Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001709.1 Hibiscus syriacus cultivar Beakdansim tig00003435_pilon, 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: 1326839
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:325209 original size:31 final size:30
Alignment explanation
Indices: 325170--325336 Score: 176
Period size: 31 Copynumber: 5.4 Consensus size: 30
325160 TGGGGCTTAT
*
325170 GGGCCTACCCAAGATAGTTCTCAGGGCCAC-
1 GGGCCTACCCAAGA-AGATCTCAGGGCCACA
*
325200 GAGGCCTACCCAAGAAAGATCTCAGGGCTACA
1 G-GGCCTACCCAAG-AAGATCTCAGGGCCACA
325232 GGGCCTACCCAAGAATGATCTCAGGGCCACA
1 GGGCCTACCCAAGAA-GATCTCAGGGCCACA
* * * *
325263 GGGCCTACCCAAGAAAAATCCCAGGGTCGCA
1 GGGCCTACCCAAG-AAGATCTCAGGGCCACA
* *
325294 GGGCCTACCGAAGAATGATCTC-GGGACCTCA
1 GGGCCTACCCAAGAA-GATCTCAGGG-CCACA
*
325325 GAGCCTACCCAA
1 GGGCCTACCCAA
325337 AAGTCATATT
Statistics
Matches: 116, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
30 8 0.07
31 104 0.90
32 4 0.03
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.13
Consensus pattern (30 bp):
GGGCCTACCCAAGAAGATCTCAGGGCCACA
Found at i:325236 original size:62 final size:62
Alignment explanation
Indices: 325170--325336 Score: 207
Period size: 62 Copynumber: 2.7 Consensus size: 62
325160 TGGGGCTTAT
* * *
325170 GGGCCTACCCAAG-ATAGTTCTCAGGGCCAC-GAGGCCTACCCAAGAAAGATCTCAGGG-CTACA
1 GGGCCTACCCAAGAAT-GATCTCAGGGCCACAG-GGCCTACCCAAGAAAAATCCCAGGGTC-ACA
*
325232 GGGCCTACCCAAGAATGATCTCAGGGCCACAGGGCCTACCCAAGAAAAATCCCAGGGTCGCA
1 GGGCCTACCCAAGAATGATCTCAGGGCCACAGGGCCTACCCAAGAAAAATCCCAGGGTCACA
* * *
325294 GGGCCTACCGAAGAATGATCTC-GGGACCTCAGAGCCTACCCAA
1 GGGCCTACCCAAGAATGATCTCAGGG-CCACAGGGCCTACCCAA
325337 AAGTCATATT
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
61 3 0.03
62 87 0.93
63 4 0.04
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.13
Consensus pattern (62 bp):
GGGCCTACCCAAGAATGATCTCAGGGCCACAGGGCCTACCCAAGAAAAATCCCAGGGTCACA
Found at i:327778 original size:13 final size:14
Alignment explanation
Indices: 327762--327812 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
327752 ACTCAACGAT
327762 TTGACTCAGT-GAG
1 TTGACTCAGTCGAG
327775 TTGACTCAGTCGAG
1 TTGACTCAGTCGAG
* * *
327789 CTAACTCAGTACGGG
1 TTGACTCAGT-CGAG
327804 TTGACTCAG
1 TTGACTCAG
327813 CCGGGTCAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 10 0.32
14 11 0.35
15 10 0.32
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (14 bp):
TTGACTCAGTCGAG
Found at i:328108 original size:31 final size:31
Alignment explanation
Indices: 328070--328189 Score: 168
Period size: 31 Copynumber: 3.9 Consensus size: 31
328060 ACAGGAAGGT
*
328070 TCTCAGGGCCACGGGGCCTACCCAAGAAAGA
1 TCTCAGGGCCACAGGGCCTACCCAAGAAAGA
* * *
328101 TCTCAGGGCCGCAGGGCCTACCTAAGAATGA
1 TCTCAGGGCCACAGGGCCTACCCAAGAAAGA
* *
328132 TCTCAGGACCACAGGGCCTACCCAAGAAAAA
1 TCTCAGGGCCACAGGGCCTACCCAAGAAAGA
* *
328163 TCCCAGGGCCGCAGGGCCTACCCAAGA
1 TCTCAGGGCCACAGGGCCTACCCAAGA
328190 GCTCCCTCGA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.29, C:0.33, G:0.27, T:0.11
Consensus pattern (31 bp):
TCTCAGGGCCACAGGGCCTACCCAAGAAAGA
Found at i:328170 original size:62 final size:62
Alignment explanation
Indices: 328070--328189 Score: 195
Period size: 62 Copynumber: 1.9 Consensus size: 62
328060 ACAGGAAGGT
* * * * *
328070 TCTCAGGGCCACGGGGCCTACCCAAGAAAGATCTCAGGGCCGCAGGGCCTACCTAAGAATGA
1 TCTCAGGACCACAGGGCCTACCCAAGAAAAATCCCAGGGCCGCAGGGCCTACCCAAGAATGA
328132 TCTCAGGACCACAGGGCCTACCCAAGAAAAATCCCAGGGCCGCAGGGCCTACCCAAGA
1 TCTCAGGACCACAGGGCCTACCCAAGAAAAATCCCAGGGCCGCAGGGCCTACCCAAGA
328190 GCTCCCTCGA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.29, C:0.33, G:0.27, T:0.11
Consensus pattern (62 bp):
TCTCAGGACCACAGGGCCTACCCAAGAAAAATCCCAGGGCCGCAGGGCCTACCCAAGAATGA
Found at i:331441 original size:31 final size:30
Alignment explanation
Indices: 331383--331520 Score: 118
Period size: 31 Copynumber: 4.5 Consensus size: 30
331373 TGGGGCCTAT
* * * *
331383 GGGCCTACCCAAGAAAGTTATCTGGGCCAC
1 GGGCCTACCCAAGAATGATCTCAGGGCCAC
*
331413 GGGACCTACCCAATAATGATCTCAGGGCCGTA-
1 GGG-CCTACCCAAGAATGATCTCAGGGCC--AC
* *
331445 AGGCCTACCCAAGAATGATCTCAGGACCAC
1 GGGCCTACCCAAGAATGATCTCAGGGCCAC
** *
331475 GGGGCCTACCCAAGAAAAATCCCAGGGTCGCA-
1 -GGGCCTACCCAAGAATGATCTCAGGG-C-CAC
331507 GGGCCTACCCAAGA
1 GGGCCTACCCAAGA
331521 GCGCCCTCGA
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
29 1 0.01
30 3 0.03
31 78 0.89
32 3 0.03
33 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.25, T:0.14
Consensus pattern (30 bp):
GGGCCTACCCAAGAATGATCTCAGGGCCAC
Found at i:331475 original size:62 final size:62
Alignment explanation
Indices: 331384--331520 Score: 157
Period size: 62 Copynumber: 2.2 Consensus size: 62
331374 GGGGCCTATG
* * * * ** * *
331384 GGCCTACCCAAGAAAGTTATCTGGGCCACGGGACCTACCCAATAATGATCTCAGGGCCGTAA
1 GGCCTACCCAAGAAAGATATCAGGACCACGGGACCTACCCAAGAAAAATCCCAGGGCCGCAA
* * * * *
331446 GGCCTACCCAAGAATGATCTCAGGACCACGGGGCCTACCCAAGAAAAATCCCAGGGTCGCAG
1 GGCCTACCCAAGAAAGATATCAGGACCACGGGACCTACCCAAGAAAAATCCCAGGGCCGCAA
331508 GGCCTACCCAAGA
1 GGCCTACCCAAGA
331521 GCGCCCTCGA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.30, C:0.31, G:0.25, T:0.14
Consensus pattern (62 bp):
GGCCTACCCAAGAAAGATATCAGGACCACGGGACCTACCCAAGAAAAATCCCAGGGCCGCAA
Found at i:332353 original size:23 final size:23
Alignment explanation
Indices: 332326--332387 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
332316 AAAGTCAATG
*
332326 GTCAACGGGTTGACTCGGTCAAA
1 GTCAACAGGTTGACTCGGTCAAA
*
332349 GTCAACAGGTTGACTCGGTTAAA
1 GTCAACAGGTTGACTCGGTCAAA
**
332372 GTCAACAATTTGACTC
1 GTCAACAGGTTGACTC
332388 AGTGAGTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (23 bp):
GTCAACAGGTTGACTCGGTCAAA
Found at i:332436 original size:14 final size:14
Alignment explanation
Indices: 332381--332434 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
332371 AGTCAACAAT
332381 TTGACTCAGT-GAG
1 TTGACTCAGTCGAG
*
332394 TTGACTCAGTCAAG
1 TTGACTCAGTCGAG
* *
332408 TTAACTCAGTGCGGG
1 TTGACTCAGT-CGAG
332423 TTGACTCAGTCG
1 TTGACTCAGTCG
332435 GGTGAGGCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
13 10 0.29
14 13 0.38
15 11 0.32
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (14 bp):
TTGACTCAGTCGAG
Found at i:334244 original size:31 final size:31
Alignment explanation
Indices: 334190--334296 Score: 119
Period size: 31 Copynumber: 3.5 Consensus size: 31
334180 AGAATCTTGG
* * * *
334190 GGCCTATCCAAGAAAGTTATCAGGGCCACGA
1 GGCCTACCCAAGAATGATCTCAGGGCCACGA
*
334221 GACCTACCCAAGAATGATCTCAGGG-C-CGTA
1 GGCCTACCCAAGAATGATCTCAGGGCCACG-A
* *
334251 GGGCCTACCCAAGAATGATCTCAGGACCACGG
1 -GGCCTACCCAAGAATGATCTCAGGGCCACGA
334283 GGCCTACCCAAGAA
1 GGCCTACCCAAGAA
334297 AAATCCCATA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
29 2 0.03
30 2 0.03
31 57 0.89
32 1 0.02
33 2 0.03
ACGTcount: A:0.31, C:0.30, G:0.25, T:0.14
Consensus pattern (31 bp):
GGCCTACCCAAGAATGATCTCAGGGCCACGA
Found at i:334542 original size:15 final size:14
Alignment explanation
Indices: 334502--334549 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
334492 CAACGATTTG
334502 ACTCAGT-GAGTTA
1 ACTCAGTCGAGTTA
334515 ACTCAGTCGAGTTA
1 ACTCAGTCGAGTTA
*
334529 ACTCAGTACGAGTTG
1 ACTCAGT-CGAGTTA
334544 ACTCAG
1 ACTCAG
334550 CCGGGCAGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 7 0.22
14 13 0.41
15 12 0.38
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (14 bp):
ACTCAGTCGAGTTA
Found at i:337266 original size:21 final size:20
Alignment explanation
Indices: 337234--337276 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
337224 GGTTTTTTGA
*
337234 ATTGAAATTGATATGGAATTG
1 ATTGAAATTGAT-TGGAAATG
337255 ATTGTAAA-TGATTGGAAATG
1 ATTG-AAATTGATTGGAAATG
337275 AT
1 AT
337277 GTTTGGGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 8 0.40
22 3 0.15
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (20 bp):
ATTGAAATTGATTGGAAATG
Found at i:338363 original size:56 final size:56
Alignment explanation
Indices: 338290--338482 Score: 185
Period size: 56 Copynumber: 3.4 Consensus size: 56
338280 GGGCATTTAA
* *
338290 CACGTCTAACGTCACTTATGTGACAGTGGTGCTTCTAGCAGCTGCATTGTAATTAG
1 CACGTCTAACGTTACTTATGTGACAGTGGTGCTTCTAGCAGCTGCATGGTAATTAG
* ** * *
338346 CACGTCTAACGTTACTTATGCGAC-GATGGTGCTAGTAGCAGCTGTATGGTATTTAG
1 CACGTCTAACGTTACTTATGTGACAG-TGGTGCTTCTAGCAGCTGCATGGTAATTAG
* * * * * * *
338402 CACATCTGACGTTA-TTCATGTGACTGTGGTG-TTACTATCAGTTACATGGTACTTAG
1 CACGTCTAACGTTACTT-ATGTGACAGTGGTGCTT-CTAGCAGCTGCATGGTAATTAG
* * *
338458 CACTTCTGACGTTACTTATATGACA
1 CACGTCTAACGTTACTTATGTGACA
338483 TTTATACTAA
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
55 4 0.04
56 105 0.94
57 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (56 bp):
CACGTCTAACGTTACTTATGTGACAGTGGTGCTTCTAGCAGCTGCATGGTAATTAG
Found at i:338580 original size:3 final size:3
Alignment explanation
Indices: 338574--338617 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
338564 TTACCCATTT
* *
338574 TTA TTA TTA TTA TTA TTA TTA ATA TATA TTA TTTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA TTA TTA
338618 CAAACAGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 29 0.83
4 6 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:339884 original size:20 final size:20
Alignment explanation
Indices: 339838--339885 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
339828 TAGTCACCAA
339838 TTTTAATTATTTTCATATAG
1 TTTTAATTATTTTCATATAG
* * *
339858 TTCTAATTATATTT-TTATTG
1 TTTTAATTAT-TTTCATATAG
339878 TTTTAATT
1 TTTTAATT
339886 TTACTTGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTAATTATTTTCATATAG
Found at i:340167 original size:110 final size:110
Alignment explanation
Indices: 339987--340240 Score: 429
Period size: 110 Copynumber: 2.3 Consensus size: 110
339977 TTTTAATATT
* **
339987 TATTT-TTCAATATCGAAGAAAAGGGCAGTCTTAATACAATTGGATGTCATATTCTGGTATTTTA
1 TATTTATT-AATATCGAAGAAAAGGGCAGTCTTAATACAACTGGATGTCATATTCTGGTATAATA
340051 AAATTAAATATTATAAAAAATTATTATTTAATTTTATTCAAATTAA
65 AAATTAAATATTATAAAAAATTATTATTTAATTTTATTCAAATTAA
*
340097 TATTTATTAATATCGAAGAAAAGGGCAGTCTTAATACAACTGGATGTCCTATTCTGGTATAATAA
1 TATTTATTAATATCGAAGAAAAGGGCAGTCTTAATACAACTGGATGTCATATTCTGGTATAATAA
340162 AATTAAATATTATAAAAAATTATTATTTAATTTTATTCAAATTAA
66 AATTAAATATTATAAAAAATTATTATTTAATTTTATTCAAATTAA
* * *
340207 TATTTATTAATATCAAAGAAAAGAGCTGTCTTAA
1 TATTTATTAATATCGAAGAAAAGGGCAGTCTTAA
340241 GGCACCTAGA
Statistics
Matches: 136, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
110 134 0.99
111 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (110 bp):
TATTTATTAATATCGAAGAAAAGGGCAGTCTTAATACAACTGGATGTCATATTCTGGTATAATAA
AATTAAATATTATAAAAAATTATTATTTAATTTTATTCAAATTAA
Found at i:340822 original size:30 final size:30
Alignment explanation
Indices: 340786--340861 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
340776 TTACATTGGG
* *
340786 CTATGAAATGAATAAAATGAATGGCACAGT
1 CTATGAAATGAATAAAATGAATGGAACAGA
340816 CTATGAAATGAATAAAATGAATGGAACAGA
1 CTATGAAATGAATAAAATGAATGGAACAGA
340846 CTATGAAATGAATAAA
1 CTATGAAATGAATAAA
340862 GTAAAAGGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.22
Consensus pattern (30 bp):
CTATGAAATGAATAAAATGAATGGAACAGA
Found at i:341917 original size:23 final size:23
Alignment explanation
Indices: 341881--341954 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
341871 CACCAAAGTG
*
341881 CCACATA--TTTGTCCTGAAAAA
1 CCACATAGTTTTGTCCTGAAGAA
341902 CCACATAGTTTTGTCCTGAAGAA
1 CCACATAGTTTTGTCCTGAAGAA
* *
341925 CCACATAGTTTTGTCCCGAAGGA
1 CCACATAGTTTTGTCCTGAAGAA
341948 CCACATA
1 CCACATA
341955 AAACCCTCGA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
21 7 0.15
23 41 0.85
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (23 bp):
CCACATAGTTTTGTCCTGAAGAA
Found at i:344359 original size:60 final size:60
