Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2600
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: 43128
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Found at i:1220 original size:13 final size:13
Alignment explanation
Indices: 1202--1228 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1192 TACACAAAGT
1202 ATGTATCGATACA
1 ATGTATCGATACA
1215 ATGTATCGATACA
1 ATGTATCGATACA
1228 A
1 A
1229 AAAAATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1225 original size:32 final size:32
Alignment explanation
Indices: 1184--1246 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
1174 GTAGCCAACT
* *
1184 TGTATCGATAC-ACAAAGTATGTATCGATACAA
1 TGTATCGATACAAAAAAAT-TGTATCGATACAA
1216 TGTATCGATACAAAAAAATTGTATCGATACA
1 TGTATCGATACAAAAAAATTGTATCGATACA
1247 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (32 bp):
TGTATCGATACAAAAAAATTGTATCGATACAA
Found at i:7314 original size:12 final size:13
Alignment explanation
Indices: 7297--7333 Score: 67
Period size: 12 Copynumber: 2.9 Consensus size: 13
7287 CATTTTTCTT
7297 TGTATCGATACA-
1 TGTATCGATACAC
7309 TGTATCGATACAC
1 TGTATCGATACAC
7322 TGTATCGATACA
1 TGTATCGATACA
7334 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:7326 original size:45 final size:44
Alignment explanation
Indices: 7231--7333 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 44
7221 AAATGTCCAA
* *
7231 AATGTATCGATACATGTTTTGTGTATCGATACATCTGGAAATTC
1 AATGTATCGATACATGTTTTGTGTATCGATACATCTAGAAATAC
* * * ***
7275 AATGTATCGATACATTTTTCTTTGTATCGATACATGTATCGATAC
1 AATGTATCGATACATGTTT-TGTGTATCGATACATCTAGAAATAC
*
7320 ACTGTATCGATACA
1 AATGTATCGATACA
7334 GGGGGATTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.37
45 31 0.63
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (44 bp):
AATGTATCGATACATGTTTTGTGTATCGATACATCTAGAAATAC
Found at i:7495 original size:20 final size:20
Alignment explanation
Indices: 7452--7497 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
7442 AAATCTTTTG
7452 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
7473 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
7493 CAAAA
1 CAAAA
7498 CCAGCATAAA
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:9703 original size:19 final size:18
Alignment explanation
Indices: 9679--9742 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
9669 TAGCCAAACT
9679 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
9698 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
9711 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
9730 TTGTATCGATACA
1 -TGTATCGATACA
9743 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:9715 original size:13 final size:13
Alignment explanation
Indices: 9697--9722 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9687 TACACAAAAT
9697 ATGTATCGATACA
1 ATGTATCGATACA
9710 ATGTATCGATACA
1 ATGTATCGATACA
9723 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:9720 original size:32 final size:33
Alignment explanation
Indices: 9679--9742 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
9669 TAGCCAAACT
*
9679 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
9711 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
9743 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:12401 original size:473 final size:474
Alignment explanation
Indices: 10492--12960 Score: 2742
Period size: 473 Copynumber: 5.2 Consensus size: 474
10482 TTCACATACC
* * * * *
10492 AATCCCTATTCTTTTTAGGATGAGGCACTATAAACATAGTCTTCTCA-TAGGATACACGATACTG
1 AATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATAATG
* * *
10556 GTGCTTTGATTT-GCAAGAAAGGCTTTTTTCTCACCAATTTTAGTAAAGTCTATGTTCGTGCCTC
66 GTGCTTTGATTTCGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTAAGTTCGAGCCTC
* * * * * *
10620 AAAAGTGGCAAACATGGATTCTAGTAATGATCTTCTTTCATTTAATGATTAGGCA-TAAAAACAT
131 AAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGTAGGCACTATAAACAC
* * * **
10684 ATT-TACATCATTAGGATAAATGATATTGATGATTTTCTTTTGCAAGGAAATCTTTTCTTTGTTC
196 ATTCT-CCTCTTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* * * * * * *
10748 T-TTTTTCTTTAAATAAAAGTTCATCCCTTAAACAACACAAACATTAATTCTCATAACAGTCTCC
260 TATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAAAGACAAGCATTGATTCTCATAACAGTCTCC
10812 ATTCTTTTC-AGGATTGGAAGCCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTT
325 ATTCTTTTCAAGG-TTGGAA-CC-AAAACACATTCCCTTCATTAGGATACATGACATTGATGCTT
* * * ** * * **
10876 T-GTTGTTGCAAGAAAATCTTTT-TTTCCCCTCATTTTTCATAGAATTAAAGTTTGTCTCAAAAA
387 TAG-TGTCGCAAGAAAAGCTTTTCTTT-CCATTGTTTTTGATAGAATCAAAGTTTGTCTCTTAAA
* * * *
10939 TAAGGCAAACATGAATACTCGTACT
450 TAAGACAAACATAAATACTCATGCT
* * * * * *
10964 AATCCCCATTCTTTTTAGAATTAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATATTT
1 AATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATAATG
* * * ** * * * *
11029 GTGCTTT-AGTTTCACAAGAAAGGCTTTTTTCCTACTAATTTTACCAAAATCCAAGTTTGTGCCT
66 GTGCTTTGA-TTTCGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTAAGTTCGAGCCT
* ** ** *
11093 CAAAAGAGACAAACTTGGATTCCCGTAA--A-AATCTTTCATTTTATGAGTAGGAACTATAAACA
130 CAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGTAGGCACTATAAACA
* ** * * *
11155 CA-T-T-CTCATTAGGATAAATGATATTGATGATTTTCTTTTGTGTGAAAATTTTTTCTTTTCCC
195 CATTCTCCTCTTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* * * * *
11217 TATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAAAGATAAGCCTCGATTCTCGTAAAAGTCTCC
260 TATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAAAGACAAGCATTGATTCTCATAACAGTCTCC
* * * * *
11282 ATTCTTATCAAGGTTGGAACTGAAAATACATTCTCTTCATCAGGATACATGACATTGATGCTTTA
325 ATTCTTTTCAAGGTTGGAAC-CAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTA
* * * * * *
11347 GTGTTGCAAGAAAAGCTTTTCTTTCCATTGCTTATGATAGAATGAAAGTTTATCTCTTGAATAAG
389 GTGTCGCAAGAAAAGCTTTTCTTTCCATTGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAG
* **
11412 AGAAACACGAATA--CATGTACT
454 ACAAACATAAATACTCATG--CT
* * ** * * * * *
11433 AATCCCCATACTTTTCAGGATGAGGTGCCATAAACATAGTTTTCTCTTTAGGATGCACAATAATT
1 AATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATAATG
* * * *
11498 GTGCTTTGATTTCGCAAGAAAGGCTTTTTTCCCAGCAATTTTAATCAAGTCT-ATTTC-ATGCCT
66 GTGCTTTGATTTCGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTAAGTTCGA-GCCT
* * * *
11561 TAAAAGAGACAAACATGGATTCTAGTATTGATCTTCTTTCATTTTATGAGTAAGCATTATAAACA
130 CAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGTAGGCACTATAAACA
* *
11626 CATTCTCTTCTTTAGGATAAATGATATTGATG--TTTC-TTTGCATGGAAATCTTTTCTTTGCCT
195 CATTCTCCTCTTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* * * *
11688 TATTTTCCTTAATATCAAAGTTCATCCCTTAAAAAAGACAAGCATTGATCCTCTTAATAGTCTCC
260 TATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAAAGACAAGCATTGATTCTCATAACAGTCTCC
* ** * *
11753 ATTCTTTTCAAGGTTAGAACTGTAAACATATTCTCTTCATTAGGATACATGACATTGATGCTTTA
325 ATTCTTTTCAAGGTTGGAAC-CAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTA
* *
11818 GTGTCGCAACAAAAGC-TTTCTTTCCATTGTTTTCGATAGAATCAAAGTTTGTCTCTTAAATAAG
389 GTGTCGCAAGAAAAGCTTTTCTTTCCATTGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAG
* * *
11882 ATAAACATAAATACTCGTGTT
454 ACAAACATAAATACTCATGCT
* * * *
11903 AACCCCCATTCTTTTCGGGATTAGGCACCATAAACATCGTCTTCTCATTAGGATAGACGATAATG
1 AATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATAATG
* * * *
11968 GAGCTTT-AGTTTCGCAAGAAACGCTTTTTTCCCATCAATTTTATTAAAGTCTAAGTTCGAGCCT
66 GTGCTTTGA-TTTCGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTAAGTTCGAGCCT
* *
12032 CAAAAGAGACAAACATGGATTCTAG-AATGTTCTTCTTTCATTTTATGTGTAGGCACTATAAACA
130 CAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGTAGGCACTATAAACA
* **
12096 CATTTTCCT-TTTTCGAGTAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCC
195 CATTCTCCTCTTTAGGA-TAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCC
* * * * * * * * *
12160 CTATTTT-TTTAAAATCAAAGTTTATCCTTTAAATAAGACAAGCATTAATTCTCGTAATATTCTT
259 CTATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAAAGACAAGCATTGATTCTCATAACAGTCTC
* * * * * *
12224 CATTCTTTTCATGGTTGGGAACCAAAAGCACATTCCCTTTATTATGATACAGGACATTGAAGCTG
324 CATTCTTTTCAAGGTT-GGAACCAAAA-CACATTCCCTTCATTAGGATACATGACATTGATGCTT
* * *
12289 TAG-GCCGC-AGAAAAAGCTTTTCTTTCCATTGTTTTTGATAAAATCAAAGTTTGTCTCTTTAAT
387 TAGTGTCGCAAG-AAAAGCTTTTCTTTCCATTGTTTTTGATAGAATCAAAGTTTGTCTCTTAAAT
*
12352 AAGACAAAGATAAATACTCATGCT
451 AAGACAAACATAAATACTCATGCT
** * * * *
12376 AATCCCCATTCTTTTCAATATTAGGCACCACAAACTTAGTCTTCTTATTAGGATACACGATATTG
1 AATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATAATG
*
12441 GTGCTTTGATTTCGCAAGAAAGGCTTTTTTCACACCAATTTTAGTAAAGTCTAAGTTCGTA-CCT
66 GTGCTTTGATTTCGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTAAGTTCG-AGCCT
* * * * *
12505 TAAAAGAGAAAAATATGGATTCTAGTAATAATCCTCTTTCATTTTATGAGTAGGCACTATAAACA
130 CAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGTAGGCACTATAAACA
* * * *
12570 CATTCCCCTCATTAGGATAAATGATATTGATGATTTTCTTTT-AATTGAAAATCTTTTCTTTGCC
195 CATTCTCCTCTTTAGGATAAATGATATTGATGATTTTCTTTTGCA-TGGAAATCTTTTCTTTGCC
* * * * * *
12634 CTATTTTCCTTAAAATCAAAATTAATCTCTTAAATAAGATAAGCATTGTTTCTCATAACAGTCTC
259 CTATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAAAGACAAGCATTGATTCTCATAACAGTCTC
* * *
