTAATGAATTTTAAAAATTATAAACCAAG-AAAAATCCTCCT-AAAAA-CATTTATAG
* * * *
205608 AGTAAAAAACTTCGTATTT----AATATGAAAA--TCAA
128 AATAGAAAACTTAGTATTTCGAAAATAAGAAAATTTCAA
* * * * *
205641 TGAATTCTTGAAAATTCAAAACTCATGAAAATCAA-TAATTCTTGAAAAC-AGATTTATTAGGAA
1 AGAA------AAAATTCAAAACTCATGAAAATAAATTAATTTTTGAAAACTA-ATTTAATATGAA
* * * *
205704 TTAAATAAATATATTTAATGAATTTTAAAAATTATTAACCAAGAAAAATACCCCCGAACAA-ATT
59 TTAAATAAATATATTTAATGAATTTTAAAAATTATAAACCAAGAAAAAT-CCTCCTAAAAACATT
* * * *
205768 TA-CGAAGTAGAAAACTCTA-T-TTTTGGAAATAAGAAAATTT-TA
123 TATAGAA-TAGAAAACT-TAGTATTTCGAAAATAAGAAAATTTCAA
* * ** * *
205810 AGAAAAAAAT-GAAACTCATGAAAATAAAAGAATTTTTGAAAGCTAATTTAATATAAATTAAAT-
1 AGAAAAAATTCAAAACTCATGAAAATAAATTAATTTTTGAAAACTAATTTAATATGAATTAAATA
* * * *
205873 AATAATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCCTGAAAACATTTACAGAG
66 AAT-ATATTTAATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCCTAAAAACATTTATAGAA
* * *
205938 TCGAAAATTTTA-TATTTTGAAAAT-AGAAAAATTTC-A
130 TAGAAAA-CTTAGTATTTCGAAAATAAG-AAAATTTCAA
** * * * * * *
205974 AGAAAAAAATGAAAAACTTAT-AAAATGGAATGAATTTTTCAAAAGTGATTTAATAGTG-ATTAA
1 AG-AAAAAATTCAAAACTCATGAAAAT-AAATTAATTTTTGAAAACTAATTTAATA-TGAATTAA
* *
206037 AT-AGTAATATTTAAAGAATTTT
63 ATAAAT-ATATTTAATGAATTTT
206059 GGTGTTCAAA
Statistics
Matches: 604, Mismatches: 102, Indels: 80
0.77 0.13 0.10
Matches are distributed among these distances:
162 32 0.05
163 84 0.14
164 36 0.06
165 31 0.05
166 265 0.44
167 95 0.16
168 54 0.09
169 6 0.01
170 1 0.00
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (166 bp):
AGAAAAAATTCAAAACTCATGAAAATAAATTAATTTTTGAAAACTAATTTAATATGAATTAAATA
AATATATTTAATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCCTAAAAACATTTATAGAAT
AGAAAACTTAGTATTTCGAAAATAAGAAAATTTCAA
Found at i:205686 original size:17 final size:17
Alignment explanation
Indices: 205631--205688 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
205621 GTATTTAATA
205631 TGAAAATCAATGAATTCT
1 TGAAAATCAAT-AATTCT
* *
205649 TGAAAATTCAA-AACTCA
1 TGAAAA-TCAATAATTCT
205666 TGAAAATCAATAATTCT
1 TGAAAATCAATAATTCT
205683 TGAAAA
1 TGAAAA
205689 CAGATTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.12
17 20 0.59
18 6 0.18
19 4 0.12
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (17 bp):
TGAAAATCAATAATTCT
Found at i:205723 original size:167 final size:163
Alignment explanation
Indices: 205313--205937 Score: 562
Period size: 167 Copynumber: 3.8 Consensus size: 163
205303 AAAATTTCAA
* *
205313 AGAAAAAGTACAAAACTCATGAAAATAAATTAATTTTTCAAAACTAATTTAATATGAATTAAATA
1 AGAAAAA-TTCAAAACTCATGAAAATAAATTAATTTTTGAAAAC-AATTTAATATGAATTAAATA
* * * * *
205378 AATATATTTTATGAATTTTAAAATTTAAAAACCAAG-AAAAATCCTCTCGAAAATATTTATAGAG
64 AATATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAAAGCCCCTCGAAAACATTTATAGAG
*
205442 CAGAAAATTCTGTATTTCGAAAATAAGAGAATTTT
129 CAAAAAATTCTGTATTTCGAAAATAAGAGAATTTT
* * **
205477 AAGGAAAAAATTCAAAACTTATGAAAATAAATTAATTTTTGAAAAATAATTTGCTATGAATTAAA
1 -A-G-AAAAATTCAAAACTCATGAAAATAAATTAATTTTTG-AAAACAATTTAATATGAATTAAA
*
205542 TAAATATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAAAGCCCCT-GAAAAAGCATTTCT
62 TAAATATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAAAGCCCCTCG-AAAA-CATTTAT
* * *
205606 AGAGTAAAAAACTTC-GTATTTAATATGAAAATCAA-TGAATTCTT
125 AGAGCAAAAAA-TTCTGTA-TT--T-CGAAAAT-AAGAGAATT-TT
* * * *
205650 -G-AAAATTCAAAACTCATGAAAATCAA-TAATTCTTGAAAACAGATTTATTAGGAATTAAATAA
1 AGAAAAATTCAAAACTCATGAAAATAAATTAATTTTTGAAAACA-ATTTAATATGAATTAAATAA
** *
205712 ATATATTTAATGAATTTTAAAAATTATTAACCAAGAAAAATA-CCCC-CGAACAA-ATTTA-CGA
65 ATATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAA-AGCCCCTCGAA-AACATTTATAG-
* * * * * * *
205773 AGTAGAAAACTCTAT-TTTTGGAAATAAGAAAATTTT
127 AGCAAAAAATTCTGTATTTCGAAAATAAGAGAATTTT
* * ** * *
205809 AAGAAAAAAAT-GAAACTCATGAAAATAAAAGAATTTTTGAAAGCTAATTTAATATAAATTAAAT
1 -AG-AAAAATTCAAAACTCATGAAAATAAATTAATTTTTGAAAAC-AATTTAATATGAATTAAAT
* * * *
205873 -AATAATATTTGATGAATTTTAAAAATTATAAACCAAG-AAAAATCCTCCT-GAAAACATTTACA
63 AAAT-ATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAAAGCC-CCTCGAAAACATTTATA
205935 GAG
126 GAG
205938 TCGAAAATTT
Statistics
Matches: 383, Mismatches: 45, Indels: 66
0.78 0.09 0.13
Matches are distributed among these distances:
159 4 0.01
160 10 0.03
161 3 0.01
162 27 0.07
163 76 0.20
164 5 0.01
165 14 0.04
166 89 0.23
167 92 0.24
168 41 0.11
169 5 0.01
170 1 0.00
171 1 0.00
172 11 0.03
173 4 0.01
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (163 bp):
AGAAAAATTCAAAACTCATGAAAATAAATTAATTTTTGAAAACAATTTAATATGAATTAAATAAA
TATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAAAGCCCCTCGAAAACATTTATAGAGCA
AAAAATTCTGTATTTCGAAAATAAGAGAATTTT
Found at i:207151 original size:21 final size:22
Alignment explanation
Indices: 207105--207159 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
207095 TAAAAGCATG
*
207105 ATGTATCGATACAGTTATGAAA
1 ATGTATCGATACAGTCATGAAA
*
207127 ATGTATCGATACA-TCATGGAA
1 ATGTATCGATACAGTCATGAAA
*
207148 ATGTATTGATAC
1 ATGTATCGATAC
207160 GTTTGCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (22 bp):
ATGTATCGATACAGTCATGAAA
Found at i:210075 original size:16 final size:17
Alignment explanation
Indices: 210050--210082 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
210040 TTATCTAATT
210050 TTTTACTTATTAAATAA
1 TTTTACTTATTAAATAA
*
210067 TTTTA-TTATTAGATAA
1 TTTTACTTATTAAATAA
210083 ATATTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTTACTTATTAAATAA
Found at i:218066 original size:19 final size:19
Alignment explanation
Indices: 218042--218080 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
218032 TCAAAGAGCA
218042 TTCTTTCATAAAGACTATT
1 TTCTTTCATAAAGACTATT
*
218061 TTCTTTGATAAAGACTATT
1 TTCTTTCATAAAGACTATT
218080 T
1 T
218081 AGGCTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.49
Consensus pattern (19 bp):
TTCTTTCATAAAGACTATT
Found at i:220369 original size:31 final size:31
Alignment explanation
Indices: 220208--220765 Score: 324
Period size: 31 Copynumber: 17.8 Consensus size: 31
220198 TCTCTTCTCC
* *
220208 AAGTCCACGACTCAATGGCATCTTTT-TCCCA
1 AAGTCCACGACTCAGTGGCATCTTTTCT-TCA
* * ** * *
220239 ACGTTCATAACTTAGTGGCATCCTTTTCTTCC
1 AAGTCCACGACTCAGTGGCAT-CTTTTCTTCA
* *
220271 AAGTCCACAACTCAGTGGCAT-TTCTT-TCCA
1 AAGTCCACGACTCAGTGGCATCTT-TTCTTCA
* * *
220301 AAGTCCATGACTCAGTGGCATCTCTT-TTCT
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCA
*
220331 AAGTCCACGACTTAGTGGCATCTTTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCA
* *
220362 AAGTCCACGACTCAGTGGCAGTCTCTT-TTCT
1 AAGTCCACGACTCAGTGGCA-TCTTTTCTTCA
* *
220393 AAGTCCACGACTTAGTGGCATCCTTTTCTTCC
1 AAGTCCACGACTCAGTGGCAT-CTTTTCTTCA
* * *
220425 AAGTCCACAACTCATTGGCATCTCTTTC--CC
1 AAGTCCACGACTCAGTGGCATCT-TTTCTTCA
* **
220455 AAGTCCACTGACTTAGTGGCATCTCAGTC-TCA
1 AAGTCCAC-GACTCAGTGGCATCT-TTTCTTCA
* * *
220487 GAGTCCACAATTCAGTGGCATCTCTTTC--CA
1 AAGTCCACGACTCAGTGGCATCT-TTTCTTCA
* *
220517 AAGTCCACAACTCAATGGCATCTTTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCA
* *
220548 AAGTCCACGACTCCGTGGCACCTTTTTCTTTTCA
1 AAGTCCACGACTCAGTGGCATC-TTTTC--TTCA
* *
220582 AAGTCCACAACTCCGTGGCA-CTCTTT-TT-A
1 AAGTCCACGACTCAGTGGCATCT-TTTCTTCA
* * **
220611 AAGCCCACAACTCCA-TGGCA-CCCTT-TT--