Alignment explanation
Indices: 344234--344378 Score: 150
Period size: 60 Copynumber: 2.4 Consensus size: 60
344224 AGTGGTCCTT
* * * * * * **
344234 AAACTTTTGGATATTCCAATTTTATCCTCAAACTATGACTTTCATTATAAATTAGTCATT
1 AAACTTTTGAACATTTCAATTTCATCCCCAAACTATGACTCTCATTATAAATTAGTCACC
* * *
344294 GAACTTTTGAACATTTCAATTTCATCCCCAAACTATGACTCTCATTCTAAATATA-TCCCC
1 AAACTTTTGAACATTTCAATTTCATCCCCAAACTATGACTCTCATTATAAAT-TAGTCACC
*
344354 AAACTTTTAAATC-TTTCAATTTCAT
1 AAACTTTTGAA-CATTTCAATTTCAT
344379 ACCTAAAGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
60 67 0.96
61 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (60 bp):
AAACTTTTGAACATTTCAATTTCATCCCCAAACTATGACTCTCATTATAAATTAGTCACC
Found at i:344615 original size:60 final size:60
Alignment explanation
Indices: 344509--344696 Score: 222
Period size: 60 Copynumber: 3.1 Consensus size: 60
344499 ATATACATTT
* * * *
344509 TAGTTTG-AGATGAAATTGAAATGTGTAAAAAGTTTGGGGACCAATTTAGAATGAAGGTCA
1 TAGTTTGAAGATGAAAATGAAATAT-TAAAAAGTTTGAGGACTAATTTAGAATGAAGGTCA
* *
344569 TAGTTTGAAGATGAAAATGAAACATTAAAAAATTTGAGGACTAATTTAGAATGATA-GTCA
1 TAGTTTGAAGATGAAAATGAAATATTAAAAAGTTTGAGGACTAATTTAGAATGA-AGGTCA
* * *
344629 TAGTTT-AGATATGAAAATGAAATATTTAAAAGTTTAAGGACTAATTTAGAAT-AAGAGTCA
1 TAGTTTGA-AGATGAAAATGAAATATTAAAAAGTTTGAGGACTAATTTAGAATGAAG-GTCA
*
344689 TAATTTGA
1 TAGTTTGA
344697 GAATGTATGA
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
58 1 0.01
59 2 0.02
60 91 0.83
61 16 0.15
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.32
Consensus pattern (60 bp):
TAGTTTGAAGATGAAAATGAAATATTAAAAAGTTTGAGGACTAATTTAGAATGAAGGTCA
Found at i:349588 original size:19 final size:19
Alignment explanation
Indices: 349566--349622 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
349556 AGATTCAATA
349566 AAATAAAATAGATAATAAT
1 AAATAAAATAGATAATAAT
* * *
349585 AAATAAAATGGAAAATAGT
1 AAATAAAATAGATAATAAT
* *
349604 AAA-ATAATAAATAATAAT
1 AAATAAAATAGATAATAAT
349622 A
1 A
349623 TCAAAATAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (19 bp):
AAATAAAATAGATAATAAT
Found at i:349617 original size:27 final size:24
Alignment explanation
Indices: 349562--349622 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 24
349552 GAAAAGATTC
*
349562 AATAAAATAAAATAGATAATAATA
1 AATAAAATAAAATAGAAAATAATA
349586 AATAAAATGGAAAATAGTAAAATAATA
1 AATAAAAT--AAAATAG-AAAATAATA
349613 AATAATAATA
1 AATAA-AATA
349623 TCAAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 8 0.25
26 8 0.25
27 13 0.41
28 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.25
Consensus pattern (24 bp):
AATAAAATAAAATAGAAAATAATA
Found at i:358753 original size:24 final size:24
Alignment explanation
Indices: 358725--358782 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
358715 AAAGTTTTCT
358725 AAAAATAGAAAAAAT-AAAATGAA
1 AAAAATAGAAAAAATAAAAATGAA
358748 ATAAAAT-G-AAAAATGAAAAATGAA
1 A-AAAATAGAAAAAAT-AAAAATGAA
358772 AAAAATA-AAAA
1 AAAAATAGAAAA
358783 TAGAACGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
22 6 0.20
23 7 0.23
24 17 0.57
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.14
Consensus pattern (24 bp):
AAAAATAGAAAAAATAAAAATGAA
Found at i:363699 original size:63 final size:63
Alignment explanation
Indices: 363621--363807 Score: 279
Period size: 63 Copynumber: 3.0 Consensus size: 63
363611 GAGTCGAGGG
*
363621 TATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACAT
1 TATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACAA
* *
363684 TATACCTATGTTCTACGGAATATATGGATAGAATTACCTATGTCTTTCGAGACATATGGACAA
1 TATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACAA
* * * * *
363747 TATACCTATGTTCTAAGGAACATATGGACAG-TTTACCTAGGTTCTTTGGA-ACCTATGGACA
1 TATACCTATGTTCTACGGAACATATGGACAGAATTACCTATG-TCTTTCGAGACATATGGACA
363808 GTTGCCGGGG
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
62 18 0.16
63 95 0.84
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (63 bp):
TATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACAA
Found at i:363809 original size:31 final size:31
Alignment explanation
Indices: 363623--363810 Score: 166
Period size: 31 Copynumber: 6.0 Consensus size: 31
363613 GTCGAGGGTA
* *
363623 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTATGTTCTATGGAACATATGGACAG-TT
* *
363655 TACCTATG-TCTTTCGAGACATATGGACA-TT
1 TACCTATGTTCTATGGA-ACATATGGACAGTT
* * * *
363685 ATACCTATGTTCTACGGAATATATGGATAGAAT
1 -TACCTATGTTCTATGGAACATATGGACAG-TT
* * * *
363718 TACCTATG-TCTTTCGAGACATATGGACAATA
1 TACCTATGTTCTATGGA-ACATATGGACAGTT
*
363749 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTATGGAACATATGGACAGTT
* * *
363780 TACCTAGGTTCTTTGGAACCTATGGACAGTT
1 TACCTATGTTCTATGGAACATATGGACAGTT
363811 GCCGGGGATC
Statistics
Matches: 122, Mismatches: 27, Indels: 15
0.74 0.16 0.09
Matches are distributed among these distances:
30 1 0.01
31 74 0.61
32 46 0.38
33 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (31 bp):
TACCTATGTTCTATGGAACATATGGACAGTT
Found at i:363850 original size:30 final size:30
Alignment explanation
Indices: 363797--363868 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
363787 GTTCTTTGGA
* * * *
363797 ACCTATGGACAGTTGCCGGGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
363827 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
363857 ACCTCTGGATAG
1 ACCTCTGGATAG
363869 GTCCTTTGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATG
Found at i:368617 original size:63 final size:63
Alignment explanation
Indices: 368514--368667 Score: 229
Period size: 63 Copynumber: 2.4 Consensus size: 63
368504 GAGTCGAGGG
*
368514 TATACCTATGTTCTACA-GAACATATGGACAAAAATACCTATGTCTTTCGAGATATATGGACAA
1 TATACCTATGTTCTA-AGGAACATATGGACAAAAATACCTATGTCTTTCGAGACATATGGACAA
* * * * * *
368577 TATACCTATGTTCTATGGAATATATGGACATAATTTCCTATGTCTTTCGAGACATATGTACAA
1 TATACCTATGTTCTAAGGAACATATGGACAAAAATACCTATGTCTTTCGAGACATATGGACAA
368640 TATACCTATGTTCTAAGGAACATATGGA
1 TATACCTATGTTCTAAGGAACATATGGA
368668 TAGTTGCCGA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 81 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (63 bp):
TATACCTATGTTCTAAGGAACATATGGACAAAAATACCTATGTCTTTCGAGACATATGGACAA
Found at i:368663 original size:31 final size:31
Alignment explanation
Indices: 368514--368667 Score: 136
Period size: 31 Copynumber: 4.9 Consensus size: 31
368504 GAGTCGAGGG
368514 TATACCTATGTTCTA-CAGAACATATGGACAAA
1 TATACCTATGTTCTATC-GAACATATGGAC-AA
* * *
368546 AATACCTATG-TCTTTCGAGATATATGGACAA
1 TATACCTATGTTCTATCGA-ACATATGGACAA
* *
368577 TATACCTATGTTCTATGGAATATATGGAC-A
1 TATACCTATGTTCTATCGAACATATGGACAA
* * *
368607 TAATTTCCTATG-TCTTTCGAGACATATGTACAA
1 T-A-TACCTATGTTCTATCGA-ACATATGGACAA
**
368640 TATACCTATGTTCTAAGGAACATATGGA
1 TATACCTATGTTCTATCGAACATATGGA
368668 TAGTTGCCGA
Statistics
Matches: 98, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
30 2 0.02
31 48 0.49
32 46 0.47
33 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (31 bp):
TATACCTATGTTCTATCGAACATATGGACAA
Found at i:368700 original size:30 final size:30
Alignment explanation
Indices: 368664--368730 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
368654 AAGGAACATA
*
368664 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
368694 TGGATAGTTACTGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
368724 TGGATAG
1 TGGATAG
368731 GTCATTCGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATGACCTC
Found at i:370425 original size:14 final size:14
Alignment explanation
Indices: 370406--370459 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
370396 TAACTTTCTA
370406 GTCAAAGTCAACGG
1 GTCAAAGTCAACGG
**
370420 GTCAAAGTCAATAG
1 GTCAAAGTCAACGG
*
370434 GTCAATGTCAACGG
1 GTCAAAGTCAACGG
370448 GTCAAAGTCAAC
1 GTCAAAGTCAAC
370460 TGGTGACTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (14 bp):
GTCAAAGTCAACGG
Found at i:373066 original size:96 final size:96
Alignment explanation
Indices: 372886--373089 Score: 259
Period size: 96 Copynumber: 2.1 Consensus size: 96
372876 TTCAAGTAAT
* *
372886 AACCAGTAGATTTCATGATCCATAAATCAGAAACAATCATATTTTTCAGTGAAAATAGAAAACCA
1 AACCAGTAAATTCCATGATCCATAAATCAGAAACAATCATATTTTTCAGTGAAAATAGAAAACCA
* **
372951 AATAACACATTTCAGGTAACCATAGTTCATA
66 AAGAACACATACCAGGTAACCATAGTTCATA
* * **
372982 AACCAGTAAATTCCATGATCCATAAATCATG-AACTATTATA-TTTTCTAGTGAAAATAGGTAAC
1 AACCAGTAAATTCCATGATCCATAAATCA-GAAACAATCATATTTTTC-AGTGAAAATAGAAAAC
* * *
373045 CAGAGAACATATACCATGTAACCATAGTTCATA
64 CAAAGAACACATACCAGGTAACCATAGTTCATA
*
373078 AGCCAGTAAATT
1 AACCAGTAAATT
373090 AGTAAATCAG
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
95 5 0.05
96 87 0.94
97 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (96 bp):
AACCAGTAAATTCCATGATCCATAAATCAGAAACAATCATATTTTTCAGTGAAAATAGAAAACCA
AAGAACACATACCAGGTAACCATAGTTCATA
Found at i:375369 original size:28 final size:28
Alignment explanation
Indices: 375329--375397 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
375319 GGTCAGAGTT
*
375329 AACGGGTTGACTCGGACAAGTTGACTCG
1 AACGAGTTGACTCGGACAAGTTGACTCG
375357 AACGAGTTGACTCGGACAAGTTGACTCG
1 AACGAGTTGACTCGGACAAGTTGACTCG
375385 AACGAGTTGACTC
1 AACGAGTTGACTC
375398 AACTGAGTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
AACGAGTTGACTCGGACAAGTTGACTCG
Found at i:375405 original size:14 final size:14
Alignment explanation
Indices: 375329--375412 Score: 98
Period size: 14 Copynumber: 6.0 Consensus size: 14
375319 GGTCAGAGTT
*
375329 AACGGGTTGACTCG
1 AACGAGTTGACTCG
* *
375343 GACAAGTTGACTCG
1 AACGAGTTGACTCG
375357 AACGAGTTGACTCG
1 AACGAGTTGACTCG
* *
375371 GACAAGTTGACTCG
1 AACGAGTTGACTCG
375385 AACGAGTTGACTC-
1 AACGAGTTGACTCG
*
375398 AACTGAGTTAACTCG
1 AAC-GAGTTGACTCG
375413 TTCAAACTGG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
13 3 0.05
14 55 0.95
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (14 bp):
AACGAGTTGACTCG
Found at i:377855 original size:16 final size:16
Alignment explanation
Indices: 377826--377859 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
377816 TGTATCTAAC
377826 AAAAGAAAAAATAATT
1 AAAAGAAAAAATAATT
* *
377842 AAAAGTAAAGATAATT
1 AAAAGAAAAAATAATT
377858 AA
1 AA
377860 TTATTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAAGAAAAAATAATT
Found at i:379163 original size:16 final size:16
Alignment explanation
Indices: 379142--379176 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
379132 ATTTATTTAC
379142 ATTATTTTAAAATTAA
1 ATTATTTTAAAATTAA
*
379158 ATTATTTTAAATTTAA
1 ATTATTTTAAAATTAA
379174 ATT
1 ATT
379177 GAATTTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTATTTTAAAATTAA
Found at i:379693 original size:23 final size:23
Alignment explanation
Indices: 379658--379714 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
379648 TGGTGAACTG
* * *
379658 TAAGATATATATTTTTTATATTTG
1 TAAGTTATGTATTTTTT-TATTTC
*
379682 T-AGTTATGTATTTTTTTCTTTC
1 TAAGTTATGTATTTTTTTATTTC
379704 TAAGTTATGTA
1 TAAGTTATGTA
379715 AAATGAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.18
23 22 0.79
24 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.60
Consensus pattern (23 bp):
TAAGTTATGTATTTTTTTATTTC
Found at i:380071 original size:26 final size:26
Alignment explanation
Indices: 380035--380098 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
380025 AACGTCTGCA
380035 GCATCCGCAACCGCGACACCGGAACC
1 GCATCCGCAACCGCGACACCGGAACC
* * *
380061 GCATTCGCAACTGCGACACCGGAACT
1 GCATCCGCAACCGCGACACCGGAACC
380087 GCATCCGCAACC
1 GCATCCGCAACC
380099 ACAACTTGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.27, C:0.42, G:0.22, T:0.09
Consensus pattern (26 bp):
GCATCCGCAACCGCGACACCGGAACC
Found at i:381310 original size:36 final size:36
Alignment explanation
Indices: 381270--381343 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
381260 ACCGGTGAAC