12699 CATTCTTTTCAAAGTTGCGAACCAAAAACATATTCCCTTCATTAGGATACATGACACTGATGCTT
324 CATTCTTTTCAAGGTTG-GAACC-AAAACACATTCCCTTCATTAGGATACATGACATTGATGCTT
* *
12764 TAGTGTCGCACA-AAAAGCTTTTCTTTCCATCT-TTTTTGATAGAATCAAAGATTATCTCTTAAA
387 TAGTGTCGCA-AGAAAAGCTTTTCTTTCCAT-TGTTTTTGATAGAATCAAAGTTTGTCTCTTAAA
* *
12827 TAAGGCAAACATGAAA-ACTCATACT
450 TAAGACAAACAT-AAATACTCATGCT
* * * * *
12852 AATCCTCATTCCTTTT-AGGATGA-GCACTATAAACATAGTCTTCTCATTACGATACACGATACT
1 AATCCCCATT-CTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATAAT
* * * ** *
12915 AGTGTTTTGATTTTGCAAGAAATGTTTTTTTTCCCACTAATTTTAG
65 GGTGCTTTGATTTCGCAAGAAA-GGCTTTTTTCCCACCAATTTTAG
12961 CAAAAGCTTT
Statistics
Matches: 1675, Mismatches: 275, Indels: 90
0.82 0.13 0.04
Matches are distributed among these distances:
467 2 0.00
468 30 0.02
469 249 0.15
470 277 0.17
471 238 0.14
472 142 0.08
473 288 0.17
474 182 0.11
475 154 0.09
476 103 0.06
477 9 0.01
478 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (474 bp):
AATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATAATG
GTGCTTTGATTTCGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTAAGTTCGAGCCTC
AAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGTAGGCACTATAAACAC
ATTCTCCTCTTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
ATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAAAGACAAGCATTGATTCTCATAACAGTCTCCA
TTCTTTTCAAGGTTGGAACCAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTAGT
GTCGCAAGAAAAGCTTTTCTTTCCATTGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGAC
AAACATAAATACTCATGCT
Found at i:13143 original size:184 final size:186
Alignment explanation
Indices: 12776--13144 Score: 525
Period size: 185 Copynumber: 2.0 Consensus size: 186
12766 GTGTCGCACA
* * *
12776 AAAAGCTTTTCTTTCCATCTTTTTTGATAGAATCAAAGATTATCTCTTAAATAAGGCAAACATGA
1 AAAAGCTTTTCTTTCCATCGTTTTTGATAGAATCAAAGATTATCTCTTAAATAAGACAAACAAGA
*
12841 AAACTCATACTAATCCTCATTCCTTTTAGGATGAGCACTATAAACATAGTCTTCTCATTACGATA
66 AAACTCATACTAATCCTCATTCCTTTTAGGATGAGCACTATAAACATAGTCTTCTCATTACGACA
* * ** *
12906 CACGATACTAGTGTTTTGATTTTGCAAGAAATGTTTTTTTTCCCACTAATTTTAGC
131 CACGACACTAGTGTTTTGACTTTGCAAGAAATGGCTTTTTTCCCACCAATTTTAGC
12962 AAAAGCTTTT-TTTCCATCGTTTTTGATAGAATCAAAGATTATCTC-TAAATAAGACAAACAAGA
1 AAAAGCTTTTCTTTCCATCGTTTTTGATAGAATCAAAGATTATCTCTTAAATAAGACAAACAAGA
* * * * * *
13025 ATACTCATATTAATCCTCATT-CTTTTAAGGATTAGGTACTATGAACATAGTCTTCTCATTAGGA
66 AAACTCATACTAATCCTCATTCCTTTT-AGGATGA-GCACTATAAACATAGTCTTCTCATTACGA
13089 CACACGACACTAGT-TCTTTG-CTTTGCAAGGAAA-GGCTTTTTTCCCACCAATTTTAG
129 CACACGACACTAGTGT-TTTGACTTTGCAA-GAAATGGCTTTTTTCCCACCAATTTTAG
13145 TAAAGTCTGT
Statistics
Matches: 164, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
183 5 0.03
184 69 0.42
185 80 0.49
186 10 0.06
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (186 bp):
AAAAGCTTTTCTTTCCATCGTTTTTGATAGAATCAAAGATTATCTCTTAAATAAGACAAACAAGA
AAACTCATACTAATCCTCATTCCTTTTAGGATGAGCACTATAAACATAGTCTTCTCATTACGACA
CACGACACTAGTGTTTTGACTTTGCAAGAAATGGCTTTTTTCCCACCAATTTTAGC
Found at i:13596 original size:660 final size:661
Alignment explanation
Indices: 12300--13619 Score: 1633
Period size: 660 Copynumber: 2.0 Consensus size: 661
12290 AGGCCGCAGA
* * * * *
12300 AAAAGCTTTTCTTTCCATTGTTTTTGATAAAATCAAAGTTTGTCTCTTTAATAAGACAAAGATAA
1 AAAAGCTTTTCTTTCCATCGTTTTTGATAAAATCAAAGATTATCTCTTAAATAAGACAAACATAA
* * * * *
12365 ATACTCATGCTAATCCCCATTCTTTTCAATATTAGGCACCACAAACTTAGTCTTCTTATTAGGAT
66 ATACTCATACTAATCCCCATTCTTTTCAAGATTAGGCACCACAAACATAGTCTTCTCATTAGGAC
* * *
12430 ACACGATATTGGTGCTTTGATTTCGCAAGAAAGGCTTTTTTCACACCAATTTTAGTAAAGTCTAA
131 ACACGACACTAGTGCTTTGATTTCGCAAGAAAGGCTTTTTTCACACCAATTTTAGTAAAGTCT-A
* * **
12495 GTTCGTACCTTAAAAGAGAAAAATATGGATTCTAGTAATAATCCTCTTTCATTTTATGAGTAGGC
195 GTTCGTACCTCAAAAGAGAAAAACATGGATTCTAGTAATAATCCTCTTTCATTTTATGAGTAAAC
*
12560 ACTATAAACACATTCCCCTCATTAGGATAAATGATATTGATGATTTTCTTTTAATTGAAAATCTT
260 ACTATAAACACATTCCCCTCATTAGGATAAATGATATTGATGATTTTCTTTTAACTGAAAATCTT
* * * * * * * *
12625 TTCTTTGCCCTATTTTCCTTAAAATCAAAATTAATCTCTTAAATAAGATAAGCATTGTTTCTCAT
325 TACTTTGCCCTATTTTCCTTAAAATCAAAATTAACCCCTTAAATAACACAAACATCGATTCTCAT
* **
12690 AACAGTCTCCATTCTTTTCAAAGTTGCGAACCAAAAACATATTCCCTTCATTAGGATACATGACA
390 AACAGTCTCCATTCTTTTCAAAGTTGCGAACCAAAAACACATTCCCTTCATTAGGATACACAACA
* * * * *
12755 CTGATGCTTTAGTGTCGCACAAAAAGCTTTTCTTTCCATCTTTTTTGATAGAATCAAAGATTATC
455 CTAATGCTTTAGGGTCGCACAAAAAGCTTTTCTTTCCATCGTTTTTCAAAGAATCAAAGATTATC
* * * *
12820 TCTTAAATAAGGCAAACATGAAAACTCATACTAATCCTCATTCCTTTTAGGATGAGCACTATAAA
520 TCTAAAATAAGACAAACATGAAAACTCACACTAATCCTCATTCCTTTTAGGATGAGCACCATAAA
* * ** * *
12885 CATAGTCTTCTCATTACGATACACGATACTAGTGTTTTGATTTTGCAAGAAATGTTTTTTTTCCC
585 CATAGTCTTCTCATTACGATACACGATACTAGTGCTTTAATTTCACAAGAAAGGCTTTTTTTCCC
12950 ACTAATTTTAGC
650 ACTAATTTTAGC
*
12962 AAAAGCTTTT-TTTCCATCGTTTTTGATAGAATCAAAGATTATCTC-TAAATAAGACAAACA-AG
1 AAAAGCTTTTCTTTCCATCGTTTTTGATAAAATCAAAGATTATCTCTTAAATAAGACAAACATA-
* * * * **
13024 AATACTCATATTAATCCTCATTCTTTT-AAGGATTAGGTACTATGAACATAGTCTTCTCATTAGG
65 AATACTCATACTAATCCCCATTCTTTTCAA-GATTAGGCACCACAAACATAGTCTTCTCATTAGG
* * *
13088 ACACACGACACTAGTTCTTTGCTTT-GCAAGGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTC
129 ACACACGACACTAGTGCTTTGATTTCGCAA-GAAAGGCTTTTTTCACACCAATTTTAGTAAAGTC
* ** * * *
13152 T-GTATCTGTGCCTCAAAAGAGACCGAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAT
193 TAGT-TC-GTACCTCAAAAGAGA-AAAACATGGATTCTAGTAATAATCCTCTTTCATTTTATGAG
* * *
13216 TAAACACTGTAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTT-TTTTGCACTG-A
255 TAAACACTATAAACACATTCCCCTCATTAGGATAAATGATATTGATGATTTTCTTTT-AACTGAA
* * *
13279 AATCTTTACTTTGCCCTATTTTTCTTAAAAT-AAATGTTCACCCCTTAAATAACACAAACATCGA
319 AATCTTTACTTTGCCCTATTTTCCTTAAAATCAAA-ATTAACCCCTTAAATAACACAAACATCGA
* *
13343 TTCTCATAACAGTCTCCATTCTTTTC-AAGATTGGGAACCAAAAACACATTCCCTTTATTAGGAT
383 TTCTCATAACAGTCTCCATTCTTTTCAAAG-TTGCGAACCAAAAACACATTCCCTTCATTAGGAT
* * * *
13407 ACACAACATTAATGCTTT-GGGTCGCA-AGAAAAGCTCTTTTTTTCCCTCGTTTTTCAAAG-ATT
447 ACACAACACTAATGCTTTAGGGTCGCACA-AAAAGCT-TTTCTTTCCATCGTTTTTCAAAGAATC
* * * ** * * * * *
13469 AATGTTTGTCTCTAAAATGCGACAAACTTGAATACTCGCACTAATCC-CTATTCTTTTTAGGATT
510 AAAGATTATCTCTAAAATAAGACAAACATGAAAACTCACACTAATCCTC-ATTCCTTTTAGGATG
* * * *
13533 AGGCACCATAAACATAGTCTTCTCATTAGGATACATGATAGTGGTGCTTTAATTTCACAAGAAAG
574 A-GCACCATAAACATAGTCTTCTCATTACGATACACGATACTAGTGCTTTAATTTCACAAGAAAG
*
13598 GCTTTTTTTCCTACTAATTTTA
638 GCTTTTTTTCCCACTAATTTTA
13620 CTAAAGTCCA
Statistics
Matches: 558, Mismatches: 87, Indels: 28
0.83 0.13 0.04
Matches are distributed among these distances:
658 4 0.01
659 81 0.15
660 346 0.62
661 117 0.21
662 10 0.02
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (661 bp):
AAAAGCTTTTCTTTCCATCGTTTTTGATAAAATCAAAGATTATCTCTTAAATAAGACAAACATAA
ATACTCATACTAATCCCCATTCTTTTCAAGATTAGGCACCACAAACATAGTCTTCTCATTAGGAC
ACACGACACTAGTGCTTTGATTTCGCAAGAAAGGCTTTTTTCACACCAATTTTAGTAAAGTCTAG
TTCGTACCTCAAAAGAGAAAAACATGGATTCTAGTAATAATCCTCTTTCATTTTATGAGTAAACA
CTATAAACACATTCCCCTCATTAGGATAAATGATATTGATGATTTTCTTTTAACTGAAAATCTTT
ACTTTGCCCTATTTTCCTTAAAATCAAAATTAACCCCTTAAATAACACAAACATCGATTCTCATA
ACAGTCTCCATTCTTTTCAAAGTTGCGAACCAAAAACACATTCCCTTCATTAGGATACACAACAC
TAATGCTTTAGGGTCGCACAAAAAGCTTTTCTTTCCATCGTTTTTCAAAGAATCAAAGATTATCT
CTAAAATAAGACAAACATGAAAACTCACACTAATCCTCATTCCTTTTAGGATGAGCACCATAAAC
ATAGTCTTCTCATTACGATACACGATACTAGTGCTTTAATTTCACAAGAAAGGCTTTTTTTCCCA
CTAATTTTAGC
Found at i:17858 original size:473 final size:476
Alignment explanation
Indices: 16275--19952 Score: 4184
Period size: 473 Copynumber: 7.8 Consensus size: 476
16265 AAAAACTTGA
* * * * * *
16275 AATACTCGTACTAATCCCTATTCTTTTTAGGATTAGGCACCGTAAATATAGTTTTCTCATTAGGA
1 AATACTCATACTAATCCCCATTCTTTTTAGGATGAGGCACCATAAACATAGTCTTCTCATTAGGA
* * * * * *
16340 TAGACGATATTGGAAGCTTTGGTTTCGCAAGAAA--CTTTTTTTCCCTATCAATTTTATTAAAGT
66 TACACGATACTGG-TGCTTTGATTTCGCAAGAAAGGC-TTTTTT-CCTACCAATTTTAGTAAAGT
* * * *
16403 CTAAGTTCGAGCCTTAAAAGAGACTAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGTGT
128 CTAAGTTCGTGCCTCAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGT
* ** * * * *
16468 AGGCACTATAAACACATTCTCCTTTTTAGGGTAAATGATTTTG-TGATTTTTTTTTGCATGGAAA
193 AAGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAA
* * *
16532 TCTTTTCTTTGCCCTA-TTTCCTTAAAATCGAAGTTTATCCCTTAAATAAGACAAGCATTGATTC
258 TCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTC
* ** * * *
16596 TCATAATAGTCTCCATTCTTTTCATTGTTGGGAACCAAAAGCACATTCCCTTTATTATGATAC-G
323 TCATAACAGTCTCCATTCTTTTCAAAGTTGGGAACCAAAAACACATTCCCTTTATTAGGATACAT
* * *
16660 GACATTGAAGCTTTAGTG-CTGCAAGAAAAAGCTTTTCTTTCCA-CTATTTTTGATAAAATCAAA
388 GACATTGATGCTTTGGTGTC-GCAAG-AAAAGCTTTTCTTTCCATC-ATTTTTGATAGAATCAAA
*
16723 G-TTACTCTCTTAAATAAGACAAACATG
450 GATTA-TCTCTTAAATAAGACAAACAAG
* *** * * *
16750 AATACTCGTGGAAATCCCCATTC-TTTCAGGATTAGGCACCATAAAC-GAGTCTTCTCATTAGGA
1 AATACTCATACTAATCCCCATTCTTTTTAGGATGAGGCACCATAAACATAGTCTTCTCATTAGGA
* * ** * *
16813 TACACGATACTAGTGCTTTAATTTCATAAGAAAGGCTTTTTTTCCTGCCAATTTTAGTAAAGTCG
66 TACACGATACTGGTGCTTTGATTTCGCAAGAAAGGC-TTTTTTCCTACCAATTTTAGTAAAGTCT
* * * * * * * *
16878 AAGTTCATGCCTTTAAAA-AGACAAATACGGATTCTAGTAATAATTTTCTTTCATTTTACGAGCA
130 AAGTTCGTGCC-TCAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGTA
* * * * *