1 AAGTCCACGACT-CAGTGGCATCTTTTCTTCA
* * *
220638 AAGTCCACTACTCCGTGGCACCTTTTTCTTCTCA
1 AAGTCCACGACTCAGTGGCATC-TTTTC-T-TCA
* * * * **
220672 AAGTCCACAACTCCGTGGCACCCTGTTCCTTTT
1 AAGTCCACGACTCAGTGGCA-TCT-TTTCTTCA
* * *
220705 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTCA
1 AAGTCCACGACTCAGTGGCATC-TTTTC--TTCA
* *
220739 AAGTCCACAACTCCGTGGCACTCTTTT
1 AAGTCCACGACTCAGTGGCA-TCTTTT
220766 AAAGCCTATA
Statistics
Matches: 424, Mismatches: 71, Indels: 61
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.00
27 15 0.04
28 5 0.01
29 24 0.06
30 86 0.20
31 119 0.28
32 73 0.17
33 26 0.06
34 69 0.16
35 6 0.01
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.32
Consensus pattern (31 bp):
AAGTCCACGACTCAGTGGCATCTTTTCTTCA
Found at i:220572 original size:154 final size:152
Alignment explanation
Indices: 220198--220607 Score: 481
Period size: 154 Copynumber: 2.7 Consensus size: 152
220188 TCTTCAAATC
* * * **
220198 TCTCTTCTCC-AAGTCCACGACTCAATGGCATCTTTTTCCCAACGTTCATAACTTAGTGGCATCC
1 TCTCTT-TCCAAAGTCCACGACTCAATGGCATCTTTTT-TCAAAGTCCACGACTTAGTGGCATCC
* *
220262 TTTTCTTCCAAGTCCACAACTCAGTGGCATTTCTTTCCAAAGTCCATGACTCAGTGGCATCTCTT
64 TTTTCTTCCAAGTCCACAACTCAGTGGCATCTCTTTCCAAAGTCCATGACTCAGTGGCATCTCGT
* *
220327 TTCTAAGTCCACGACTTAGTGGCA
129 CTCTAAGTCCACGAATTAGTGGCA
* * *
220351 TCT-TTTCTTCAAAGTCCACGACTCAGTGGCAGTCTCTTTTCTAAGTCCACGACTTAGTGGCATC
1 TCTCTTTC--CAAAGTCCACGACTCAATGGCA-TCTTTTTTCAAAGTCCACGACTTAGTGGCATC
* * *
220415 CTTTTCTTCCAAGTCCACAACTCATTGGCATCTCTTTCCCAAGTCCACTGACTTAGTGGCATCTC
63 CTTTTCTTCCAAGTCCACAACTCAGTGGCATCTCTTTCCAAAGTCCA-TGACTCAGTGGCATCTC
220480 AGTCTC-AGAGTCCAC-AATTCAGTGGCA
127 -GTCTCTA-AGTCCACGAATT-AGTGGCA
* **
220507 TCTCTTTCCAAAGTCCACAACTCAATGGCATCTTTTCTTCAAAGTCCACGACTCCGTGGCA-CCT
1 TCTCTTTCCAAAGTCCACGACTCAATGGCATCTTTT-TTCAAAGTCCACGACTTAGTGGCATCC-
* *
220571 TTTTCTTTTCAAAGTCCACAACTCCGTGGCA-CTCTTT
64 TTTTC--TTCCAAGTCCACAACTCAGTGGCATCTCTTT
220608 TTAAAGCCCA
Statistics
Matches: 220, Mismatches: 24, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
151 2 0.01
152 2 0.01
153 4 0.02
154 89 0.40
155 72 0.33
156 26 0.12
157 25 0.11
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (152 bp):
TCTCTTTCCAAAGTCCACGACTCAATGGCATCTTTTTTCAAAGTCCACGACTTAGTGGCATCCTT
TTCTTCCAAGTCCACAACTCAGTGGCATCTCTTTCCAAAGTCCATGACTCAGTGGCATCTCGTCT
CTAAGTCCACGAATTAGTGGCA
Found at i:220584 original size:34 final size:34
Alignment explanation
Indices: 220509--220765 Score: 260
Period size: 34 Copynumber: 8.0 Consensus size: 34
220499 CAGTGGCATC
* ** *
220509 TCTTTCCAAAGTCCACAACTCAATGGCATC-TTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
*
220542 TC--TTCAAAGTCCACGACTCCGTGGCACCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
220574 TCTTTTCAAAGTCCACAACTCCGTGGCA-C----
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
* * *
220603 TCTTTTTAAAGCCCACAACTCCATGGCACC----
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
*
220633 -CTTTT--AAGTCCACTACTCCGTGGCACCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
* *
220664 TCTTCTCAAAGTCCACAACTCCGTGGCACCCTGTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCA-CCTTTT
* *
220699 CCTTTT--AAGTCCACAACTCTGTGGCACCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
220731 TCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCAC-CTTTT
220766 AAAGCCTATA
Statistics
Matches: 188, Mismatches: 21, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
27 19 0.10
29 30 0.16
30 1 0.01
31 21 0.11
32 19 0.10
33 22 0.12
34 62 0.33
35 14 0.07
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (34 bp):
TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
Found at i:220630 original size:155 final size:153
Alignment explanation
Indices: 220271--220846 Score: 446
Period size: 155 Copynumber: 3.7 Consensus size: 153
220261 CTTTTCTTCC
* * ** * * * *
220271 AAGTCCACAACTCAGTGGCATTTCTTTCCAAAGTCCA-TGACTCAGTGGCATCTCTTTTCTAAGT
1 AAGTCCACAACTCCGTGGCA-CTCTTTTTAAAGCCCACTAACTCAGTGGCA-C-CCTCTC-AAGT
* * * * *
220335 CCACGACTTAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAGTCTCTT-TTCTAAGTCC
62 CCACAACTCAGTGGCATCTTTTC-TCAAAGTCCACAACTCAGTGGCACTCTTTTCTTCTAAGTCC
* *
220399 ACGACTTAGTGGCATCC-TTTTC--TTCC
126 ACGACTCAGTGGCA-CCTTTTTCTTTTCA
** *** * * * *
220425 AAGTCCACAACTCATTGGCATCTCTTTCCCAAGTCCACTGACTTAGTGGCATCTCAGTCTCAGAG
1 AAGTCCACAACTCCGTGGCA-CTCTTTTTAAAGCCCACTAACTCAGTGGCA-C-C-CTCTCA-AG
* * *
220490 TCCACAATTCAGTGGCATCTCTTTC-CAAAGTCCACAACTCAATGGCA-TCTTTTCTTCAAAGTC
61 TCCACAACTCAGTGGCATCT-TTTCTCAAAGTCCACAACTCAGTGGCACTCTTTTCTTCTAAGTC
*
220553 CACGACTCCGTGGCACCTTTTTCTTTTCA
125 CACGACTCAGTGGCACCTTTTTCTTTTCA
* *
220582 AAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCCAC-AACTCCA-TGGCACCCTTTTAAGTCCA
1 AAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCCACTAACT-CAGTGGCACCCTCTCAAGTCCA
* * * * * * *
220645 CTACTCCGTGGCACCTTTTTCTTCTCAAAGTCCACAACTCCGTGGCACCCTGTTCCTTTTAAGTC
65 CAACTCAGTGGCA---TCTT-TTCTCAAAGTCCACAACTCAGTGGCACTCT-TTTCTTCTAAGTC
* *
220710 CACAACTCTGTGGCACCTTTTTCTTTTCA
125 CACGACTCAGTGGCACCTTTTTCTTTTCA
* * * *
220739 AAGTCCACAACTCCGTGGCACTC-TTTTAAAGCCTA-TAACTCTGTGGCACCCTTTTAAGTCCAC
1 AAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCCACTAACTCAGTGGCACCCTCTCAAGTCCAC
* * *
220802 AACTTCAGTAGCACCCTTT-T--AAGTCCACAACTTCA-TGGCA-TCTTT
66 AAC-TCAGTGGCATCTTTTCTCAAAGTCCACAAC-TCAGTGGCACTCTTT
220847 CTCCTTTTAA
Statistics
Matches: 353, Mismatches: 49, Indels: 46
0.79 0.11 0.10
Matches are distributed among these distances:
148 2 0.01
149 2 0.01
150 16 0.05
151 18 0.05
152 4 0.01
153 4 0.01
154 48 0.14
155 92 0.26
156 75 0.21
157 92 0.26
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (153 bp):
AAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCCACTAACTCAGTGGCACCCTCTCAAGTCCAC
AACTCAGTGGCATCTTTTCTCAAAGTCCACAACTCAGTGGCACTCTTTTCTTCTAAGTCCACGAC
TCAGTGGCACCTTTTTCTTTTCA
Found at i:220659 original size:90 final size:93
Alignment explanation
Indices: 220482--220692 Score: 284
Period size: 90 Copynumber: 2.3 Consensus size: 93
220472 GGCATCTCAG
* * * * **
220482 TCTCAGAGTCCACAATTCAGTGGCATCTCTTTCCAAAGTCCACAACTCAATGGCATCTTTTCTTC
1 TCTCAAAGTCCACAACTCCGTGGCA-CTCTTTCCAAAGCCCACAACTCAATGGCATCCCTTCTT-
220547 AAAGTCCACGACTCCGTGGCACCTTTTTCT
64 AAAGTCCACGACTCCGTGGCACCTTTTTCT
* ** *
220577 TTTCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCATGGCA-CCCTT-TT-A
1 TCTCAAAGTCCACAACTCCGTGGCACTCTTTCCAAAGCCCACAACTCAATGGCATCCCTTCTTAA
*
220639 AGTCCACTACTCCGTGGCACCTTTTTCT
66 AGTCCACGACTCCGTGGCACCTTTTTCT
220667 TCTCAAAGTCCACAACTCCGTGGCAC
1 TCTCAAAGTCCACAACTCCGTGGCAC
220693 CCTGTTCCTT
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
90 53 0.51
92 2 0.02
93 3 0.03
94 25 0.24
95 21 0.20
ACGTcount: A:0.23, C:0.34, G:0.13, T:0.30
Consensus pattern (93 bp):
TCTCAAAGTCCACAACTCCGTGGCACTCTTTCCAAAGCCCACAACTCAATGGCATCCCTTCTTAA
AGTCCACGACTCCGTGGCACCTTTTTCT
Found at i:220740 original size:67 final size:64
Alignment explanation
Indices: 220517--220764 Score: 255
Period size: 67 Copynumber: 3.9 Consensus size: 64
220507 TCTCTTTCCA
** * * *
220517 AAGTCCACAACTCAATGGCATCTTTTC--TTCAAAGTCCACGACTCCGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCTTTTCAAAGTCCACAACTCCGTGGCACC-TTTCCTTTT
* * *