381270 AAAATCCCGTAAGCCATTCGTAGCGACACGTTGTCT
1 AAAATCCCGTAAGCCATTCGTAGCGACACGTTGTCT
381306 AAAATCCCGTAAGCCATTCGTAGCGACACGTTGTCT
1 AAAATCCCGTAAGCCATTCGTAGCGACACGTTGTCT
381342 AA
1 AA
381344 CGCCGTGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (36 bp):
AAAATCCCGTAAGCCATTCGTAGCGACACGTTGTCT
Found at i:387859 original size:18 final size:17
Alignment explanation
Indices: 387836--387869 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
387826 AATCGACCTA
387836 TCTTTTTAAAATCAAAAC
1 TCTTTTT-AAATCAAAAC
*
387854 TCTTTTTCAATCAAAA
1 TCTTTTTAAATCAAAA
387870 AGTCAACGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (17 bp):
TCTTTTTAAATCAAAAC
Found at i:388292 original size:18 final size:17
Alignment explanation
Indices: 388265--388308 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
388255 TCACTTTAAA
388265 TTTA-TTTATTTAATTAT
1 TTTATTTTATTT-ATTAT
*
388282 TTTATTTTATTTATTTT
1 TTTATTTTATTTATTAT
388299 TTCTATTTTA
1 TT-TATTTTA
388309 AAATAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTTTATTTATTAT
Found at i:396249 original size:8 final size:8
Alignment explanation
Indices: 396238--396275 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
396228 AAACAAAACA
396238 AAAAAATG
1 AAAAAATG
396246 AAAAAA-G
1 AAAAAATG
*
396253 TAAAATATG
1 -AAAAAATG
396262 AAAAAATG
1 AAAAAATG
396270 AAAAAA
1 AAAAAA
396276 GGTAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 24 0.92
9 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:400461 original size:30 final size:28
Alignment explanation
Indices: 400427--400525 Score: 90
Period size: 30 Copynumber: 3.4 Consensus size: 28
400417 TAAACCAAGG
*
400427 AAATAAATGAAACCAACAATAATAAACATA
1 AAATAAATGAAACAAACAA-AATAAA-ATA
* * **
400457 AAATAATTGGATGAAACAAAATAAAATA
1 AAATAAATGAAACAAACAAAATAAAATA
** *
400485 AAATAAAATGAAATTGAATAAAATAAAATA
1 AAAT-AAATGAAA-CAAACAAAATAAAATA
400515 AAATAAATGAA
1 AAATAAATGAA
400526 GATTAAATAT
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
28 7 0.12
29 18 0.32
30 31 0.55
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (28 bp):
AAATAAATGAAACAAACAAAATAAAATA
Found at i:400484 original size:5 final size:5
Alignment explanation
Indices: 400474--400521 Score: 69
Period size: 5 Copynumber: 9.6 Consensus size: 5
400464 TGGATGAAAC
* **
400474 AAAAT AAAAT AAAAT AAAAT GAAAT TGAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
400522 TGAAGATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:400504 original size:25 final size:24
Alignment explanation
Indices: 400476--400522 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
400466 GATGAAACAA
400476 AATAAAATAAAATAAAATGAAATTG
1 AATAAAATAAAATAAAAT-AAATTG
400501 AATAAAATAAAATAAAATAAAT
1 AATAAAATAAAATAAAATAAAT
400523 GAAGATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (24 bp):
AATAAAATAAAATAAAATAAATTG
Found at i:400533 original size:15 final size:15
Alignment explanation
Indices: 400474--400534 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
400464 TGGATGAAAC
* *
400474 AAAATAAAATAAAAT
1 AAAATGAAATTAAAT
*
400489 AAAATGAAATTGAAT
1 AAAATGAAATTAAAT
* *
400504 AAAATAAAATAAAAT
1 AAAATGAAATTAAAT
400519 -AAATGAAGATTAAAT
1 AAAATGAA-ATTAAAT
400534 A
1 A
400535 TATATACAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
AAAATGAAATTAAAT
Found at i:400634 original size:22 final size:19
Alignment explanation
Indices: 400604--400665 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 19
400594 ACAAAGAAAC
400604 TAAAAATATAATGAAAATAAA
1 TAAAAATATAAT-AAAAT-AA
400625 TAAATAATATAAATAAAATAA
1 TAAA-AATAT-AATAAAATAA
400646 TAAAAATATATATATAAATA
1 TAAAAATATA-ATA-AAATA
400666 TATATAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.03
20 8 0.22
21 15 0.41
22 10 0.27
23 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAATATAATAAAATAA
Found at i:400645 original size:14 final size:13
Alignment explanation
Indices: 400620--400665 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
400610 TATAATGAAA
400620 ATAAATAAATAAT
1 ATAAATAAATAAT
400633 ATAAATAAAATAAT
1 ATAAAT-AAATAAT
* *
400647 AAAAATATAT-AT
1 ATAAATAAATAAT
400659 ATAAATA
1 ATAAATA
400666 TATATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.28
13 9 0.31
14 12 0.41
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAAATAAATAAT
Found at i:400664 original size:12 final size:12
Alignment explanation
Indices: 400624--400698 Score: 61
Period size: 12 Copynumber: 6.6 Consensus size: 12
400614 ATGAAAATAA
*
400624 ATAAATAATATAA
1 ATAAAT-ATATAT
400637 ATAAA-ATA-AT
1 ATAAATATATAT
*
400647 AAAAATATATAT
1 ATAAATATATAT
400659 ATAAATATATAT
1 ATAAATATATAT
* * *
400671 AAAAATGTATGT
1 ATAAATATATAT
400683 AT-AATATA-AT
1 ATAAATATATAT
400693 A-AAATA
1 ATAAATA
400699 CTAAATAGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
10 11 0.22
11 11 0.22
12 23 0.46
13 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (12 bp):
ATAAATATATAT
Found at i:400668 original size:14 final size:14
Alignment explanation
Indices: 400620--400671 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
400610 TATAATGAAA
*
400620 ATAAATAAATA-AT
1 ATAAATATATATAT
*
400633 ATAAATA-AAATA-
1 ATAAATATATATAT
*
400645 ATAAAAATATATAT
1 ATAAATATATATAT
400659 ATAAATATATATA
1 ATAAATATATATA
400672 AAAATGTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
12 8 0.25
13 12 0.38
14 12 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAATATATATAT
Found at i:401486 original size:37 final size:37
Alignment explanation
Indices: 401433--401534 Score: 147
Period size: 34 Copynumber: 2.8 Consensus size: 37
401423 ATGCTTGTGA
* * *
401433 ATCCTATCTTTGGGAGTTTGAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
401470 ATCCTATTTTTAGGAGTTTGAATCCTA--A-AATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
401504 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
401535 GACGAAAAGG
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
34 32 0.55
35 1 0.02
36 1 0.02
37 24 0.41
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:402212 original size:84 final size:83
Alignment explanation
Indices: 401983--402355 Score: 335
Period size: 83 Copynumber: 4.5 Consensus size: 83
401973 AGCTAAATGG
* * * * * *
401983 AATCGAACTCGACA-AT-TTTGATGGCAGATAACCCTTCTCGTCTTGAGTTATGCTGTAAATTTG
1 AATCGAACTCGA-AGGTCTTTGATGACAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAA--TG
* *
402046 ATTTGCCTCT-GAGTTGAA-TGT
63 ATGTGCCT-TGGAGTT-AAGCGT
* * * *
402067 AATCGAACTCGAAGGTCTTTGATGACAGGTCACCCTTCTAGCCTTGAGTTATGCTGCAAATGATA
1 AATCGAACTCGAAGGTCTTTGATGACAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATG
402132 TGCCTTGGAGTTAAGCGT
66 TGCCTTGGAGTTAAGCGT
* * * * * * *
402150 AGTCGAACTCGAAGGTATTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGAT
1 AATCGAACTCGAAGGT-CTTTGATGACAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGAT
402215 GTGCCTTGGAGCTT-AGCGT
65 GTGCCTTGGAG-TTAAGCGT
* * * * * *
402234 ACTCGAACTCGAAGGTCTTTGCTGACCGATAGCCCTTCTAGTCTTGAGCTATGCTGTAAATGATG
1 AATCGAACTCGAAGGTCTTTGATGACAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATG
* * * **
402299 CGCCTTGGAGCTGAGTAT
66 TGCCTTGGAGTTAAGCGT
* * *
402317 AATCAAACTCGAAGGTCTTTGTTGATAGAT-ACTCCTTCT
1 AATCGAACTCGAAGGTCTTTGATGACAGATAAC-CCTTCT
402356 TTGAGTTGGA
Statistics
Matches: 240, Mismatches: 41, Indels: 17
0.81 0.14 0.06
Matches are distributed among these distances:
82 5 0.02
83 114 0.47
84 82 0.34
85 39 0.16
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (83 bp):
AATCGAACTCGAAGGTCTTTGATGACAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATG
TGCCTTGGAGTTAAGCGT
Found at i:402856 original size:105 final size:106
Alignment explanation
Indices: 402534--403062 Score: 819
Period size: 105 Copynumber: 5.0 Consensus size: 106
402524 TGTACTGTTC
* * * * * * * * *
402534 CGAGTCCAATATCCTCCGCCGTGAAGTTAAAATTGGTTATGGAACTGGGAATTTGTTTATTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
402599 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
402640 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTTGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
402705 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
402746 TGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTG-TTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
402810 ACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
** * *
402851 CGAGTCCAATATCCTTCTATGTGAAGTTTAAACTGGCTCTGAAATTGGGAAATTG-TTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
402915 ACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
402956 CGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAACTAGGAAATTGTTTGTTGATA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
403021 ACCAGGCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
403062 C
1 C
403063 AGGTGGCGCG
Statistics
Matches: 388, Mismatches: 34, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
105 194 0.50
106 194 0.50
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:404519 original size:18 final size:18
Alignment explanation
Indices: 404488--404523 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
404478 TGTTGAATCC
*
404488 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
*
404506 CCAAAAATGTCCCAATAT
1 CCAAAAATGCCCCAATAT
404524 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:404740 original size:24 final size:24
Alignment explanation
Indices: 404708--404768 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
404698 ATATCAAAAA
404708 AAGAGTTTTGAAAGATGTTTAATC
1 AAGAGTTTTGAAAGATGTTTAATC
*
404732 AAGAGTTTTGAAAGATGTTTAATT
1 AAGAGTTTTGAAAGATGTTTAATC
*
404756 AAAAGTTTTGAAA
1 AAGAGTTTTGAAA
404769 ATATTGTCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.38
Consensus pattern (24 bp):
AAGAGTTTTGAAAGATGTTTAATC
Found at i:405623 original size:20 final size:20
Alignment explanation
Indices: 405581--405629 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
405571 TTTTTGTCCC
*
405581 TTTTTCTTTTTGATTTTTGT
1 TTTTTCTTTTTGATTTTTCT
405601 TTTTTC-TTTTG--TTTTCT
1 TTTTTCTTTTTGATTTTTCT
405618 TCTTTTCTTTTT
1 T-TTTTCTTTTT
405630 TTTTGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 6 0.23
18 5 0.19
19 9 0.35
20 6 0.23
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.82
Consensus pattern (20 bp):
TTTTTCTTTTTGATTTTTCT
Found at i:405628 original size:13 final size:12
Alignment explanation
Indices: 405595--405639 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
405585 TCTTTTTGAT
405595 TTTTGTTTTTTC
1 TTTTGTTTTTTC
405607 TTTTGTTTTCTTC
1 TTTTGTTTT-TTC
*
405620 TTTT-CTTTTT-
1 TTTTGTTTTTTC
405630 TTTTGTTTTT
1 TTTTGTTTTT
405640 GCCCTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 4 0.14
11 6 0.21
12 12 0.41
13 7 0.24
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (12 bp):
TTTTGTTTTTTC
Found at i:410163 original size:5 final size:5
Alignment explanation
Indices: 410145--410199 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
410135 TGGATGAAAC
* ** *
410145 AAAA- AAAAT AAAAT GAAAT TGAAT AAAAT AAAAT AAAAT -AAAT GAAGAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
410194 AAAAT A
1 AAAAT A
410200 TATATACAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
4 8 0.20
5 30 0.73
6 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:410310 original size:33 final size:29
Alignment explanation
Indices: 410272--410341 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
410262 CAAAGAAACT
410272 AAAAATATAATGAAAATAAATAAATAGTATAA
1 AAAAATATAAT-AAAA-AAATAAATA-TATAA
* * *
410304 ATAAA-ATAATAAAAAAATATATATATAT
1 AAAAATATAATAAAAAAATAAATATATAA
410332 AAAAATATAA
1 AAAAATATAA
410342 AAATGTATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 8 0.24
29 12 0.36
30 4 0.12
31 5 0.15
32 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (29 bp):
