Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010360.1 Kokia drynarioides strain JFW-HI SEQ_125231, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 32681
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Found at i:5130 original size:16 final size:16
Alignment explanation
Indices: 5111--5164 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 16
5101 TCTTCTCTCT
*
5111 TTTTTCTCTCAAGTTC
1 TTTTTCTCTCAATTTC
5127 TTTTTCTCTTTCAATTTC
1 TTTTTCTC--TCAATTTC
5145 TTTTTCTCTC-ATTTC
1 TTTTTCTCTCAATTTC
5160 TTTTT
1 TTTTT
5165 TTTCGTCCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
15 10 0.29
16 10 0.29
18 15 0.43
ACGTcount: A:0.09, C:0.22, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTTCTCTCAATTTC
Found at i:5735 original size:14 final size:14
Alignment explanation
Indices: 5700--5728 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5690 AAAGATTAAC
5700 AATAAAAGATTTTG
1 AATAAAAGATTTTG
5714 AATAAAAGATTTTG
1 AATAAAAGATTTTG
5728 A
1 A
5729 TTGAAAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
AATAAAAGATTTTG
Found at i:6105 original size:15 final size:15
Alignment explanation
Indices: 6087--6149 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 15
6077 AATGGAGCTA
6087 CGAACACTCATGTTG
1 CGAACACTCATGTTG
* ***
6102 CGAACACACACAATG
1 CGAACACTCATGTTG
* *
6117 CGAGCACTGATGTTG
1 CGAACACTCATGTTG
**
6132 CGAACACTTGTGTTG
1 CGAACACTCATGTTG
6147 CGA
1 CGA
6150 GCATGGATGA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (15 bp):
CGAACACTCATGTTG
Found at i:9090 original size:32 final size:32
Alignment explanation
Indices: 9054--9116 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
9044 GCCATCCATA
* * *
9054 CATGTACCTAAAATATATTAATTAGCTAATTG
1 CATGTACCTAAAACACATTAATCAGCTAATTG
9086 CATGTACCTAAAACACATTAATCAGCTAATT
1 CATGTACCTAAAACACATTAATCAGCTAATT
9117 AATTTCAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.33
Consensus pattern (32 bp):
CATGTACCTAAAACACATTAATCAGCTAATTG
Found at i:9261 original size:38 final size:39
Alignment explanation
Indices: 9151--9260 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 39
9141 CAAACATGAA
* * * *
9151 ATTAATTTGTCTCAAGCTT-AGACACCTTAAAAACAACT
1 ATTAATATGTATCAAACTTAAGACACATTAAAAACAACT
* * *
9189 ATTAAATATGAAACAAA-ATAAGACACATTAAAAACAACT
1 ATT-AATATGTATCAAACTTAAGACACATTAAAAACAACT
9228 ATTAATATGTATCAAACTTAAGACACATTAAAA
1 ATTAATATGTATCAAACTTAAGACACATTAAAA
9261 CCCTATTTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
38 15 0.25
39 44 0.75
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.27
Consensus pattern (39 bp):
ATTAATATGTATCAAACTTAAGACACATTAAAAACAACT
Found at i:12389 original size:31 final size:30
Alignment explanation
Indices: 12340--12472 Score: 85
Period size: 31 Copynumber: 4.3 Consensus size: 30
12330 ACACGTTTAA
* *
12340 TTTTTC-TATCTCTTTTTCTTCCTTTTCATC
1 TTTTTCTTTTCTCTCTTTCTTCCTTTTC-TC
*
12370 TTTTTCTTTTCTCTCTTTCTTCTCACTTTCT-
1 TTTTTCTTTTCTCTCTTTCTTC-C-TTTTCTC
** * *
12401 TTGCTCTTTTCTCTCTTTTTTCC-TTTCTT
1 TTTTTCTTTTCTCTCTTTCTTCCTTTTCTC
* * *
12430 TTTTTCAATTTTCTTCTCTTT-TTCATTCTCAC
1 TTTTTC--TTTTC-TCTCTTTCTTCCTTTTCTC
12462 TCTTTTCTTTT
1 T-TTTTCTTTT
12473 TCCCTCGATT
Statistics
Matches: 82, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
28 5 0.06
29 4 0.05
30 7 0.09
31 44 0.54
32 13 0.16
33 9 0.11
ACGTcount: A:0.05, C:0.26, G:0.01, T:0.68
Consensus pattern (30 bp):
TTTTTCTTTTCTCTCTTTCTTCCTTTTCTC
Found at i:15629 original size:32 final size:32
Alignment explanation
Indices: 15593--15654 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
15583 AAGCCATCCA
* * *
15593 TACATGTACTTGAAATATATTAATCAGCTAGT
1 TACATGTACCTGAAACACATTAATCAGCTAGT
15625 TACATGTACCTGAAACACATTAATCAGCTA
1 TACATGTACCTGAAACACATTAATCAGCTA
15655 ATTAATTTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (32 bp):
TACATGTACCTGAAACACATTAATCAGCTAGT
Found at i:15761 original size:39 final size:39
Alignment explanation
Indices: 15713--15801 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
15703 TCAAGCTTAC
*
15713 ACACCTTAAAAACAACTATTAAATATGTAACAAA-ATAAG
1 ACACATTAAAAACAACTATT-AATATGTAACAAACATAAG
* * * *
15752 ACACATTAAAAGCTACTATTAATATGTATCAAACTTAAG
1 ACACATTAAAAACAACTATTAATATGTAACAAACATAAG
15791 ACACATTAAAA
1 ACACATTAAAA
15802 CCCTATTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 12 0.27
39 32 0.73
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.26
Consensus pattern (39 bp):
ACACATTAAAAACAACTATTAATATGTAACAAACATAAG
Found at i:15812 original size:38 final size:36
Alignment explanation
Indices: 15728--15813 Score: 100
Period size: 38 Copynumber: 2.3 Consensus size: 36
15718 TTAAAAACAA
* *
15728 CTATTAAATATGTAACAAAATAAGACACATTAAAAG
1 CTATTTAATATGTAACAAAATAAGACACATTAAAAC
* *
15764 CTACTATTAATATGTATCAAACTTAAGACACATTAAAACC
1 CTA-T-TTAATATGTAACAAA-ATAAGACACATTAAAA-C
15804 CTATTTAATA
1 CTATTTAATA
15814 AATATGTCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
36 3 0.07
37 1 0.02
38 19 0.45
39 16 0.38
40 3 0.07
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (36 bp):
CTATTTAATATGTAACAAAATAAGACACATTAAAAC
Found at i:16515 original size:9 final size:9
Alignment explanation
Indices: 16501--16526 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16491 GGTTGGCTGA
16501 AATGCATGG
1 AATGCATGG
16510 AATGCATGG
1 AATGCATGG
16519 AATGCATG
1 AATGCATG
16527 AAGTGTTTTC
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:0.35, C:0.12, G:0.31, T:0.23
Consensus pattern (9 bp):
AATGCATGG
Found at i:16673 original size:15 final size:15
Alignment explanation
Indices: 16653--16702 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
16643 TCATCCATGC
16653 TCGCAACACGAGTGT
1 TCGCAACACGAGTGT
16668 TCGCAACATC-AGTGT
1 TCGCAACA-CGAGTGT
* *
16683 TCGCAACATGAGTGC
1 TCGCAACACGAGTGT
16698 TCGCA
1 TCGCA
16703 TCTTCCAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 30 0.97
16 1 0.03
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (15 bp):
TCGCAACACGAGTGT
Found at i:17170 original size:216 final size:216
Alignment explanation
Indices: 16735--18765 Score: 2210
Period size: 216 Copynumber: 9.5 Consensus size: 216
16725 TGCTTGCATC
* * * * * * * *
16735 ATGGATAGTCTTGGATACTTTGAGGAACCGAAGTTTTAAAAGAACTCTTAAAAGTTTGACTAGTT