220580 CAAAGTCCACAACTCCGTGGCA-C---TCTTTTTAAAGCCCACAACTCCATGGCA-C---CCTTT
1 --AAGTCCACAACTCCGTGGCACCTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTTCCTTT
220637 T
64 T
* *
220638 AAGTCCACTACTCCGTGGCACCTTTTTCTTCTCAAAGTCCACAACTCCGTGGCACCCTGTTCCTT
1 AAGTCCACAACTCCGTGGCACC-TTTTCTTTTCAAAGTCCACAACTCCGTGGCA-CCT-TTCCTT
220703 TT
63 TT
*
220705 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACTCTTT
1 AAGTCCACAACTCCGTGGCACC-TTTTCTTTTCAAAGTCCACAACTCCGTGGCAC-CTTT
220765 TAAAGCCTAT
Statistics
Matches: 154, Mismatches: 15, Indels: 27
0.79 0.08 0.14
Matches are distributed among these distances:
56 19 0.12
57 1 0.01
58 5 0.03
61 26 0.17
62 1 0.01
63 21 0.14
64 1 0.01
65 18 0.12
66 3 0.02
67 59 0.38
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (64 bp):
AAGTCCACAACTCCGTGGCACCTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTTCCTTTT
Found at i:220888 original size:28 final size:29
Alignment explanation
Indices: 220855--220948 Score: 113
Period size: 28 Copynumber: 3.3 Consensus size: 29
220845 TTCTCCTTTT
*
220855 AAGCCCATAAGTCGGTGGCACCCTTTC-A
1 AAGCCCACAAGTCGGTGGCACCCTTTCAA
* *
220883 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCGGTGGCACCCTTTCAA
* *
220911 AAGCACACAAGTTGGT-GCAACCCTTTCAA
1 AAGCCCACAAGTCGGTGGC-ACCCTTTCAA
220940 AAGCCCACA
1 AAGCCCACA
220949 CAGGTTGGTG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 5 0.09
28 37 0.67
29 13 0.24
ACGTcount: A:0.33, C:0.32, G:0.18, T:0.17
Consensus pattern (29 bp):
AAGCCCACAAGTCGGTGGCACCCTTTCAA
Found at i:221117 original size:50 final size:49
Alignment explanation
Indices: 220965--221840 Score: 684
Period size: 49 Copynumber: 17.9 Consensus size: 49
220955 GGTGGCGTCT
* * * *
220965 TCTTCTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTTCA
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
* *
221015 TCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGACATCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
* * *
221064 TCTTTAAGACCAATAGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTA
1 TCTTTAAGACCAAT-GTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
* *
221114 TCTTTAAGACCAATGTCGCTGGCCTTCAATCAACACATTGG------CA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
* * * * *
221157 ----TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCA-CATT-G
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC-TTCA
*
221201 TCTTTAAGATCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
* * * * * *
221244 ----TAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
* * * * **
221289 TCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATCGACACCTCAACCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TC-TTCA
* * * * *
221341 TCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCA-CATCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
* ** * * *
221389 TCTTTAAGTCCAATGTCATTGGCCTTGAATCAGCACATCGGCACCTTTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
* ** * * *
221438 TCTTTAAGTCCAATAACGCTGGCTTTGAATCAGCATATTGGCACCTTCGTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---TCTTCA
* * * *
221490 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTCGTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC-T--TCA
* * ** * **
221542 TCTTTAGGACCGATGTCATTGGCCTTGAATCAGCACATCGGCACCTCAACCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TC-TTCA
* * * *
221594 TCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CATCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
* * *
221642 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
* * * *
221691 TCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTTCGTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC-T--TCA
* * * *
221743 TCTTTAAAACCCAATGTCGTTAGCCTTGAATTAGCACATTGGCATTCTTCTCA
1 TCTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TC-T-TCA
* * * * * *
221796 TCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACATC
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC
221841 CTTTTTCTCA
Statistics
Matches: 658, Mismatches: 128, Indels: 79
0.76 0.15 0.09
Matches are distributed among these distances:
39 63 0.10
43 1 0.00
45 1 0.00
48 113 0.17
49 195 0.30
50 49 0.07
51 3 0.00
52 190 0.29
53 37 0.06
54 6 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
Found at i:221177 original size:39 final size:39
Alignment explanation
Indices: 221118--221195 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
221108 CCTTTATCTT
* *
221118 TAAGACCAATGTCGCTGGCCTTCAATCAACACATTGGCA
1 TAAGACCAATATCACTGGCCTTCAATCAACACATTGGCA
* * * *
221157 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCACTGGCCTTCAATCAACACATTGGCA
221196 CATTGTCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (39 bp):
TAAGACCAATATCACTGGCCTTCAATCAACACATTGGCA
Found at i:221232 original size:87 final size:88
Alignment explanation
Indices: 220970--221326 Score: 446
Period size: 87 Copynumber: 3.9 Consensus size: 88
220960 CGTCTTCTTC
* * *
220970 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGACCAATGTCGCT
1 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCT
* *
221035 AGCCTTGAATCAGCACATTGACATCTTCA
66 GGCCTTGAATCAGCACATTG------GCA
* ** *
221064 TCTTTAAGACCAATAGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCAATG
1 ----TAAGCCCAATA-TCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATG
* *
221129 TCGCTGGCCTTCAATCAACACATTGGCA
61 TCGCTGGCCTTGAATCAGCACATTGGCA
* * *
221157 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCA-CATTGTCTTTAAGATCAATGTCGCT
1 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCT
221221 GGCCTTGAATCAGCACATTGGCA
66 GGCCTTGAATCAGCACATTGGCA
* * * *
221244 TAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTT
1 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCT
221309 GGCCTTGAATCAGCACAT
66 GGCCTTGAATCAGCACAT
221327 CGACACCTCA
Statistics
Matches: 231, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
87 80 0.35
88 63 0.27
89 10 0.04
93 2 0.01
98 10 0.04
99 66 0.29
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (88 bp):
TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCT
GGCCTTGAATCAGCACATTGGCA
Found at i:221368 original size:52 final size:51
Alignment explanation
Indices: 221244--221835 Score: 526
Period size: 52 Copynumber: 11.7 Consensus size: 51
221234 CACATTGGCA
* * *
221244 TAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCT--TTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCATCTT
* * * * * * * *
221293 TAAGACCGATGTCGTTGGCCTTGAATCAGCACATCGACACCTCAACCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTC-ATCATCTT
* *
221345 TAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCA---CATCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCATCTT
* ** * * *
221393 TAAGTCCAATGTCATTGGCCTTGAATCAGCACATCGGCACCT--TTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCATCTT
* * *
221442 TAAGTCCAATAACGCTGGCTTTGAATCAGCATATTGGCACCTTCGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TCATCATCTT
* * *
221494 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTCGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACCTCATCATCTT
* * * * ** * * *
221546 TAGGACCGATGTCATTGGCCTTGAATCAGCACATCGGCACCTCAACCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTC-ATCATCTT