AAAAATATAATAAAAAAATAAATATATAA
Found at i:410324 original size:22 final size:23
Alignment explanation
Indices: 410272--410324 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
410262 CAAAGAAACT
410272 AAAAATAT-AATGAAAATAAATA
1 AAAAATATAAATGAAAATAAATA
* *
410294 AATAGTATAAAT-AAAAT-AATAA
1 AAAAATATAAATGAAAATAAAT-A
410316 AAAAATATA
1 AAAAATATA
410325 TATATATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (23 bp):
AAAAATATAAATGAAAATAAATA
Found at i:410328 original size:26 final size:24
Alignment explanation
Indices: 410284--410344 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
410274 AAATATAATG
* *
410284 AAAATAAATAAATAGTATAAATAA
1 AAAATAAAAAAATAATATAAATAA
*
410308 AATAATAAAAAAATATATATATATAA
1 AA-AATAAAAAAATA-ATATAAATAA
410334 AAATATAAAAA
1 AAA-ATAAAAA
410345 TGTATGTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 2 0.06
25 12 0.39
26 17 0.55
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAAAAATAATATAAATAA
Found at i:410338 original size:24 final size:24
Alignment explanation
Indices: 410276--410354 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
410266 GAAACTAAAA
* *
410276 ATATA-ATGAAAATAAATAAATAGT
1 ATATATATAAAAATAAAAAAATA-T
*
410300 ATAAATA-AAATAATAAAAAAATAT
1 ATATATATAAA-AATAAAAAAATAT
* *
410324 ATATATATAAAAATATAAAAATGT
1 ATATATATAAAAATAAAAAAATAT
*
410348 ATGTATA
1 ATATATA
410355 ATATTATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 30 0.67
25 15 0.33
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (24 bp):
ATATATATAAAAATAAAAAAATAT
Found at i:410644 original size:2 final size:2
Alignment explanation
Indices: 410637--410663 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
410627 ATAATTAAAC
410637 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
410664 ATAAGGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:411919 original size:29 final size:29
Alignment explanation
Indices: 411867--411938 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
411857 GTTCAATTAT
* * *
411867 ATAA-AAATAAATATAATTATTTATTTAC
1 ATAATAAATAAATATAAATAGTTATGTAC
* *
411895 ATACTAAATAAATATAAATAGTTATGTAT
1 ATAATAAATAAATATAAATAGTTATGTAC
*
411924 ATAATATATAAATAT
1 ATAATAAATAAATAT
411939 TTATTTATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 3 0.08
29 33 0.92
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (29 bp):
ATAATAAATAAATATAAATAGTTATGTAC
Found at i:411934 original size:23 final size:23
Alignment explanation
Indices: 411902--411952 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
411892 TACATACTAA
411902 ATAA-ATATAAATAGTTATGTAT
1 ATAATATATAAATAGTTATGTAT
* *
411924 ATAATATATAAATATTTATTTAT
1 ATAATATATAAATAGTTATGTAT
411947 ATAATA
1 ATAATA
411953 GTGTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
ATAATATATAAATAGTTATGTAT
Found at i:412763 original size:2 final size:2
Alignment explanation
Indices: 412756--412788 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
412746 TAAATCATTA
*
412756 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
412789 ATGATATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:412795 original size:10 final size:11
Alignment explanation
Indices: 412756--412796 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
412746 TAAATCATTA
412756 ATAT-ATATAT
1 ATATGATATAT
412766 ATATG-TATAT
1 ATATGATATAT
412776 ATAT-ATATAT
1 ATATGATATAT
412786 ATAATGATATA
1 AT-ATGATATA
412797 ATTACTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 20 0.74
11 2 0.07
12 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (11 bp):
ATATGATATAT
Found at i:415940 original size:74 final size:74
Alignment explanation
Indices: 415783--415971 Score: 236
Period size: 74 Copynumber: 2.6 Consensus size: 74
415773 GGAAGAGCAA
* * * * *
415783 TTACCCCTCCCAACTTTGATGGTCTAATTACATTTTAGATCATTGATAATTATAAAATTATTATA
1 TTACCCCTCCCAAATTTGATGGTCTAATTATATTTTAGGTCACTGATAATTATAAAATGATTATA
**
415848 ATTAAGCTT
66 ATTAAGCCC
*
415857 TTACCCCTCCCAAATTTGATGATCTAATTATATTTTAGGTCACTGATAATTATAAAATGATTATA
1 TTACCCCTCCCAAATTTGATGGTCTAATTATATTTTAGGTCACTGATAATTATAAAATGATTATA
*
415922 ATTGAGCCC
66 ATTAAGCCC
** * ** *
415931 TTATTCCTCCCCAATTTTTTGGTATAATTAT-TTTTAGGTCA
1 TTACCCCTCCCAAATTTGATGGTCTAATTATATTTTAGGTCA
415972 TTGTAACTTT
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
73 10 0.10
74 89 0.90
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (74 bp):
TTACCCCTCCCAAATTTGATGGTCTAATTATATTTTAGGTCACTGATAATTATAAAATGATTATA
ATTAAGCCC
Found at i:420381 original size:2 final size:2
Alignment explanation
Indices: 420374--420448 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
420364 AACTCTGATT
420374 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
420416 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
420449 CTCCATATGT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:422923 original size:31 final size:31
Alignment explanation
Indices: 422826--422923 Score: 124
Period size: 31 Copynumber: 3.2 Consensus size: 31
422816 TCGGGGACCA
* * *
422826 TATTGTAAACATAATAAATGTTGGGGGATTG
1 TATTGCAAACAGACTAAATGTTGGGGGATTG
* * *
422857 TATTACAAACAGAGTAAATGTTGAGGGATTG
1 TATTGCAAACAGACTAAATGTTGGGGGATTG
* *
422888 TATTGCAAACGGACTAAATGATGGGGGATTG
1 TATTGCAAACAGACTAAATGTTGGGGGATTG
422919 TATTG
1 TATTG
422924 TAAGTTTTAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (31 bp):
TATTGCAAACAGACTAAATGTTGGGGGATTG
Found at i:425201 original size:2 final size:2
Alignment explanation
Indices: 425196--425229 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
425186 TCAAAAAATC
*
425196 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
425230 TTGGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:434834 original size:14 final size:14
Alignment explanation
Indices: 434815--434854 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
434805 TTCAACTTAT
*
434815 TGACTTTGACCCGC
1 TGACTTTGACCAGC
*
434829 TGACTTTGACCAGT
1 TGACTTTGACCAGC
434843 TGACTTTGACCA
1 TGACTTTGACCA
434855 AAAAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (14 bp):
TGACTTTGACCAGC
Found at i:435459 original size:26 final size:25
Alignment explanation
Indices: 435430--435488 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
435420 ACGCCATGTA
*
435430 TAAATTACAAAAATACCCCTAAAGGG
1 TAAATGACAAAAATA-CCCTAAAGGG
* *
435456 TAAAATGACCAAAATACCCTAAAGTG
1 T-AAATGACAAAAATACCCTAAAGGG
435482 TAAATGA
1 TAAATGA
435489 TCTAAAGTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 6 0.21
26 11 0.38
27 12 0.41
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (25 bp):
TAAATGACAAAAATACCCTAAAGGG
Found at i:436267 original size:72 final size:72
Alignment explanation
Indices: 436182--436335 Score: 290
Period size: 72 Copynumber: 2.1 Consensus size: 72
436172 TATGCAAAGG
* *
436182 ATTCTGAATACCTTTCTGATCTCCTAATGTCTTCGAAAAATGTCTGAATACTATATGATTATGAT
1 ATTCTGAATACCTTTATGATCTCCTAATGTCTTCAAAAAATGTCTGAATACTATATGATTATGAT
436247 GAATCAT
66 GAATCAT
436254 ATTCTGAATACCTTTATGATCTCCTAATGTCTTCAAAAAATGTCTGAATACTATATGATTATGAT
1 ATTCTGAATACCTTTATGATCTCCTAATGTCTTCAAAAAATGTCTGAATACTATATGATTATGAT
436319 GAATCAT
66 GAATCAT
436326 ATTCTGAATA
1 ATTCTGAATA
436336 ACTAATGATT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 80 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.39
Consensus pattern (72 bp):
ATTCTGAATACCTTTATGATCTCCTAATGTCTTCAAAAAATGTCTGAATACTATATGATTATGAT
GAATCAT
Found at i:438238 original size:49 final size:49
Alignment explanation
Indices: 438183--438283 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 49
438173 AAGAGGTAAG
* *
438183 TTAGTAAAGTTAAATTAATTCAAAGAATTCAAATAATAATGAATGTTAA
1 TTAGTAAAGTTAAATTAATTCAAAGAATTCAAAAAATAATGAATGCTAA
* *
438232 TTAGTAAAGTTCAATTAATTCAAAGAATTCAAAAAATAATTAATGCTAA
1 TTAGTAAAGTTAAATTAATTCAAAGAATTCAAAAAATAATGAATGCTAA
438281 TTA
1 TTA
438284 CGAACATAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (49 bp):
TTAGTAAAGTTAAATTAATTCAAAGAATTCAAAAAATAATGAATGCTAA
Found at i:441378 original size:29 final size:29
Alignment explanation
Indices: 441342--441409 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
441332 CATTTTACAC
* *
441342 AAATAGCACCCTTTTTAAAATAATTACCA
1 AAATAGCACCCATTTCAAAATAATTACCA
* *
441371 AAATAGCACCCATTTCGAATTAATTACCA
1 AAATAGCACCCATTTCAAAATAATTACCA
*
441400 GAATAGCACC
1 AAATAGCACC
441410 AAAAACCGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (29 bp):
AAATAGCACCCATTTCAAAATAATTACCA
Found at i:441422 original size:30 final size:29
Alignment explanation
Indices: 441386--441468 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
441376 GCACCCATTT
*
441386 CGAATTAATTACCAGAATAGCACCAAAAAC
1 CGAATTATTTACCAGAATAGCACC-AAAAC
*
441416 CGAATTATTTACCAAAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
441445 CGAATTATTTACCAGAATAGCACC
1 CGAATTATTTACCAGAATAGCACC
441469 GGTCAACGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 28 0.56
30 22 0.44
ACGTcount: A:0.46, C:0.24, G:0.10, T:0.20
Consensus pattern (29 bp):
CGAATTATTTACCAGAATAGCACCAAAAC
Found at i:441453 original size:29 final size:29
Alignment explanation
Indices: 441365--441468 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 29
441355 TTTAAAATAA
* *** *
441365 TTACCAAAATAGCACCCATTTCGAATTAA
1 TTACCAAAATAGCACCAAAACCGAATTAT
*
441394 TTACCAGAATAGCACCAAAAACCGAATTAT
1 TTACCAAAATAGCACC-AAAACCGAATTAT
441424 TTACCAAAATAGCACCAAAACCGAATTAT
1 TTACCAAAATAGCACCAAAACCGAATTAT
*
441453 TTACCAGAATAGCACC
1 TTACCAAAATAGCACC
441469 GGTCAACGGT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
29 43 0.65
30 23 0.35
ACGTcount: A:0.44, C:0.25, G:0.09, T:0.22
Consensus pattern (29 bp):
TTACCAAAATAGCACCAAAACCGAATTAT
Found at i:441498 original size:17 final size:18
Alignment explanation
Indices: 441476--441514 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
441466 ACCGGTCAAC
441476 GGTCAAC-GATCAGGTCG
1 GGTCAACGGATCAGGTCG
* *
441493 GGTCAACGGGTCCGGTCG
1 GGTCAACGGATCAGGTCG
441511 GGTC
1 GGTC
441515 GTGACCGGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.15, C:0.26, G:0.41, T:0.18
Consensus pattern (18 bp):
GGTCAACGGATCAGGTCG
Found at i:448765 original size:29 final size:29
Alignment explanation
Indices: 448729--448827 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 29
448719 CATTTTACAG
**
448729 AAATAGCACCCTTTTTAAAATAATTACCA
1 AAATAGCACCAATTTTAAAATAATTACCA
* *
448758 AAATAGCACCAATTTTGAATTAATTACCA
1 AAATAGCACCAATTTTAAAATAATTACCA
* * **** * *
448787 GAATAGCACAAAAACCAAATTATTTACCA
1 AAATAGCACCAATTTTAAAATAATTACCA
448816 AAATAGCACCAA
1 AAATAGCACCAA
448828 AACCGAATTA
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.48, C:0.20, G:0.06, T:0.25
Consensus pattern (29 bp):
AAATAGCACCAATTTTAAAATAATTACCA
Found at i:448829 original size:29 final size:29
Alignment explanation
Indices: 448752--448854 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 29
448742 TTTAAAATAA
**** *
448752 TTACCAAAATAGCACCAATTTTGAATTAA
1 TTACCAAAATAGCACCAAAACCGAATTAT
* * *
448781 TTACCAGAATAGCACAAAAACCAAATTAT
1 TTACCAAAATAGCACCAAAACCGAATTAT
448810 TTACCAAAATAGCACCAAAACCGAATTAT
1 TTACCAAAATAGCACCAAAACCGAATTAT
*
448839 TTACCAGAATAGCACC
1 TTACCAAAATAGCACC
448855 GGTCAACGGT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.23
Consensus pattern (29 bp):
TTACCAAAATAGCACCAAAACCGAATTAT
Found at i:453835 original size:17 final size:17
Alignment explanation
Indices: 453813--453854 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
453803 TTATGCCTAA
*
453813 CACGCCTCAACTTGGAC
1 CACGCCTCAACTTAGAC
453830 CACGCCTCAACTTAGAC
1 CACGCCTCAACTTAGAC
*
453847 CATGCCTC
1 CACGCCTC
453855 CATCCCGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.24, C:0.43, G:0.14, T:0.19
Consensus pattern (17 bp):
CACGCCTCAACTTAGAC
Found at i:458902 original size:3 final size:3
Alignment explanation