1 ATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTT
* * *
16800 TGTAAGTTCGTCCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAA
66 TGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * *
16865 AAAAAGTTGTCTACAAAATGACAAACTACTTAGACCAAATGATGCGATTTTTCGAGCATGGAATG
131 CAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATG
16930 TTC-GAAAAATTGGTCGAAGGA
196 TTCAG-AAAATTGGTCGAAGGA
* * * * *
16951 ATGGATCGTCTTGAATACTCTCAGGAGCCAAAGTTATAAAATAACTTGTAACTGTTTGACAAGTT
1 ATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTT
* * *
17016 TTAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAATAC
66 TGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* *
17081 CAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGTGATTT-TCGAAGCATGGAAT
131 CAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCG-AGCATGGAAT
17145 GTTCAGAAAATTGGTC-AAGGGA
195 GTTCAGAAAATTGGTCGAA-GGA
** *
17167 ATGGATCGTCTTGAATACTCTCAACAACCGATGTTATAAAAGAACTCGTAAATGTTTGACAAGTT
1 ATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTT
** * * * *
17232 CAAAAGTTTGTCCAAGAACCAAGAAAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAATGAC
66 TGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * *
17297 CAAAAGTTGTTTACAAAATGACAAA-TAATTT-GACCAAATGATGCAATTTCCCGAGCATGAAAT
131 CAAAAGTTGTTTACAAAATGACAAACT-ATTTAGACCAAATGATGCGATTTCTCGAGCATGGAAT
* *
17360 ATTCAAAAAATTGGTCGAAGGA
195 GTTCAGAAAATTGGTCGAAGGA
* * * * * * *
17382 ATGGATCGTATTAAATACTCTCAGCAACCCAAGTTATAGAAGAACTCATAAATGATTGACAAGTT
1 ATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTT
* * * *
17447 TGGAAA-TTTGTCCAAAAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTCTAATACAAAGA
66 T-GAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * ** *
17511 CCGAAAGTTATTTACAAAATGACAAACTATTTAGGCCAAATGATGCGATTTCGGGAGAATGGAAT
130 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAAT
*
17576 GTTCTA-AAAATTGGTCGAATGA
195 GTTC-AGAAAATTGGTCGAAGGA
* * * * * * * * *
17598 AT-GAACTGTCTTGAATAATTTAAGGAACTGAAGTTATAGAAGAACTCATAAAAGTTTGACCAGT
1 ATGGATC-GTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGT
* * * * *
17662 TTGGAAGTTCGTCCAAGAA-CAATAAAGAAACAATTCTCATGTAAATAAGCTTTTAATTCAAAGA
65 TTGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * *
17726 -C-----TTGTTTGCAAAATGATAAACTATTTAGACAAAATGATGTGATTTCTCGAGCATGGAAT
130 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAAT
* *
17785 GTTC-GAAAATTGCTCAAAGGA
195 GTTCAGAAAATTGGTCGAAGGA
* * * * *
17806 ATGGATCGTCTTGGAA-ACTTTTTTAAGGAATCAAAGTTATAAAAGAACTCGTAAAAGTTTGACA
1 ATGGATCGTCTT-GAATAC---TCTCAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACA
* * * * ** * * * *
17870 AGTTCGGAAGTTCATCCAAGAACAAAGAGAGAAACAATAATCTCGTAAAAAAGTTTTTAACTAAA
62 AGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAA
* * * * *
17935 AGACCAAAAGTTGTTTACAAAATTAAAAACTATTTAGACTC-CATGATGCGATTTCTTGAACATG
127 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGAC-CAAATGATGCGATTTCTCGAGCATG
* *
17999 GAATGTTCAGAAAATTGGTTGAATGA
191 GAATGTTCAGAAAATTGGTCGAAGGA
* * **
18025 ATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAAGAACTCGTAAAACTTTGACAAGT
1 ATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTAT-AAAAGAACTCGTAAATGTTTGACAAGT
* * * * *
18090 TTGAAATTTCG-ACAAGGAAACAAGAGAGAAAC-A---TCACGTAAATAAGTTCTTAATTCAATG
65 TTGAAAGTTCGTCCAA-GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* *
18150 ACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
129 ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAA
*
18215 TGTTCAGAAAATTGGTTGAAGGA
194 TGTTCAGAAAATTGGTCGAAGGA
* * * * * * * *
18238 ATGAATCATCTTGAATACTCTTAGGAATCGAAGTTATAAAAGAACTTGTAAATGTTTCACGACTT
1 ATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTT
** * * * *
18303 CAAAAGTTCGTTCAAGAACCAAGAGAGAAACAATTTTCTCATAAATAAGTTTTTAATTCAAAGAC
66 TGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * * * * * * *
18368 TAAAAGTTGCTTA-AAAATGACAATCTATTTTGACCAACTTATGCGATTTCCCGAGAATGTAATG
131 CAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATG
* * * *
18432 TTCGGAAAATTGCTCAAAGGG
196 TTCAGAAAATTGGTCGAAGGA
* * * * * *
18453 ATGGATCATCTTGAATTCTCTCAGGAACCAAAGTTATAAAAGAGCTCATAAATGTTTTACAAGTT
1 ATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTT
* ** * * *
18518 CGGCAGTTCGTCCAAGAGCTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAACAC
66 TGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * * ** * * * *
18583 CAAAACTTGTTTTCAAAATCAAAAACTATTTTTATCAAATGATGAGATTT-T-GAGAATGAAATG
131 CAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATG
*
18646 TT-TGAAAAATTGGTCGAAGGA
196 TTCAG-AAAATTGGTCGAAGGA
* * * *
18667 ATGGATCGTCTTAAATACTCTCAGGAACTGATGTTTTAAAAGAACTCGTAAATGTTTGACAAGTT
1 ATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTT
* * * *
18732 TGAAAGTTTGTCGAAGAA-AAAGAGAGAAATAATT
66 TGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATT
18766 TGATGCGAGC
Statistics
Matches: 1523, Mismatches: 254, Indels: 79
0.82 0.14 0.04
Matches are distributed among these distances:
208 21 0.01
209 59 0.04
211 57 0.04
212 79 0.05
213 151 0.10
214 94 0.06
215 408 0.27
216 522 0.34
217 49 0.03
218 56 0.04
219 27 0.02
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (216 bp):
ATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTT
TGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
CAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATG
TTCAGAAAATTGGTCGAAGGA
Found at i:17575 original size:431 final size:431
Alignment explanation
Indices: 16735--18765 Score: 2165
Period size: 431 Copynumber: 4.7 Consensus size: 431
16725 TGCTTGCATC
* * ** * * *
16735 ATGGATAGTCTTGGATACTTTGAGGAACCGAAGTTTTAAAAGAACTCTTAAAAGTTTGACTAGTT
1 ATGGATCGTCTTGAATACTTCAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTT
* * *
16800 TGTAAGTTCGTCCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAA
66 TGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * * **
16865 AAAAAGTTGTCTACAAAATGACAAACTACTTAGACCAAATGATGCGATTTTTCGAGCATGGAATG
131 CAAAAGTTGTTTACAAAATGACAAACTAATTTGACCAAATGATGCGATTTCCCGAGCATGGAATG
* * * *
16930 TTCGAAAAATTGGTCGAAGGAATGGATCGTCTTGAATACTCTCAGGAGCCAAAGTTATAAAATAA
196 TTCAAAAAATTGGTCGAAGGAATGGATCGTCTTAAATACTCTCAGGAACCAAAGTTATAAAAGAA
* * * *