16942 AGTACCATAAACACATTCCCCTCATTAGGAT-AATGATATTGATCATTTTCTTTTGCATGGAAAT
194 AGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAAT
* *
17006 CTTTTCTTTGCCTTATTTTCCTTAAAATCAAAG-T-ATCCCTT-AATAAGAGAAGCATCGATTCT
259 CTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCT
* * * *
17068 CATAAAAGTCTCCATTCTTTTCAAAGTTGGGAACCAAAAGCACATTCCCTTCATTAGCATACATG
324 CATAACAGTCTCCATTCTTTTCAAAGTTGGGAACCAAAAACACATTCCCTTTATTAGGATACATG
* * * *
17133 ACATTGATGCTTTAGTGTCGCAACAAATGCTTTTCTTTCCATCTTTTTTGATAGAATCAAAGATT
389 ACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATCATTTTTGATAGAATCAAAGATT
17198 ATCTCTTAAAT-AGACAAACACAG
454 ATCTCTTAAATAAGACAAACA-AG
* *
17221 -ATACTCATACTAATCCCCATTCTTTTTAGGATGAGACACTATAAACATAGTCTTCTCATTAGGA
1 AATACTCATACTAATCCCCATTCTTTTTAGGATGAGGCACCATAAACATAGTCTTCTCATTAGGA
* * *
17285 TACACGATACTGGCGCTTTGATTTTGCAAGAAAGGCTTTTTTTCTCACCAATTTTAGTAAAGTCT
66 TACACGATACTGGTGCTTTGATTTCGCAAGAAAGGCTTTTTTCCT-ACCAATTTTAGTAAAGTCT
* * * * * *
17350 ATGTTCGTGCCTCAAAAAAGACAAAGATGGATTCTAGTAATGATCTTCTTTCA-TTTATTATTAG
130 AAGTTCGTGCCTCAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGTAA
* * * * * *
17414 GCACAATAAGCATATTCTCATCATTAGGACAAATGATATTGATGATTCTT-TTTTGCATGGAAAT
195 GCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATT-TTCTTTTGCATGAAAAT
* * * * * * *
17478 ATTTTCTTTGTCCTATTTTTC-TAAAATAAAAGTTCATCCCTTAAATAACACAAACATCAATTCT
259 CTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCT
* * * * * * * * *
17542 CATACCAGTTTCCATTCTTTT-TAGGATTGGGATCCAAAAACACAGTCTCTTTATTAAGATACAC
324 CATAACAGTCTCCATTCTTTTCAAAG-TTGGGAACCAAAAACACATTCCCTTTATTAGGATACAT
* * * *
17606 GACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTC-TTCCCTCGTTTTTCATAGAATTAAAGAT
388 GACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATCATTTTTGATAGAATCAAAGAT
** * *
17670 GGTCTCTAAAATAAGCCAAACAAG
453 TATCTCTTAAATAAGACAAACAAG
* * *
17694 AATACTCATACTAATCTCCATTC-TTTTAGGATTAGTCACCATAAACATAGTCTTCTCATTAGGA
1 AATACTCATACTAATCCCCATTCTTTTTAGGATGAGGCACCATAAACATAGTCTTCTCATTAGGA
* * * * * * *
17758 TACAATGATATTGGTGCTTT-AGTTTCACAAGAAATGCTTTTCTCCTACTAATTTTACTAAAGTC
66 TAC-ACGATACTGGTGCTTTGA-TTTCGCAAGAAAGGCTTTTTTCCTACCAATTTTAGTAAAGTC
* * * * * *
17822 CAAGTTCGTGCCTCACAAGATATAAACATTGATTCTAGTAAAGA---TCTTTCATTTTATGAGTA
129 TAAGTTCGTGCCTCAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGTA
* **
17884 GGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGTGTGAAAAT
194 AGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAAT
* * * * *
17949 CTTTTCATTGCCCTATTTTCTTTAAAATAAAAGTTCATCCTTTAAATAAGACAAACATCGATTCT
259 CTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCT
* * * * * * * * *
18014 CGTAACAGACTGCATTCTTTT-TAGGATGGGAACCAAACAAACACATTTCTTTTATTCGGATACA
324 CATAACAGTCTCCATTCTTTTCAAAGTTGGGAACC-AA-AAACACATTCCCTTTATTAGGATACA
* * * * * * *
18078 CGACATTGATGCTTTGGTGTCACGAA-AAGAGC--TTCTTTCCCCTCGTTTTTTCATAGAATTAA
387 TGACATTGATGCTTTGGTGTCGC-AAGAAAAGCTTTTCTTT-CCATC-ATTTTTGATAGAATCAA
* * * * *
18140 AGTTTGTCTCTAAAATAAGGCAAACACG
449 AGATTATCTCTTAAATAAGACAAACAAG
* * * *
18168 AATACTCATACTAATCCCCATTTTTTTTAGGATTAGGCCACCATAAACATAGTCTTCCCGTTAGG
1 AATACTCATACTAATCCCCATTCTTTTTAGGATGAGG-CACCATAAACATAGTCTTCTCATTAGG
* * * * * * *
18233 ATACATGATATTGGTGCTTAG-TTTC-AAAGAAAGGCTTTTTTCCTACTAATTTTACTAAAGTCC
65 ATACACGATACTGGTGCTTTGATTTCGCAAGAAAGGCTTTTTTCCTACCAATTTTAGTAAAGTCT
* * * * *
18296 AAGTTCGTGCCTCATAGGAGATAAACATGGATTTTAG-CATAGA---TCTTTCATTTTATGAGTA
130 AAGTTCGTGCCTCAAAAGAGACAAACATGGATTCTAGTAAT-GATCTTCTTTCATTTTATGAGTA
* ** **
18357 GGCACTATAAACACATTCTATTCATTAGGATAAATGATATTGATGATTTTCTTTTGTGTGAAAAT
194 AGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAAT
* *
18422 CTTTTC-TTGCCCTATTTTCC-TCAAATCAAAGTTAATCCCTTAAATAAGACAAGCATCGATTCT
259 CTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCT
* * *** ** * *
18485 CATAACAGTCTCCATTCTTTTCAAGGCT-GGAAATGAAAATGCATT-CCTTTGTTGGGATACATG
324 CATAACAGTCTCCATTCTTTTCAAAGTTGGGAACCAAAAACACATTCCCTTTATTAGGATACATG
* * *** * * *
18548 ACATTGATGCTTTAGTGTCTCAAGAAAAGCTTTTCTTTCCATTGCTTTTAATAAAATCAAAGTTT
389 ACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATCATTTTTGATAGAATCAAAGATT
* *
18613 GTTTCTTAAATAAGACAAA-AATG
454 ATCTCTTAAATAAGACAAACAA-G
* * * * * * *
18636 AATACACGTACTAATCCCCTATTC-TTTCAAGATGAGGCACTATAAACATAGACCTCTCATTAGG
1 AATACTCATACTAATCCCC-ATTCTTTTTAGGATGAGGCACCATAAACATAGTCTTCTCATTAGG
* * *
18700 ATACATGATACTGGTGCTTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCT
65 ATACACGATACTGGTGCTTTGATTTCGCAAGAAAGGCTTTTTTCCTACCAATTTTAGTAAAGTCT
* * * *
18765 ATGTTCATACCTCAAAAGAGACAAACATGGATTCTAGTAATGATTTTCTTTCATTTTATG-GTTA
130 AAGTTCGTGCCTCAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAG-TA
* *
18829 AGCACTATAAACACATTCTCCTCATTAGGATAAATGACA-TGATGATTTTCTTTTGCACGAAAAT
194 AGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAAT
* * * *
18893 CTTTTCATTT-CCCTATTTTCCTT-AAATCAAAGTTCATCCTTTAAATAGGACAAGTATCGATTT
259 CTTTTC-TTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTC
* * * *
18956 TCGTAACAGTCTCTATTCTTTTCAAAGTTGGGAACCAAAAATACATTCCCTTCATTAGGATACAT
323 TCATAACAGTCTCCATTCTTTTCAAAGTTGGGAACCAAAAACACATTCCCTTTATTAGGATACAT
* * *
19021 GACATTGATGTTTTAGG-GTCACAAGAAAAGCTTTTCTTTCCATCATTTTTGATAGAATCAAATA
388 GACATTGATGCTTT-GGTGTCGCAAGAAAAGCTTTTCTTTCCATCATTTTTGATAGAATCAAAGA
*
19085 TTATCTC-TAAATAAGACAAACATG
452 TTATCTCTTAAATAAGACAAACAAG
* * * * * *
19109 AATACTCATACTAATCCCAAATCTTTTTAGGATGAGGCACTATAAACATAGACCTCTCTTTAGGA
1 AATACTCATACTAATCCCCATTCTTTTTAGGATGAGGCACCATAAACATAGTCTTCTCATTAGGA
* * *
19174 TACACGATACTGGTGCTTTGTTTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTA
66 TACACGATACTGGTGCTTTGATTTCGCAAGAAAGGCTTTTTTCCTACCAATTTTAGTAAAGTCTA
* * * * *
19239 TGTTCATGCCTCAAAAGAGACAAACATGGATTCTAGTAACGATCTCCTTTCATTTTATGATTAAG
131 AGTTCGTGCCTCAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGTAAG
* *
19304 CACTATAAACACATTCTCCCCATTAGGATAAATGATATTGATGATTTTCTTTTGCACG-AAATCT
196 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCT
* * *
19368 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAAAGACAAGCATTGATTCTCG
261 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCA
* * * * * *
19433 TAATAGTCTTCGTTCTTTTCAAAGCTGGGAACCAAAAACACATTCCCTTCATTAGGATATATGAC
326 TAACAGTCTCCATTCTTTTCAAAGTTGGGAACCAAAAACACATTCCCTTTATTAGGATACATGAC
* * * * *
19498 ATTGATGTTTTAGG-GTCGCAACAAAAGATTTTCTTTCCATCATTTTTTATACAATCAAAGATTA
391 ATTGATGCTTT-GGTGTCGCAAGAAAAGCTTTTCTTTCCATCATTTTTGATAGAATCAAAGATTA
*
19562 TCTCTTAAATAAGACAAACATG
455 TCTCTTAAATAAGACAAACAAG
* * * * *
19584 AATGCTAATACTAATCCCCATTCTTTTTGGGATGAGGTACTATAAACATAGTCTTCTCATTAGGA
1 AATACTCATACTAATCCCCATTCTTTTTAGGATGAGGCACCATAAACATAGTCTTCTCATTAGGA
* * * * *
19649 TACACGATACTAGAGCTTTGATTTTGCAAGAAAGGCTTTCTTCCAACCAATTTTAGTAAAGTCTA
66 TACACGATACTGGTGCTTTGATTTCGCAAGAAAGGCTTTTTTCCTACCAATTTTAGTAAAGTCTA
* * * * * * *
19714 TGTTCGTGCCTCAAAAGAGACTAACGTGGATTTTAGTAATAATCTTCTTTCATTTAATGA-AAAG
131 AGTTCGTGCCTCAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGTAAG
* *
19778 CACTATAAACACATTCTCCTCATTAGGATAAATGACATTGATGATTTTCTTTTGCACGAAAATCT
196 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCT
* * * * *
19843 TTTATTTTCCTTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGTATCGATTCTCG
261 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCA
*
19908 TAACAGTCTCTATTCTTTTCAAAGTTGGGAACCAAAAACACATTC
326 TAACAGTCTCCATTCTTTTCAAAGTTGGGAACCAAAAACACATTC
19953 TGATGACAAC
Statistics
Matches: 2763, Mismatches: 376, Indels: 128
0.85 0.12 0.04
Matches are distributed among these distances:
467 44 0.02
468 102 0.04
469 78 0.03
470 45 0.02
471 367 0.13
472 416 0.15
473 761 0.28
474 584 0.21
475 337 0.12
476 29 0.01
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (476 bp):
AATACTCATACTAATCCCCATTCTTTTTAGGATGAGGCACCATAAACATAGTCTTCTCATTAGGA
TACACGATACTGGTGCTTTGATTTCGCAAGAAAGGCTTTTTTCCTACCAATTTTAGTAAAGTCTA
AGTTCGTGCCTCAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGAGTAAG
CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCT
TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCA
TAACAGTCTCCATTCTTTTCAAAGTTGGGAACCAAAAACACATTCCCTTTATTAGGATACATGAC
ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATCATTTTTGATAGAATCAAAGATTAT
CTCTTAAATAAGACAAACAAG
Found at i:18853 original size:158 final size:155
Alignment explanation
Indices: 18691--19845 Score: 487
Period size: 158 Copynumber: 7.3 Consensus size: 155
18681 ACATAGACCT
* * *
18691 CTCATTAGGATACATGATACTGGTGCTTTGATTTTGCAAGAAAGGCTTTT-TTCCCACCAATTTT
1 CTCATTAGGATACATGATACTGATGCTTTTATTTTGCAAGAAAAGCTTTTCTTCCCACCAATTTT
* *
18755 AGTAAAGTCTATGTTCATACCTCAAAAGAGACAAACATGGATTCTAGTAATGATTTTCTTTCATT
66 AGTAAA-TCAATGTTCAT-CCTCAAAAGAGACAAACATGGATTCTAGTAAT-ATCTTCTTTC-TT
*
18820 TTATGGTTAAGCACTATAAACACATTCTC
127 TTATGGTTAGGCACTATAAACACATTCTC
* * * * * * * *
18849 CTCATTAGGATAAATGACA-TGATGATTTTCTTTTGCACGAAAATCTTTTCATT-TC-CCTATTT
1 CTCATTAGGATACATGATACTGATGCTTTTATTTTGCAAGAAAAGCTTTTC-TTCCCACCAATTT
** * * ** * * * *
18911 TCCTTAAATCAAAGTTCATCCTTTAAATAG-GACAAGTATCGATTTTCGTAACAGTC-TCTATTC
65 T-AGTAAATCAATGTTCATCC-TCAAA-AGAGACAAACATGGATTCTAGTAATA-TCTTCT-TTC
** * * * * *
18974 TTTTCAAAGTTGGGAACCAAAAATACATTC-C
125 TTTT-ATGGTTAGGCACTATAAACACATTCTC
* * ** ** * *