Indices: 458894--458933 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
458884 TTTTTCCTCA
458894 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
458934 TCATATCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:466772 original size:21 final size:20
Alignment explanation
Indices: 466743--467161 Score: 143
Period size: 20 Copynumber: 20.9 Consensus size: 20
466733 TCCACTATCG
* *
466743 CAAATTCGCGTTGCGATAATT
1 CAAAATCGCGTTGCGAT-TTT
* * * *
466764 GAAAATCGCATTGCAATAGTT
1 CAAAATCGCGTTGCGAT-TTT
*
466785 GAAAATCGCGTTGCGATTTT
1 CAAAATCGCGTTGCGATTTT
* **
466805 CCATTTCGCGTTGCGATTTT
1 CAAAATCGCGTTGCGATTTT
* ** *
466825 CCAGTTCGCGTTGCGATAGTT
1 CAAAATCGCGTTGCGAT-TTT
*
466846 GAAAATCGCGTTGCGATTTT
1 CAAAATCGCGTTGCGATTTT
* **
466866 CCATTTCGCGTTGCGATTTT
1 CAAAATCGCGTTGCGATTTT
**** *
466886 CCGTTTCGCGTTGCGATAGTT
1 CAAAATCGCGTTGCGAT-TTT
*
466907 GAAAATCGCGTTGCGATTTT
1 CAAAATCGCGTTGCGATTTT
* **
466927 CCAGTTCGCGTTGCGATTTT
1 CAAAATCGCGTTGCGATTTT
* ** **
466947 CCAGTTCGCGTTGCGATAGT
1 CAAAATCGCGTTGCGATTTT
* * * *
466967 CTACAGTTGTCGTTGCAATTTT
1 C-AAAATCG-CGTTGCGATTTT
* * **
466989 CCAAAT-TCGTTGCGATAGT
1 CAAAATCGCGTTGCGATTTT
* * * *
467008 CTACAGTTGTCATTGCGATTTT
1 C-AAAATCG-CGTTGCGATTTT
* * *
467030 CCAAGT-TCGTTGCG-----
1 CAAAATCGCGTTGCGATTTT
*
467044 -AAAATCGTGTTGCGATTTT
1 CAAAATCGCGTTGCGATTTT
* ** *
467063 CCATTTCGCGTTGCGATAGTT
1 CAAAATCGCGTTGCGAT-TTT
*
467084 GAAAATCGCGTTGCGATTTT
1 CAAAATCGCGTTGCGATTTT
* ** *
467104 CCATTTCGCGTTGCGATAGTT
1 CAAAATCGCGTTGCGAT-TTT
*
467125 GAAAATCGCGTTGCGATTTT
1 CAAAATCGCGTTGCGATTTT
* **
467145 CCATTTCGCGTTGCGAT
1 CAAAATCGCGTTGCGAT
467162 AGTCTACAGT
Statistics
Matches: 291, Mismatches: 91, Indels: 33
0.70 0.22 0.08
Matches are distributed among these distances:
13 3 0.01
14 6 0.02
19 16 0.05
20 149 0.51
21 97 0.33
22 20 0.07
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.37
Consensus pattern (20 bp):
CAAAATCGCGTTGCGATTTT
Found at i:466815 original size:20 final size:20
Alignment explanation
Indices: 466790--467161 Score: 228
Period size: 20 Copynumber: 18.6 Consensus size: 20
466780 TAGTTGAAAA
*
466790 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAAT
*
466810 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAAT
* ** *
466830 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCAAT
*
466851 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAAT
**
466871 TCGCGTTGCGATTTTCCGTT
1 TCGCGTTGCGATTTTCCAAT
* ** *
466891 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCAAT
*
466912 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAAT
*
466932 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAAT
* * *
466952 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAAT
*
466974 T-GTCGTTGCAATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AAT
* * *
466995 T--CGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAAT
*
467015 T-GTCATTGCGATTTTCCAAGT
1 TCG-CGTTGCGATTTTCCAA-T
*
467036 T--CGTTGCGA------AAA
1 TCGCGTTGCGATTTTCCAAT
* *
467048 TCGTGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAAT
* ** *
467068 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCAAT
*
467089 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAAT
* ** *
467109 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCAAT
*
467130 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAAT
467150 TCGCGTTGCGAT
1 TCGCGTTGCGAT
467162 AGTCTACAGT
Statistics
Matches: 268, Mismatches: 63, Indels: 42
0.72 0.17 0.11
Matches are distributed among these distances:
12 1 0.00
13 2 0.01
14 7 0.03
19 15 0.06
20 152 0.57
21 68 0.25
22 23 0.09
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCAAT
Found at i:466852 original size:61 final size:61
Alignment explanation
Indices: 466769--467120 Score: 370
Period size: 61 Copynumber: 5.9 Consensus size: 61
466759 TAATTGAAAA
* *
466769 TCGCATTGCAATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGT
466830 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCC-GTT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAG-T
*
466891 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGT
* * * * * * *
466952 TCGCGTTGCGATAGTCT-ACAGTTGTCGTTGCAATTTTCCAAATT--CGTTGCGATAGTCTACAG
1 TCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCC-ATTTCGCGTTGCGAT--TTTCCAG
467014 T
61 T
* * ** * * ** * *
467015 T-GTCATTGCGAT-TTTCCAAGT-TCGTTGCGA------AAATCGTGTTGCGATTTTCCATT
1 TCG-CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGT
467068 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGAT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGAT
467121 AGTTGAAAAT
Statistics
Matches: 241, Mismatches: 30, Indels: 40
0.77 0.10 0.13
Matches are distributed among these distances:
53 17 0.07
54 6 0.02
55 16 0.07
60 8 0.03
61 156 0.65
62 20 0.08
63 18 0.07
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (61 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGT
Found at i:466862 original size:41 final size:41
Alignment explanation
Indices: 466810--467164 Score: 281
Period size: 41 Copynumber: 8.9 Consensus size: 41
466800 ATTTTCCATT
*
466810 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
* *****
466851 TCGCGTTGCGATTTTCCATTTCGCGTTGCGAT-TTTCCGTT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
* ** ** * ** **
466891 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCAGT
1 TCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTGAAAA
* * *
466932 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCT-ACAG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAA
* * * * *
466973 TTGTCGTTGCAATTTTCCAAATT--CGTTGCGATAGTCT-ACAG
1 TCG-CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGT-TGAAAA
* * *
467014 TTGTCATTGCGATTTTCCAAGTT--CGTTGC-------GAAAA
1 TCG-CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTTGAAAA
*
467048 TCGTGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
467089 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
467130 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
467165 CTACAGTTGT
Statistics
Matches: 262, Mismatches: 37, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
32 3 0.01
33 12 0.05
34 10 0.04
40 29 0.11
41 191 0.73
42 14 0.05
43 3 0.01
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:466980 original size:22 final size:22
Alignment explanation
Indices: 466955--467026 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
466945 TTCCAGTTCG
466955 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * * **
466977 CGTTGC-A-ATTTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
466996 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
467018 CATTGCGAT
1 CGTTGCGAT
467027 TTTCCAAGTT
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
19 7 0.19
20 7 0.19
21 7 0.19
22 15 0.42
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:467101 original size:157 final size:156
Alignment explanation
Indices: 466932--467228 Score: 463
Period size: 157 Copynumber: 1.9 Consensus size: 156
466922 ATTTTCCAGT
* * *
466932 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCT-ACAGTTGTCGTTGCAATTTTCCAAATT
1 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCAATTTTCC-AATT
* *
466996 -CGTTGCGATAGTCTACAGTTGTCATTGCGATTTTCCAAGTTCGTTGCGAAAATCGTGTTGCGAT
63 CCGTTGCGATAGTCTACAGTTGTCATTGCGATTTTCCAAATTCGTTGCGAAAATCGCGTTGCGAT
467060 TTTCCATTTCGCGTTGCGATAGTTGAAAA
128 TTTCCATTTCGCGTTGCGATAGTTGAAAA
* * *
467089 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
1 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGCGTTGCAATTTTCCAATTC-C
*
467154 GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGAAAATCGCGTTGCGATTT
65 GTTGCGATAGTCTACAGTTGTCATTGCGATTTTCCAAATTCGTTGCGAAAATCGCGTTGCGATTT
467219 TCCATTTCGC
130 TCCATTTCGC
467229 TCAGTTCGCG
Statistics
Matches: 128, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
155 3 0.02
156 14 0.11
157 111 0.87
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (156 bp):
TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGCGTTGCAATTTTCCAATTCCG
TTGCGATAGTCTACAGTTGTCATTGCGATTTTCCAAATTCGTTGCGAAAATCGCGTTGCGATTTT
CCATTTCGCGTTGCGATAGTTGAAAA
Found at i:467198 original size:82 final size:74
Alignment explanation
Indices: 467020--467228 Score: 244
Period size: 82 Copynumber: 2.7 Consensus size: 74
467010 ACAGTTGTCA
*
467020 TTGCGATTTTCCAAGTT-CGTTGCGAAAATCGTGTTGCGATTTTCCATTTCGCGTTGCGATAGTT
1 TTGCGATTTTCCAA-TTCCGTTGCGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTT
467084 GAAAATCGCG
65 GAAAATCGCG
*
467094 TTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGC
1 TTGCGATTTTCCAATTC-CGTTGC-------GAAAATCGCGTTGCGATTTTCCATTTCGCGTTGC
* * *
467159 GATAGTCT-ACAGTTGTCG
58 GATAGT-TGAAAATCG-CG
467177 TTGCGATTTTCCAAATT-CGTTGCGAAAATCGCGTTGCGATTTTCCATTTCGC
1 TTGCGATTTTCC-AATTCCGTTGCGAAAATCGCGTTGCGATTTTCCATTTCGC
467229 TCAGTTCGCG
Statistics
Matches: 117, Mismatches: 6, Indels: 23
0.80 0.04 0.16
Matches are distributed among these distances:
73 2 0.02
74 13 0.11
75 35 0.30
82 49 0.42
83 15 0.13
84 3 0.03
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (74 bp):
TTGCGATTTTCCAATTCCGTTGCGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTG
AAAATCGCG
Found at i:467411 original size:6 final size:6
Alignment explanation
Indices: 467400--467454 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
467390 GACACGTATT
467400 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
467448 ACCACG A
1 ACCACG A
467455 GACGAGACGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:467461 original size:5 final size:5
Alignment explanation
Indices: 467451--467482 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
467441 GACCACGACC
467451 ACGAG ACGAG ACGAG ACGAG ACGAG ACG-G ACG
1 ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACG
467483 GCGGCGGCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.38, C:0.22, G:0.41, T:0.00
Consensus pattern (5 bp):
ACGAG
Found at i:468084 original size:21 final size:21
Alignment explanation
Indices: 468015--468076 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
468005 GTGATGGGAA
468015 TTTCAACTATCGCAACGCGAT
1 TTTCAACTATCGCAACGCGAT
* *
468036 TTTAAACTATCGCAACACGAT
1 TTTCAACTATCGCAACGCGAT
468057 TTTCAACTATCGCAACGCGA
1 TTTCAACTATCGCAACGCGA
468077 AATGCAACGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (21 bp):
TTTCAACTATCGCAACGCGAT
Found at i:469839 original size:3 final size:3
Alignment explanation
Indices: 469827--469894 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
469817 AACGTTGTTG
* * *
469827 TTA TTG TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TAAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
469873 ATA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA
469895 CAAATCGGGC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 51 0.93
4 4 0.07
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:469839 original size:9 final size:9
Alignment explanation
Indices: 469821--469867 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
469811 TTTTCAAACG
*
469821 TTGTTGTTA
1 TTGTTATTA
469830 TTGTTATTA
1 TTGTTATTA
*
469839 TTATTATTA
1 TTGTTATTA
469848 TTGTTATTA
1 TTGTTATTA
*
469857 TTATTATTA
1 TTGTTATTA
469866 TT
1 TT
469868 ATAAAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (9 bp):
TTGTTATTA
Found at i:471731 original size:76 final size:76
Alignment explanation
Indices: 471638--471824 Score: 225
Period size: 76 Copynumber: 2.5 Consensus size: 76
471628 ACCGTTGCAC
* * *
471638 ATTCATTTCAATGGTGTAAGTTAATATTAAGTTTCACTGTAGG-AATTATGTCATAAGTTTAGTG
1 ATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTG-AGGAAATTATGTCATAAGTTTAGTG
471702 CTAGAATTACAT
65 CTAGAATTACAT
* * * * * *
471714 ATTCATTTCACTGGTGTAAATCAATGTCAAATTTTACTGCGGAAATTATGTGATAAGTTTAGTGC