16995 CTTGTAACTGTTTGACAAGTTTTAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
261 CTCGTAAATGTTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
* *
17060 ATAAGTTTTTAATTCAAATACCAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATG
326 ATAAGTTTTTAATACAAAGACCAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATG
* * * *
17125 TGATTTTCGAAGCATGGAATGTTCAGAAAATTGGTCAAGGGA
391 CGA-TTTCGGAGAATGGAATGTTCAGAAAATTGGTCAAAGGA
* * * *
17167 ATGGATCGTCTTGAATACTCTCAA-CAACCGATGTTATAAAAGAACTCGTAAATGTTTGACAAGT
1 ATGGATCGTCTTGAATACT-TCAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGT
** * * * *
17231 TCAAAAGTTTGTCCAAGAACCAAGAAAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAATGA
65 TTGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* *
17296 CCAAAAGTTGTTTACAAAATGACAAA-TAATTTGACCAAATGATGCAATTTCCCGAGCATGAAAT
130 CCAAAAGTTGTTTACAAAATGACAAACTAATTTGACCAAATGATGCGATTTCCCGAGCATGGAAT
* * * * *
17360 ATTCAAAAAATTGGTCGAAGGAATGGATCGTATTAAATACTCTCAGCAACCCAAGTTATAGAAGA
195 GTTCAAAAAATTGGTCGAAGGAATGGATCGTCTTAAATACTCTCAGGAACCAAAGTTATAAAAGA
* * * *
17425 ACTCATAAATGATTGACAAGTTTGGAAA-TTTGTCCAAAAACCAAGAGAGAAACAATTCTCACGT
260 ACTCGTAAATGTTTGACAAGTTT-GAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGT
* * * * *
17489 AAATAAGTTTCTAATACAAAGACCGAAAGTTATTTACAAAATGACAAACTATTTAGGCCAAATGA
324 AAATAAGTTTTTAATACAAAGACCAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATGA
* *
17554 TGCGATTTCGGGAGAATGGAATGTTCTA-AAAATTGGTCGAATGA
389 TGCGATTTC-GGAGAATGGAATGTTC-AGAAAATTGGTCAAAGGA
* * * * * *
17598 AT-GAACTGTCTTGAATAATTTAAGGAACTGAAGTTATAGAAGAACTCATAAAAGTTTGACCAGT
1 ATGGATC-GTCTTGAATACTTCAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGT
* * * * *
17662 TTGGAAGTTCGTCCAAGAA-CAATAAAGAAACAATTCTCATGTAAATAAGCTTTTAATTCAAAGA
65 TTGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * * *
17726 -C-----TTGTTTGCAAAATGATAAACT-ATTTAGACAAAATGATGTGATTTCTCGAGCATGGAA
130 CCAAAAGTTGTTTACAAAATGACAAACTAATTT-GACCAAATGATGCGATTTCCCGAGCATGGAA
* * * ** * * *
17784 TGTTC-GAAAATTGCTCAAAGGAATGGATCGTCTTGGAAACTTTTTTAAGGAATCAAAGTTATAA
194 TGTTCAAAAAATTGGTCGAAGGAATGGATCGTCTT--AAA-TACTCTCAGGAACCAAAGTTATAA
* * * * * ** *
17848 AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACAAAGAGAGAAACAATAATCT
256 AAGAACTCGTAAATGTTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCA
* *
17913 CGTAAAAAAGTTTTTAACTA-AAAGACCAAAAGTTGTTTACAAAATTAAAAACTATTTAGACTC-
321 CGTAAATAAGTTTTTAA-TACAAAGACCAAAAGTTGTTTACAAAATGAAAAACTATTTAGAC-CA
* * ** *
17976 CATGATGCGATTTCTTGA-ACATGGAATGTTCAGAAAATTGGTTGAATGA
384 AATGATGCGATTTC-GGAGA-ATGGAATGTTCAGAAAATTGGTCAAAGGA
* * *
18025 ATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAAGAACTCGTAAAACTTTGACAAGT
1 ATGGATCGTCTTGAATACTTCAAGGAACCGAAGTTAT-AAAAGAACTCATAAAAGTTTGACAAGT
* * * * *
18090 TTGAAATTTCG-ACAAGGAAACAAGAGAGAAAC-A---TCACGTAAATAAGTTCTTAATTCAATG
65 TTGAAAGTTCGTCCAA-GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
*
18150 ACCAAAAGTTGTTTACAAAATGACAAACT-TTTTAGACCAAATGATGCGATTTCCCGAGCATGGA
129 ACCAAAAGTTGTTTACAAAATGACAAACTAATTT-GACCAAATGATGCGATTTCCCGAGCATGGA
* * * * * * * *
18214 ATGTTCAGAAAATTGGTTGAAGGAATGAATCATCTTGAATACTCTTAGGAATCGAAGTTATAAAA
193 ATGTTCAAAAAATTGGTCGAAGGAATGGATCGTCTTAAATACTCTCAGGAACCAAAGTTATAAAA
* * * * ** * * * *
18279 GAACTTGTAAATGTTTCACGACTTCAAAAGTTCGTTCAAGAACCAAGAGAGAAACAATTTTCTCA
258 GAACTCGTAAATGTTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACG
* * * * * * * *
18344 TAAATAAGTTTTTAATTCAAAGACTAAAAGTTGCTTA-AAAATGACAATCTATTTTGACCAACTT
323 TAAATAAGTTTTTAATACAAAGACCAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATG
* * * * *
18408 ATGCGATTTCCCGAGAATGTAATGTTCGGAAAATTGCTCAAAGGG
388 ATGCGATTT-CGGAGAATGGAATGTTCAGAAAATTGGTCAAAGGA
* * * * * *
18453 ATGGATCATCTTGAATTCTCTC-AGGAACCAAAGTTATAAAAGAGCTCATAAATGTTTTACAAGT
1 ATGGATCGTCTTGAATACT-TCAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGT
* ** * * *
18517 TCGGCAGTTCGTCCAAGAGCTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAACA
65 TTGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * * * * * * * * *
18582 CCAAAACTTGTTTTCAAAATCAAAAACTATTTTTATCAAATGATGAGATTT--TGAGAATGAAAT
130 CCAAAAGTTGTTTACAAAATGACAAACTAATTTGACCAAATGATGCGATTTCCCGAGCATGGAAT
** ** * *
18645 GTTTGAAAAATTGGTCGAAGGAATGGATCGTCTTAAATACTCTCAGGAACTGATGTTTTAAAAGA
195 GTTCAAAAAATTGGTCGAAGGAATGGATCGTCTTAAATACTCTCAGGAACCAAAGTTATAAAAGA
* * * *
18710 ACTCGTAAATGTTTGACAAGTTTGAAAGTTTGTCGAAGAA-AAAGAGAGAAATAATT
260 ACTCGTAAATGTTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATT
18766 TGATGCGAGC
Statistics
Matches: 1326, Mismatches: 235, Indels: 80
0.81 0.14 0.05
Matches are distributed among these distances:
424 46 0.03
425 55 0.04
426 9 0.01
427 233 0.18
428 143 0.11
429 211 0.16
430 54 0.04
431 410 0.31
432 163 0.12
433 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (431 bp):
ATGGATCGTCTTGAATACTTCAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTT
TGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
CAAAAGTTGTTTACAAAATGACAAACTAATTTGACCAAATGATGCGATTTCCCGAGCATGGAATG
TTCAAAAAATTGGTCGAAGGAATGGATCGTCTTAAATACTCTCAGGAACCAAAGTTATAAAAGAA
CTCGTAAATGTTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
ATAAGTTTTTAATACAAAGACCAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATG
CGATTTCGGAGAATGGAATGTTCAGAAAATTGGTCAAAGGA
Found at i:20057 original size:15 final size:15
Alignment explanation
Indices: 20039--20088 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
20029 TCATCCACGC
*
20039 TCGCAACATCAGTGT
1 TCGCAGCATCAGTGT
20054 TCGCAGC-TCCAGTGT
1 TCGCAGCAT-CAGTGT
* *
20069 TCGCAGCATGAGTGC
1 TCGCAGCATCAGTGT
20084 TCGCA
1 TCGCA
20089 TCTTTCAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.20, C:0.30, G:0.26, T:0.24
Consensus pattern (15 bp):
TCGCAGCATCAGTGT
Found at i:20606 original size:216 final size:213
Alignment explanation
Indices: 20153--21367 Score: 1043
Period size: 216 Copynumber: 5.8 Consensus size: 213
20143 CTCACATCAT
** **
20153 AATTCTCATGTAAATAAGTTTTTAATTCAAAGACCTTAAGTTGTTTACAAAAT-ACAAACAATTT
1 AATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTT
* * * * *
20217 -GACCAAATGTTGCGATTTTCCGAGCATGGTATGTTCTGAAAATTGGTCGAAGAATGGATCATCT
66 AGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAGAAAATT-GTAGAAGAATGGATCATCT