19005 CTTCATTAGGATACATGACATTGATG-TTTTAGGGTCACAAGAAAAGCTTTTCTTTCCATC-ATT
1 C-TCATTAGGATACATGATACTGATGCTTTTA-TTTTGCAAGAAAAGCTTTTCTTCCCACCAATT
* * * * * *
19068 TTTGATAGAATCAAATATT-AT-CTCTAAATA-AGACAAACATGAATACTCA-TACTAATC-CCA
64 TTAG-TA-AATC-AATGTTCATCCTC-AAA-AGAGACAAACATGGATTCT-AGTAAT-ATCTTC-
** * * **
19128 AATCTTTT-TAGGATGAGGCACTATAAACATAGAC-C
121 TTTCTTTTAT-GG-TTAGGCACTATAAACACATTCTC
* * * *
19163 TCTCTTTAGGATACACGATACTGGTGCTTTGT-TTTTGCAAGAAAGGCTTTT-TTCCCACCAATT
1 -CTCATTAGGATACATGATACTGATGCTTT-TATTTTGCAAGAAAAGCTTTTCTTCCCACCAATT
* * *
19226 TTAGTAAAGTCTATGTTCATGCCTCAAAAGAGACAAACATGGATTCTAGTAACGATCTCCTTTCA
64 TTAGTAAA-TCAATGTTCAT-CCTCAAAAGAGACAAACATGGATTCTAGTAA-TATCTTCTTTC-
* *
19291 TTTTATGATTAAGCACTATAAACACATTCTC
125 TTTTATGGTTAGGCACTATAAACACATTCTC
* * * * * * * ** *
19322 CCCATTAGGATAAATGATATTGATGATTTTCTTTTGCACG-AAATCTTTTCTTTGC-CCTATTTT
1 CTCATTAGGATACATGATACTGATGCTTTTATTTTGCAAGAAAAGCTTTTCTTCCCACCAATTTT
** * * * * * * *
19385 CCTTAAAATCAAAGTTCATCCCTTAAAAAAGACAAGCATTGATTCTCGTAATAGTCTTCGTTCTT
66 -AGT-AAATCAATGTTCAT-CCTCAAAAGAGACAAACATGGATTCTAGTAATA-TCTTCTTTCTT
** * * * * *
19450 TTCAAAGCTGGGAACCAAAAACACATTC-C
127 TT-ATGGTTAGGCACTATAAACACATTCTC
* * * ** * * * * * *
19479 CTTCATTAGGATATATGACATTGATG-TTTTAGGGTCGCAACAAAAGATTTTCTTTCCATCATTT
1 C-TCATTAGGATACATGATACTGATGCTTTTA-TTTTGCAAGAAAAGCTTTTCTTCCCACCA-AT
* * * * * * ** *
19543 TTTA-TACAATCAAAGATT-ATCTCTTAAATA-AGACAAACATGAATGCTAATACTAATCCCCAT
63 TTTAGTA-AATCAATG-TTCATC-CTCAAA-AGAGACAAACATGGATTCTAGTAAT-ATCTTCTT
* * * * *
19605 TCTTTT-TGGGATGAGGTACTATAAACATAGTCTT
123 TCTTTTAT-GG-TTAGGCACTATAAACACATTCTC
* * * *
19639 CTCATTAGGATACACGATACTAGA-GCTTTGATTTTGCAAGAAAGGC-TTTCTTCCAACCAATTT
1 CTCATTAGGATACATGATACT-GATGCTTTTATTTTGCAAGAAAAGCTTTTCTTCCCACCAATTT
* * * * *
19702 TAGTAAAGTCTATGTTCGTGCCTCAAAAGAGACTAACGTGGATTTTAGTAATAATCTTCTTTCAT
65 TAGTAAA-TCAATGTTCAT-CCTCAAAAGAGACAAACATGGATTCTAGTAAT-ATCTTCTTTC-T
* ** *
19767 TTAAT-GAAAAGCACTATAAACACATTCTC
126 TTTATGGTTAGGCACTATAAACACATTCTC
* * * * * * *
19796 CTCATTAGGATAAATGACATTGATGATTTTCTTTTGCACGAAAATCTTTT
1 CTCATTAGGATACATGATACTGATGCTTTTATTTTGCAAGAAAAGCTTTT
19846 ATTTTCCTTA
Statistics
Matches: 714, Mismatches: 215, Indels: 136
0.67 0.20 0.13
Matches are distributed among these distances:
156 20 0.03
157 204 0.29
158 341 0.48
159 126 0.18
160 19 0.03
161 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (155 bp):
CTCATTAGGATACATGATACTGATGCTTTTATTTTGCAAGAAAAGCTTTTCTTCCCACCAATTTT
AGTAAATCAATGTTCATCCTCAAAAGAGACAAACATGGATTCTAGTAATATCTTCTTTCTTTTAT
GGTTAGGCACTATAAACACATTCTC
Found at i:26387 original size:476 final size:474
Alignment explanation
Indices: 25031--29481 Score: 5295
Period size: 476 Copynumber: 9.4 Consensus size: 474
25021 TGGTTTTCAT
* * * *
25031 CACATTCCCTTCATTAGGATACATGACATTGATGTTTTAGGGTCACAAGAAAAGCTTTTCTTTCC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGTGTCGCAAGAAAAGCTTTT-TTTCC
* *
25096 ATCATTTTTGATAGAATCAAA-TATTATCTC-TAAATAAGACAAACATGAATACTCATACTAATC
65 ATCATTTTTCATAGAATCAAAGT-TTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATC
* * * * *
25159 CCAATTCTTTTCAAGATGACGCACTATAAACATAGTCTTCTCATTAGGATACACGATACCGGTGC
129 CCCATTCTTTTCAGGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATACTGGTGC
* *
25224 TTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTCCGTGCTTCAAAA
194 TTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCGTGCCTCAAAA
* * *
25289 GAGGCAAACATGGATTCTAGTAAAGATCTTCTTTCATTTTATGGTTAAGCAATATAAACACATTC
259 GAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGGTTAAGCACTATAAACACATTC
* * * *
25354 TCCTCATTAAGATAAATGATATTGAAGATTTTCTTTGGCATGGAAATCTTTTCTTTGTCCTATTT
324 TCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTG-CCTATTT
* * * * * * * *
25419 TTCTTAAAATAAAAGTTCAACCCTTGAATAACACAAACATCGATTCTCGTAACAGACTGCATTCT
388 TCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCT
*
25484 TTT-TAGGATTGGGAACCAAAAA
453 TTTCAAGG-TTGGGAACCAAAAA
* * * * * * *
25506 CACATTTCTTTTATTCGGATACACGACATTGATGCTTTGGTGTCACGAA-AAGAGC-TTTTTTCC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGTGTCGC-AAGAAAAGCTTTTTTTCC
* * * * *
25569 CTCATTTTTCATAGAATTAAAGTTTGTCTCTAAAATAAGGCAAACACGAATACTCATACTAATCC
65 ATCATTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCC
* * * * * * *
25634 CCATTTTTTTTAGGATTAGGCACCATAAACATAGTCTTCCCGTTAGGATACATGATATTGGTGCT
130 CCATTCTTTTCAGGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATACTGGTGCT
** * * * * * * *
25699 TT-AGTTTCACAAGAAAGGCTTTTTTCCTACTAATTTTACTAAAGTCCAAGTTCGTGCCTCATAG
195 TTGA-TTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCGTGCCTCAAAA
* * * *
25763 GAGATAAACATGGATTTTAG-CATAGA---TCTTTCATTTTATGAG-TAGGCACTATAAACACAT
259 GAGACAAACATGGATTCTAGTAAT-GATCTTCTTTCATTTTATG-GTTAAGCACTATAAACACAT
* **
25823 TCTCTTCATTAGGATAAATGATATTGATGATTTTCTTTTGTGTGAAAATCTTTTCTTTGCCCTAT
322 TCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTG-CCTAT
* *
25888 TTTCCTCAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATT
386 TTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATT
* ***
25953 CTTTTCAAGGCTGGGAAATGAAAA
451 CTTTTCAAGGTTGGGAACCAAAAA
** * * * *
25977 TGCATTCCTTTTGTTGGGATACATGACATTGATGCTTTAGTGTCTCAAGAAAAGCTTTTCTTTCC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGTGTCGCAAGAAAAGCTTTT-TTTCC
*** * * * * * *
26042 ATTGCTTTTAATAAAATCAAAGTTTGTTTCTTAAATAAGACAAAAATGAATACACGTACTAATCC
65 ATCATTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCC
* * *
26107 CCATTCTTTTCAAGATGAGGCACTATAAACATAGACCTCTCATTAGGATACATGATACTGGTGCT
130 CCATTCTTTTCAGGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATACTGGTGCT
* *
26172 TTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCATACCTCAAAAG
195 TTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCGTGCCTCAAAAG
*
26237 AGACAAACATGGATTCTAGTAATGATTTTCTTTCATTTTATGGTTAAGCACTATAAACACATTCT
260 AGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGGTTAAGCACTATAAACACATTCT
* **
26302 CCACATTAGGATAAATGATATTGATGATTTTCTTTTGCACAAAAATCTTTTCTTTGCCATATTTT
325 CCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCC-TATTTT
* *
26367 CCTTAAAATCAAACTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAATAGTCTCCATTCTT
389 CCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTT
* *
26432 TCCAAAGTTGGGAACCAAAAA
454 TTCAAGGTTGGGAACCAAAAA
* *
26453 CACATTCCCTTCT-TTAGGATACATGACATTGATGTTTTAGGGTCGCAAGAAAAGCTTTTTTTCC
1 CACATTCCCTT-TATTAGGATACATGACATTGATGCTTTAGTGTCGCAAGAAAAGCTTTTTTT-C
* * * *
26517 CATCATTTTTGATAGAATCAAAGATTATCTCTTAAATAAGATAAACATGAATACTCATACTAATC
64 CATCATTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATC
* *
26582 CCCATTCTTTTTAGGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGA-AATCGGTG
129 CCCATTCTTTTCAGGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATACT-GGTG
* * * * *
26646 CTTTGATTTTGCAGGAAAGGCTTTTTTCCCACCAATTTTGGTGAAGTCTACGTTCATGCCTCAAA
193 CTTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCGTGCCTCAAA
* * * *
26711 AAAGACAAACATAGATTCTAGTAATGATCTTATTTCATTTTATGATTAAGCACTATAAACACATT
258 AGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGGTTAAGCACTATAAACACATT
* *
26776 CTCCTCATTAGCG-TAAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTCTTTGTCCTAT
323 CTCCTCATTAG-GATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTG-CCTAT
* * * * * *
26840 TTTTCTTAAAATAAAAGTTCATCCCTTGAATAACACAAACATCGATTCTCGTAATAGTCTCCATT
386 TTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATT
* *
26905 CTTTTTAAGATTGGGAACCAAAAA
451 CTTTTCAAGGTTGGGAACCAAAAA
* * * * ** *
26929 CACATTTCCTTTATTAGGATATAGGACATTGATGCTTTGGTGTCGCGTGAAAAGCTTTTTTTCCC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGTGTCGCAAGAAAAGCTTTTTTTCCA
* * * * * * *
26994 TCGTTTGTCATAGAATTAAAGTTTGTCTCTAAAATAAGGCAAACACGAATACTCGTACTAATCCC
66 TCATTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCC
* * ** *
27059 CATTCTTTTTATGATTTGGCACTATAAACATAGTCTTCTCATTAGGATACATGATATTGGTGCTT
131 CATTCTTTTCAGGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATACTGGTGCTT
* * * * * * * *
27124 T-AGTTT-CACAGGAAAGGCGTTTTTCCTACTAATTTTACTAAAGTCCAAGTTCGTGCCTCACAA
196 TGATTTTGCA-A-GAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCGTGCCTCAAAA
* * * *
27187 GAGATAAACATGGATTCTAGTAAAGA---TCTTTCATTTTGTGAG-TAGGCACTATAAACACATT
259 GAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATG-GTTAAGCACTATAAACACATT
** * * * ** * **
27248 CTCCTTGTTAAGATAAATGATATTGATGGTTCTCTTTTGTGTGAAAAGCTTTTCCTTACCCTATT
323 CTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTT-CTTTGCCTATT
* * *
27313 TTCCTTAAAATCAAAGTTCATCCCTTAAAGAAGACAAGCATCGATTCTCATAACAATCTCCATTC
387 TTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTC
27378 TTTTCAAGGTTGGGAACCAAAAA
452 TTTTCAAGGTTGGGAACCAAAAA
* * * *
27401 CACGTTCCCTTCATTAGGATACATGATATTGATGCTTTAGTATCGCAAGAAAAGCTTTTCTTTCC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGTGTCGCAAGAAAAGCTTTT-TTTCC
* * * * *
27466 AT-TTTTTTCGATAAAATCAAAGATTATCTCTTAAATAAGACAAACATGAATACTCGTACTAATC
65 ATCATTTTTC-ATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATC
* * * * * *
27530 CCCATTCTTTTCAAGATGAGGCACTATAAACATAGTCTTGTCACTAGGATACACGATAATAGTGC
129 CCCATTCTTTTCAGGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATACTGGTGC
* * * *