*
221598 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA---CATCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCATCTT
* * *
221646 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCT--TCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCATCTT
* * *
221695 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTTCGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTCATCATCTT
** * * * * * *
221747 TAAAACCCAATGTCGTTAGCCTTGAATTAGCACATTGGCATTCTTC-TCATCTT
1 T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--CCTCATCATCTT
* * * * * *
221800 CAAGTCTAATGTCGCTGACCGTGAATCAGCACATTG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
221836 ACATCCTTTT
Statistics
Matches: 438, Mismatches: 86, Indels: 35
0.78 0.15 0.06
Matches are distributed among these distances:
48 81 0.18
49 118 0.27
50 3 0.01
51 3 0.01
52 190 0.43
53 38 0.09
54 5 0.01
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (51 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCATCTT
Found at i:221529 original size:149 final size:148
Alignment explanation
Indices: 221259--221835 Score: 577
Period size: 149 Copynumber: 3.8 Consensus size: 148
221249 CCAGTATCGC
* * * * *
221259 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATCGGCACCTTTATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCA
* * * * * *
221324 CATCGACACCTCAACCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACATCA
66 TATTGGCACCTC-ATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATCA
221389 TCTTTAAGTCCAATGTCAT
130 TCTTTAAGTCCAATGTCAT
* * *
221408 TGGCCTTGAATCAGCACATCGGCACCTTTATCTTTAAGTCCAATAACGCTGGCTTTGAATCAGCA
1 TGGCCTTGAATCAGCACATCGGCACCTTTATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCA
* *
221473 TATTGGCACCTTCGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTC
66 TATTGGCACC-TCATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT-G-G-C-AC
* * * *
221538 GTCATCTTTAGGACCGATGTCAT
126 ATCATCTTTAAGTCCAATGTCAT
** *
221561 TGGCCTTGAATCAGCACATCGGCACCTCAACCATCTTTAAGCCCAATATCGCTGGCCTTGAATCA
1 TGGCCTTGAATCAGCACATCGGCACCT---TTATCTTTAAGACCAATATCGCTGGCCTTGAATCA
* * * *
221626 GCATATTGGCA---CATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCT
63 GCATATTGGCACCTCATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CA
* *
221688 TCATCTTTAAGTCCAATATCAC
127 TCATCTTTAAGTCCAATGTCAT
* * * * * * * *
221710 TGGCCTTGAATCAGCATATTGGCATCTTCGTCATCTTTAAAACCCAATGTCGTTAGCCTTGAATT
1 TGGCCTTGAATCAGCACATCGGCACCTT--T-ATCTTTAAGA-CCAATATCGCTGGCCTTGAATC
* * * * * * * *
221775 AGCACATTGGCATTCTTC-TCATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTG
62 AGCATATTGGCA--CCTCATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
221836 ACATCCTTTT
Statistics
Matches: 357, Mismatches: 53, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
149 154 0.43
150 33 0.09
151 1 0.00
152 42 0.12
153 47 0.13
154 38 0.11
155 1 0.00
156 41 0.11
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (148 bp):
TGGCCTTGAATCAGCACATCGGCACCTTTATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCA
TATTGGCACCTCATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATCAT
CTTTAAGTCCAATGTCAT
Found at i:221599 original size:104 final size:102
Alignment explanation
Indices: 221259--221835 Score: 476
Period size: 100 Copynumber: 5.7 Consensus size: 102
221249 CCAGTATCGC
* ** * * * *
221259 TGGCCTTGAATCAGCATATTGGCACCT-TTATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGC
1 TGGCCTTGAATCAGCACATTGGCACCTCCCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* * * * * ** * * *
221323 ACATCGAC-ACCTCAACCATCTTTAAGCCCAATATCGC
66 ATATTGGCGTCTTC-GTCATCTTTAAGACCAATGTCGT
* * * * **
221360 TAGCCTTGAATCAGCATATTGGCACAT--CATCTTTAAGTCCAATGTCATTGGCCTTGAATCAGC
1 TGGCCTTGAATCAGCACATTGGCACCTCCCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* * ** * ** *
221423 ACATCGGCACCTT--T-ATCTTTAAGTCCAATAACGC
66 ATATTGGCGTCTTCGTCATCTTTAAGACCAATGTCGT
* * *
221457 TGGCTTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
1 TGGCCTTGAATCAGCACATTGGCACC-TC-CCATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
* * *
221522 GCATATTGGCGTCTTCGTCATCTTTAGGACCGATGTCAT
64 GCATATTGGCGTCTTCGTCATCTTTAAGACCAATGTCGT
* *
221561 TGGCCTTGAATCAGCACATCGGCACCTCAACCATCTTTAAGCCCAATATCGCTGGCCTTGAATCA
1 TGGCCTTGAATCAGCACATTGGCACCTC--CCATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
* * * *
221626 GCATATT-G-G-C-ACATCATCTTTAAGTCCAATGTCGC
64 GCATATTGGCGTCTTCGTCATCTTTAAGACCAATGTCGT
* * *
221661 TGGCCTTGAATCAGCACATTAGCACCT-TCATCTTTAAGTCCAATATCACTGGCCTTGAATCAGC
1 TGGCCTTGAATCAGCACATTGGCACCTCCCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* *
221725 ATATTGGCATCTTCGTCATCTTTAAAACCCAATGTCGT
66 ATATTGGCGTCTTCGTCATCTTTAAGA-CCAATGTCGT
* * * * * * * * *
221763 TAGCCTTGAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGACCGTGAATCA
1 TGGCCTTGAATCAGCACATTGGCA--CCTCCCATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
*
221828 GCACATTG
64 GCATATTG
221836 ACATCCTTTT
Statistics
Matches: 395, Mismatches: 64, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
97 80 0.20
98 2 0.01
100 83 0.21
101 81 0.21
102 31 0.08
103 4 0.01
104 78 0.20
105 36 0.09
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (102 bp):
TGGCCTTGAATCAGCACATTGGCACCTCCCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
ATATTGGCGTCTTCGTCATCTTTAAGACCAATGTCGT
Found at i:221698 original size:253 final size:252
Alignment explanation
Indices: 221244--221799 Score: 864
Period size: 253 Copynumber: 2.2 Consensus size: 252
221234 CACATTGGCA
* * *
221244 TAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTT-T-ATCTTTAAGACCGATGTCG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTCATCTTTAAGACCGATGTCA
221307 TTGGCCTTGAATCAGCACATCGACACCTCAACCATCTTTAAGCCCAATATCGCTAGCCTTGAATC
66 TTGGCCTTGAATCAGCACATCGACACCTCAACCATCTTTAAGCCCAATATCGCTAGCCTTGAATC
* * *
221372 AGCATATTGGCACATCATCTTTAAGTCCAATGTCATTGGCCTTGAATCAGCACATCGGCACCTTT
131 AGCATATTGGCACATCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATCAGCACCTTC
* *
221437 ATCTTTAAGTCCAATAACGCTGGCTTTGAATCAGCATATTGGCACCTTCGTCATCTT
196 ATCTTTAAGTCCAATAACACTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTT
* * *
221494 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTCGTCATCTTTAGGACCGATGTC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC-TCATCTTTAAGACCGATGTC
* *
221559 ATTGGCCTTGAATCAGCACATCGGCACCTCAACCATCTTTAAGCCCAATATCGCTGGCCTTGAAT
65 ATTGGCCTTGAATCAGCACATCGACACCTCAACCATCTTTAAGCCCAATATCGCTAGCCTTGAAT
* *
221624 CAGCATATTGGCACATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTT
130 CAGCATATTGGCACATCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATCAGCACCTT
* *
221689 CATCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTTCGTCATCTT
195 CATCTTTAAGTCCAATAACACTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTT
* * * * * *
221747 TAAAACCCAATGTCGTTAGCCTTGAATTAGCACATTGGCATTCTTCTCATCTT
1 T-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCTCATCTT
221800 CAAGTCTAAT
Statistics
Matches: 276, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
250 39 0.14
252 1 0.00
253 194 0.70
254 37 0.13
255 5 0.02