1 ATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGAGGAAATTATGTCATAAGTTTAGTGC
* *
471779 TGGAATTACGT
66 TAGAATTACAT
** *
471790 ATTCA-TTCACTTATGTAAGTCAATGTTAAGATTCA
1 ATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCA
471825 AATTTTAGTG
Statistics
Matches: 92, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
75 25 0.27
76 67 0.73
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (76 bp):
ATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGAGGAAATTATGTCATAAGTTTAGTGC
TAGAATTACAT
Found at i:471969 original size:76 final size:76
Alignment explanation
Indices: 471828--472008 Score: 200
Period size: 76 Copynumber: 2.4 Consensus size: 76
471818 AGATTCAAAT
** ** * * * *
471828 TTTAGTGTTGGAGCTATTTATTAATTTCACTGATGCAAGTCAATGTTAAGTTTCGCTACTGGAAT
1 TTTAGTGTTGGAATTACGTATTCATTTCACTGATGCAAGTCAATGTTAAATTTCACTACTAGAAT
*
471893 TATGTGATAAG
66 TAGGTGATAAG
* * * * *
471904 TTTAGTGTTGGAATTACGTATTCATTTTACTGGTGTAAGTCAATGTTAAATTTCATTGCTAGAAT
1 TTTAGTGTTGGAATTACGTATTCATTTCACTGATGCAAGTCAATGTTAAATTTCACTACTAGAAT
471969 TAGGTGATAAG
66 TAGGTGATAAG
** * *
471980 TTTAGTGCCGAAATTACGCATTCATTTCA
1 TTTAGTGTTGGAATTACGTATTCATTTCA
472009 TGCCAAAACG
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
76 86 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (76 bp):
TTTAGTGTTGGAATTACGTATTCATTTCACTGATGCAAGTCAATGTTAAATTTCACTACTAGAAT
TAGGTGATAAG
Found at i:473515 original size:78 final size:79
Alignment explanation
Indices: 473369--473512 Score: 188
Period size: 78 Copynumber: 1.8 Consensus size: 79
473359 ATATAGTAAG
**
473369 TAAACATTAAAAGAATGTAATTTTGATTACAACTCTTTCAATTGATATTTAATTCAGAATAATTA
1 TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTCAATTGATATTTAATTCAGAATAATTA
473434 AATAAGATTTTAAA
66 AATAAGATTTTAAA
* * * *
473448 TAAACATT-AAAGATTGTAATTCAGATTATAAGTCTTT-AA-TGTATATTTAATT-TGAATTAAT
1 TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTCAATTG-ATATTTAATTCAGAA-TAAT
473509 TAAA
64 TAAA
473513 ATATGAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
76 5 0.09
77 20 0.35
78 24 0.42
79 8 0.14
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.41
Consensus pattern (79 bp):
TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTCAATTGATATTTAATTCAGAATAATTA
AATAAGATTTTAAA
Found at i:474389 original size:2 final size:2
Alignment explanation
Indices: 474382--474441 Score: 111
Period size: 2 Copynumber: 29.5 Consensus size: 2
474372 TAACAAGGTG
474382 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
474424 TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA T-A TA T
474442 GTTTGTTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 55 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:482439 original size:3 final size:3
Alignment explanation
Indices: 482418--482474 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
482408 GTTAAAAAAG
*
482418 TAA T-A TAA GTAA T-A TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
482462 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
482475 GGGACAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 4 0.08
3 42 0.86
4 3 0.06
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:483070 original size:134 final size:134
Alignment explanation
Indices: 482637--483484 Score: 741
Period size: 134 Copynumber: 6.3 Consensus size: 134
482627 ATCAGATCGA
* * *
482637 GAAACGTTGATTCATTCCAGTACTATTCTTCAAGGAAGATTGAATTGAGGAAGA-TGTGTTCCAC
1 GAAACGTTGATTCATT-C--TACTGTTCTTCAGGGAAGATTGAATTGAGGCAGACT-TGTTCCAC
* * * * * * * *
482701 TGTTACTCAGGAAAGATCAAGTCTTGTAAGAGAGGGATTTGTTCCACTACTTCCTGAAAG-AAAC
62 TGTTACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGAGAAAAT
*
482765 CAGATCTG
127 TAGATCTG
** * * * *
482773 GAAATATTGATTCATTGC-ACTATTCTTCAGGGAAGATTGAATCGAGACAGACTTGTTCCACTAT
1 GAAACGTTGATTCATT-CTACTGTTCTTCAGGGAAGATTGAATTGAGGCAGACTTGTTCCACTGT
* * * * * * * * * *
482837 TCCTTAGGGAAAATCAAATC-TGAAAAAAAGAAAGGGATCTGTTCCGCTGCTTTTTCAGGGAACA
65 TACTCAGGGAAGATCAAATCTTG----AAAGAGAGGGATCTGTTCCACTTCTTCTTGAGAGAAAA
482901 TTAGATCTG
126 TTAGATCTG
* * * *
482910 GAAATGTTGATTCATT-TCAATGTTCTTCAGGGAATATTAAATTGAGGCAGACTTGTTCCACTGT
1 GAAACGTTGATTCATTCT-ACTGTTCTTCAGGGAAGATTGAATTGAGGCAGACTTGTTCCACTGT
* * ** * *
482974 TCCTTAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTCTGCTTATTCTTGAGGGAAAATTAG
65 TACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGAGAAAATTAG
483039 ATCTG
130 ATCTG
** * * * * *
483044 GGGACGTTGATTCATTCTACTATTCTTCAGGGAAAATTG-ATTCGAGGTAAACTTGTTCCACTAT
1 GAAACGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATT-GAGGCAGACTTGTTCCACTGT
* * * * *
483108 TACTCAGGGAATATCAAATATTGAAAGAGAGGGATCTGTTCAACTTCTTCTTAAGATAAAATTAG
65 TACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGAGAAAATTAG
483173 ATCTAG
130 ATCT-G
* * * * ** * **
483179 G-GACGTTGATTAATTCCACTGTTC--CAGGGAAGATTAAATCAAGGGAGACTTGTTTAACTGTT
1 GAAACGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATTGAGGCAGACTTGTTCCACTGTT
* * * * * *
483241 ACTCAGGGAATATCAAATCTTAAAAGGGAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCATA
66 ACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGAGAAAATTAGA
483306 TCT-
131 TCTG
* * *
483309 GAGGACATTGATTCATTCTACTGTTAC-TCAGGGAAGATTGAATCT-AGGTAGACTTGTTCCACT
1 GA-AACGTTGATTCATTCTACTGTT-CTTCAGGGAAGATTGAAT-TGAGGCAGACTTGTTCCACT
* * * * *** * *
483372 GTTACTCAGGGATGATCAAATATTGAAAGAGAGAGATATGTTTTGCTTC-TCTAGTGAGAAAATT
63 GTTACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGAGAAAATT
*
483436 AGATTTG
128 AGATCTG
* * *
483443 GAAATGTTGATTCATTCCACTGTTCTTTAGGGAAGATTGAAT
1 GAAACGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAAT
483485 CAAGTTCGAT
Statistics
Matches: 580, Mismatches: 112, Indels: 43
0.79 0.15 0.06
Matches are distributed among these distances:
130 1 0.00
132 107 0.18
133 108 0.19
134 238 0.41
135 3 0.01
136 39 0.07
137 82 0.14
138 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (134 bp):
GAAACGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATTGAGGCAGACTTGTTCCACTGTT
ACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGAGAAAATTAGA
TCTG
Found at i:483296 original size:266 final size:267
Alignment explanation
Indices: 482693--483488 Score: 811
Period size: 266 Copynumber: 3.0 Consensus size: 267
482683 GAGGAAGATG
* * * * * * *
482693 TGTTCCACTGTTACTCAGGAAAGATCAAGTCTTGTAAGAGAGGGATTTGTTCCACTACTTCCTGA
1 TGTTCAACTGTTACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGA
** * ** * **
482758 AAG-AAACCAGATCTGGAAATATTGATTCATTGC-ACTATTCTTCAGGGAAGATTGAATCGAGAC
66 GGGAAAATCAGATCTGGGGACATTGATTCATT-CTACTATTCTTCAGGGAAGATTGAATCGAGGT
* * * * * **
482821 AGACTTGTTCCACTATTCCTTAGGGAAAATCAAAT-CTGAAAAAAAGAAAGGGATCTGTTCCGCT
130 AGACTTGTTCCACTATTACTCAGGGAATATCAAATATTG----AAAGAGAGGGATCTGTTCAACT
* * * * * * * *
482885 GCTTTTTCAGGGAACATTAGATCTGGAAATGTTGATTCATTTCAATGTTCTTCAGGGAATATTAA
191 GCTTCTTAAGAGAAAATTAGATCTGGAAACGTTGATTAATTCCAATGTTC-TCAGGGAAGATTAA
**
482950 ATTGAGGCAGACT
255 ATCAAGGCAGACT
* * * ** *
482963 TGTTCCACTGTTCCTTAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTCTGCTTATTCTTGA
1 TGTTCAACTGTTACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGA
* * * *
483028 GGGAAAATTAGATCTGGGGACGTTGATTCATTCTACTATTCTTCAGGGAAAATTGATTCGAGGTA
66 GGGAAAATCAGATCTGGGGACATTGATTCATTCTACTATTCTTCAGGGAAGATTGAATCGAGGTA
* *
483093 AACTTGTTCCACTATTACTCAGGGAATATCAAATATTGAAAGAGAGGGATCTGTTCAACTTCTTC
131 GACTTGTTCCACTATTACTCAGGGAATATCAAATATTGAAAGAGAGGGATCTGTTCAACTGCTTC
* * *
483158 TTAAGATAAAATTAGATCTAGG-GACGTTGATTAATTCCACTGTTC-CAGGGAAGATTAAATCAA
196 TTAAGAGAAAATTAGATCT-GGAAACGTTGATTAATTCCAATGTTCTCAGGGAAGATTAAATCAA
*
483221 GGGAGACT
260 GGCAGACT
* * * *
483229 TGTTTAACTGTTACTCAGGGAATATCAAATCTTAAAAGGGAGGGATCTGTTCCACTTCTTCTTGA
1 TGTTCAACTGTTACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGA
* * * *
483294 GGGAAAATCATATCTGAGGACATTGATTCATTCTACTGTTAC-TCAGGGAAGATTGAATCTAGGT
66 GGGAAAATCAGATCTGGGGACATTGATTCATTCTACTATT-CTTCAGGGAAGATTGAATCGAGGT
* * * *
483358 AGACTTGTTCCACTGTTACTCAGGG-ATGATCAAATATTGAAAGAGAGAGATATGTT---TTGCT
130 AGACTTGTTCCACTATTACTCAGGGAAT-ATCAAATATTGAAAGAGAGGGATCTGTTCAACTGCT
* * * * * * *
483419 TCTCTAGTGAGAAAATTAGATTTGGAAATGTTGATTCATTCCACTGTTCTTTAGGGAAGATTGAA
194 TCT-TA-AGAGAAAATTAGATCTGGAAACGTTGATTAATTCCAATGTTC-TCAGGGAAGATTAAA
483484 TCAAG
256 TCAAG
483489 TTCGATTTAC
Statistics
Matches: 437, Mismatches: 78, Indels: 25
0.81 0.14 0.05
Matches are distributed among these distances:
263 6 0.01
264 4 0.01
265 35 0.08
266 180 0.41
267 18 0.04
268 55 0.13
269 2 0.00
270 56 0.13
271 79 0.18
272 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (267 bp):
TGTTCAACTGTTACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGA
GGGAAAATCAGATCTGGGGACATTGATTCATTCTACTATTCTTCAGGGAAGATTGAATCGAGGTA
GACTTGTTCCACTATTACTCAGGGAATATCAAATATTGAAAGAGAGGGATCTGTTCAACTGCTTC
TTAAGAGAAAATTAGATCTGGAAACGTTGATTAATTCCAATGTTCTCAGGGAAGATTAAATCAAG
GCAGACT
Found at i:492062 original size:2 final size:2
Alignment explanation
Indices: 492057--492085 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
492047 ATAGCAAATA
492057 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
492086 CACATACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:496879 original size:873 final size:869
Alignment explanation
Indices: 494852--498320 Score: 4899
Period size: 867 Copynumber: 4.0 Consensus size: 869
494842 TCCTTTCTTT
* * *
494852 GAGTTAATGGTGGAAAATTCGATGAAGGATTTCAAGGATCTTGTGACAAATAGTGAGTTAATTGA
1 GAGTTAATGTTGGAAAATTCGATGAAGGATTTCAAGGATCTTGTGACAAATGGGGAGTTAATTGA
* * *
494917 AAATAAAATCAACAAAGAAAACTTGAAAGTCACTTTCAAAAGCCCAACTGATCAAGATGCGAAAG
66 AAATAAAATCAACAAAGAAAACTTGAAAGTCACTTCCAAAAGCCCAACTGATCAAGAAGAGAAAG
* * * * *
494982 CTGATGAGGTGAATGAATGTCACGTACAGAGCCCCAAGAGCCATAAAAGAAAAGGAGTAGCTAGT
131 CTGATGAGGTGAATGAATGTCACGTCCAGAGCCCCCATAACCATAAAAGAAAAGGAGCAGCTAGT
* * * * ** * *
495047 AC-CTCGAACCAACCAAAGAAAATATCATGATCGAGAAATACTTTGAATATGTTCTAAACTTCTA
196 -CGCTCGAACCGACCAAAGAAAGTCTCACGATCGAGAAATACTTTGAAGGTGTTCCAAACTTATA
* * ** * *
495111 TCTCAAATATGTA-TCCTCATTTGGTTAAAAATCAATACCTTACACCGAGGCAAAAAAAAAAGTG
260 TCTCAGATCTGTATTCC-CATTTGGTTAAAGGTCAATACCTTACACCGAGGC--CAATAAAAGTG
* * * * *
495175 CCACCAAACCCTTTTGCCCATAGTTATGATCAACATAGTGTTTGTGATTT-AAACTTGGGGGCAT
322 CCACCAAATCCTTTTGCCCACAGTTATGATCAAGATAGTGTATGTGATTTCCAA-TT-GGGGCAT
*
495239 CTGGGCATTCTAC-GGGGAATTGTAGGCCGCTGTTAAAGGAGATAAAGATGCTTGTGGAAAGTGG
385 CTGGGCATTCT-CTGGGGAATTGTAGGCCGCTGTTAAAGGAGATAGAGATGCTTGTGGAAAGTGG
* * * *
495303 AACGCTGACATAATAATTGGTGGAACAGTGGATGACGAACTCGATTTAGGCATCAAAACACAATA
449 AACGCTGACACAACAATTGGTGGAACAGTGGATGACGAACTCGATTGAGGCATCAAAGCACAATA
* *
495368 TGTAGCATCTGTTTGAGTCAAGTGCCACTGCATTAGATAAGTAATGGAGCATCCTAATTAGGAAG
514 TGTAGCATCTGTTTGAGTCAAGTGCCACTGCATTAGATGAGTAATGGGGCATCCTAATTAGGAAG
* *
495433 AGATCATTTCATCCACCATGAAGCTTTATTCCATTTTGTAACATCTTGTTTGAATTTGTGTTTTT
579 AGATCATTTCATCCATCATGAAGCTTTATTCCATTTTGCAACATCTTGTTTGAATTTGT-TTTTT
* * * ** *
495498 GTCCGTTCTCAGTTTTTTTAATGATATTTAAATGAACTCATGGTAGTTTAAAGATCATGAACATT
643 GTCCTTTCTCAGTTTTTTTAATGATATTTAAATAAACTCATGGTACTTTAAAGATGGTGAGCATT
* * * * *
495563 GAATTGAATTTGCAGTCTAGCAGTTCTTTGAATATAAATTGAATTAAAACCCCTTTAAATGATTA
708 GAATTGAATTTGCAGTCTTGCAGTTCTTTGAATATCAACTGAATTAAAAACTCTTTAAATGATTA
*
495628 GAGTTATAAGTCTTTGACAAAGTGACAAGATTGAAAACTGATAAAAACAAGGACCCTGGACCTTA
773 GAGTTATAAGTCTTTGACAAAGTGACAAGATTGAAAACTGAT-AAAACAAAGACCCTGGACCTTA
*
495693 TCCCAGAAGATACACTCGAACACCATACCCTTC
837 TACCAGAAGATACACTCGAACACCATACCCTTC
* * *
495726 GAGTTAATGCTGGAAATTTTCGATAAAGGA-TTCAAGGATCTTGTGACAAATGGGGAGTTAATTG
1 GAGTTAATGTTGGAAA-ATTCGATGAAGGATTTCAAGGATCTTGTGACAAATGGGGAGTTAATTG
* * * * * *
495790 AAATTACAATCAACAAATAAAACCTGAAAGTCACTTCCAAAATCCCAACTGATCAAGAA-ACGAG
65 AAAATAAAATCAACAAAGAAAACTTGAAAGTCACTTCCAAAAGCCCAACTGATCAAGAAGA-GAA
* *