27595 TTCGATTTTGCAAAAAAGGCTTTTTTCCCACCAATTTTAGTCAAGTCTATGTTCATGCCTCAAAA
194 TTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCGTGCCTCAAAA
* * * *
27660 GAGACAAACATGGATTCT-GCTAATGATCTTCTTTCATTTTATGATTAGGCACTATAAGCATATT
259 GAGACAAACATGGATTCTAG-TAATGATCTTCTTTCATTTTATGGTTAAGCACTATAAACACATT
* * * *
27724 CTCATCATTAGCATAAATGATATTGATGATTTTCTTTTTCATGCAAATCTTTTCTTTGTCCTATT
323 CTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTG-CCTATT
* * * * * * *
27789 TTTCTCAAAATAAAAGTTTATCCCTTAAATAACACAAACATCGATTCTCGTAACAATCTCCATTC
387 TTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTC
*
27854 TTTTCAAGATTGGGAACCAAAAA
452 TTTTCAAGGTTGGGAACCAAAAA
*** * *
27877 CACATTCCCTTTATTAGGATACCCAACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTTTTCCC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGTGTCGCAAGAAAAGCTTTTTTTCCA
* * * * * *
27942 TCGTTTTTCATGGAATTAAAGTTTGTCTCTAAAATATGGCAAACATGAATACTCATACTAATCCC
66 TCATTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCC
* * * *
28007 CATTCTTTTTAGGACT-AGGCAAC-ATAAACATAGTTTTCTCTTTAGGACACATGATA-TCGGTG
131 CATTCTTTTCAGGA-TGAGGC-ACTATAAACATAGTCTTCTCATTAGGATACATGATACT-GGTG
** * * * * * * *
28069 CTTT-AGTTTCACAAGAAAGGCTTTTCTCCCACTAATTTAACTAAAATCCAAGTTCGTGCCTCAC
193 CTTTGA-TTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCGTGCCTCA-
* * * *
28133 AAA-AGATAAGCATGGATTCTAGTAAAGA---TCTTTCATTTTATGAG-TAGGCACTATAAACAC
256 AAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATG-GTTAAGCACTATAAACAC
* * * * *** * *
28193 ATTTTTCTCATTAAGATAAATGATATTGGTGAAAGTCTTTTGCGTGAAAATCTCTTCTTTGCCCT
320 ATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTG-CCT
* * * *
28258 ATTTTCCTAAAAATCAAAGTTCTTCCCTTAAATAAGATAAGCATCGATTCTCATAACAGTCTCCA
384 ATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCA
* ***
28323 TTCTTTTCAAGGTTTGGAAATGAAAA
449 TTCTTTTCAAGGTTGGGAACCAAAAA
* * *
28349 CACATTCCCTTTATT---ATACATGACATTGATGCTTTAGTGTCTCAAGAAAACCTTTTCATTCC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGTGTCGCAAGAAAAGCTTTT-TTTCC
*** * * *** * * * *
28411 ATTGCTTTTGATAAAATCAAAGTTCACCTCTTAAATAAGACAAAAATGAATACACGTACCAATCC
65 ATCATTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCC
* * * * *
28476 CCATTCTTTTCAGGATGAGACACTATAAACATTGTCCTCTCATTAGGATACACGATACCGGTGCT
130 CCATTCTTTTCAGGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATACTGGTGCT
* * **
28541 TTGATTTTCCAAGATATTCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCGTGCCTCAAAAG
195 TTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCGTGCCTCAAAAG
* * * * * *
28606 AGGCAAACATGGATTCTAATAATGATCTTCTTTCATTTTATGATTAAGCACTGTAAATATATTCT
260 AGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGGTTAAGCACTATAAACACATTCT
*
28671 CCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCA-CAGAAATCTTTTCTTTGCCCTATTT
325 CCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGA-AAATCTTTTCTTTG-CCTATTT
* *
28735 TCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATTGATTCTCGTAACAATCTCCATTCT
388 TCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCT
*
28800 TTTCAAAGTTGGGAACCAAAAA
453 TTTCAAGGTTGGGAACCAAAAA
* ** * *
28822 CACATTCCCTTCATTAGGATACATGACATTGATATTTTAGGGTCGCAAGAAACGCTTTTCTTTCC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGTGTCGCAAGAAAAGCTTTT-TTTCC
* * * ** *
28887 AACATTTTTAATAGAATCAAAGATTACCTCTTAAATAAGACAAACATGAATATTCATACTAATCC
65 ATCATTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCC
* * *
28952 CCATTCTTTTCAGGATGAGGCACCAT-AACGATAGTCTTCTCATTAGGATACACGATACCGGTGC
130 CCATTCTTTTCAGGATGAGGCACTATAAAC-ATAGTCTTCTCATTAGGATACATGATACTGGTGC
* * *
29016 TTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAATGAAGTCTATGTTTGTGCCTCAAAA
194 TTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCGTGCCTCAAAA
* * * * *
29081 GAGACGAACATAGATTCTAGTAATGTTCTTATTTCATTTTATGATTAAGCACTATAAACACATTC
259 GAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGGTTAAGCACTATAAACACATTC
** * * * * * *
29146 TATTTATTAGCATAAAAGAAATTGATGATTTTCTTTTGCTTGGAAATCTTTTCTTTGTCCTATTT
324 TCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTG-CCTATTT
* * * * * * * *
29211 TTCTTAAACTAAAAGTTCATCCCTTGAATAACATAAACATCGATTCTTGTAACAGTCTCCATTCT
388 TCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCT
29276 TTTC-AGGATTGGGAACCAAAAA
453 TTTCAAGG-TTGGGAACCAAAAA
* * * * *
29298 CATATTCCCTTTACTAGGATACATGACATTGATACTTTGGTGTCGCGAGAAAAGCTTTTTTTCCA
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGTGTCGCAAGAAAAGCTTTTTTTCCA
* * * * *
29363 TCATTTTTCATAGAATTAAAGTTTGTCTCTAAAATAAGGCAAACATGAATACTCGTACTAATCTC
66 TCATTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCC
* * *
29428 CATTCTTTTTAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGA
131 CATTCTTTTCAGGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGA
29482 AAGCTCAAGG
Statistics
Matches: 3356, Mismatches: 555, Indels: 130
0.83 0.14 0.03
Matches are distributed among these distances:
469 41 0.01
470 171 0.05
471 202 0.06
472 387 0.12
473 566 0.17
474 172 0.05
475 515 0.15
476 1298 0.39
477 4 0.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (474 bp):
CACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGTGTCGCAAGAAAAGCTTTTTTTCCA
TCATTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCC
CATTCTTTTCAGGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATACTGGTGCTT
TGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCGTGCCTCAAAAGA
GACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGGTTAAGCACTATAAACACATTCTC
CTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCTATTTTCC
TTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTT
CAAGGTTGGGAACCAAAAA
Found at i:27411 original size:948 final size:948
Alignment explanation
Indices: 25031--29483 Score: 5398
Period size: 948 Copynumber: 4.7 Consensus size: 948
25021 TGGTTTTCAT
* * *
25031 CACATTCCCTTCATTAGGATACATGACATTGATGTTTTAGG-GTCACAAGAAAAGCTTTTCTTTC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTT-GGTGTCGCAAGAAAAGCTTTTCTTTC
* * *
25095 CATCATTTTTGATAGAATCAAA-TATTATCTCT-AAATAAGACAAACATGAATACTCATACTAAT
65 CATCGTTTTTAATAGAATCAAAGT-TTGTCTCTAAAATAAGACAAACATGAATACTCATACTAAT
* * *
25158 CCCAATTCTTTTCAAGATGACGCACTATAAACATAGTCTTCTCATTAGGATACACGATACCGGTG
129 CCCCATTCTTTTCAAGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATACCGGTG
* * *
25223 CTTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTCCGTGCTTCAAA
194 CTTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTACTAAAGTCTATGTTCGTGCCTCAAA
* *
25288 AGAGGCAAACATGGATTCTAGTAAAGATCTTCTTTCATTTTATG-GTTAAGCAATATAAACACAT
259 AGAGACAAACATGGATTCTAGTAAAGA---TCTTTCATTTTATGAG-TAAGCACTATAAACACAT
* * * *
25352 TCTCCTCATTAAGATAAATGATATTGAAGATTTTCTTTGGCATGGAAATCTTTTCTTTGTCCTAT
320 TCTCCTCATTAAGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTAT
* * * * * * * *
25417 TTTTCTTAAAATAAAAGTTCAACCCTTGAATAACACAAACATCGATTCTCGTAACAGACTGCATT
385 TTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATT
* * * * *
25482 CTTTT-TAGGATTGGGAACCAAAAACACATTTCTTTTATTCGGATACACGACATTGATGCTTT-G
450 CTTTTCAAGG-TTGGGAACCAAAAACACATTCCCTTTATTAGGATACATGACATTGATGCTTTAG
* * * * * * * *
25545 GTGTCACGAA-AAGAGC-TTTTTTCCCTCATTTTTCATAGAATTAAAGTTTGTCTCTAAAATAAG
514 G-GTCGC-AAGAAAAGCTTTTTTTCCATCATTTTTGATAGAATCAAAGATTATCTCTTAAATAAG
* * * * * *
25608 GCAAACACGAATACTCATACTAATCCCCATTTTTTTTAGGATTAGGCACCATAAACATAGTCTTC
577 ACAAACATGAATACTCGTACTAATCCCCATTCTTTTTAGGATGAGGCACTATAAACATAGTCTTC
* * * * ** * *
25673 CCGTTAGGATACATGATATTGGTGCTTT-AGTTTCACAAGAAAGGCTTTTTTCCTACTAATTTTA
642 TCATTAGGATACATGAAATCGGTGCTTTGA-TTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTA
* * * * * * * * *
25737 CTAAAGTCCAAGTTCGTGCCTCATAGGAGATAAACATGGATTTTAG-CATAGA---TCTTTCATT
706 GTAAAGTCTATGTTCATGCCTCAAAAGAGACAAACATGGATTCTAGTAAT-GATCTTCTTTCATT
* * *
25798 TTATGAGTAGGCACTATAAACACATTCTCTTCATTAGGATAAATGATATTGATGATTTTCTTTTG
770 TTATGATTAAGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTG
** * * * *
25863 TGTGAAAATCTTTTCTTTGCCCTATTTTCCTCAAAATCAAAGTTCATCCCTTAAATAAGACAAGC
835 CATGGAAATCTTTTCTTTGCCCTATTTTCCTCAAAATAAAAGTTCATCCCTTAAATAACACAAAC
* * ** ***
25928 ATCGATTCTCATAACAGTCTCCATTCTTTTCAAGGCTGGGAAATGAAAA
900 ATCGATTCTCGTAACAATCTCCATTCTTTTCAAGATTGGGAACCAAAAA
** * * * * *
25977 TGCATTCCTTTTGTTGGGATACATGACATTGATGCTTTAGTGTCTCAAGAAAAGCTTTTCTTTCC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCC
* * * * * * * *
26042 ATTGCTTTTAATAAAATCAAAGTTTGTTTCTTAAATAAGACAAAAATGAATACACGTACTAATCC
66 ATCGTTTTTAATAGAATCAAAGTTTGTCTCTAAAATAAGACAAACATGAATACTCATACTAATCC
* * *
26107 CCATTCTTTTCAAGATGAGGCACTATAAACATAGACCTCTCATTAGGATACATGATACTGGTGCT
131 CCATTCTTTTCAAGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATACCGGTGCT
* * *
26172 TTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTATGTTCATACCTCAAAAG
196 TTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTACTAAAGTCTATGTTCGTGCCTCAAAAG
*
26237 AGACAAACATGGATTCTAGTAATGATTTTCTTTCATTTTATG-GTTAAGCACTATAAACACATTC
261 AGACAAACATGGATTCTAGTAAAGA---TCTTTCATTTTATGAG-TAAGCACTATAAACACATTC
* * ** *
26301 TCCACATTAGGATAAATGATATTGATGATTTTCTTTTGCACAAAAATCTTTTCTTTGCCATATTT
322 TCCTCATTAAGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTT
* *
26366 TCCTTAAAATCAAACTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAATAGTCTCCATTCT