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (252 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTCATCTTTAAGACCGATGTCA
TTGGCCTTGAATCAGCACATCGACACCTCAACCATCTTTAAGCCCAATATCGCTAGCCTTGAATC
AGCATATTGGCACATCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATCAGCACCTTC
ATCTTTAAGTCCAATAACACTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTT
Found at i:221874 original size:55 final size:52
Alignment explanation
Indices: 221639--221876 Score: 146
Period size: 49 Copynumber: 4.6 Consensus size: 52
221629 TATTGGCACA
** * * * *
221639 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT-AGCA--CCT-
1 TCATCTTTAAACCCAATGTCGTTGACCGTGAATCAGCACATTGA-CATTCTTC
** * ** * * * *
221688 TCATCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCA-TCTTC
1 TCATCTTTAAACCCAATGTCGTTGACCGTGAATCAGCACATTGACATTCTTC
* * *
221739 GTCATCTTTAAAACCCAATGTCGTT-AGCCTTGAATTAGCACATTGGCATTCTTC
1 -TCATCTTT-AAACCCAATGTCGTTGA-CCGTGAATCAGCACATTGACATTCTTC
* ** * * *
221793 TCATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACATCCTTTTTC
1 TCATCTTTAAACCCAATGTCGTTGACCGTGAATCAGCACATTGACA---TTCTTC
*
221848 TCATCTTTAAACCCAATATCGTTGACCGT
1 TCATCTTTAAACCCAATGTCGTTGACCGT
221877 AAATTAGCGT
Statistics
Matches: 150, Mismatches: 28, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
49 41 0.27
50 2 0.01
52 37 0.25
53 37 0.25
54 5 0.03
55 28 0.19
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.34
Consensus pattern (52 bp):
TCATCTTTAAACCCAATGTCGTTGACCGTGAATCAGCACATTGACATTCTTC
Found at i:222551 original size:19 final size:21
Alignment explanation
Indices: 222506--222556 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
222496 ATTCAACAAT
222506 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
222527 TTGTATCGATACATA-AGT-G
1 TTGTATCGATACAAACAGTAA
222546 TTGTATCGATA
1 TTGTATCGATA
222557 TAATGTATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 11 0.39
20 3 0.11
21 14 0.50
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:222635 original size:20 final size:21
Alignment explanation
Indices: 222590--222643 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
222580 GCCAAGGAAA
222590 TGTATCGATACATTACTCAGT
1 TGTATCGATACATTACTCAGT
*
222611 TGTATCGATACATTGA-TC-TT
1 TGTATCGATACATT-ACTCAGT
222631 TGTATCGATACAT
1 TGTATCGATACAT
222644 CTGGGAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 14 0.45
21 16 0.52
22 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATTACTCAGT
Found at i:224844 original size:24 final size:26
Alignment explanation
Indices: 224817--224865 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
224807 TATCAAAATT
224817 CTATTCAT-C-GGGGACACTCCAACC
1 CTATTCATCCAGGGGACACTCCAACC
*
224841 CTATTCCTCCGAGGGGACACTCCAA
1 CTATTCATCC-AGGGGACACTCCAA
224866 TCCCGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 1 0.05
27 13 0.62
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.20
Consensus pattern (26 bp):
CTATTCATCCAGGGGACACTCCAACC
Found at i:228128 original size:48 final size:48
Alignment explanation
Indices: 228045--228183 Score: 172
Period size: 48 Copynumber: 2.9 Consensus size: 48
228035 TTAAGGTTTT
* * * * *
228045 TGTATCTATACAATGAACAATATATCGATATATCTGGGTTTTTCAGAA
1 TGTATCGATACAATGAAAAATGTATCGATACATCTGGGTTTTTCAAAA
* **
228093 TGTCTCGATACAATGAAAAATGTATCGATACATCTGAATTTTTCAAAA
1 TGTATCGATACAATGAAAAATGTATCGATACATCTGGGTTTTTCAAAA
* *
228141 TGTATTGATACAAT-AAATAATGTATCGATACATCTAGGTTTTT
1 TGTATCGATACAATGAAA-AATGTATCGATACATCTGGGTTTTT
228184 ATATTATATC
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 3 0.04
48 74 0.96
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (48 bp):
TGTATCGATACAATGAAAAATGTATCGATACATCTGGGTTTTTCAAAA
Found at i:230875 original size:20 final size:20
Alignment explanation
Indices: 230850--230903 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
230840 AACCCTTATT
*
230850 TGTATCGATAAATTTCAAAA
1 TGTATCGATAAATTGCAAAA
*
230870 TGTATCGATACAA-TGCACAA
1 TGTATCGATA-AATTGCAAAA
230890 TGTATCGATAAATT
1 TGTATCGATAAATT
230904 AAGTGAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATAAATTGCAAAA
Found at i:230988 original size:20 final size:20
Alignment explanation
Indices: 230963--231014 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
230953 AACCCTCGTT
230963 TGTATCAATACACATGA-A-AA
1 TGTATCAATACA-AT-ACACAA
*
230983 TGTATCGATACAATACACAA
1 TGTATCAATACAATACACAA
231003 TGTATCAATACA
1 TGTATCAATACA
231015 TCCATAAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 3 0.11
20 24 0.86
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (20 bp):
TGTATCAATACAATACACAA
Found at i:231694 original size:20 final size:21
Alignment explanation
Indices: 231656--231694 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
231646 TCTTCCAACC
* *
231656 TTTTACTTTTTTTTGTTTGCA
1 TTTTACTTTTATTTCTTTGCA
231677 TTTTA-TTTTATTTCTTTG
1 TTTTACTTTTATTTCTTTG
231695 AAAAAAGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.10, C:0.08, G:0.08, T:0.74
Consensus pattern (21 bp):
TTTTACTTTTATTTCTTTGCA
Found at i:232796 original size:13 final size:13
Alignment explanation
Indices: 232778--232817 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
232768 TACTATTTAT
232778 AGTGTATCGATAC
1 AGTGTATCGATAC
232791 AGTGTATCGATAC
1 AGTGTATCGATAC
* *
232804 AATGTATTGATAC
1 AGTGTATCGATAC
232817 A
1 A
232818 TGAATAGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (13 bp):
AGTGTATCGATAC
Found at i:236622 original size:21 final size:21
Alignment explanation
Indices: 236598--236639 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
236588 ATCCATTTCT
* *
236598 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
236619 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCAACATCTTGA
236640 ACGATTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:238289 original size:13 final size:13
Alignment explanation
Indices: 238271--238310 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
238261 TACTATTTAT
238271 AGTGTATCGATAC
1 AGTGTATCGATAC
238284 AGTGTATCGATAC
1 AGTGTATCGATAC
* *
238297 AATGTATTGATAC
1 AGTGTATCGATAC
238310 A
1 A
238311 TGAATAGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (13 bp):
AGTGTATCGATAC
Found at i:238969 original size:22 final size:22
Alignment explanation
Indices: 238920--238970 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
238910 ATATTAATTA
*
238920 TTTTATAATTAATATTAAACAAG
1 TTTTA-AATTAATATTAAAAAAG
*
238943 ATTTAAATTAA-ATTAAAAATAG
1 TTTTAAATTAATATTAAAAA-AG
238965 TTTTAA
1 TTTTAA
238971 CTAAATAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.29
22 13 0.54
23 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (22 bp):
TTTTAAATTAATATTAAAAAAG
Found at i:250584 original size:52 final size:52
Alignment explanation
Indices: 250436--250564 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
250426 CGAAATATGA
250436 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
250488 AAATTTGCCTGCATATATCGATACATTTTATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
250540 AAATTTGCCTGCATGTATCGCTACA
1 AAATTTGCCTGCATGTATCGATACA
250565 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:250591 original size:13 final size:13
Alignment explanation
Indices: 250573--250597 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
250563 CAAAGATCAG