495854 AGCTGATGAGGTGAATGAATGTCACGTCTAGAGCCCCCACAACCATAAAAGAAAAGGAGCAGCTA
129 AGCTGATGAGGTGAATGAATGTCACGTCCAGAGCCCCCATAACCATAAAAGAAAAGGAGCAGCTA
* * * *
495919 GTCTCTCGAACCGACCAAAG-AAGTCACACGATCAATAAATACTTTGAAGGTGTTCCAAACTTAT
194 GTCGCTCGAACCGACCAAAGAAAGTCTCACGATCGAGAAATACTTTGAAGGTGTTCCAAACTTAT
* * * * ** *
495983 ATCTCATATCTGTATTACCATTTGGTTAAAGGTCAATACATTGCATAGAGGCTAATAAAAGTGCC
259 ATCTCAGATCTGTATTCCCATTTGGTTAAAGGTCAATACCTTACACCGAGGCCAATAAAAGTGCC
* *
496048 ACCAAATCCTTTTGTCCGCAGTTATGATCAAGATAGTGTATGTGATTTCCAATTGGGGCATCTGG
324 ACCAAATCCTTTTGCCCACAGTTATGATCAAGATAGTGTATGTGATTTCCAATTGGGGCATCTGG
* ** * * * *
496113 GCATTCTCTGGGGAATTGTAGGTCATTGTTAAAGGAGATAGAGTTGCTTGTGGAAAGTGAAATGA
389 GCATTCTCTGGGGAATTGTAGGCCGCTGTTAAAGGAGATAGAGATGCTTGTGGAAAGTGGAACGC
* * * * *
496178 TGACACAACAATTAGAGGAACACTAGATGACGAACTCGATTGGGGCATCAAAGCACAATATGTAG
454 TGACACAACAATTGGTGGAACAGTGGATGACGAACTCGATTGAGGCATCAAAGCACAATATGTAG
* *
496243 CATCTGTCTGAGTCAAGTGCCA-TAGCATTAGATGAGTAATGGGGAATCCTAATTAGGAAGAGAT
519 CATCTGTTTGAGTCAAGTGCCACT-GCATTAGATGAGTAATGGGGCATCCTAATTAGGAAGAGAT
496307 CATTTCATCCATCATGAAGCTTTATTCCATTTTGCAACATCTTGTTTGAATTTGTTTTTTGTCCT
583 CATTTCATCCATCATGAAGCTTTATTCCATTTTGCAACATCTTGTTTGAATTTGTTTTTTGTCCT
496372 TTCTCAGTTTTATTTTGTAATGATATTTAAATAAACTCATGGTACTTTAAAGATGGTGAGCATTG
648 TTCTCAG--TT-TTTT-TAATGATATTTAAATAAACTCATGGTACTTTAAAGATGGTGAGCATTG
*
496437 AATTGAATTTGCAGTCTTGCAGTTCTTTGAATATCAACTGAATTAAAAACTCTTTAAATGGTTAG
709 AATTGAATTTGCAGTCTTGCAGTTCTTTGAATATCAACTGAATTAAAAACTCTTTAAATGATTAG
* *
496502 AGTTATAAGTATTTGACAAAGTGACAAGATTGAAAACTGATAAAACAAAGACCATGGACCTTATA
774 AGTTATAAGTCTTTGACAAAGTGACAAGATTGAAAACTGATAAAACAAAGACCCTGGACCTTATA
*
496567 CCAGAAGATACACTCGAACACCATACCGTTC
839 CCAGAAGATACACTCGAACACCATACCCTTC
* * * *
496598 GAGTTAATATTGGCAAATTTGATGAAGGATTTCAAGGATCTTCTGACAAATGGGGAGTTAATTGA
1 GAGTTAATGTTGGAAAATTCGATGAAGGATTTCAAGGATCTTGTGACAAATGGGGAGTTAATTGA
* * * *
496663 AAATAAAATCAACAATGGAAACTTGAAAGTCACTTCCAAAAGCCCAACTAATAAAGAAGAGAAAG
66 AAATAAAATCAACAAAGAAAACTTGAAAGTCACTTCCAAAAGCCCAACTGATCAAGAAGAGAAAG
* * *
496728 -TGGATGAGGTGAATGAATGTCACGTCCAGAGCCCCCATAACCATAAAATAAAAGGAGTAGCTAA
131 CT-GATGAGGTGAATGAATGTCACGTCCAGAGCCCCCATAACCATAAAAGAAAAGGAGCAGCTAG
* * * *
496792 TCGCTCGAACTGACCAAAGAAAGTCTCACGATCTAGAAATAATTTGAAGGTGTTCCAAAATTATA
195 TCGCTCGAACCGACCAAAGAAAGTCTCACGATCGAGAAATACTTTGAAGGTGTTCCAAACTTATA
* * * *
496857 TCTTAGATCTGTATTCCCATTTGGTTAAAGTTCAATACCTTACACCGAGGCCAATACAAGTGTCA
260 TCTCAGATCTGTATTCCCATTTGGTTAAAGGTCAATACCTTACACCGAGGCCAATAAAAGTGCCA
* * * * * *
496922 CCAAATCCATTTGCCCGCTGTTATGATCAAGATAGTGTATGTGATTTCCACTTAGGACATCTGGG
325 CCAAATCCTTTTGCCCACAGTTATGATCAAGATAGTGTATGTGATTTCCAATTGGGGCATCTGGG
*
496987 CATTCTCTGGGGAATCGTAGGCCGCTGTTAAAGGAGATAGAGATGCTTGTGGAAAGTGGAACGCT
390 CATTCTCTGGGGAATTGTAGGCCGCTGTTAAAGGAGATAGAGATGCTTGTGGAAAGTGGAACGCT
* *
497052 GACACAACAATTGGTGGAACAATGGATGACGAACTCGATTGGGGCATCAAA-CACAATATGTAGC
455 GACACAACAATTGGTGGAACAGTGGATGACGAACTCGATTGAGGCATCAAAGCACAATATGTAGC
* *
497116 ATCTGTTTGAGTCAAGTGTCACTGCATTAGATGAGTAATAGGGCATCCTAATTAGGAAGAGATCA
520 ATCTGTTTGAGTCAAGTGCCACTGCATTAGATGAGTAATGGGGCATCCTAATTAGGAAGAGATCA
* *
497181 TTTCATCCATCATGAAGCTTTATTCCATTTTGCAACATCTTCTTTGAATTTGTTTTTT-TTCTTT
585 TTTCATCCATCATGAAGCTTTATTCCATTTTGCAACATCTTGTTTGAATTTGTTTTTTGTCCTTT
* *
497245 CTCAGTTTTTTTAATGATATTTAAATAAACTCATGATACTTTAAAGATAGTGAGCATTGAATTGA
650 CTCAGTTTTTTTAATGATATTTAAATAAACTCATGGTACTTTAAAGATGGTGAGCATTGAATTGA
* * * *
497310 ATTTGCAGTCTTATC-GTTCTTTTAATATCAAATGAATTAAAAATTCTTTAAATGATTAGAGTTA
715 ATTTGCAGTCTT-GCAGTTCTTTGAATATCAACTGAATTAAAAACTCTTTAAATGATTAGAGTTA
* * * *
497374 TAAGTCTTTGACAAAGTGACAAGATTTAAAATTGATAAAACAAGGACCCTGGACCTTACACCAGA
779 TAAGTCTTTGACAAAGTGACAAGATTGAAAACTGATAAAACAAAGACCCTGGACCTTATACCAGA
497439 AGATACACTCGAACACCATACCCTTC
844 AGATACACTCGAACACCATACCCTTC
* *
497465 AAGTTAATGCTT-GAAAATTCGGTGAAGGATTTCAAGGATCTTGTGACAAAT-GGGAGTTAATTG
1 GAGTTAATG-TTGGAAAATTCGATGAAGGATTTCAAGGATCTTGTGACAAATGGGGAGTTAATTG
* * * * ** *
497528 AAAATACAATCAACAAAGGAAAA-TTAAAATTCACTTTCAAATTCCCAACTGATTAAGAAGCA-A
65 AAAATAAAATCAACAAA-GAAAACTTGAAAGTCACTTCCAAAAGCCCAACTGATCAAGAAG-AGA
* *** ** * *
497591 AAGCTGATGAGGTGAATGAATGTCAGGTCCAGAGCCTTGATAACTGTAAAATAAAATGAGCAGCT
128 AAGCTGATGAGGTGAATGAATGTCACGTCCAGAGCCCCCATAACCATAAAAGAAAAGGAGCAGCT
* * * * * *
497656 AGTTGCTCGAACCGACTATAGAAAGTCTCATGATCGAGAAATACTTTGAAGGAGTTCCAAACTTC
193 AGTCGCTCGAACCGACCAAAGAAAGTCTCACGATCGAGAAATACTTTGAAGGTGTTCCAAACTTA
497721 TATCTCAGATCTGTATTCCCATTTGGTTAAAGGTCAATACCTTACACCGAGGCCAATAAAAGTGC
258 TATCTCAGATCTGTATTCCCATTTGGTTAAAGGTCAATACCTTACACCGAGGCCAATAAAAGTGC
* * *
497786 CACTAAATCCTTTTGCCCACAGTTATGATCAAGATAGTGTATGTGATTTCCACTTGGGGCATATG
323 CACCAAATCCTTTTGCCCACAGTTATGATCAAGATAGTGTATGTGATTTCCAATTGGGGCATCTG
497851 GGCATTCTCTGGGGAATTGTAGGCCGCTGTTAAAGGAGATAGAGATGCTCT-TGGAAAGTGGAAC
388 GGCATTCTCTGGGGAATTGTAGGCCGCTGTTAAAGGAGATAGAGATGCT-TGTGGAAAGTGGAAC
* * * * * * * *
497915 GTTGACAGAACAATTGGTGGAATAGTGGAAGATGAACTCAATTGAGGCATCAAAGTACAATATGC
452 GCTGACACAACAATTGGTGGAACAGTGGATGACGAACTCGATTGAGGCATCAAAGCACAATATGT
*
497980 AGCATATGTTTGAGTCAAGTGCCACTAG-ATTAGATGAGTAATGGGGCATCCTAATTAGGAAGAG
517 AGCATCTGTTTGAGTCAAGTGCCACT-GCATTAGATGAGTAATGGGGCATCCTAATTAGGAAGAG
* *
498044 ATCATTTCATCCATCATTAAGCTTTATTCCATTTTGCAACATCTTTTTTGAATTTGTTTTTTGTC
581 ATCATTTCATCCATCATGAAGCTTTATTCCATTTTGCAACATCTTGTTTGAATTTGTTTTTTGTC
* * * * ** * *
498109 ATTTCTTAG-TTTTTTAATGATATTTAAATGAACTCTTACTACTTTAAAAATGGTGATCATTGAA
646 CTTTCTCAGTTTTTTTAATGATATTTAAATAAACTCATGGTACTTTAAAGATGGTGAGCATTGAA
** *
498173 TTGAATTTATAGTCTTGCAGTTCTTTGAATATCAACTGAATTAAAAACACTTTAAATGATTAGAG
711 TTGAATTTGCAGTCTTGCAGTTCTTTGAATATCAACTGAATTAAAAACTCTTTAAATGATTAGAG
* *
498238 TTATAAGTCTTTGACAAAGTGACAAGATTGAAAACTGATAAAATAAAGACCCTAGACCTTACT-C
776 TTATAAGTCTTTGACAAAGTGACAAGATTGAAAACTGATAAAACAAAGACCCTGGACCTTA-TAC
*
498302 CAGAAGATATACTCGAACA
840 CAGAAGATACACTCGAACA
498321 TTATATCATT
Statistics
Matches: 2315, Mismatches: 253, Indels: 61
0.88 0.10 0.02
Matches are distributed among these distances:
866 394 0.17
867 548 0.24
868 16 0.01
869 20 0.01
870 233 0.10
871 78 0.03
872 360 0.16
873 476 0.21
874 179 0.08
875 11 0.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (869 bp):
GAGTTAATGTTGGAAAATTCGATGAAGGATTTCAAGGATCTTGTGACAAATGGGGAGTTAATTGA
AAATAAAATCAACAAAGAAAACTTGAAAGTCACTTCCAAAAGCCCAACTGATCAAGAAGAGAAAG
CTGATGAGGTGAATGAATGTCACGTCCAGAGCCCCCATAACCATAAAAGAAAAGGAGCAGCTAGT
CGCTCGAACCGACCAAAGAAAGTCTCACGATCGAGAAATACTTTGAAGGTGTTCCAAACTTATAT
CTCAGATCTGTATTCCCATTTGGTTAAAGGTCAATACCTTACACCGAGGCCAATAAAAGTGCCAC
CAAATCCTTTTGCCCACAGTTATGATCAAGATAGTGTATGTGATTTCCAATTGGGGCATCTGGGC
ATTCTCTGGGGAATTGTAGGCCGCTGTTAAAGGAGATAGAGATGCTTGTGGAAAGTGGAACGCTG
ACACAACAATTGGTGGAACAGTGGATGACGAACTCGATTGAGGCATCAAAGCACAATATGTAGCA
TCTGTTTGAGTCAAGTGCCACTGCATTAGATGAGTAATGGGGCATCCTAATTAGGAAGAGATCAT
TTCATCCATCATGAAGCTTTATTCCATTTTGCAACATCTTGTTTGAATTTGTTTTTTGTCCTTTC
TCAGTTTTTTTAATGATATTTAAATAAACTCATGGTACTTTAAAGATGGTGAGCATTGAATTGAA
TTTGCAGTCTTGCAGTTCTTTGAATATCAACTGAATTAAAAACTCTTTAAATGATTAGAGTTATA
AGTCTTTGACAAAGTGACAAGATTGAAAACTGATAAAACAAAGACCCTGGACCTTATACCAGAAG
ATACACTCGAACACCATACCCTTC
Found at i:501344 original size:41 final size:42
Alignment explanation
Indices: 501249--501344 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
501239 ATGTCCTTCG
* * *
501249 GGCCATCAGTAAGTCTTTCGAGCATGATGGTTAAATCCTTCA
1 GGCCATCAGTAAGTCTTTCGAGCAAGATGGATAAATCATTCA
* * *
501291 GGTCATCTGTAAGTCTTTCGAGCAAGAT-GATAAGTCATTCA
1 GGCCATCAGTAAGTCTTTCGAGCAAGATGGATAAATCATTCA
*
501332 GGCCATCCGTAAG
1 GGCCATCAGTAAG
501345 ACCTTTGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 21 0.46
42 25 0.54
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (42 bp):
GGCCATCAGTAAGTCTTTCGAGCAAGATGGATAAATCATTCA
Found at i:501715 original size:236 final size:235
Alignment explanation
Indices: 501241--501944 Score: 971
Period size: 237 Copynumber: 3.0 Consensus size: 235
501231 AAATTTGTAT
* * * * *
501241 GTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGGTTAAATCCTTCAGGTCATCTGTAAGTC
1 GTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTAGGTCATCTATAAGTC
* * * ** *
501306 TTTCGAGCAAGATGATAAGTCATTCAGGCCATCCGTAAGACCTTTGAATAGGATGTTTTTACATG
66 TTTCGAGCAAGATGATAAATCCTTC-GGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATG
* *
501371 AATTTAACAAATAGGAAAGCGATTTTCAAAGTTTCCCATTTAATCTTTTCTTAAAATGAAATTTT
130 AATTTAA-AAATGGGAAAGCGATTTTCAAAGTTTCCCATTTAATCTTTTCTGAAAATGAAATTTT
*
501436 TGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAA
194 TGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTCAGTAA
* **
501478 GTCCTTTGGGCCATCAGTAAGTCTTTCGAGAATGATGATTAAATCATTTAGAACATCTATAAGTC
1 GTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTAGGTCATCTATAAGTC
*
501543 TTTCGAGCAAGATGATAAATCCTTCGTGTCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATG
66 TTTCGAGCAAGATGATAAATCCTTCG-GCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATG
501608 AATTTAAAAATGGGAAAGCGATTTTCAAAGTTTCCCATTTAATCTTTTCTGAAAATGAAATTTTT
130 AATTTAAAAATGGGAAAGCGATTTTCAAAGTTTCCCATTTAATCTTTTCTGAAAATGAAATTTTT
501673 GAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTCAGTAA
195 GAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTCAGTAA
* * * * * * *
501714 GTCC-TTCGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCTTTTGGGTCATTTTTCAGTC
1 GTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTAGGTCATCTATAAGTC
* **
501778 TTTCAAGCAAGATGATAAATCCTTCGGGCCATCTATAAGACCTTCGGGTAGGATGTTTTCACAT-
66 TTTCGAGCAAGATGATAAATCCTTC-GGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATG
* * * * * * *
501842 AATTTTCAAAAAAATGAGAAAACGATTTCCAAATTTTCTCATTTAATGTTTTCAGAAAATGAAAT
130 AA-TTT---AAAAATGGGAAAGCGATTTTCAAAGTTTCCCATTTAATCTTTTCTGAAAATGAAAT
** * *
501907 TTTTGAAAAGTAAGAAAGCGATGTCCAAAGTTTATTAC
191 TTTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTAC
501945 CTAGTCAACT
Statistics
Matches: 418, Mismatches: 43, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
234 2 0.00
235 111 0.27
236 102 0.24
237 120 0.29
238 83 0.20
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (235 bp):
GTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTAGGTCATCTATAAGTC
TTTCGAGCAAGATGATAAATCCTTCGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGA
ATTTAAAAATGGGAAAGCGATTTTCAAAGTTTCCCATTTAATCTTTTCTGAAAATGAAATTTTTG
AAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTCAGTAA
Found at i:502152 original size:6 final size:6
Alignment explanation
Indices: 502141--502175 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
502131 TCTTATTAAA
* *
502141 AAAAAG AAAAAG AAAAAG AAAAAT AGAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
502176 TGGAGAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:502182 original size:14 final size:13
Alignment explanation
Indices: 502143--502183 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
502133 TTATTAAAAA
*
502143 AAAGAAAAA-GAA
1 AAAGAAAAATGAG
502155 AAAGAAAAAT-AG
1 AAAGAAAAATGAG
502167 AAAGAAAAATGGAG
1 AAAGAAAAAT-GAG
502181 AAA
1 AAA
502184 ACATGAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 20 0.80
14 5 0.20
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (13 bp):
AAAGAAAAATGAG
Found at i:503256 original size:2 final size:2
Alignment explanation
Indices: 503249--503275 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
503239 TGCATGTGTT
503249 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
503276 TATCATTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:507735 original size:19 final size:20
Alignment explanation
Indices: 507688--507741 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
507678 GGGGTGTCAA
507688 AGTGCATCCATGCACCTTGC
1 AGTGCATCCATGCACCTTGC
*
507708 AGTGCATCCATGCACC-TGT
1 AGTGCATCCATGCACCTTGC
*
507727 AGTGAATCCATGCAC