387 TCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCT
* * *
26431 TTCCAAAGTTGGGAACCAAAAACACATTCCCTTCT-TTAGGATACATGACATTGATGTTTTAGGG
452 TTTCAAGGTTGGGAACCAAAAACACATTCCCTT-TATTAGGATACATGACATTGATGCTTTAGGG
*
26495 TCGCAAGAAAAGCTTTTTTTCCCATCATTTTTGATAGAATCAAAGATTATCTCTTAAATAAGATA
516 TCGCAAGAAAAGCTTTTTTT-CCATCATTTTTGATAGAATCAAAGATTATCTCTTAAATAAGACA
*
26560 AACATGAATACTCATACTAATCCCCATTCTTTTTAGGATGAGGCACTATAAACATAGTCTTCTCA
580 AACATGAATACTCGTACTAATCCCCATTCTTTTTAGGATGAGGCACTATAAACATAGTCTTCTCA
* * *
26625 TTAGGATACATGAAATCGGTGCTTTGATTTTGCAGGAAAGGCTTTTTTCCCACCAATTTTGGTGA
645 TTAGGATACATGAAATCGGTGCTTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAA
* * * *
26690 AGTCTACGTTCATGCCTCAAAAAAGACAAACATAGATTCTAGTAATGATCTTATTTCATTTTATG
710 AGTCTATGTTCATGCCTCAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATG
*
26755 ATTAAGCACTATAAACACATTCTCCTCATTAGCG-TAAATGATATTAATGATTTTCTTTTGCATG
775 ATTAAGCACTATAAACACATTCTCCTCATTAG-GATAAATGATATTGATGATTTTCTTTTGCATG
* * * *
26819 GAAATCTTTTCTTTGTCCTATTTTTCTTAAAATAAAAGTTCATCCCTTGAATAACACAAACATCG
839 GAAATCTTTTCTTTGCCCTATTTTCCTCAAAATAAAAGTTCATCCCTTAAATAACACAAACATCG
* * *
26884 ATTCTCGTAATAGTCTCCATTCTTTTTAAGATTGGGAACCAAAAA
904 ATTCTCGTAACAATCTCCATTCTTTTCAAGATTGGGAACCAAAAA
* * * **
26929 CACATTTCCTTTATTAGGATATAGGACATTGATGCTTTGGTGTCGCGTGAAAAGCTTTT-TTTCC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCC
* * * * * * *
26993 CTCGTTTGTCATAGAATTAAAGTTTGTCTCTAAAATAAGGCAAACACGAATACTCGTACTAATCC
66 ATCGTTTTTAATAGAATCAAAGTTTGTCTCTAAAATAAGACAAACATGAATACTCATACTAATCC
* * ** **
27058 CCATTCTTTTTATGATTTGGCACTATAAACATAGTCTTCTCATTAGGATACATGATATTGGTGCT
131 CCATTCTTTTCAAGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATACCGGTGCT
* * * * * * *
27123 TT-AGTTT-CACAGGAAAGGCGTTTTTCCTACTAATTTTACTAAAGTCCAAGTTCGTGCCTCACA
196 TTGATTTTGCA-A-GAAAGGCTTTTTTCCCACCAATTTTACTAAAGTCTATGTTCGTGCCTCAAA
* * *
27186 AGAGATAAACATGGATTCTAGTAAAGATCTTTCATTTTGTGAGTAGGCACTATAAACACATTCTC
259 AGAGACAAACATGGATTCTAGTAAAGATCTTTCATTTTATGAGTAAGCACTATAAACACATTCTC
** * * ** * * *
27251 CTTGTTAAGATAAATGATATTGATGGTTCTCTTTTGTGTGAAAAGCTTTTCCTTACCCTATTTTC
324 CTCATTAAGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTC
* * *
27316 CTTAAAATCAAAGTTCATCCCTTAAAGAAGACAAGCATCGATTCTCATAACAATCTCCATTCTTT
389 CTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTT
* * * **
27381 TCAAGGTTGGGAACCAAAAACACGTTCCCTTCATTAGGATACATGATATTGATGCTTTAGTATCG
454 TCAAGGTTGGGAACCAAAAACACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGGGTCG
* *
27446 CAAGAAAAGCTTTTCTTTCCAT-TTTTTTCGATAAAATCAAAGATTATCTCTTAAATAAGACAAA
519 CAAGAAAAGCTTTT-TTTCCATCATTTTT-GATAGAATCAAAGATTATCTCTTAAATAAGACAAA
* * * *
27510 CATGAATACTCGTACTAATCCCCATTCTTTTCAAGATGAGGCACTATAAACATAGTCTTGTCACT
582 CATGAATACTCGTACTAATCCCCATTCTTTTTAGGATGAGGCACTATAAACATAGTCTTCTCATT
* * * * *
27575 AGGATACACGATAAT-AGTGCTTCGATTTTGCAAAAAAGGCTTTTTTCCCACCAATTTTAGTCAA
647 AGGATACATGA-AATCGGTGCTTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAA
27639 GTCTATGTTCATGCCTCAAAAGAGACAAACATGGATTCT-GCTAATGATCTTCTTTCATTTTATG
711 GTCTATGTTCATGCCTCAAAAGAGACAAACATGGATTCTAG-TAATGATCTTCTTTCATTTTATG
* * * * * * *
27703 ATTAGGCACTATAAGCATATTCTCATCATTAGCATAAATGATATTGATGATTTTCTTTTTCATGC
775 ATTAAGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGG
* * *
27768 AAATCTTTTCTTTGTCCTATTTTTCTCAAAATAAAAGTTTATCCCTTAAATAACACAAACATCGA
840 AAATCTTTTCTTTGCCCTATTTTCCTCAAAATAAAAGTTCATCCCTTAAATAACACAAACATCGA
27833 TTCTCGTAACAATCTCCATTCTTTTCAAGATTGGGAACCAAAAA
905 TTCTCGTAACAATCTCCATTCTTTTCAAGATTGGGAACCAAAAA
***
27877 CACATTCCCTTTATTAGGATACCCAACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTT-TTTCC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCC
* * * * * *
27941 CTCGTTTTTCATGGAATTAAAGTTTGTCTCTAAAATATGGCAAACATGAATACTCATACTAATCC
66 ATCGTTTTTAATAGAATCAAAGTTTGTCTCTAAAATAAGACAAACATGAATACTCATACTAATCC
* * * * * *
28006 CCATTCTTTTTAGGACT-AGGCAAC-ATAAACATAGTTTTCTCTTTAGGACACATGATATCGGTG
131 CCATTCTTTTCAAGA-TGAGGC-ACTATAAACATAGTCTTCTCATTAGGATACATGATACCGGTG
** * * * * * *
28069 CTTT-AGTTTCACAAGAAAGGCTTTTCTCCCACTAATTTAACTAAAATCCAAGTTCGTGCCTCAC
194 CTTTGA-TTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTACTAAAGTCTATGTTCGTGCCTCA-
* * * *
28133 AAA-AGATAAGCATGGATTCTAGTAAAGATCTTTCATTTTATGAGTAGGCACTATAAACACATTT
257 AAAGAGACAAACATGGATTCTAGTAAAGATCTTTCATTTTATGAGTAAGCACTATAAACACATTC
* * *** * *
28197 TTCTCATTAAGATAAATGATATTGGTGAAAGTCTTTTGCGTGAAAATCTCTTCTTTGCCCTATTT
322 TCCTCATTAAGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTT
* * * *
28262 TCCTAAAAATCAAAGTTCTTCCCTTAAATAAGATAAGCATCGATTCTCATAACAGTCTCCATTCT
387 TCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCT
* *** *
28327 TTTCAAGGTTTGGAAATGAAAACACATTCCCTTTATT---ATACATGACATTGATGCTTTAGTGT
452 TTTCAAGGTTGGGAACCAAAAACACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGGGT
* * * *** * *
28389 CTCAAGAAAACCTTTTCATTCCATTGCTTTTGATAAAATCAAAG-TTCACCTCTTAAATAAGACA
517 CGCAAGAAAAGCTTTT-TTTCCATCATTTTTGATAGAATCAAAGATT-ATCTCTTAAATAAGACA
* * * * * * *
28453 AAAATGAATACACGTACCAATCCCCATTCTTTTCAGGATGAGACACTATAAACATTGTCCTCTCA
580 AACATGAATACTCGTACTAATCCCCATTCTTTTTAGGATGAGGCACTATAAACATAGTCTTCTCA
* * * * * **
28518 TTAGGATACACGATACCGGTGCTTTGATTTTCCAAGATATTCTTTTTTCCCACCAATTTTAGTAA
645 TTAGGATACATGAAATCGGTGCTTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAA
* * *
28583 AGTCTATGTTCGTGCCTCAAAAGAGGCAAACATGGATTCTAATAATGATCTTCTTTCATTTTATG
710 AGTCTATGTTCATGCCTCAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATG
* * * **
28648 ATTAAGCACTGTAAATATATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCACAG
775 ATTAAGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGG
* * * * *
28713 AAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATTGA
840 AAATCTTTTCTTTGCCCTATTTTCCTCAAAATAAAAGTTCATCCCTTAAATAACACAAACATCGA
28778 TTCTCGTAACAATCTCCATTCTTTTCAA-AGTTGGGAACCAAAAA
905 TTCTCGTAACAATCTCCATTCTTTTCAAGA-TTGGGAACCAAAAA
* ** *
28822 CACATTCCCTTCATTAGGATACATGACATTGATATTTTAGG-GTCGCAAGAAACGCTTTTCTTTC
1 CACATTCCCTTTATTAGGATACATGACATTGATGCTTT-GGTGTCGCAAGAAAAGCTTTTCTTTC
* * * ** * *
28886 CAACATTTTTAATAGAATCAAAGATTACCTCTTAAATAAGACAAACATGAATATTCATACTAATC
65 CATCGTTTTTAATAGAATCAAAGTTTGTCTCTAAAATAAGACAAACATGAATACTCATACTAATC
* * *
28951 CCCATTCTTTTCAGGATGAGGCACCAT-AACGATAGTCTTCTCATTAGGATACACGATACCGGTG
130 CCCATTCTTTTCAAGATGAGGCACTATAAAC-ATAGTCTTCTCATTAGGATACATGATACCGGTG
* * *
29015 CTTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAATGAAGTCTATGTTTGTGCCTCAAA
194 CTTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTACTAAAGTCTATGTTCGTGCCTCAAA
* * * * *
29080 AGAGACGAACATAGATTCTAGTAATGTTCTTATTTCATTTTATGATTAAGCACTATAAACACATT
259 AGAGACAAACATGGATTCTAGTAAAGATC---TTTCATTTTATGAGTAAGCACTATAAACACATT
** * * * * * *
29145 CTATTTATT-AGCATAAAAGAAATTGATGATTTTCTTTTGCTTGGAAATCTTTTCTTTGTCCTAT
321 CTCCTCATTAAG-ATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTAT
* * * * * * * *
29209 TTTTCTTAAACTAAAAGTTCATCCCTTGAATAACATAAACATCGATTCTTGTAACAGTCTCCATT
385 TTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATT
* * *
29274 CTTTTC-AGGATTGGGAACCAAAAACATATTCCCTTTACTAGGATACATGACATTGATACTTT-G
450 CTTTTCAAGG-TTGGGAACCAAAAACACATTCCCTTTATTAGGATACATGACATTGATGCTTTAG
* * * * * * *
29337 GTGTCGCGAGAAAAGCTTTTTTTCCATCATTTTTCATAGAATTAAAGTTTGTCTCTAAAATAAGG
514 G-GTCGCAAGAAAAGCTTTTTTTCCATCATTTTTGATAGAATCAAAGATTATCTCTTAAATAAGA
* * *
29402 CAAACATGAATACTCGTACTAATCTCCATTCTTTTTAGGATTAGGCACCATAAACATAGTCTTCT
578 CAAACATGAATACTCGTACTAATCCCCATTCTTTTTAGGATGAGGCACTATAAACATAGTCTTCT
29467 CATTAGGATACATGAAA
643 CATTAGGATACATGAAA
29484 GCTCAAGGAA
Statistics
Matches: 3027, Mismatches: 429, Indels: 97
0.85 0.12 0.03
Matches are distributed among these distances:
944 4 0.00
945 456 0.15
946 260 0.09
947 385 0.13
948 1017 0.34
949 362 0.12
950 10 0.00
951 286 0.09
952 246 0.08
953 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (948 bp):
CACATTCCCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCC
ATCGTTTTTAATAGAATCAAAGTTTGTCTCTAAAATAAGACAAACATGAATACTCATACTAATCC
CCATTCTTTTCAAGATGAGGCACTATAAACATAGTCTTCTCATTAGGATACATGATACCGGTGCT
TTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTACTAAAGTCTATGTTCGTGCCTCAAAAG
AGACAAACATGGATTCTAGTAAAGATCTTTCATTTTATGAGTAAGCACTATAAACACATTCTCCT
CATTAAGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCT
TAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTC
AAGGTTGGGAACCAAAAACACATTCCCTTTATTAGGATACATGACATTGATGCTTTAGGGTCGCA
AGAAAAGCTTTTTTTCCATCATTTTTGATAGAATCAAAGATTATCTCTTAAATAAGACAAACATG
AATACTCGTACTAATCCCCATTCTTTTTAGGATGAGGCACTATAAACATAGTCTTCTCATTAGGA
TACATGAAATCGGTGCTTTGATTTTGCAAGAAAGGCTTTTTTCCCACCAATTTTAGTAAAGTCTA
TGTTCATGCCTCAAAAGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTATGATTAAG
CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCT
TTTCTTTGCCCTATTTTCCTCAAAATAAAAGTTCATCCCTTAAATAACACAAACATCGATTCTCG
TAACAATCTCCATTCTTTTCAAGATTGGGAACCAAAAA
Found at i:27561 original size:159 final size:158
Alignment explanation
Indices: 25031--28979 Score: 967
Period size: 159 Copynumber: 25.0 Consensus size: 158
25021 TGGTTTTCAT
* * ** *
25031 CACATTCCCTTCATTAGGATACATGACATTGATGTTTTAGGGTCACAAGAAAAGCTTTTCTTTCC