250573 TGTATCGATACAA
1 TGTATCGATACAA
250586 TGTATCGATACA
1 TGTATCGATACA
250598 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:250610 original size:21 final size:21
Alignment explanation
Indices: 250584--250663 Score: 151
Period size: 21 Copynumber: 3.8 Consensus size: 21
250574 GTATCGATAC
250584 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
*
250605 AATGTATCGATGCATTTGAGT
1 AATGTATCGATACATTTGAGT
250626 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
250647 AATGTATCGATACATTT
1 AATGTATCGATACATTT
250664 TTTGGCAGTA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTTGAGT
Found at i:250706 original size:19 final size:18
Alignment explanation
Indices: 250682--250779 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
250672 TAGCCTATAT
250682 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
250701 TGTATCGATAC--AC---
1 TGTATCGATACAAACTTA
250714 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
250733 TGTATCGATTC--A--T-
1 TGTATCGATACAAACTTA
250746 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
250766 TGTATCGATACAAA
1 TGTATCGATACAAA
250780 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 1 0.02
16 6 0.09
19 23 0.36
20 13 0.20
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:250719 original size:13 final size:13
Alignment explanation
Indices: 250701--250725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
250691 ACAAAACTTA
250701 TGTATCGATACAC
1 TGTATCGATACAC
250714 TGTATCGATACA
1 TGTATCGATACA
250726 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:250723 original size:32 final size:32
Alignment explanation
Indices: 250682--250777 Score: 156
Period size: 32 Copynumber: 3.0 Consensus size: 32
250672 TAGCCTATAT
*
250682 TGTATCGATACAAAACTTATGTATCGATACAC
1 TGTATCGATACAACACTTATGTATCGATACAC
* *
250714 TGTATCGATACAACACTTATGTATCGATTCAT
1 TGTATCGATACAACACTTATGTATCGATACAC
250746 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACAC-TTATGTATCGATACA
250778 AATCGTTGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 45 0.76
33 14 0.24
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAC
Found at i:251216 original size:22 final size:21
Alignment explanation
Indices: 251170--251240 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
251160 AAACTAAAGG
*
251170 TATCGATACATT--CATGTAATG
1 TATCGATACATTGCCA--TAATA
251191 TATCGATACATTTGGCC-TAATA
1 TATCGATACA-TT-GCCATAATA
*
251213 TATCAATACATTGCCATAATA
1 TATCGATACATTGCCATAATA
251234 TATCGAT
1 TATCGAT
251241 CTACTAAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
20 3 0.07
21 23 0.55
22 15 0.36
25 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (21 bp):
TATCGATACATTGCCATAATA
Found at i:251234 original size:21 final size:22
Alignment explanation
Indices: 251186--251237 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
251176 TACATTCATG
* *
251186 TAATGTATCGATACATTTGGCC
1 TAATATATCAATACATTTGGCC
251208 TAATATATCAATACA-TT-GCC
1 TAATATATCAATACATTTGGCC
251228 ATAATATATC
1 -TAATATATC
251238 GATCTACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 11 0.41
22 13 0.48
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (22 bp):
TAATATATCAATACATTTGGCC
Found at i:251333 original size:21 final size:21
Alignment explanation
Indices: 251309--251354 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
251299 TCTTGTATCA
251309 ATACATTAATGA-AATGTACCG
1 ATACATTAAT-ATAATGTACCG
* *
251330 ATACATTGATATAATGTATCG
1 ATACATTAATATAATGTACCG
251351 ATAC
1 ATAC
251355 CTAGACATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (21 bp):
ATACATTAATATAATGTACCG
Found at i:251364 original size:21 final size:21
Alignment explanation
Indices: 251321--251378 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
251311 ACATTAATGA
* * *
251321 AATGTACCGATACATTGATAT
1 AATGTATCGATACATAGACAT
*
251342 AATGTATCGATACCTAGACAT
1 AATGTATCGATACATAGACAT
*
251363 AATGTATCAATACATA
1 AATGTATCGATACATA
251379 CATTAAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACATAGACAT
Found at i:252103 original size:21 final size:20
Alignment explanation
Indices: 252079--252134 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
252069 ACAAACAGAA
*
252079 AATGTATCGATACACTGAGTG
1 AATGTATCGATACA-TGACTG
*
252100 AATGTATCGATACATGCCTG
1 AATGTATCGATACATGACTG
252120 ATATGTATCGATACA
1 A-ATGTATCGATACA
252135 AAACCACCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGACTG
Found at i:254660 original size:119 final size:120
Alignment explanation
Indices: 254448--254691 Score: 402
Period size: 119 Copynumber: 2.0 Consensus size: 120
254438 ATATATATAT
* * *
254448 AATGCCTTTAACTTCCCAAATTGTTTCTTTCGAGACGTGCGGACATCTCGAGCATGTCGAACCAA
1 AATGCCTTTAACTTCCCAAATTATTTCTTTCGAGACGTGCGAACACCTCGAGCATGTCGAACCAA
*
254513 ATATGTTAGGCACATCGAATCGAGAACAACGCTTAAGCAAAATAAAAATAAATAA
66 ATATGTTAGGCACATCAAATCGAGAACAACGCTTAAGCAAAATAAAAATAAATAA
* *
254568 AATGCCTTTAACTTCCCAACTTATTTCTTTC-ATGACGTGTGAAC-CCTCGAGCATGTCGAACCA
1 AATGCCTTTAACTTCCCAAATTATTTCTTTCGA-GACGTGCGAACACCTCGAGCATGTCGAACCA
*
254631 AATATGTTAGGCACATCAAATCGAGAACAAGGCTTAAGCAAAATAAAAATAAATAA
65 AATATGTTAGGCACATCAAATCGAGAACAACGCTTAAGCAAAATAAAAATAAATAA
254687 AATGC
1 AATGC
254692 GTTTTATATC
Statistics
Matches: 116, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
119 78 0.67
120 38 0.33
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (120 bp):
AATGCCTTTAACTTCCCAAATTATTTCTTTCGAGACGTGCGAACACCTCGAGCATGTCGAACCAA
ATATGTTAGGCACATCAAATCGAGAACAACGCTTAAGCAAAATAAAAATAAATAA
Found at i:258365 original size:11 final size:11
Alignment explanation
Indices: 258340--258411 Score: 65
Period size: 11 Copynumber: 6.1 Consensus size: 11
258330 AAAATAATTA
258340 AAATA-AATAT
1 AAATATAATAT
258350 AAAATATAATAT
1 -AAATATAATAT
*
258362 AAATATTATAT
1 AAATATAATAT
*
258373 AAATATATTAT
1 AAATATAATAT
258384 AATTTATATAATAT
1 AA---ATATAATAT
258398 AAATTATTAATAT
1 AAA-TA-TAATAT
258411 A
1 A
258412 TTAAAATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
11 27 0.53
12 7 0.14
13 7 0.14
14 10 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATATAATAT
Found at i:258384 original size:27 final size:27
Alignment explanation
Indices: 258354--258446 Score: 70
Period size: 27 Copynumber: 3.5 Consensus size: 27
258344 AAATATAAAA
258354 TATAATATAAATATTATATAAATATAT
1 TATAATATAAATATTATATAAATATAT
* *
258381 TATAAT-T-TATATAATATAAAT-TAT
1 TATAATATAAATATTATATAAATATAT
*
258405 TA-ATATATTAAA-ATTTTTATAAATATAT
1 TATA-ATA-TAAATA-TTATATAAATATAT
* * *
258433 AATATTTTAAATAT
1 TATAATATAAATAT
258447 AATTTAAACT
Statistics
Matches: 50, Mismatches: 8, Indels: 16
0.68 0.11 0.22
Matches are distributed among these distances:
23 1 0.02
24 7 0.14
25 12 0.24
26 3 0.06
27 20 0.40
28 6 0.12
29 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATAATATAAATATTATATAAATATAT
Found at i:258393 original size:22 final size:20
Alignment explanation
Indices: 258346--258434 Score: 65
Period size: 22 Copynumber: 4.3 Consensus size: 20
258336 ATTAAAATAA
258346 ATATAAAATATAATATAAAT
1 ATATAAAATATAATATAAAT
*
258366 ATTATATAAATATATTAT-AAT
1 A-TATA-AAATATAATATAAAT
* * *
258387 TTATATAATATAAATTATTAAT
1 ATATAAAATAT-AA-TATAAAT
**
258409 ATATTAAAAT-TTTTATAAAT
1 ATA-TAAAATATAATATAAAT
258429 ATATAA