* ** * * *
20281 TGAATATTTTAAGG------ATTTATGCAAGAACTTGTAAATGTTTGACAAGTTCGGAAGTTCGT
130 TGAATATTTTAAGGAAACAAAGTTATAAAAGAACTT-TAAAAGTTTGACAAGTTCGAAAGTTCAT
** * *
20340 TTAAGAACCATGAGAGGAAC
194 CCAAGAACCAAGAGAGAAAC
*** *
20360 AATTCTCACAAAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGATAAACTTTTT
1 AATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTT
* * * * ***
20425 AGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCTGAGAATTGCTAGATGATATGGTTTGCC
66 AGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAGAAAATTG-TAGAAGA-ATGGATCATC
* * *
20490 ATGAATATTTTAAGGAAACAAAGTTATAAAATAACTTGTAAAAGATTGACAAGTTCGAAAGTTCA
129 TTGAATATTTTAAGGAAACAAAGTTATAAAAGAACTT-TAAAAGTTTGACAAGTTCGAAAGTTCA
**
20555 TCCAAGAATAAAGAGAGAAAC
193 TCCAAGAACCAAGAGAGAAAC
* * * *
20576 AATACTCACGTAAATATGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACTTTTT
1 AATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTT
* * * *
20641 AGTCCAAATGATGCGATTTCCCAAGCATGAAATGTTCAGAAAATTTGTCA-AAGGAATGAATCAT
66 AGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAGAAAA-TTGT-AGAA-GAATGGATCAT
* * * * * * *
20705 CTTGAATACTCTT-AGGAATCGAAGTTCTAAAAGAACTCATAAAAGTTTGAAAAGTTCGGAAGTT
128 CTTGAATA-TTTTAAGGAAACAAAGTTATAAAAGAACT-TTAAAAGTTTGACAAGTTCGAAAGTT
* *
20769 CGTCCAACAACCAAGAGAGAAAC
191 CATCCAAGAACCAAGAGAGAAAC
*** * *
20792 AA--AAAATG-GAA-AA--CTTT--TT---AGACCAAAAGTTGTTTACAAAATGACAAACTTTTT
1 AATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTT
* * *
20846 AGACCAAATGATTCGATTTCCCGAGCATGGAATATTCAGAAAATTTGTCA-AAGGAATGAATCAT
66 AGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAGAAAA-TTGT-AGAA-GAATGGATCAT
* * * * *
20910 CTTGAAATACTTTAAGGAACAAATAAATT-TAAAAGAAC-TCAAAAGTTTGACAAGTTTGAAAGT
128 CTTG-AATATTTTAAGGAA-ACA-AAGTTATAAAAGAACTTTAAAAGTTTGACAAGTTCGAAAGT
* *
20973 TCGA-CTAAGAACCAAGAGAGAAAT
190 TC-ATCCAAGAACCAAGAGAGAAAC
* * **
20997 AATTCTCATGTAAATAAG--TTTAA-TCAAAGACCAAAAGTTGTTTACCAAATGATAAACAATTT
1 AATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTT
* * ** * * *
21059 -GACAAAATGATGCGATTTCTCGAGCATAAAATGTTCAAAAAATTGGTCGAAAGAATGGATCCTC
66 AGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAGAAAATT-GTAG-AAGAATGGATCATC
* * * * * * *
21123 TTGAATACTCTCAGCAACCCAAGTTATAAAAGAAC--T--CA----GACAAGTTCGAAAGTTCAT
129 TTGAATATTTTAAGGAAACAAAGTTATAAAAGAACTTTAAAAGTTTGACAAGTTCGAAAGTTCAT
21180 CCAAGAACCAAGAGAGAAACAC
194 CCAAGAACCAAGAGAG-AA-AC
* * *
21202 AATTCTCATGTAAATAAGTTTTTAATTTAAAGA-CAAGAATTTTTTTACAAAATGACAAACTTTT
1 AATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAA-AAGTTGTTTACAAAATGACAAACTTTT
* * * * * *
21266 TAGGCCAAATGATGTGATTTCCCAAGCATGGAATGTTCGGAAAATTGGTTA-AAGGAATGAATCG
65 TAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAGAAAATT-G-TAGAA-GAATGGATCA
* * *
21330 TCTTGAATACTTTCAA-GAACCCAAGTTATAAAAGAACT
127 TCTTGAATA-TTTTAAGGAAACAAAGTTATAAAAGAACT
21368 CATATGGTAT
Statistics
Matches: 817, Mismatches: 145, Indels: 89
0.78 0.14 0.08
Matches are distributed among these distances:
202 1 0.00
203 31 0.04
204 2 0.00
205 159 0.19
206 9 0.01
207 69 0.08
208 47 0.06
209 128 0.16
210 36 0.04
211 13 0.02
212 51 0.06
213 35 0.04
214 2 0.00
216 225 0.28
217 9 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (213 bp):
AATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTT
AGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAGAAAATTGTAGAAGAATGGATCATCTT
GAATATTTTAAGGAAACAAAGTTATAAAAGAACTTTAAAAGTTTGACAAGTTCGAAAGTTCATCC
AAGAACCAAGAGAGAAAC
Found at i:20958 original size:205 final size:204
Alignment explanation
Indices: 20606--21340 Score: 575
Period size: 205 Copynumber: 3.5 Consensus size: 204
20596 TTTAATTCAA
*
20606 AGACCAAAAGTTGTTTACAAAATGAAAAACTTTTTAGTCCAAATGATGCGATTTCCCAAGCATGA
1 AGACCAAAAGTTGTTTACAAAATGAAAAACTTTTTAGACCAAATGATGCGATTTCCCAAGCATGA
* *
20671 AATGTTCAGAAAATTTGTCAAAGGAATGAATCATCTTGAATACTCTTAGGAATCGAAGTTCTAAA
66 AATATTCAGAAAATTTGTCAAAGGAATGAATCATCTTGAATACTCTTAGGAATCGAAATTCTAAA
* *
20736 AGAACTCATAAAAGTTTGAAAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAAAAAATGG
131 AGAACTCA-AAAAGTTTGAAAAGTTCGAAAGTTCGACCAACAACCAAGAGAGAAACAAAAAATGG
20801 AAAACTTTTT
195 AAAACTTTTT
* * * *
20811 AGACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATTCGATTTCCCGAGCATGG
1 AGACCAAAAGTTGTTTACAAAATGAAAAACTTTTTAGACCAAATGATGCGATTTCCCAAGCATGA
20876 AATATTCAGAAAATTTGTCAAAGGAATGAATCATCTTGAAATACT-TTAAGGAA-C-AAATAAAT
66 AATATTCAGAAAATTTGTCAAAGGAATGAATCATCTTG-AATACTCTT-AGGAATCGAAAT---T
* * * * * * *
20938 TTAAAAGAACTC-AAAAGTTTGACAAGTTTGAAAGTTCGACTAAGAACCAAGAGAGAAATAATTC
126 CTAAAAGAACTCAAAAAGTTTGAAAAGTTCGAAAGTTCGACCAACAACCAAGAGAGAAACAA--A
** * * *
21002 TCATGTAAATAAGTTTAATCAA
189 AAATG-GAA-AACTTT--T--T
* * ** * * * *
21024 AGACCAAAAGTTGTTTACCAAATGATAAACAATTT-GACAAAATGATGCGATTTCTCGAGCATAA
1 AGACCAAAAGTTGTTTACAAAATGAAAAACTTTTTAGACCAAATGATGCGATTTCCCAAGCATGA
* * * * * * * * * * *
21088 AATGTTCAAAAAATTGGTCGAAA-GAATGGATCCTCTTGAATACTCTCAGCAACCCAAGTTATAA
66 AATATTCAGAAAATTTGTC-AAAGGAATGAATCATCTTGAATACTCTTAGGAATCGAAATTCTAA
* * *
21152 AAGAACTC----A----GACAAGTTCGAAAGTTC-ATCCAAGAACCAAGAGAGAAACACAATTCT
130 AAGAACTCAAAAAGTTTGAAAAGTTCGAAAGTTCGA-CCAACAACCAAGAGAGAAACA-AA---A
* * *
21208 CATGTAAATAAGTTTTTAATTT
190 AATG-GAA-AA---CTT--TTT
* * * * *
21230 AAAGA-CAAGAATTTTTTTACAAAATGACAAACTTTTTAGGCCAAATGATGTGATTTCCCAAGCA
1 --AGACCAA-AAGTTGTTTACAAAATGAAAAACTTTTTAGACCAAATGATGCGATTTCCCAAGCA
* * * * * *
21294 TGGAATGTTCGGAAAATTGGTTAAAGGAATGAATCGTCTTGAATACT
63 TGAAATATTCAGAAAATTTGTCAAAGGAATGAATCATCTTGAATACT
21341 TTCAAGAACC
Statistics
Matches: 435, Mismatches: 63, Indels: 60
0.78 0.11 0.11
Matches are distributed among these distances:
202 1 0.00
203 35 0.08
204 4 0.01
205 154 0.35
206 11 0.03
207 19 0.04
208 33 0.08
209 62 0.14
210 13 0.03
211 11 0.03
212 55 0.13
213 37 0.09
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (204 bp):
AGACCAAAAGTTGTTTACAAAATGAAAAACTTTTTAGACCAAATGATGCGATTTCCCAAGCATGA
AATATTCAGAAAATTTGTCAAAGGAATGAATCATCTTGAATACTCTTAGGAATCGAAATTCTAAA
AGAACTCAAAAAGTTTGAAAAGTTCGAAAGTTCGACCAACAACCAAGAGAGAAACAAAAAATGGA
AAACTTTTT
Found at i:21251 original size:421 final size:422
Alignment explanation
Indices: 20151--21342 Score: 1159