1 CACATTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTT-TTTCC
* * * * * *
25096 ATCATTTTTGATAGAATCAAA-TATTATCTC-TAAATAAGACAAACATGAATACTCATACTAATC
65 ATAATTTTCGATAAAATCAAAGT-TCATCTCTTAAATAAGACAAACATGAATTCTCGTACTAATC
* *
25159 CCAATTCTTTTCAAGATGACGCACTATAAA
129 CCCATTCTTTTCAAGATGAGGCACTATAAA
* * * * ** * * * *
25189 CATAGT-CTTCTCATTAGGATACACGATACCGGTGCTTT-GATTTTGCAAGAAAGGCTTTTTTCC
1 CACATTCCCT-TCATTAGGATACATGATATTGATGCTTTAG-TTTCGCAAGAAAAGCTTTTTTTC
* * * * * * * * * * * *
25252 CACCAATTTTAG-TAAAGTCTATGTCCGTGCT-TCAAA-AGAGGCAAACATGGATTCTAGTA-AA
64 CA-TAATTTTCGATAAAATCAAAGTTCAT-CTCTTAAATA-AGACAAACATGAATTCTCGTACTA
** * * * * * *
25313 GATCTTCTTTCATTTT-ATGGTTAAGCAATATAAA
126 -ATCCCCATTC-TTTTCAAGATGAGGCACTATAAA
* * * * ** * * * *
25347 CACATTCTCC-TCATTAAGATAAATGATATTGAAGATTTTCTTTGGCATGGAAATCTTTTCTTTG
1 CACATTC-CCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGC-TTT-TTT-
* * * * * * *
25411 TCC-TATTTTTC-TTAAAATAAAAGTTCAACCCTTGAATAACACAAACATCG-ATTCTCGTAAC-
62 TCCATAATTTTCGATAAAATCAAAGTTCATCTCTTAAATAAGACAAACAT-GAATTCTCGT-ACT
** * * * * *
25472 AGA-CTGCATTCTTTTTAGGATTG-GGAACCAAAAA
125 A-ATCCCCATTCTTTTCAAGA-TGAGGCACTATAAA
* * * * * * * * * *
25506 CACATTTCTTTTATTCGGATACACGACATTGATGCTTTGGTGTCACGAA-AAGAGC-TTTTTTCC
1 CACATTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGC-AAGAAAAGCTTTTTTTCC
* * * * ** * * * * *
25569 CTCATTTTTC-ATAGAATTAAAGTTTGTCTCTAAAATAAGGCAAACACGAATACTCATACTAATC
65 AT-AATTTTCGATAAAATCAAAGTTCATCTCTTAAATAAGACAAACATGAATTCTCGTACTAATC
* * * * *
25633 CCCATTTTTTTTAGGATTAGGCACCATAAA
129 CCCATTCTTTTCAAGATGAGGCACTATAAA
* * * * * *
25663 CATAGT--CTTCCCGTTAGGATACATGATATTGGTGCTTTAGTTTCACAAGAAAGGC-TTTTTTC
1 CACATTCCCTT--CATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTTTTTC
* * * * * ** * * * * *
25725 CTACTAATTTT--ACTAAAGTCCAAGTTCGTGC-CTCATAGGAGATAAACATGGATTTTAGCA-T
64 C-A-TAATTTTCGA-TAAAATCAAAGTTCAT-CTCTTAAATAAGACAAACATGAATTCTCGTACT
* *
25786 AGAT---CTTTCATTTT-ATGA-GTAGGCACTATAAA
125 A-ATCCCCATTC-TTTTCAAGATG-AGGCACTATAAA
* * * ** * *** *
25818 CACATTCTCTTCATTAGGATAAATGATATTGATGATTTTCTTTTGTGTGAAAATCTTTTCTTTGC
1 CACATTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTT-TTT-C
* * * * *
25883 CCT-ATTTTC-CTCAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCG-ATTCTCATAAC-A
64 CATAATTTTCGAT-AAAATCAAAGTTCATCTCTTAAATAAGACAAACAT-GAATTCTCGT-ACTA
* * * * *
25944 GTCTCCATTCTTTTCAAGGCTG-GGAAATGA-AAA
126 ATCCCCATTCTTTTCAA-GATGAGGCACT-ATAAA
** * ** * * * *
25977 TGCATTCCTTTTGTTGGGATACATGACATTGATGCTTTAGTGTCTCAAGAAAAGCTTTTCTTTCC
1 CACATTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTT-TTTCC
** * ** * * * *
26042 ATTGCTTTT-AATAAAATCAAAGTTTGTTTCTTAAATAAGACAAAAATGAATACACGTACTAATC
65 A-TAATTTTCGATAAAATCAAAGTTCATCTCTTAAATAAGACAAACATGAATTCTCGTACTAATC
26106 CCCATTCTTTTCAAGATGAGGCACTATAAA
129 CCCATTCTTTTCAAGATGAGGCACTATAAA
* ** * * * * *
26136 CATA-GACCTCTCATTAGGATACATGATACTGGTGCTTT-GATTTTGCAAGAAAGGCTTTTTTCC
1 CACATTCCCT-TCATTAGGATACATGATATTGATGCTTTAG-TTTCGCAAGAAAAGCTTTTTTTC
* * * * * * * * * *
26199 CACCAATTTTAG-TAAAGTCTATGTTCATAC-CTCAAA-AGAGACAAACATGGATTCTAGTAATG
64 CA-TAATTTTCGATAAAATCAAAGTTCAT-CTCTTAAATA-AGACAAACATGAATTCTCGTACTA
*** * * * * *
26261 ATTTTCTTTCATTTT-ATGGTTAAGCACTATAAA
126 ATCCCCATTC-TTTTCAAGATGAGGCACTATAAA
* * * ** * *
26294 CACATTCTCC-ACATTAGGATAAATGATATTGATGATTTTCTTTTGCACA-AAAATCTTTTCTTT
1 CACATTC-CCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCA-AGAAAAGCTTTT-TTT
** * * * *
26357 GCCAT-ATTTTCCTTAAAATCAAACTTCATCCCTTAAATAAGACAAGCATCG-ATTCTCGTAATA
63 -CCATAATTTTCGATAAAATCAAAGTTCATCTCTTAAATAAGACAAACAT-GAATTCTCGTACTA
* * * * * * *
26420 GTCTCCATTCTTTCCAAAGTTG-GGAACCAAAAA
126 ATCCCCATTCTTTTC-AAGATGAGGCACTATAAA
* * * **
26453 CACATTCCCTTCTTTAGGATACATGACATTGATGTTTTAGGGTCGCAAGAAAAGCTTTTTTTCCC
1 CACATTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTTTTT-CC
* * * * * *
26518 ATCATTTTTGATAGAATCAAAGATT-ATCTCTTAAATAAGATAAACATGAATACTCATACTAATC
65 ATAATTTTCGATAAAATCAAAG-TTCATCTCTTAAATAAGACAAACATGAATTCTCGTACTAATC
* *
26582 CCCATTCTTTTTAGGATGAGGCACTATAAA
129 CCCATTCTTTTCAAGATGAGGCACTATAAA
* * * * * * * * * *
26612 CATAGT-CTTCTCATTAGGATACATGAAATCGGTGCTTT-GATTTTGCAGGAAAGGCTTTTTTCC
1 CACATTCCCT-TCATTAGGATACATGATATTGATGCTTTAG-TTTCGCAAGAAAAGCTTTTTTTC
* * * * * * * * * * *
26675 CACCAATTTT-GGTGAAGTCTACGTTCATGC-CTCAAAAAAGACAAACAT-AGATTCTAGTAATG
64 CA-TAATTTTCGATAAAATCAAAGTTCAT-CTCTTAAATAAGACAAACATGA-ATTCTCGTACTA
** * * *
26737 AT-CTTATTTCATTTT-ATGATTAAGCACTATAAA
126 ATCCCCA-TTC-TTTTCAAGATGAGGCACTATAAA
* * * ** * * * *
26770 CACATTCTCC-TCATTAGCG-TAAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTCTTT
1 CACATTC-CCTTCATTAG-GATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGC-TTT-TTT
* * * * * * *
26833 GTCC-TATTTTTC-TTAAAATAAAAGTTCATCCCTTGAATAACACAAACATCG-ATTCTCGTAAT
62 -TCCATAATTTTCGATAAAATCAAAGTTCATCTCTTAAATAAGACAAACAT-GAATTCTCGTACT
* * * * * *
26895 AGTCTCCATTCTTTTTAAGATTG-GGAACCAAAAA
125 AATCCCCATTCTTTTCAAGA-TGAGGCACTATAAA
* * * * * * * ** *
26929 CACATTTCCTTTATTAGGATATAGGACATTGATGCTTTGGTGTCGCGTGAAAAGCTTTTTTTCCC
1 CACATTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTTTTTCCA
** * * ** * * * *
26994 TCGTTTGTC-ATAGAATTAAAGTTTGTCTCTAAAATAAGGCAAACACGAATACTCGTACTAATCC
66 TAATTT-TCGATAAAATCAAAGTTCATCTCTTAAATAAGACAAACATGAATTCTCGTACTAATCC
* * **
27058 CCATTCTTTTTATGATTTGGCACTATAAA
130 CCATTCTTTTCAAGATGAGGCACTATAAA
* * * * * * * *
27087 CATAGT-CTTCTCATTAGGATACATGATATTGGTGCTTTAGTTTCACAGGAAAGGC-GTTTTTCC
1 CACATTCCCT-TCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTTTTTCC
* * * * * * * * *
27150 TACTAATTTT--ACTAAAGTCCAAGTTCGTGC-CTCACAA-GAGATAAACATGGATTCTAGTA-A
65 -A-TAATTTTCGA-TAAAATCAAAGTTCAT-CTCTTA-AATAAGACAAACATGAATTCTCGTACT
** * *
27210 AGATCTTTCATT-TTGT-GAG-T-AGGCACTATAAA
125 A-ATC-CCCATTCTTTTCAAGATGAGGCACTATAAA
* * * * * * ***
27242 CACATTCTCCTT-GTTAAGATAAATGATATTGATGGTTCT-CTTTTGTGTGAAAAGCTTTTCCTT
1 CACATTC-CCTTCATTAGGATACATGATATTGATGCTT-TAGTTTCGCAAGAAAAGCTTTT--TT
* * ** * * * *
27305 ACCCT-ATTTTCCTTAAAATCAAAGTTCATCCCTTAAAGAAGACAAGCATCG-ATTCTCATAAC-
62 TCCATAATTTTCGATAAAATCAAAGTTCATCTCTTAAATAAGACAAACAT-GAATTCTCGT-ACT
* * * * *
27367 AATCTCCATTCTTTTCAAGGTTG-GGAACCAAAAA
125 AATCCCCATTCTTTTCAA-GATGAGGCACTATAAA
* *
27401 CACGTTCCCTTCATTAGGATACATGATATTGATGCTTTAGTATCGCAAGAAAAGCTTTTCTTTCC
1 CACATTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTT-TTTCC
** *
27466 ATTTTTTTCGATAAAATCAAAGATT-ATCTCTTAAATAAGACAAACATGAATACTCGTACTAATC
65 ATAATTTTCGATAAAATCAAAG-TTCATCTCTTAAATAAGACAAACATGAATTCTCGTACTAATC
27530 CCCATTCTTTTCAAGATGAGGCACTATAAA
129 CCCATTCTTTTCAAGATGAGGCACTATAAA
* * * * * * * *
27560 CATAGT-CTTGTCACTAGGATACACGATAAT-AGTGC-TTCGATTTTGCAA-AAAAGGCTTTTTT
1 CACATTCCCT-TCATTAGGATACATGATATTGA-TGCTTTAG-TTTCGCAAGAAAA-GCTTTTTT
* * * * * * * * *
27621 CCCACCAATTTTAG-TCAAGTCTATGTTCATGC-CTCAAA-AGAGACAAACATGGATTCT-GCTA
62 TCCA-TAATTTTCGATAAAATCAAAGTTCAT-CTCTTAAATA-AGACAAACATGAATTCTCG-TA
* * ** * * * *
27682 ATGATCTTCTTTCATTTT-ATGATTAGGCACTATAAG
123 CTAATCCCCATTC-TTTTCAAGATGAGGCACTATAAA
* * * * * * ** ** * * *
27718 CATATTCTCATCATTAGCATAAATGATATTGATGATTTTCTTTTTCATGCAAATCTTTTCTTTGT
1 CACATTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGC-TTT-TTT-T
* * * * *
27783 CC-TATTTTTC--TCAAAATAAAAGTTTATCCCTTAAATAACACAAACATCG-ATTCTCGTAAC-
63 CCATAATTTTCGAT-AAAATCAAAGTTCATCTCTTAAATAAGACAAACAT-GAATTCTCGT-ACT
* * * *
27843 AATCTCCATTCTTTTCAAGATTG-GGAACCAAAAA
125 AATCCCCATTCTTTTCAAGA-TGAGGCACTATAAA
* *** * * * *
27877 CACATTCCCTTTATTAGGATACCCAACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTTTTCCC
1 CACATTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTTTTTCCA
** ** * ** * * * * *
27942 TCGTTTTTC-ATGGAATTAAAGTTTGTCTCTAAAATATGGCAAACATGAATACTCATACTAATCC
66 T-AATTTTCGATAAAATCAAAGTTCATCTCTTAAATAAGACAAACATGAATTCTCGTACTAATCC
* *
28006 CCATTCTTTTTAGGACT-AGGCAAC-ATAAA
130 CCATTCTTTTCAAGA-TGAGGC-ACTATAAA
* ** * * * * * * * *
28035 CATAGTTTTC-TCTTTAGGACACATGATATCGGTGCTTTAGTTTCACAAGAAAGGCTTTTCTCCC
1 CACA-TTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTTTTTCC
* * * * * * * * *
28099 ACTAA-TTT-AACTAAAATCCAAGTTCGTGC-CTCACAA-AAGATAAGCATGGATTCTAGTA-AA
65 A-TAATTTTCGA-TAAAATCAAAGTTCAT-CTCTTA-AATAAGACAAACATGAATTCTCGTACTA
* *
28159 GAT---CTTTCATTTT-ATGA-GTAGGCACTATAAA
126 -ATCCCCATTC-TTTTCAAGATG-AGGCACTATAAA
** * * * ** * ** *
28190 CACATT-TTTCTCATTAAGATAAATGATATTGGTG--AAAGTCTTTTGCGTGAAAATCTCTTCTT
1 CACATTCCCT-TCATTAGGATACATGATATTGATGCTTTAG--TTTCGCAAGAAAAGCT-TT-TT
* * * * * * * *
28252 TGCCCT-ATTTTC-CTAAAAATCAAAGTTCTTCCCTTAAATAAGATAAGCATCG-ATTCTCATAA
61 TTCCATAATTTTCGAT-AAAATCAAAGTTCATCTCTTAAATAAGACAAACAT-GAATTCTCGT-A
* * * ** * *
28314 C-AGTCTCCATTCTTTTCAAGGTTTGGAAATGA-AAA
123 CTAATCCCCATTCTTTTCAAGATGAGGCACT-ATAAA
* * * * * *
28349 CACATTCCCTTTATT---ATACATGACATTGATGCTTTAGTGTCTCAAGAAAACCTTTTCATTCC
1 CACATTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTT-TTTCC
** * * * * *
28411 ATTGCTTTT-GATAAAATCAAAGTTCACCTCTTAAATAAGACAAAAATGAATACACGTACCAATC
65 A-TAATTTTCGATAAAATCAAAGTTCATCTCTTAAATAAGACAAACATGAATTCTCGTACTAATC
* *
28475 CCCATTCTTTTCAGGATGAGACACTAT-AA
129 CCCATTCTTTTCAAGATGAGGCACTATAAA
* * ** * * * ** *
28504 -ACATTGTCCTCTCATTAGGATACACGATACCGGTGCTTTGATTTTC-CAAGATATTCTTTTTTC