1 ATATAA
258435 TATTTTAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
19 8 0.15
20 15 0.28
21 10 0.19
22 16 0.30
23 5 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATAAAATATAATATAAAT
Found at i:258393 original size:36 final size:35
Alignment explanation
Indices: 258353--258447 Score: 117
Period size: 36 Copynumber: 2.7 Consensus size: 35
258343 TAAATATAAA
*
258353 ATATAATATAAATATTATATAAATATATTATAATTT
1 ATATAATATAAATATTAT-TAAATATATTAAAATTT
258389 ATATAATAT-AA-ATTATT-AATATATTAAAATTT
1 ATATAATATAAATATTATTAAATATATTAAAATTT
*
258421 TTATAAATATATAATATT-TTAAATATA
1 ATAT-AATATA-AATATTATTAAATATA
258448 ATTTAAACTA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
32 17 0.33
33 6 0.12
34 5 0.10
35 6 0.12
36 18 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
ATATAATATAAATATTATTAAATATATTAAAATTT
Found at i:258400 original size:54 final size:49
Alignment explanation
Indices: 258337--258448 Score: 120
Period size: 52 Copynumber: 2.2 Consensus size: 49
258327 TGAAAAATAA
*
258337 TTAAA-ATAAA-TATAAAATATAATATAAATATTATATAAATATATTATAATT
1 TTAAATATAAATTAT-AAATATAATA-AAAT-TTATATAAATATATAAT-ATT
* * *
258388 TATATAATATAAATTATTAATATATTAAAATTTTTATAAATATATAATATT
1 T-TA-AATATAAATTATAAATATAATAAAATTTATATAAATATATAATATT
258439 TTAAATATAA
1 TTAAATATAA
258449 TTTAAACTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
49 7 0.13
50 2 0.04
51 5 0.09
52 17 0.32
53 6 0.11
54 13 0.25
55 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (49 bp):
TTAAATATAAATTATAAATATAATAAAATTTATATAAATATATAATATT
Found at i:259009 original size:17 final size:17
Alignment explanation
Indices: 258989--259023 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
258979 AAAAAATATT
* *
258989 TTTAATAAATTTAGATA
1 TTTAACAAATTTAAATA
259006 TTTAACAAATTTAAATA
1 TTTAACAAATTTAAATA
259023 T
1 T
259024 CAAACAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
TTTAACAAATTTAAATA
Found at i:260922 original size:14 final size:14
Alignment explanation
Indices: 260882--260928 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
260872 TTATTATTTG
*
260882 ATATTTATA-TAAA
1 ATATTAATATTAAA
*
260895 ATA-T-ATATTTAA
1 ATATTAATATTAAA
260907 ATATTAATATTAAA
1 ATATTAATATTAAA
260921 ATATTAAT
1 ATATTAAT
260929 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 3 0.10
12 7 0.24
13 4 0.14
14 15 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTAATATTAAA
Found at i:260935 original size:16 final size:15
Alignment explanation
Indices: 260916--260957 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
260906 AATATTAATA
260916 TTAAAATATTAATTTT
1 TTAAAATA-TAATTTT
*
260932 TTAATATATAATTTT
1 TTAAAATATAATTTT
*
260947 TTAAAAAATAA
1 TTAAAATATAA
260958 ATATATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAAAATATAATTTT
Found at i:260945 original size:15 final size:14
Alignment explanation
Indices: 260906--260950 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
260896 TATATATTTA
* **
260906 AATATTAATATTAA
1 AATATTAATTTTTT
260920 AATATTAATTTTTT
1 AATATTAATTTTTT
260934 AATATATAATTTTTT
1 AATAT-TAATTTTTT
260949 AA
1 AA
260951 AAAATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATATTAATTTTTT
Found at i:260970 original size:6 final size:6
Alignment explanation
Indices: 260959--261009 Score: 84
Period size: 6 Copynumber: 8.3 Consensus size: 6
260949 AAAAAATAAA
*
260959 TATATT TATATT AATATT TATATT TATATT TAATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT T-ATATT TATATT TATATT
261008 TA
1 TA
261010 AATTCAGAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 36 0.86
7 6 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:260993 original size:19 final size:19
Alignment explanation
Indices: 260959--261010 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
260949 AAAAAATAAA
260959 TATATTTATA-TTAATATT
1 TATATTTATATTTAATATT
260977 TATATTTATATTTAATATT
1 TATATTTATATTTAATATT
260996 TATATTTATATTTAA
1 TATATTTATATTTAA
261011 ATTCAGAGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 10 0.30
19 23 0.70
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTTATATTTAATATT
Found at i:261292 original size:14 final size:14
Alignment explanation
Indices: 261273--261307 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
261263 TCCGTTGATA
*
261273 AAATTGATTTGTTT
1 AAATTGATTCGTTT
261287 AAATTGATTCGTTT
1 AAATTGATTCGTTT
261301 AAATTGA
1 AAATTGA
261308 GTTTTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (14 bp):
AAATTGATTCGTTT
Found at i:261666 original size:23 final size:23
Alignment explanation
Indices: 261631--261682 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
261621 TTAAAAATAA
*
261631 AAATTATTTTTA-TATTAATATTT
1 AAATAATTTTTATTATTAA-ATTT
*
261654 ATATAATTTTTATTATTAAATTT
1 AAATAATTTTTATTATTAAATTT
261677 AAATAA
1 AAATAA
261683 AAAATACTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
AAATAATTTTTATTATTAAATTT
Found at i:262484 original size:22 final size:20
Alignment explanation
Indices: 262459--262555 Score: 56
Period size: 21 Copynumber: 4.7 Consensus size: 20
262449 AGTTTTTAAA
*
262459 AAATTAAATAGATATTAATTAT
1 AAATTAAATA-A-ATTAAATAT
*
262481 AAATTTAATAAATTAAATAT
1 AAATTAAATAAATTAAATAT
*
262501 -AATTACTCATAAACTT-AATA-
1 AAATTA--AATAAA-TTAAATAT
**
262521 AATATTAAATAAAATTACTTAT
1 AA-ATTAAAT-AAATTAAATAT
*
262543 AAATTTAATAAAT
1 AAATTAAATAAAT
262556 ATTAGATATA
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
19 4 0.07
20 16 0.27
21 22 0.37
22 17 0.29
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (20 bp):
AAATTAAATAAATTAAATAT
Found at i:262565 original size:22 final size:23
Alignment explanation
Indices: 262518--262566 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
262508 CATAAACTTA
*
262518 ATAAATATTAAATAAAATTACTT
1 ATAAATATTAAATAAAATTACAT
*
262541 ATAAAT-TT-AATAAATATTAGAT
1 ATAAATATTAAATAAA-ATTACAT
262563 ATAA
1 ATAA
262567 TTACACCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.26
22 11 0.48
23 6 0.26
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
ATAAATATTAAATAAAATTACAT
Found at i:262578 original size:32 final size:32
Alignment explanation
Indices: 262453--262583 Score: 144
Period size: 32 Copynumber: 4.2 Consensus size: 32
262443 AACATAAGTT
* * *
262453 TTTAA-AAA-ATTAAATAGATATTAATTATAAA
1 TTTAATAAATATTAAATATA-ATTACTCATAAA
262484 TTTAAT-AA-ATTAAATATAATTACTCATAAA
1 TTTAATAAATATTAAATATAATTACTCATAAA
* * *
262514 CTTAATAAATATTAAATAAAATTACTTATAAA
1 TTTAATAAATATTAAATATAATTACTCATAAA
* * *
262546 TTTAATAAATATTAGATATAATTACACCTAAA
1 TTTAATAAATATTAAATATAATTACTCATAAA
262578 TTTAAT
1 TTTAAT
262584 GATCATTGAA
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
30 15 0.18
31 18 0.21
32 52 0.61
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (32 bp):
TTTAATAAATATTAAATATAATTACTCATAAA
Found at i:262598 original size:62 final size:62
Alignment explanation
Indices: 262454--262583 Score: 165
Period size: 64 Copynumber: 2.1 Consensus size: 62
262444 ACATAAGTTT
* *
262454 TTAA-AAA-ATTAAATAGATATTAATTATAAATTTAATAAATTAAATATAATTACTCATAAAC
1 TTAATAAATATTAAATA-AAATTAATTATAAATTTAATAAATTAAATATAATTACACATAAAC
* * * *
262515 TTAATAAATATTAAATAAAATTACTTATAAATTTAATAAATATTAGATATAATTACACCTAAAT
1 TTAATAAATATTAAATAAAATTAATTATAAATTTAAT-AA-ATTAAATATAATTACACATAAAC