Period size: 421 Copynumber: 2.8 Consensus size: 422
20141 TGCTCACATC
** *
20151 ATAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCTTAAGTTGTTTACAAAAT-ACAAACAAT
1 ATAATTCTCATGTAAATAAG-TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACAAT
* ** *
20215 TTGACCAAATGTTGCGATTT-TCCGAGCATGGTATGTTCTGAAAATTGGTCG-AAGAATGGATCA
65 TTGACCAAATGATGCGATTTCT-CGAGCATGAAATGTTCAGAAAATTGGTCGAAAGAATGGATCA
* * * * * **
20278 TCTTGAATATTTTAAGGATTTATGCAAGAACTTGTAAATG---TTTGACAAGTTCGGAAGTTCGT
129 TCTTGAATACTCTAAGGA---ATCCAAG---TTATAAAAGAACTCAGACAAGTTCGGAAGTTCGT
** * * ** *
20340 TTAAGAACCATGAGAG-GA-ACAATTCTCACAAAAATAAGTTTTTAATTCAAAGACCAAAAGTTG
188 CCAAGAACCAAGAGAGAAACACAATTCTCA-TGAAATAAGTTTTTAATTTAAAGACCAAAAGTTG
* * * *
20403 TTTACAAAATGATAAACTTTTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCTGAGAA
252 TTTACAAAATGACAAACTTTTTAGACCAAATGATTCGATTTCCCGAGCATGGAATGTTCAGAAAA
* * ** * * * * * * * *
20468 -TTG-CTAGATGATATGGTTTGCCATGAATATTTTAAGGAAACAAAGTTATAAAATAACTTGTAA
317 TTTGTC-AAAGGA-ATGAATCGTCTTGAATACTTTAAGGAAAAAAAATTATAAAAGAACTTGCAA
*
20531 AAGATTGACAAGTTCGAAAGTTCATCCAAGAATAAAGAGAGAA
380 AAGATTGACAAGTTCGAAAGTTCATCCAAGAACAAAGAGAGAA
* * * * **
20574 ACAATACTCACGTAAATATGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACTTT
1 ATAATTCTCATGTAAATAAG-TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACAAT
* * * * *
20639 TTAGTCCAAATGATGCGATTTCCCAAGCATGAAATGTTCAGAAAATTTGTC-AAAGGAATGAATC
65 TT-GACCAAATGATGCGATTTCTCGAGCATGAAATGTTCAGAAAATTGGTCGAAA-GAATGGATC
* * * *
20703 ATCTTGAATACTCTTAGGAATCGAAGTTCTAAAAGAACTCATAAAAGTTTGAAAAGTTCGGAAGT
128 ATCTTGAATACTCTAAGGAATCCAAGTTATAAAAGAACTC-----A----GACAAGTTCGGAAGT
* ** * *
20768 TCGTCCAACAACCAAGAGAGAAACA-AA---AAATGGAA-AA---CTT--TTT--AGACCAAAAG
184 TCGTCCAAGAACCAAGAGAGAAACACAATTCTCATGAAATAAGTTTTTAATTTAAAGACCAAAAG
*
20821 TTGTTTACAAAATGACAAACTTTTTAGACCAAATGATTCGATTTCCCGAGCATGGAATATTCAGA
249 TTGTTTACAAAATGACAAACTTTTTAGACCAAATGATTCGATTTCCCGAGCATGGAATGTTCAGA
*
20886 AAATTTGTCAAAGGAATGAATCATCTTGAAATACTTTAAGGAACAAATAAATT-TAAAAGAAC-T
314 AAATTTGTCAAAGGAATGAATCGTCTTG-AATACTTTAAGGAA-AAA-AAATTATAAAAGAACTT
* * * *
20949 -CAAAAGTTTGACAAGTTTGAAAGTTCGA-CTAAGAACCAAGAGAGAA
376 GCAAAAGATTGACAAGTTCGAAAGTTC-ATCCAAGAACAAAGAGAGAA
* *
20995 ATAATTCTCATGTAAATAAG-TTTAA-TCAAAGACCAAAAGTTGTTTACCAAATGATAAACAATT
1 ATAATTCTCATGTAAATAAGTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACAATT
* * * *
21058 TGACAAAATGATGCGATTTCTCGAGCATAAAATGTTCAAAAAATTGGTCGAAAGAATGGATCCTC
66 TGACCAAATGATGCGATTTCTCGAGCATGAAATGTTCAGAAAATTGGTCGAAAGAATGGATCATC
* * * * *
21123 TTGAATACTCTCAGCAACCCAAGTTATAAAAGAACTCAGACAAGTTCGAAAGTTCATCCAAGAAC
131 TTGAATACTCTAAGGAATCCAAGTTATAAAAGAACTCAGACAAGTTCGGAAGTTCGTCCAAGAAC
* *
21188 CAAGAGAGAAACACAATTCTCATGTAAATAAGTTTTTAATTTAAAGA-CAAGAATTTTTTTACAA
196 CAAGAGAGAAACACAATTCTCATG-AAATAAGTTTTTAATTTAAAGACCAA-AAGTTGTTTACAA
* * * * *
21252 AATGACAAACTTTTTAGGCCAAATGATGT-GATTTCCCAAGCATGGAATGTTCGGAAAATTGGTT
259 AATGACAAACTTTTTAGACCAAATGAT-TCGATTTCCCGAGCATGGAATGTTCAGAAAATTTGTC
21316 AAAGGAATGAATCGTCTTGAATACTTT
323 AAAGGAATGAATCGTCTTGAATACTTT
21343 CAAGAACCCA
Statistics
Matches: 626, Mismatches: 102, Indels: 85
0.77 0.13 0.10
Matches are distributed among these distances:
408 36 0.06
409 2 0.00
412 4 0.01
413 2 0.00
414 2 0.00
417 85 0.14
418 38 0.06
419 8 0.01
420 18 0.03
421 222 0.35
422 23 0.04
423 68 0.11
424 12 0.02
425 43 0.07
426 24 0.04
428 2 0.00
429 2 0.00
430 1 0.00
432 30 0.05
433 3 0.00
434 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (422 bp):
ATAATTCTCATGTAAATAAGTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACAATT
TGACCAAATGATGCGATTTCTCGAGCATGAAATGTTCAGAAAATTGGTCGAAAGAATGGATCATC
TTGAATACTCTAAGGAATCCAAGTTATAAAAGAACTCAGACAAGTTCGGAAGTTCGTCCAAGAAC
CAAGAGAGAAACACAATTCTCATGAAATAAGTTTTTAATTTAAAGACCAAAAGTTGTTTACAAAA
TGACAAACTTTTTAGACCAAATGATTCGATTTCCCGAGCATGGAATGTTCAGAAAATTTGTCAAA
GGAATGAATCGTCTTGAATACTTTAAGGAAAAAAAATTATAAAAGAACTTGCAAAAGATTGACAA
GTTCGAAAGTTCATCCAAGAACAAAGAGAGAA
Found at i:21977 original size:80 final size:79
Alignment explanation
Indices: 21824--21988 Score: 233
Period size: 80 Copynumber: 2.1 Consensus size: 79
21814 TACAAACACT
* * * * *
21824 AATTTCTTTTAAACTCTTGTAGGGAAGCTAATGAGTCATGTCTCTTCATTAGGATTTGATGTAGT
1 AATTTCTTTTAAACTCTTGTAAGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGC
*
21889 TCAGAAGGCATGAC
66 TCAAAAGGCATGAC
*
21903 AATTTCATTTTTAACTCTTGTAAGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAG
1 AATTTC-TTTTAAACTCTTGTAAGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAG
* *
21968 CTGAAAAGGCATGGC
65 CTCAAAAGGCATGAC
21983 -ATTTCT
1 AATTTCT
21989 CCTTAATGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.14
80 64 0.84
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (79 bp):
AATTTCTTTTAAACTCTTGTAAGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGC
TCAAAAGGCATGAC
Found at i:22501 original size:49 final size:48
Alignment explanation
Indices: 22422--22584 Score: 222
Period size: 49 Copynumber: 3.4 Consensus size: 48
22412 TTAATGCAAG
* *
22422 GCATTTAAC-AAACAAAACAGTTAATAATGCATATTACTAAATGAAGAT
1 GCATTTAACAAAAAAAAAC-GTTAATAATGCATATTACTAAATAAAGAT
* *
22470 GCATTTAACAAAAAAAAATCGTTAATAATGCAAATTACTAAACAAAGAT
1 GCATTTAACAAAAAAAAA-CGTTAATAATGCATATTACTAAATAAAGAT
* * *
22519 GCATTTAACAAACAAAACAC-TTAATGATGCATATTATTAAATAAAGAT
1 GCATTTAACAAA-AAAAAACGTTAATAATGCATATTACTAAATAAAGAT
22567 GCATTTAACAAAAAAAAA
1 GCATTTAACAAAAAAAAA
22585 AAACACTTAA
Statistics
Matches: 102, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
47 5 0.05
48 45 0.44
49 46 0.45
50 6 0.06
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (48 bp):
GCATTTAACAAAAAAAAACGTTAATAATGCATATTACTAAATAAAGAT
Found at i:22565 original size:48 final size:48
Alignment explanation
Indices: 22422--22583 Score: 227
Period size: 48 Copynumber: 3.4 Consensus size: 48
22412 TTAATGCAAG
* *
22422 GCATTTAACAAACAAAACAGTTAATAATGCATATTACTAAATGAAGAT
1 GCATTTAACAAACAAAACACTTAATAATGCATATTACTAAATAAAGAT
* * *
22470 GCATTTAACAAA-AAAAAATCGTTAATAATGCAAATTACTAAACAAAGAT
1 GCATTTAACAAACAAAACA-C-TTAATAATGCATATTACTAAATAAAGAT
* *
22519 GCATTTAACAAACAAAACACTTAATGATGCATATTATTAAATAAAGAT
1 GCATTTAACAAACAAAACACTTAATAATGCATATTACTAAATAAAGAT
*
22567 GCATTTAACAAAAAAAA
1 GCATTTAACAAACAAAA