1 CACATT-CCCT-TCATTAGGATACATGATATTGATGCTTT-AGTTTCGCAAGAAAAGCTTTTTTT
* * * * * * * * * ** *
28567 CCACCAATTTTAG-TAAAGTCTATGTTCGTGC-CTCAAA-AGAGGCAAACATGGATTCTAATAAT
63 CCA-TAATTTTCGATAAAATCAAAGTTCAT-CTCTTAAATA-AGACAAACATGAATTCTCGTACT
* ** * * * * *
28629 GATCTTCTTTCATTTT-ATGATTAAGCACTGTAAA
125 AATCCCCATTC-TTTTCAAGATGAGGCACTATAAA
* * * * ** * *
28663 TATATTCTCC-TCATTAGGATAAATGATATTGATGATTTTCTTTTGCACAG-AAATCTTTTCTTT
1 CACATTC-CCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCA-AGAAAAGCTTTT-TTT
* ** * *
28726 GCCCT-ATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATTG-ATTCTCGTAAC-
63 -CCATAATTTTCGATAAAATCAAAGTTCATCTCTTAAATAAGACAAACA-TGAATTCTCGT-ACT
* * * * *
28788 AATCTCCATTCTTTTCAAAGTTG-GGAACCAAAAA
125 AATCCCCATTCTTTTC-AAGATGAGGCACTATAAA
* ** ** *
28822 CACATTCCCTTCATTAGGATACATGACATTGATATTTTAGGGTCGCAAGAAACGCTTTTCTTTCC
1 CACATTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTT-TTTCC
** * * *
28887 A-ACATTTTTAATAGAATCAAAGATT-ACCTCTTAAATAAGACAAACATGAATAT-TCATACTAA
65 ATA-ATTTTCGATAAAATCAAAG-TTCATCTCTTAAATAAGACAAACATGAAT-TCTCGTACTAA
* *
28949 TCCCCATTCTTTTCAGGATGAGGCACCATAA
127 TCCCCATTCTTTTCAAGATGAGGCACTATAA
28980 CGATAGTCTT
Statistics
Matches: 2661, Mismatches: 873, Indels: 513
0.66 0.22 0.13
Matches are distributed among these distances:
153 3 0.00
154 10 0.00
155 188 0.07
156 222 0.08
157 201 0.08
158 924 0.35
159 1035 0.39
160 71 0.03
161 7 0.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (158 bp):
CACATTCCCTTCATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAAGCTTTTTTTCCA
TAATTTTCGATAAAATCAAAGTTCATCTCTTAAATAAGACAAACATGAATTCTCGTACTAATCCC
CATTCTTTTCAAGATGAGGCACTATAAA
Found at i:30209 original size:20 final size:20
Alignment explanation
Indices: 30184--30237 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
30174 GTTACAAGCA
*
30184 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
30204 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
*
30224 ATGTATTGATACAA
1 ATGTATCGATACAA
30238 ACAGTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:30288 original size:20 final size:20
Alignment explanation
Indices: 30263--30319 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
30253 TACTGCCAGT
30263 TTCATGTATAGATACAATTG
1 TTCATGTATAGATACAATTG
*
30283 TTCATGTATTGATACAA-TG
1 TTCATGTATAGATACAATTG
** *
30302 AACATGTATCGATACAAT
1 TTCATGTATAGATACAAT
30320 GTATCGATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (20 bp):
TTCATGTATAGATACAATTG
Found at i:30323 original size:13 final size:13
Alignment explanation
Indices: 30305--30331 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30295 TACAATGAAC
30305 ATGTATCGATACA
1 ATGTATCGATACA
30318 ATGTATCGATACA
1 ATGTATCGATACA
30331 A
1 A
30332 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:30983 original size:46 final size:46
Alignment explanation
Indices: 30908--31000 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
30898 ATAATTAATG
*
30908 CTTACAAAAATTTCTCCCCCTTAAGCGGTTAAAGAATTTTTCTCCC
1 CTTACAAAAATTTCTCCCCCTTAAACGGTTAAAGAATTTTTCTCCC
* * *
30954 CTTATAAAAATTTCTCCCCTTTAAACGGTTAAAGAGTTTTTCTCCC
1 CTTACAAAAATTTCTCCCCCTTAAACGGTTAAAGAATTTTTCTCCC
31000 C
1 C
31001 CTTAATCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.37
Consensus pattern (46 bp):
CTTACAAAAATTTCTCCCCCTTAAACGGTTAAAGAATTTTTCTCCC
Found at i:41529 original size:466 final size:467
Alignment explanation
Indices: 40634--42511 Score: 1997
Period size: 466 Copynumber: 4.0 Consensus size: 467
40624 TCTAACAATA
* * * *
40634 TATCCT-ATGAGGGAATGTGTTTTTGGTTCCCAGCTTTGAAAAGAACGAAGACTATTACGAGAAT
1 TATCCTAATGAGGGAATGT-ATTTTGGTTCCCAGCTTTGAAAAGAATGAAGACTGTTACGAAAAT
* * *
40698 CAATGC--TGTCTTTTTTAAGGGATGAACTTTGATTTTAAGGAAATAGGGCAAAGAAAAGATTTT
65 CGATGCTGTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAA-ATGGCAAAGAAAAGATTTT
* *
40761 CGTGCAAAAGAAAATCATCAATATCATTTATCCTAATG-GGAGGAATGTGTTTATAGTGCTTAAT
129 CATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGA-GAATGTGTTTATAGTGCTTAAC
* *
40825 CATAAAATGAAAGGAGATCGTTACTAGAATCCATGTTTGTCTCTTTTGAGGCATGAAC-TAGACT
193 CATAAAATGAAAGAAGATC-TTACTAGAATCCATGTTTGTCTCTTTTGAGGCACGAACATAGACT
* * * * *
40889 TTACTAAAATTGGTGGGAAAAAGCCTTTCTTGCAAAAACAAAGCACCCGTATCGTGTATCCTAAA
257 TTACTAAAATTGG-GGAAAAAAGCCTTTCTTGCAAAATCAAAGCACCAGTATCATGTAT-CTAAT
* * * * * *
40954 GAGAGGTCTATGTTTAGAGTGCCTCATCCTAAAAAGATTTGGGATTAGTATGAGTATTCATGTTT
320 GAGAAGACTATGTTTATAGTGCCTCATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTT
* *
41019 GTCTTATTTAGAGATAATATTTGATTCTATCAAAAATGATGGAAAGAAAAGCTTTTCTTGTGACC
385 GTCTTATTTA-AGATAAAATTTGATTCTATCAAAAACGATGGAAAGAAAAGCTTTTCTTGTGACC
*
41084 CTAAAACATCCATGTCATG
449 CTAAAACATCAATGTCATG
*
41103 TATCCTAATGAGGGAATGTATTTTGGTTCCCAACTTTGAAAAGAAT-AGAGACTGTTACGAAAAT
1 TATCCTAATGAGGGAATGTATTTTGGTTCCCAGCTTTGAAAAGAATGA-AGACTGTTACGAAAAT
* *
41167 CGATACTGT-TCCTATTTAA-GGATGAAC-TTGATTTTAAGGAAAATGG-AAATGAAAAGATTTT
65 CGATGCTGTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATGGCAAA-GAAAAGATTTT
* * *
41228 CGTGCAAAAGAAAATCATCAATGTCATTTTTCCTAATGAGGAGAATGTG-TTATAGTGCTTAACC
129 CATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCTTAACC
* * *
41292 ATAAAATGAAAGAAAATCATTACTAGAATCCATGTTTGTCTCTTTTGAGGTATGAACATAGACTT
194 ATAAAATGAAAGAAGATC-TTACTAGAATCCATGTTTGTCTCTTTTGAGGCACGAACATAGACTT
41357 TACTAAAATTGGGGAAAAAAAGCCTTTCTTGCAAAATCAAAGCACCAGTATCATGTATCCTAATG
258 TACTAAAATTGGGG-AAAAAAGCCTTTCTTGCAAAATCAAAGCACCAGTATCATGTAT-CTAATG
* * * *
41422 AG-AGTCTATGTTTATAGTGCCTCATCTTGAAAAGAATGGGGATTAGTACGTGTATTCAT-TTTG
321 AGAAGACTATGTTTATAGTGCCTCATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTG
* * * * * * *
41485 TCTTATTTAAGAAACAAACTTTGATTTTATTAAAAGCAATGGAAAGAAAAGCTTTTCTTGAGACA
386 TCTTATTTAAGATA-AAA-TTTGATTCTATCAAAAACGATGGAAAGAAAAGCTTTTCTTGTGACC
*
41550 CTAAAGCATCAATGTCATG
449 CTAAAACATCAATGTCATG
* ** * * ** * * * *
41569 TATCCCAACAAAAGGAATGCATTTTCATTTCCAGCCTTGAAAAG-ATGGAGACTGTTATG-AAAT
1 TATCCTAA-TGAGGGAATGTATTTTGGTTCCCAGCTTTGAAAAGAATGAAGACTGTTACGAAAAT
*
41632 CGATGCT-TGTCTTA-TTAAGGG-TGAACTTTG-TTTTGAGGAAAATAGGGCAAAGAAAAGATTT
65 CGATGCTGTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAAT--GGCAAAGAAAAGATTT
** * *
41693 TCACACAAAAGAAAATCATC-ATATTCATTTATCCTAATGAAGAGAATGTGTTTATAGTGC--CA
128 TCATGCAAAAGAAAATCATCAATA-TCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCTTAA
* * * * * * *
41755 CTCATAAAATG--A-AAGATCTATGCTAAAATCCATGTTTATCTCCTATGAGGCACGAACTTGGA
192 C-CATAAAATGAAAGAAGATCT-TACTAGAATCCATGTTTGTCTCTTTTGAGGCACGAACATAGA
* * ** *
41817 C-TTAGT-AAATTAGTAGGAAAAAAGCCTTTCTTGTGAAA-CTAAAGCACCAATATCATGTATCT
255 CTTTACTAAAATT-G-GGGAAAAAAGCCTTTCTTGCAAAATC-AAAGCACCAGTATCATGTATCT
* * * * * *
41879 AACGGGAAGACTATGTTTATGGTGCCTAATCCT-AAAAAAATGGGG-TTAGT-TGA-TATTCGTG
317 AATGAGAAGACTATGTTTATAGTGCCTCATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATG
* * * * * * * *
41940 TTTGCCTTATTTTGAGACAAACTTTAATTCTATGAAAAACGA-GGGAA-AAAAGCTCTTT-TCGT
382 TTTGTCTTA-TTTAAGATAAAATTTGATTCTATCAAAAACGATGGAAAGAAAAGCT-TTTCTTGT
* *
42002 GACACC-AAAGCATCAATGTCGTG
445 GAC-CCTAAAACATCAATGTCATG
* * * * * * * * * * * *
42025 TATCCGAATAAAGAAATGTGTTTTTGTTCCC-CCATCCTAAAAAGAATGCAGTCTGTTACGAGAA
1 TATCCTAATGAGGGAATGTATTTTGGTTCCCAGC-T-TTGAAAAGAATGAAGACTGTTACGAAAA
* * * * * *
42089 TCGATG-TTTGTGTTATTCAAGGGTTGACCTTT-ATTTTAAGAAAAATGGACAAAGAAAAGATTT
64 TCGATGCTGTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATGG-CAAAGAAAAGATTT
* * * * *
42152 CCATGCCAAAGAAAATCTTCAATATCATTTATCTTAATGAGGAGAAT-TGGTTTATATTGCTTAA
128 TCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGT-GTTTATAGTGCTTAA
* * *
42216 CCATAAAATGAAAGAAGATCTTACTAGAATCCATGTTTGCCTCTTTTGAAGCACGGACATAGACT
192 CCATAAAATGAAAGAAGATCTTACTAGAATCCATGTTTGTCTCTTTTGAGGCACGAACATAGACT
* * *
42281 TTACTAAAATTGGGGGAAAAAAGCCTTTCTTGCAAAATCAAAGCACCGGTATCGTTTATCTACAT
257 TTACTAAAATT-GGGGAAAAAAGCCTTTCTTGCAAAATCAAAGCACCAGTATCATGTATCTA-AT
* * *
42346 GAGAAGACTATGTTTATAGTGCGTCATCTTG-AAAGAAATTGGGATTAGTATGAGTA-TCATGTT
320 GAGAAGACTATGTTTATAGTGCCTCATCCTGAAAAG-AATGGGGATTAGTATGAGTATTCATGTT
* * * *
42409 TGTCTTTTTTGAGATAATATTTGATTCTTATCAAAAATGAT-GAAAGAAAAGCTTTTCTTGTGAC
384 TGTCTTATTTAAGATAAAATTTGATTC-TATCAAAAACGATGGAAAGAAAAGCTTTTCTTGTGAC
42473 CCTAAAACATCAATGTCAATG
448 CCTAAAACATCAATGTC-ATG
42494 TATCCTAATGAAGGGAAT
1 TATCCTAATG-AGGGAAT
42512 TGTGATGAAA
Statistics
Matches: 1171, Mismatches: 176, Indels: 123
0.80 0.12 0.08
Matches are distributed among these distances:
454 1 0.00
455 16 0.01
456 41 0.04
457 21 0.02
458 38 0.03
459 77 0.07
460 42 0.04
461 25 0.02
462 100 0.09
463 92 0.08
464 63 0.05
465 44 0.04
466 279 0.24
467 193 0.16
468 47 0.04
469 66 0.06
470 25 0.02
471 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (467 bp):
TATCCTAATGAGGGAATGTATTTTGGTTCCCAGCTTTGAAAAGAATGAAGACTGTTACGAAAATC
GATGCTGTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATGGCAAAGAAAAGATTTTCA
TGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCTTAACCAT
AAAATGAAAGAAGATCTTACTAGAATCCATGTTTGTCTCTTTTGAGGCACGAACATAGACTTTAC
TAAAATTGGGGAAAAAAGCCTTTCTTGCAAAATCAAAGCACCAGTATCATGTATCTAATGAGAAG
ACTATGTTTATAGTGCCTCATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTA
TTTAAGATAAAATTTGATTCTATCAAAAACGATGGAAAGAAAAGCTTTTCTTGTGACCCTAAAAC
ATCAATGTCATG
Done.