262579 TTAAT
1 TTAAT
262584 GATCATTGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
61 4 0.07
62 21 0.36
63 10 0.17
64 24 0.41
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (62 bp):
TTAATAAATATTAAATAAAATTAATTATAAATTTAATAAATTAAATATAATTACACATAAAC
Found at i:266563 original size:23 final size:23
Alignment explanation
Indices: 266510--266577 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
266500 TATTTTTGAT
* *
266510 TATTTTTAATTAAATTAATATTA
1 TATTTTTTATAAAATTAATATTA
266533 T-TTATTTTATAAAATTAAT-TTAA
1 TATT-TTTTATAAAATTAATATT-A
*
266556 TATTTTTTAT-TAATTAA-ATTA
1 TATTTTTTATAAAATTAATATTA
266577 T
1 T
266578 GTATATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
21 2 0.05
22 12 0.32
23 22 0.58
24 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTTTTTATAAAATTAATATTA
Found at i:266573 original size:28 final size:28
Alignment explanation
Indices: 266498--266573 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
266488 CAAATTTTAA
* **
266498 AATATTTTTGATTATTTTTAATTAAATT
1 AATATTTTTTATTATTTAAAATTAAATT
* *
266526 AATATTATTTATT-TTATAAAATTAATTT
1 AATATTTTTTATTATT-TAAAATTAAATT
*
266554 AATATTTTTTATTAATTAAA
1 AATATTTTTTATTATTTAAA
266574 TTATGTATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 2 0.05
28 36 0.92
29 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (28 bp):
AATATTTTTTATTATTTAAAATTAAATT
Found at i:266738 original size:20 final size:21
Alignment explanation
Indices: 266701--266746 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
266691 TTTGTTTTTA
*
266701 AATTTTTTAATAATTTTATTT
1 AATTTTTTAATAATTTTATAT
*
266722 AATTTTTTATTAA-TTTATAT
1 AATTTTTTAATAATTTTATAT
266742 AATTT
1 AATTT
266747 GATTTGATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTTTTTAATAATTTTATAT
Found at i:267907 original size:30 final size:31
Alignment explanation
Indices: 267867--267932 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
267857 AAATCTTTTA
*
267867 TTATTATCTT-ATCTCATCTATAGACATCTT
1 TTATTATCTTAATCTCATCTATAAACATCTT
* * *
267897 TTATTCTCTTAATCTCATTTATAAATATCTT
1 TTATTATCTTAATCTCATCTATAAACATCTT
267928 TTATT
1 TTATT
267933 TTGTAACGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.27, C:0.17, G:0.02, T:0.55
Consensus pattern (31 bp):
TTATTATCTTAATCTCATCTATAAACATCTT
Found at i:268909 original size:2 final size:2
Alignment explanation
Indices: 268902--268939 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
268892 AGACTAGTAC
268902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
268940 TGATGTATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:270710 original size:2 final size:2
Alignment explanation
Indices: 270703--270735 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
270693 CTAAGAAAGT
270703 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
270736 TTATTTATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:271464 original size:2 final size:2
Alignment explanation
Indices: 271454--271489 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
271444 GTTCCCTCTC
271454 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
271490 TCCTTTTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:275183 original size:20 final size:20
Alignment explanation
Indices: 275158--275223 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
275148 TTTGCTTGCA
275158 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
275178 TGTATCGATAC----A--A-
1 TGTATCGATACAAAGATCAG
*
275191 TGTATTGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
275211 TGTATCGATACAA
1 TGTATCGATACAA
275224 TGTATCAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 10 0.27
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 23 0.62
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAAAGATCAG
Found at i:275189 original size:52 final size:52
Alignment explanation
Indices: 275041--275169 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
275031 CGAAATATGA
* *
275041 AAATTTGCCTGCATGTATCGATACATTTCATAATGTATCTATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
** *
275093 AAATTTGCCTATATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
275145 AAATTTGCTTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
275170 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:275201 original size:33 final size:33
Alignment explanation
Indices: 275157--275235 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
275147 ATTTGCTTGC
275157 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGATCAGTGTATCGATACA
*
275190 ATGTATTGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGATCAGTGTATCGATACA
*
275223 ATGTATCAATACA
1 ATGTATCGATACA
275236 TTTGAGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAGTGTATCGATACA
Found at i:276187 original size:49 final size:49
Alignment explanation
Indices: 276080--277040 Score: 1072
Period size: 49 Copynumber: 19.8 Consensus size: 49
276070 GAAAAGAATA
* * * ** *
276080 CCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCG
1 CCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGAT---GAAGGTG
* * * *
276133 CCAATATGCTTATTCAAGACCAGCGATACTAGACTTAAAGATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
*
276182 CCAATATGCTGATTCAAGGCCATCGATATTGGACTTAAAGATGACAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTG
276234 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * *
276283 CCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * *
276332 CCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGACAAAGGCG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTG
* * *
276384 CCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAAAGATGACAAAGGCG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTG
*
276436 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
276485 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * ** *
276528 CCAATGTGCTGATTCAAGGCC-GCGACATTGGACTTAAAGACAAAGATG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* *
276576 CCAATATGCTGATTCAAGGCCAACGATATTGGGCTT----A--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * * * *
276619 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAAGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
*
276668 CCAATATGCTGATTCAAGGCTAGCGATATTGGACTT----A--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * * * **
276711 CCAATGTGCTGATTCAAGGCCAGGGACATTGGTCTTAAAGACAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* *
276760 CCAATATACTGATTCAAGGCCAGCAATATTGGACTTAAAGATGACAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTG
** *
276812 CCAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * **
276861 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* *
276910 CCAATATGCTGATTCAAGGCCATCGATATTAGACTT----A--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * * * **
276953 CCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* *
277002 CCAACATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
277041 AGAAGATGCC
Statistics
Matches: 786, Mismatches: 88, Indels: 72
0.83 0.09 0.08
Matches are distributed among these distances:
42 13 0.02
43 135 0.17
45 4 0.01
46 1 0.00
47 3 0.00
48 25 0.03
49 384 0.49
52 197 0.25
53 24 0.03
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
Done.