22584 AAAACACTTA
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
47 5 0.05
48 52 0.52
49 38 0.38
50 5 0.05
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (48 bp):
GCATTTAACAAACAAAACACTTAATAATGCATATTACTAAATAAAGAT
Found at i:23423 original size:216 final size:214
Alignment explanation
Indices: 23049--24883 Score: 1750
Period size: 216 Copynumber: 8.5 Consensus size: 214
23039 ACATTGCTAA
* ** *
23049 AAGGAATGGATCATCTTGAATACTCTCAA-GAAATGAAGTTATAAAAGATCTCGTAAATGTTTGA
1 AAGGAATGGATCGTCTTGAATACTCT-AAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGA
* * * *
23113 CAAGTTCAGAAGTTTGTCCAACAACCAAGAGCA-AAACAAATCTCACATAAATAAGTTTTTAATT
65 CAAGTTCGGAAGTTTGTCCAAGAACCAAGAG-AGAAACAATTCTCACGTAAATAAGTTTTTAATT
* * *** *
23177 TAGAGGGAAAAAGTTGTTTACAAAATGACAAACTATACTGACCAAATGATGCGATTTCTCGAGAG
129 CAAAGACCAAAAGTTGTTTACAAAATGACAAACTAT-TTGACCAAATGATGCGATTTCTCGAGA-
* * * *
23242 TGGAATGTTTGGAAAACTGGTTG
192 TGGAATGTTCGAAAAATTGGTCG
* * * *
23265 AAGGAATGGATTGTCTTGAATACTCTAAGGAACCGATGTTACAAAAGAACTCGTAAATGTTTCAC
1 AAGGAATGGATCGTCTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGAC
* *
23330 AAGTTCGGAAGTTTGTCCAAGAACCAAGAGCGAAACATTTCTCACGTAAATAAGTTTTTAATTCA
66 AAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
* *
23395 AAGACCAAAAGTCGTTTACAAAATGACAAACAATGATGTGAGCATTGACCCAAACCTGAGGCGAT
131 AAGACCAAAAGTTGTTTACAAAATGACAAAC--T-A--T-----TTGA-CCAAA--TGATGCGAT
* * *
23460 TTCTCGAGCATGGAATGATCGAAAAATT-ATTG
183 TTCTCGAG-ATGGAATGTTCGAAAAATTGGTCG
* * * * * *
23492 AAAGGAGTGGATCGTCTTGAATACTCTCAGGAAACAAAGTTATAAATGAACTCTTAAATGTTTGA
1 -AAGGAATGGATCGTCTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGA
** * ** *
23557 TGAGTTCTGAAGTTTGTCCAAGAACCAAGAGCTAAACAATTCTCACGTAAATAA-TAATTTAATT
65 CAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT-TTTTAATT
* *** ** *
23621 C-AAGAAC-TTTGTTGTTTACAAAATGACAAAGAATTTGACCAAATGATACGATTTC-CTGAGCA
129 CAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTGACCAAATGATGCGATTTCTC-GAG-A
**
23683 TTAAATGTTC-AGAAAATTGGTCG
192 TGGAATGTTCGA-AAAATTGGTCG
* * * *
23706 AAGGAATGGATCATCTTGAATTCTCTTAGGAACCGAAGTTTTAAAAGAACTCGTAAATGTTTGAC
1 AAGGAATGGATCGTCTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGAC
* *
23771 AAGTTC-GAGAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAAAAAGTTTTTAATTC
66 AAGTTCGGA-AGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * * *
23835 AAAGACCAAAAGTTTTTTACAGAATGACAAACTATTTAGACCAAAT-AGTGCAATTTC-CTAAGC
130 AAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT-GACCAAATGA-TGCGATTTCTC-GAG-
* * *
23898 AAGGAATGATCAAAAAATTGGTCG
191 ATGGAATGTTCGAAAAATTGGTCG
* * * * * * *
23922 AAGGAAAGGAT-GACCTTGATTACTTTAAGGAATCGAAGTTATAAAAGATCTCGTAAAAGTTTGA
1 AAGGAATGGATCG-TCTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGA
* * * ** * * *
23986 CTAGTTTGTAAGTTCATCCAATAAACAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTC
65 CAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * * * *
24051 TAATACCAAAAGTTGTTTACAAAATGACAAACAATTTGATCAAATTATGCGATTTC-CTGAGCAT
130 AAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTGACCAAATGATGCGATTTCTC-GAG-AT
* *
24115 GGAATGCTCGAAAAATTGCTCG
193 GGAATGTTCGAAAAATTGGTCG
* * * ** * * *
24137 AAGGAATGGATCATCTTAAATAATCT-TTGAACCAAAGTTAAAAAAGAACTCATAAATGTTTGAC
1 AAGGAATGGATCGTCTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGAC
* * ** * *
24201 AAGTTCGGAAGTTTGTCCAAGAACCAATAGAGAAA-ATTTTCTCATATAAATATGTTTTTAATTT
66 AAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACA-ATTCTCACGTAAATAAGTTTTTAATTC
* *
24265 AAAGAACAAAAGTTTTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCGT-GAGAA
130 AAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT-GACCAAATGATGCGATTTC-TCGAG-A
* *
24329 TGGAATGTTCGAAAAAATT-TTAG
192 TGGAATGTTCG-AAAAATTGGTCG
* * * * * * * * * *
24352 AAGTAATGGATTGTCTTTAAAACTCTCAGGAATCAAAGTTATAAAAAAATTAGTAAATGTTTGAC
1 AAGGAATGGATCGTCTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGAC
* * * * *
24417 AAGTTCTGAAGTTCGTCCAAGAACCAAGAGAGCAA-ATTTCTCACGTAAATAAGTTTTTAATACA
66 AAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
* * *
24481 TAGACCAAAAGTTGTTTACAAATTGACAAACTATTTAGACCAAATGATGCGATTTCCCGTTA-AT
131 AAGACCAAAAGTTGTTTACAAAATGACAAACTATTT-GACCAAATGATGCGATTTCTCG--AGAT
**
24545 GGAATGTTCGAAAAATTGCACG
193 GGAATGTTCGAAAAATTGGTCG
* * * * * *
24567 AAGGAATGAATCGCCTTGAATACTCTCAGTAACCGAAGTTATAAAATAACTCCTAAATGTTTGAC
1 AAGGAATGGATCGTCTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGAC
* * * * * * **
24632 AAGTTCGAAAGTTGGTCCAAAAACCATGAAAGAAACATTTCTCTTGTAAATAAGTTTTTAATTCA
66 AAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
* *
24697 AAGACCAAAAGTTGTTTACAAAATGACAAACTATTTTGAGCAAATGATGTGATTTCTCGAGCATG
131 AAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTTGACCAAATGATGCGATTTCTCGAG-ATG
* * *
24762 GATTGTTCGAAGAATTGCTCG
194 GAATGTTCGAAAAATTGGTCG
* ** * * * * *
24783 AAGGAATTGATCACCTAT-AATGCTTTAAGTAATCGAAGTTATAAAAGAACTCG-ACAAAGTTTG
1 AAGGAATGGATCGTCT-TGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTA-AATGTTTG
* ** *
24846 GCAAGTTCATAAGTTCGTCCAAGAACCAAGAGAGAAAC
64 ACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAAC
24884 TGATAAGATC
Statistics
Matches: 1333, Mismatches: 239, Indels: 94
0.80 0.14 0.06
Matches are distributed among these distances:
212 4 0.00
213 137 0.10
214 127 0.10
215 311 0.23
216 563 0.42
217 7 0.01
218 1 0.00
219 1 0.00
221 2 0.00
223 1 0.00
225 4 0.00
226 24 0.02
227 9 0.01
228 141 0.11
229 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (214 bp):
AAGGAATGGATCGTCTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGAC
AAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
AAGACCAAAAGTTGTTTACAAAATGACAAACTATTTGACCAAATGATGCGATTTCTCGAGATGGA
ATGTTCGAAAAATTGGTCG
Found at i:24824 original size:431 final size:429
Alignment explanation
Indices: 22902--24879 Score: 1892
Period size: 431 Copynumber: 4.6 Consensus size: 429
22892 CACATCATCA
* * * * *
22902 TAAATGTTTGACAAGTTAGGAAGTTCT-ACCAAGAACCAAGAGAGAAACAATTCTCACGAAAATA
1 TAAATGTTTGACAAGTTCGGAAGTT-TGTCCAAGAACCAAGAGAGAAACATTTCTCATGTAAATA
22966 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGA-TG--
65 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGAGTGAT
* * * * *
23028 ----C-A--AT----TTTTCG-AACATTGCTAAAAGGAATGGATCATCTTGAATACTCTCAAGAA
130 TTCTCGAGCATGGAATGTTCGAAAAATTGCTAGAAGGAATGGATCATCTTGAATACT-TTAAGGA
* * * *
23081 AT-GAAGTTAT-AAAAGATCTCGTAAATGTTTGACAAGTTCAGAAGTTTGTCCAACAACCAAGAG
194 ATCGAAGTTATAAAAAAAT-TCGTAAATGTTTGACAAGTTCTGAAGTTCGTCCAAGAACCAAGAG
* * * * ***
23144 CAAAACAAA--TCTCACATAAATAAGTTTTTAATTTAGAGGGAAAAAGTTGTTTACAAAATGACA
258 ---AGCAAATTTCTCACGTAAATAAGTTTTTAATTCATAGACCAAAAGTTGTTTACAAAATGACA
* * * * * * * * *
23207 AACTATACTGACCAAATGATGCGATTTCTCGAGAGTGGAATGTTTGGAAAACTGGTTGAAGGAAT
320 AACAAT-TTGACCAAATGATGCGATTTCCCGAGAATGGAATGTTCGAAAAATTGCTCGAAGGAAT
** * * *
23272 GGATTGTCTTGAATACTCTAAGGAACCGATGTTACAAAAGAACTCG
384 GGATCATCTTGAATACTCTTAGGAACCGAAGTTATAAAAGAACTCG
* * *
23318 TAAATGTTTCACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGCGAAACATTTCTCACGTAAATAA
1 TAAATGTTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACATTTCTCATGTAAATAA
* *
23383 GTTTTTAATTCAAAGACCAAAAGTCGTTTACAAAATGACAAACAATGATGTGAGCATTGACCCAA
66 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAAC--T-AT-T-----TAGA-CCAA
* * * * * *
23448 ACCTGAGGCGATTTCTCGAGCATGGAATGATCGAAAAATT-ATTGAAAGGAGTGGATCGTCTTGA
121 A--TGA-GTGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTAG-AAGGAATGGATCATCTTGA
* * * * ** * * ** *
23512 ATACTCTCAGGAAACAAAGTTATAAATGAACTCTTAAATGTTTGATGAGTTCTGAAGTTTGTCCA
182 ATACTTTAAGGAATCGAAGTTATAAAAAAATTCGTAAATGTTTGACAAGTTCTGAAGTTCGTCCA
*** * * * ***
23577 AGAACCAAGAGCTAAACAATTCTCACGTAAATAA-TAATTTAATTCA-AGAAC-TTTGTTGTTTA
247 AGAACCAAGAGAGCAA-ATTTCTCACGTAAATAAGT-TTTTAATTCATAGACCAAAAGTTGTTTA
* * * * ** *
23639 CAAAATGACAAAGAATTTGACCAAATGATACGATTTCCTGAGCATTAAATGTTC-AGAAAATTGG
310 CAAAATGACAAACAATTTGACCAAATGATGCGATTTCCCGAGAATGGAATGTTCGA-AAAATTGC
* *
23703 TCGAAGGAATGGATCATCTTGAATTCTCTTAGGAACCGAAGTTTTAAAAGAACTCG
374 TCGAAGGAATGGATCATCTTGAATACTCTTAGGAACCGAAGTTATAAAAGAACTCG
* *
23759 TAAATGTTTGACAAGTTC-GAGAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAAAA
1 TAAATGTTTGACAAGTTCGGA-AGTTTGTCCAAGAACCAAGAGAGAAACATTTCTCATGTAAATA
* *
23823 AGTTTTTAATTCAAAGACCAAAAGTTTTTTACAGAATGACAAACTATTTAGACCAAAT-AGTGCA
65 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGAGTG--
* * * * * * * * * *
23887 ATTTC-CTAAGCAAGGAATGATCAAAAAATTGGTCGAAGGAAAGGATGACCTTGATTACTTTAAG
128 ATTTCTC-GAGCATGGAATGTTCGAAAAATTGCTAGAAGGAATGGATCATCTTGAATACTTTAAG
* * * * * *
23951 GAATCGAAGTTAT-AAAAGATCTCGTAAAAGTTTGACTAGTT-TGTAAGTTCATCCAATAAACAA
192 GAATCGAAGTTATAAAAAAAT-TCGTAAATGTTTGACAAGTTCTG-AAGTTCGTCCAAGAACCAA
*
24014 GAGAG-AAATAATTCTCACGTAAATAAGTTTTTAATTC-TAATACCAAAAGTTGTTTACAAAATG
255 GAGAGCAAAT--TTCTCACGTAAATAAGTTTTTAATTCAT-AGACCAAAAGTTGTTTACAAAATG
* * * * *
24077 ACAAACAATTTGATCAAATTATGCGATTTCCTGAGCATGGAATGCTCGAAAAATTGCTCGAAGGA
317 ACAAACAATTTGACCAAATGATGCGATTTCCCGAGAATGGAATGTTCGAAAAATTGCTCGAAGGA
* * * * * *
24142 ATGGATCATCTTAAATAATCTT-TGAACCAAAGTTAAAAAAGAACTCA
382 ATGGATCATCTTGAATACTCTTAGGAACCGAAGTTATAAAAGAACTCG
* *
24189 TAAATGTTTGACAAGTTCGGAAGTTTGTCCAAGAACCAATAGAGAAA-ATTTTCTCATATAAATA
1 TAAATGTTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACA-TTTCTCATGTAAATA
* * * * *
24253 TGTTTTTAATTTAAAGAACAAAAGTTTTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
65 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGA-GTGA
* * * ** * * * *
24318 TTTCGT-GAGAATGGAATGTTCGAAAAAATT-TTAGAAGTAATGGATTGTCTTTAAAACTCTCAG
129 TTTC-TCGAGCATGGAATGTTCG-AAAAATTGCTAGAAGGAATGGATCATCTTGAATACTTTAAG
* *
24381 GAATCAAAGTTATAAAAAAATTAGTAAATGTTTGACAAGTTCTGAAGTTCGTCCAAGAACCAAGA
192 GAATCGAAGTTATAAAAAAATTCGTAAATGTTTGACAAGTTCTGAAGTTCGTCCAAGAACCAAGA
* *
24446 GAGCAAATTTCTCACGTAAATAAGTTTTTAATACATAGACCAAAAGTTGTTTACAAATTGACAAA
257 GAGCAAATTTCTCACGTAAATAAGTTTTTAATTCATAGACCAAAAGTTGTTTACAAAATGACAAA
* ** * *
24511 CTATTTAGACCAAATGATGCGATTTCCCGTTAATGGAATGTTCGAAAAATTGCACGAAGGAATGA
322 CAATTT-GACCAAATGATGCGATTTCCCGAGAATGGAATGTTCGAAAAATTGCTCGAAGGAATGG
** * * * *
24576 ATCGCCTTGAATACTCTCAGTAACCGAAGTTATAAAATAACTCC
386 ATCATCTTGAATACTCTTAGGAACCGAAGTTATAAAAGAACTCG
* * * * * *
24620 TAAATGTTTGACAAGTTCGAAAGTTGGTCCAAAAACCATGAAAGAAACATTTCTCTTGTAAATAA
1 TAAATGTTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACATTTCTCATGTAAATAA
* *
24685 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTTGAGCAAATGATGTGAT
66 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGA-GTGAT
* * * * * * *
24750 TTCTCGAGCATGGATTGTTCGAAGAATTGCTCGAAGGAATTGATCACCTAT-AATGCTTTAAGTA
130 TTCTCGAGCATGGAATGTTCGAAAAATTGCTAGAAGGAATGGATCATCT-TGAATACTTTAAGGA
* * * *
24814 ATCGAAGTTATAAAAGAACTCG-ACAAAGTTTGGCAAGTTCAT-AAGTTCGTCCAAGAACCAAGA
194 ATCGAAGTTATAAAAAAATTCGTA-AATGTTTGACAAGTTC-TGAAGTTCGTCCAAGAACCAAGA
24877 GAG
257 GAG
24880 AAACTGATAA
Statistics
Matches: 1271, Mismatches: 221, Indels: 125
0.79 0.14 0.08
Matches are distributed among these distances:
415 1 0.00
416 99 0.08
418 1 0.00
419 2 0.00
420 1 0.00
425 3 0.00
426 5 0.00
427 3 0.00
428 12 0.01
429 173 0.14
430 294 0.23
431 342 0.27
432 9 0.01
436 1 0.00
437 2 0.00
438 2 0.00
439 3 0.00
440 2 0.00
441 183 0.14
442 23 0.02
443 12 0.01
444 95 0.07
445 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (429 bp):
TAAATGTTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACATTTCTCATGTAAATAA
GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGAGTGATT
TCTCGAGCATGGAATGTTCGAAAAATTGCTAGAAGGAATGGATCATCTTGAATACTTTAAGGAAT
CGAAGTTATAAAAAAATTCGTAAATGTTTGACAAGTTCTGAAGTTCGTCCAAGAACCAAGAGAGC
AAATTTCTCACGTAAATAAGTTTTTAATTCATAGACCAAAAGTTGTTTACAAAATGACAAACAAT
TTGACCAAATGATGCGATTTCCCGAGAATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCAT
CTTGAATACTCTTAGGAACCGAAGTTATAAAAGAACTCG
Found at i:25898 original size:32 final size:32
Alignment explanation
Indices: 25862--25956 Score: 145
Period size: 32 Copynumber: 3.0 Consensus size: 32
25852 GCCATCCATA
* * *
25862 CATGTACCTAAAATATATTAATCAGCTAATTC
1 CATGTACCTGAAACACATTAATCAGCTAATTC
*
25894 CATGTACCTGAAACACATTAATCAGCTAATTG
1 CATGTACCTGAAACACATTAATCAGCTAATTC
*
25926 CATGTACCTGAAACACATTAATTAGCTAATT
1 CATGTACCTGAAACACATTAATCAGCTAATT
25957 AATTTCGGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (32 bp):
CATGTACCTGAAACACATTAATCAGCTAATTC
Found at i:26128 original size:23 final size:22
Alignment explanation
Indices: 26097--26142 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
26087 TATGACACAT
* *
26097 TTAATAACTTAAACTAAATAAA
1 TTAATAACTAAAACAAAATAAA
26119 TTAATTAACTAAAACAAAATAAA
1 TTAA-TAACTAAAACAAAATAAA
26142 T
1 T
26143 ATTTATTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
TTAATAACTAAAACAAAATAAA
Found at i:28917 original size:215 final size:216
Alignment explanation
Indices: 28054--30088 Score: 2224
Period size: 215 Copynumber: 9.4 Consensus size: 216
28044 TATTAATTTT
* * * *
28054 TTTACAAAATGACAAACTTTTTAGACCAAATGATGCAATTTCCCGAGAATGGAAAT-TCTCGAAA
1 TTTACAAAATGACAAACATTTTAGACCAAATGATGCGATTTCTCGAGCATGG-AATGT-TCGAAA
** * * * *
28118 AATTGGTTGAAGGAATGAATCGTCTTGAATACTCTT-AGGAATCAAAGTTATAAAGGAACTCGTA
64 AATTGGTCAAAGGAATGGATCATCTTGAATACT-TTAAGGAACCAAAGTTATAAAAGAACTCGTA
* * ** *
28182 AATGTTTCACAAGTTTGAAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCTCGTAAATAAGT
128 AATGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
*
28247 TTTTAATTCAAAGACTAAAAGTTG
193 TTTTAATTCAAAGACCAAAAGTTG
* * * * * * *
28271 TTTA-AAAATGACAAACTATTTT-GACCAACTAATGTGATTTTTCAAGAATGTAATGTTCGAAAA
1 TTTACAAAATGACAAAC-ATTTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAA
* *
28334 ATTGGTTAAAGGAATGGATCATCTTGAATTCTCTT-AGGAACCAAAGTTATAAAAGAACTCGTAA
65 ATTGGTCAAAGGAATGGATCATCTTGAATACT-TTAAGGAACCAAAGTTATAAAAGAACTCGTAA
* * ** * * * *
28398 ATGTTTGAAAAGTTTGGCATTTCGTCCAAGAACTAAGAGAGAAACAATTCTTACGTAAATAAGTT
129 ATGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * *
28463 TTTATTTCAAACACCAAAACTTG
194 TTTAATTCAAAGACCAAAAGTTG
* * * * * * *
28486 TTTTCAAAATCAAAAACTATTTTA-ACCAGATGATGTGATTTCTCGAGAATGGAATGTTCGGAAA
1 TTTACAAAATGACAAAC-ATTTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAA
** * ** * * * *
28550 ATTGGTTGATGGAATGGATTGTCTTGAATACTCTCAA-GAACCAAAGTTCTAAAAGAATTCATAA
65 ATTGGTCAAAGGAATGGATCATCTTGAATACT-TTAAGGAACCAAAGTTATAAAAGAACTCGTAA
* * * * * *
28614 ATGTTTGACTAGTTCGGAAGTTCGTCGAAGAA-AAAGAGAGAAACAATTCTCACGTAAATAAATT
129 ATGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
*
28678 TTTAATTCAAAGACAAAAAGTTG
194 TTTAATTCAAAGACCAAAAGTTG
* * * * * *
28701 TTTACAAAATTACAAACAATTT-GACCAAATGTTGCGATTTCCCAAGCATGGTAA-GTTCCAAAA
1 TTTACAAAATGACAAACATTTTAGACCAAATGATGCGATTTCTCGAGCATGG-AATGTTCGAAAA
* * * *
28764 ATTGGTCGAAGAAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTTGTAAA
65 ATTGGTCAAAGGAATGGATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAA
*
28829 TGTTTGACAAGTTCGAAAGTTCATCTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
130 TGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
28894 TTAATTCAAAGACCAAAAGTTG
195 TTAATTCAAAGACCAAAAGTTG
* * *
28916 TTTACAAAATGACAAACTTTTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTTG-AGA
1 TTTACAAAATGACAAACATTTTAGACCAAATGATGCGATTTCTCGAGCATGGAATG-TTCGAAAA
* * * * * * * * *
28980 ATTGCTCGAA-GATATGGTTCACCATGAATACTTTAAGGAAACGAAGTTACAAAAGAACTTGTAA
65 ATTGGTCAAAGGA-ATGGATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAA
*** * ** * *
29044 AAAATTGACAAGTTC-AGAAGTTCAACCAAGAAGAAAGAGAGAAACAATACTCACGT-AATATGT
129 ATGTTTGACAAGTTCGA-AAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
* *
29107 TTTTAATTCAAAGACCAAATGTAG
193 TTTTAATTCAAAGACCAAAAGTTG
* * * * *
29131 TTTACAAAATGAAAAAAATTTTAGACCAAATGATGCGATTTCCCGAGCATGAAATGTTCGGAAAA
1 TTTACAAAATGACAAACATTTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAA
* * * **** *
29196 TTTGTCAAAGGAATGAATCATCTTGAATACTCTT-ACGATTTGAAGTTATAAAAGAACTTGTAAA
66 TTGGTCAAAGGAATGGATCATCTTGAATACT-TTAAGGAACCAAAGTTATAAAAGAACTCGTAAA
* * * * *
29260 AGTTTGAAAAGTTC-AGAAGTTCATCCAACAAGCAAGAGAGAAACAATTCTCATGTAAATAAGTT
130 TGTTTGACAAGTTCGA-AAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-T
29324 TTTTAATTC-AA-ACCAAAAGTTG
193 TTTTAATTCAAAGACCAAAAGTTG
* * * * * *
29346 TTTACAAAATGACAAACTTTTTAGACCAAATGATTCAATTTCCCGAGCATGGAATATTCAAAAAA
1 TTTACAAAATGACAAACATTTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAA
* * * *
29411 TTTGTCAAAGGAATAGATCATCTTGAATACTTTAAAAGGAACAAAAAAAATT-TAAAAGAACTCG
66 TTGGTCAAAGGAATGGATCATCTTGAATACTTT--AAGGAAC---CAAAGTTATAAAAGAACTCG
* *
29475 TAAAAGTTTGACAAGTTC-AGAAGTTCGA-CCAAGAACCAAGAGAGAAACAATTCTCATGTAAAT
126 TAAATGTTTGACAAGTTCGA-AAGTTC-ATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAT
29538 AAG-TTTTAA-TCAAAGACCAAAAGTTG
189 AAGTTTTTAATTCAAAGACCAAAAGTTG
* * * * *
29564 TTTACAAAATGATAAACAATTT-GACCAAATGATGTGATTTCTCGAGCATGAAATGTT-TAGAAA
1 TTTACAAAATGACAAACATTTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGA-AAA
* * * * * * *
29627 TTTGGTCGACGGAATGGATCATCTTGAATA-TTCTCAGCAACCAAAGTTATAAAAGAACACATAA
65 ATTGGTCAAAGGAATGGATCATCTTGAATACTT-TAAGGAACCAAAGTTATAAAAGAACTCGTAA
* * *
29691 ATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAAGAATTCTCACGTAAATAAGTT
129 ATGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
*
29756 TTTAATTTAAAGACCAAAAGTT-
194 TTTAATTCAAAGACCAAAAGTTG
* * *
29778 TTTACAAAAGGACAAAC-TCTTTAGGCCAAATGATGCGATTTTTCGAGCATGGAATGTTCGAAAA
1 TTTACAAAATGACAAACAT-TTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAA
* * * *
29842 ATTGGTCAAAGG-ATGGATCATCTTGAATACTCTCAGGAACCCAAGTTATAAAAGAACTCATAAA
65 ATTGGTCAAAGGAATGGATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAA
* * *
29906 TGTTTGACAAGTTAGGAAGTTC-TACCAAGAACCAAGAGAGAAACAATTCTCACGAAAATAAGTT
130 TGTTTGACAAGTTCGAAAGTTCAT-CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
*
29970 TTTAATTTAAAGACCAAAAGTTG
194 TTTAATTCAAAGACCAAAAGTTG
* * * *
29993 TTTACAAAATGACAAGC-TATTTAGACCAAATGATGCAATTTCTCGAGCATGGAATGTTTGGAAA
1 TTTACAAAATGACAAACAT-TTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAA
* *
30057 ATTGCTAAAAGGAATGGATCATCTTGAATACT
65 ATTGGTCAAAGGAATGGATCATCTTGAATACT
30089 CTCAGGAAAT
Statistics
Matches: 1553, Mismatches: 223, Indels: 85
0.83 0.12 0.05
Matches are distributed among these distances:
212 5 0.00
213 73 0.05
214 266 0.17
215 684 0.44
216 328 0.21
217 90 0.06
218 30 0.02
219 72 0.05
220 5 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (216 bp):
TTTACAAAATGACAAACATTTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAA
TTGGTCAAAGGAATGGATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAT
GTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
TAATTCAAAGACCAAAAGTTG
Done.