1 AGTGCATCCATGCAC
507742 TGTGCATCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (20 bp):
AGTGCATCCATGCACCTTGC
Found at i:508436 original size:21 final size:21
Alignment explanation
Indices: 508410--508449 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
508400 CAATAATTAG
508410 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
508431 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
508450 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:508697 original size:20 final size:20
Alignment explanation
Indices: 508672--508719 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
508662 AGGGTGTCAA
508672 AGTGCATCAATGCACCCTAC
1 AGTGCATCAATGCACCCTAC
* * *
508692 AGTGCATCCATGCATCCTGC
1 AGTGCATCAATGCACCCTAC
508712 AGTGCATC
1 AGTGCATC
508720 TGTGCACCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (20 bp):
AGTGCATCAATGCACCCTAC
Found at i:508725 original size:20 final size:20
Alignment explanation
Indices: 508672--508763 Score: 107
Period size: 19 Copynumber: 4.7 Consensus size: 20
508662 AGGGTGTCAA
* * *
508672 AGTGCATCAATGCACCCTAC
1 AGTGCATCCATGCATCCTGC
508692 AGTGCATCCATGCATCCTGC
1 AGTGCATCCATGCATCCTGC
** *
508712 AGTGCATCTGTGCA-CCTGT
1 AGTGCATCCATGCATCCTGC
*
508731 AGTGCATCCATGCAT-CTGT
1 AGTGCATCCATGCATCCTGC
508750 AGTGCATCCATGCA
1 AGTGCATCCATGCA
508764 CTGTTAATCG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
19 34 0.54
20 29 0.46
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (20 bp):
AGTGCATCCATGCATCCTGC
Found at i:521172 original size:58 final size:57
Alignment explanation
Indices: 521022--521231 Score: 172
Period size: 58 Copynumber: 3.6 Consensus size: 57
521012 AATTTAAATC
* * ** * *
521022 ATAAAAGTTTTGAGCCATTATTGTAATTTGCAAAAGTTTTATGTC-ATTGTTGTAATTT
1 ATAAAAGTTTTGGGCAATTATTGTAATTTATAAAAG-TTT-TGGCAATTATTGTAATTT
* * * * * * *
521080 AGAAAACTTTTGGTCCATTATTTTATTTTGTAAAAGTCTTTGGCAATTATTGTAATTT
1 ATAAAAGTTTTGGGCAATTATTGTAATTTATAAAAGT-TTTGGCAATTATTGTAATTT
* * * *
521138 ATAAAAGTTTTGGGCAATTATTATAATTTATAAAA-TTTTGGGTAATTACTATAATTT
1 ATAAAAGTTTTGGGCAATTATTGTAATTTATAAAAGTTTT-GGCAATTATTGTAATTT
* * *
521195 ATAAAAGTTATGGGTAACTATTGTAATTCATATAAAA
1 ATAAAAGTTTTGGGCAATTATTGTAATT--TATAAAA
521232 TCTATCCCAA
Statistics
Matches: 124, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
56 3 0.02
57 43 0.35
58 71 0.57
59 7 0.06
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (57 bp):
ATAAAAGTTTTGGGCAATTATTGTAATTTATAAAAGTTTTGGCAATTATTGTAATTT
Found at i:521176 original size:28 final size:29
Alignment explanation
Indices: 521022--521231 Score: 156
Period size: 29 Copynumber: 7.2 Consensus size: 29
521012 AATTTAAATC
* * *
521022 ATAAAAGTTTTGAGCCATTATTGTAATTT
1 ATAAAAGTTTTGGGCAATTATTATAATTT
** * * * *
521051 GCAAAAGTTTTATGTC-ATTGTTGTAATTT
1 ATAAAAGTTTT-GGGCAATTATTATAATTT
* * * * * *
521080 AGAAAACTTTTGGTCCATTATTTTATTTT
1 ATAAAAGTTTTGGGCAATTATTATAATTT
* *
521109 GTAAAAGTCTTT-GGCAATTATTGTAATTT
1 ATAAAAGT-TTTGGGCAATTATTATAATTT
521138 ATAAAAGTTTTGGGCAATTATTATAATTT
1 ATAAAAGTTTTGGGCAATTATTATAATTT
* *
521167 ATAAAA-TTTTGGGTAATTACTATAATTT
1 ATAAAAGTTTTGGGCAATTATTATAATTT
* * * *
521195 ATAAAAGTTATGGGTAACTATTGTAATTCAT
1 ATAAAAGTTTTGGGCAATTATTATAATT--T
521226 ATAAAA
1 ATAAAA
521232 TCTATCCCAA
Statistics
Matches: 146, Mismatches: 28, Indels: 12
0.78 0.15 0.06
Matches are distributed among these distances:
28 32 0.22
29 103 0.71
30 4 0.03
31 7 0.05
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (29 bp):
ATAAAAGTTTTGGGCAATTATTATAATTT
Found at i:521200 original size:57 final size:57
Alignment explanation
Indices: 521074--521234 Score: 153
Period size: 57 Copynumber: 2.8 Consensus size: 57
521064 GTCATTGTTG
* * * * * * * * *
521074 TAATTTAGAAAACTTTTGGTCCATTATTTTATTTTGTAAAAGTCTTTGGCAATTATTG
1 TAATTTATAAAAGTTTTGGGCAATTATTATAATTTATAAAA-TCTTTGGCAATTACTA
*
521132 TAATTTATAAAAGTTTTGGGCAATTATTATAATTTATAAAAT-TTTGGGTAATTACTA
1 TAATTTATAAAAGTTTTGGGCAATTATTATAATTTATAAAATCTTT-GGCAATTACTA
* * * *
521189 TAATTTATAAAAGTTATGGGTAACTATTGTAATTCATATAAAATCT
1 TAATTTATAAAAGTTTTGGGCAATTATTATAATT--TATAAAATCT
521235 ATCCCAATGT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
56 3 0.04
57 39 0.46
58 34 0.40
59 8 0.09
60 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (57 bp):
TAATTTATAAAAGTTTTGGGCAATTATTATAATTTATAAAATCTTTGGCAATTACTA
Found at i:521933 original size:21 final size:20
Alignment explanation
Indices: 521908--521946 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
521898 CATCAGAGTC
*
521908 TTTGTTGAAGCCATGAAATCT
1 TTTGTCGAAGCCAT-AAATCT
*
521929 TTTGTCGATGCCATAAAT
1 TTTGTCGAAGCCATAAAT
521947 TTCTGCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
TTTGTCGAAGCCATAAATCT
Found at i:528398 original size:873 final size:874
Alignment explanation
Indices: 526669--528400 Score: 2525
Period size: 873 Copynumber: 2.0 Consensus size: 874
526659 CAGCTCCTTT
* **
526669 CTTCGAGTTAATGCTGGAAAATTTGATGAAGAATATCAAGGATCTTGTGACAAATAGGGAGTTAA
1 CTTCGAGTTAATGCTGGAAAATTTGACGAAGAATATCAAGGATCTTGCAACAAATAGGGAGTTAA
* * *
526734 TTGAAAATACAATAAACAAAGGAAACTTGAAAGTCACTTCCAAAAGCTCAACTGATCGAGAAGCA
66 TTGAAAATACAATAAACAAAGGAAACTTGAAAGTCACTTCCAAAAGCCCAACTGATCAAGAAGAA
* * * * *
526799 AAAGCTACTAAGGTAAATGAATGTCGCGTTCAGAGCCCCCACATCCGGAAAAGAAAAAGAGCAGC
131 AAAGCTACTAAGATAAATGAATGTCACGTCCAGAGCCCCCACAGCCAGAAAAGAAAAAGAGCAGC
* * *
526864 TAGTCGTTCGAACCAACCCAAGAAAGTCTTACGATCAAGAAATACTTTGAAGGTTTTCCAAACTT
196 TAGTCGTTCGAACCAACCAAAGAAAGTCTCACGATCAAGAAATACTTTGAAGGTGTTCCAAACTT
** * * * *
526929 CTATCTCAAATTTTTATCCCCATTTGGTTAAAGTTCAATCAATACCTTACATCGAGGCCAATAAA
261 CTATCTCAAAACTGTATCACCATTTGGTTAAAGGT--ATCAATACCTTACACCGAGGCCAATAAA
* * *
526994 AAGTGCCACCAAACCCTTCTTCCCATAGTTATGATCAAGATATTGTTTGTGATTTCCACTTGGGG
324 AAGTGCCACCAAACCCTTCTGCCCACAGTTATGATCAAGATAGTGTTTGTGATTTCCACTTGGGG
* * *
527059 GCATCTTGGCATTATACGAGGAATTATAGGCCACTGTTAAAGGAGATAGAGATGTTTGTGGAAAG
389 GAATCTAGGAATTATACGAGGAATTATAGGCCACTGTTAAAGGAGATAGAGATGTTTGTGGAAAG
* * * *
527124 TGGAATGCTGACACAAGAATTGGTGGACCAGTGGATGACGAACTCGATTGGGATATCAAAGCACA
454 TGGAACGCTGACACAAGAATTGGTGGAACAGTGGATGACGAACTCAATTGGGACATCAAAGCACA
* * *
527189 ATGTGTAACATCTATTTGAGTCAAGTGCCACTGCATTAGATGAGTAATAGGGCATCCTAATTAGG
519 ATATGTAACATCTATTTCAGTCAAGTGCCACTGCATTAGATGAATAATAGGGCATCCTAATTAGG
* * * * ** *
527254 TAGAGATCATTTCATCCATTGTGAAGCTTTATTCCATTTTTTAACATCTTGTTTGAATTTGTTTT
584 AAGAGACCATTTCATCCATTATAAAGCTTTATTCCATTTTGCAAAATCTTGTTTGAATTTGTTTT
* * **
527319 TTGTCTTTTCTCAGTTTTTTTGTTATGATATTTAAATAAGCTAATGCTACTTTAAAGATGGTGAG
649 TTGTCCTTTCTCAGTTTTTTTGTAATGATATTTAAATAAGCTAATGCTACTTTAAAGATAATGAG
* *
527384 CATTAAATTGAATTTGCATTCTTGCAATTCTTTGAATATCAATTGAATTAAAAACACTTTAAATG
714 CATTAAATTGAATTTACAGTCTTGCAATTCTTTGAATATCAATTGAATTAAAAACACTTTAAATG
*
527449 ATTAGAGATATAAGTCTTTGACAAAGTGACAAGATTGAAAACTGATAAAACAAAGACCCTGGACC
779 ATTAGAGATATAAGTCTTTGACAAAGTGACAAGATTGAAAACTAATAAAACAAAGACCCTGGACC
*
527514 TTACGCAGAAGATACACTTGAACACCATACC
844 TTACCCAGAAGATACACTTGAACACCATACC
* * *
527545 CTTCGAGTTAATGCTGGCAAATTTGACGAAGGATTTCAAGGATCTTGCAACAAAT-GGGCAGTTA
1 CTTCGAGTTAATGCTGGAAAATTTGACGAAGAATATCAAGGATCTTGCAACAAATAGGG-AGTTA
*
527609 ATTGAAAATACAATCAACAAAGGAAACTTGAAAGTCACTTCCAAAAGCCCAACTGATCAAGAA-A
65 ATTGAAAATACAATAAACAAAGGAAACTTGAAAGTCACTTCCAAAAGCCCAACTGATCAAGAAGA
* * * * * * *
527673 AGAAAGCTGA-TGATATGAATGAATGTCACGTCCAGAGCCCCTATAGCCATAAAAGAAAAGGAGC
130 A-AAAGCT-ACTAAGATAAATGAATGTCACGTCCAGAGCCCCCACAGCCAGAAAAGAAAAAGAGC
* *
527737 AGCTAGTTGCTT-GAACCAACCAAAGAAAGTCTCACGATCGAGAAATACTTTGAAGGTGTTCCAA
193 AGCTAGTCG-TTCGAACCAACCAAAGAAAGTCTCACGATCAAGAAATACTTTGAAGGTGTTCCAA
* *
527801 ACTTCTATCTCAAAACTGTATTACCATTTGGTTAAAGGT-T-AATACCTTACACCGTGGCCAAT-
257 ACTTCTATCTCAAAACTGTATCACCATTTGGTTAAAGGTATCAATACCTTACACCGAGGCCAATA
*
527863 AAAAGTGCCACCAAACCCTTTCTGCCCACAGTTATGATCAAGATAGTGTCTT-TGATTTTTCACT
322 AAAAGTGCCACCAAACCC-TTCTGCCCACAGTTATGATCAAGATAGTGT-TTGTGA-TTTCCACT
* * * ** *
527927 TGGGGGAATCTAGGAATTCTACGGGGAATTGTAGGCCGTTGTTAAAGGATATAGAGATGCTTT-T
384 TGGGGGAATCTAGGAATTATACGAGGAATTATAGGCCACTGTTAAAGGAGATAGAGATG-TTTGT
*
527991 GGAAAGTGGAACGCTGACACAAGAATTGGTGGAACAGTGGATGACGAACTCAATTGGGGCATCAA
448 GGAAAGTGGAACGCTGACACAAGAATTGGTGGAACAGTGGATGACGAACTCAATTGGGACATCAA
* * * *
528056 GGCACAATATGTAGCATCTGTTTCAGTCAAGTGCCACTGCATTAGATGAATAATGGGGCATCCTA
513 AGCACAATATGTAACATCTATTTCAGTCAAGTGCCACTGCATTAGATGAATAATAGGGCATCCTA
528121 ATTAGGAAGAGACCATTTCATCCATTATAAAG-TTTATTCCATTTTGCAAAATCTTGTTTGAATT
578 ATTAGGAAGAGACCATTTCATCCATTATAAAGCTTTATTCCATTTTGCAAAATCTTGTTTGAATT
*
528185 TGTTTTTTGTCCTTTCTCAGTTTTTTTTGTAATGATATTTAAATGAA-CTCATGCTACTTTAAAG
643 TGTTTTTTGTCCTTTCTCAG-TTTTTTTGTAATGATATTTAAAT-AAGCTAATGCTACTTTAAAG
* * *
528249 ATAATGAGCATTAAATTGAATTTACAGTCTTGCAGTTCTTTGAATATGAATTGAATTAAAAACTC
706 ATAATGAGCATTAAATTGAATTTACAGTCTTGCAATTCTTTGAATATCAATTGAATTAAAAACAC
* * *
528314 -TTAAATGATTAGAGTTATAAGTCTTTGACAAAGTGACAATATTGAAAACTAATAAAACAAGGAC
771 TTTAAATGATTAGAGATATAAGTCTTTGACAAAGTGACAAGATTGAAAACTAATAAAACAAAGAC
528378 CCTGGACCTTACCCCAGAAGATA
836 CCTGGACCTTA-CCCAGAAGATA
528401 AACTCAAACA
Statistics
Matches: 763, Mismatches: 82, Indels: 25
0.88 0.09 0.03
Matches are distributed among these distances:
871 18 0.02
872 169 0.22
873 313 0.41
874 5 0.01
875 4 0.01
876 251 0.33
877 3 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (874 bp):
CTTCGAGTTAATGCTGGAAAATTTGACGAAGAATATCAAGGATCTTGCAACAAATAGGGAGTTAA
TTGAAAATACAATAAACAAAGGAAACTTGAAAGTCACTTCCAAAAGCCCAACTGATCAAGAAGAA
AAAGCTACTAAGATAAATGAATGTCACGTCCAGAGCCCCCACAGCCAGAAAAGAAAAAGAGCAGC
TAGTCGTTCGAACCAACCAAAGAAAGTCTCACGATCAAGAAATACTTTGAAGGTGTTCCAAACTT
CTATCTCAAAACTGTATCACCATTTGGTTAAAGGTATCAATACCTTACACCGAGGCCAATAAAAA
GTGCCACCAAACCCTTCTGCCCACAGTTATGATCAAGATAGTGTTTGTGATTTCCACTTGGGGGA
ATCTAGGAATTATACGAGGAATTATAGGCCACTGTTAAAGGAGATAGAGATGTTTGTGGAAAGTG
GAACGCTGACACAAGAATTGGTGGAACAGTGGATGACGAACTCAATTGGGACATCAAAGCACAAT
ATGTAACATCTATTTCAGTCAAGTGCCACTGCATTAGATGAATAATAGGGCATCCTAATTAGGAA
GAGACCATTTCATCCATTATAAAGCTTTATTCCATTTTGCAAAATCTTGTTTGAATTTGTTTTTT
GTCCTTTCTCAGTTTTTTTGTAATGATATTTAAATAAGCTAATGCTACTTTAAAGATAATGAGCA
TTAAATTGAATTTACAGTCTTGCAATTCTTTGAATATCAATTGAATTAAAAACACTTTAAATGAT
TAGAGATATAAGTCTTTGACAAAGTGACAAGATTGAAAACTAATAAAACAAAGACCCTGGACCTT
ACCCAGAAGATACACTTGAACACCATACC
Found at i:530854 original size:42 final size:42
Alignment explanation
Indices: 530762--530873 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
530752 TTTTATTTAG
* * *
530762 TAAGTCCTTTGGGTCATCAGTAAGCCTTTCGAGCATGAAGAT
1 TAAGTTCTTTGGGTCATCTGTAAGCCTTTCGAGCAAGAAGAT
* * *
530804 TAA-ATCTTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA-
1 TAAGTTCTTT-GGGTCATCTGTAAGCCTTTCGAGCAAGAAGAT
* *
530845 TAAGTTCTTTGGGCCATCTATAAGACCTT
1 TAAGTTCTTTGGGTCATCTGTAAG-CCTT
530874 CGGACAAGAT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 19 0.33
42 38 0.67
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (42 bp):
TAAGTTCTTTGGGTCATCTGTAAGCCTTTCGAGCAAGAAGAT
Found at i:530962 original size:239 final size:240
Alignment explanation
Indices: 530483--530994 Score: 643
Period size: 239 Copynumber: 2.1 Consensus size: 240
530473 AATAAAATTA
* * * * * *
530483 TTGAAAAATAAGAAAACAATTTCCAAAGTTTCTTACTTAGTAATTTCTTCAGGCCATCAGTAAGT
1 TTGAAAAGTAAGAAAACAATTTCAAAAGTTTTTTACTTAGTAAGTCCTTCAGGCCATCAGTAAGC
* * *
530548 CTTTCGACCATGATGATTAAATCCTTCGGGTCATTTGTCACTCTATCCAGCAAGATGATAAGTCC
66 CTTTCGACCATGAAGATTAAATCCTTCGGGTCATCTGTAACTCTATCCAGCAAGATGATAAGTCC
* * ** *
530613 TTTGGACCATCCATAAGACCTTCGGGCATGATGTTTTCACATGATTTTCGAAAAATGAGAAAGCG
131 TTTGGACCATCCATAAGACCTTCGGACAAGATGTTTTCACATGATTTTAAAAAAATGAGAAAACG
*
530678 ATTTCCAAAGTTGCTCATTTAAAACTTTTCTGAAAATGAA-TTTT
196 ATTTCCAAAGTTGCTCATTTAAAACTTTTCAGAAAATGAATTTTT
* * ** *
530722 TTGAAAAGTAAGAAAACAATTTCTAAAGTTTTTTATTTAGTAAGTCCTTTGGGTCATCAGTAAGC
1 TTGAAAAGTAAGAAAACAATTTCAAAAGTTTTTTACTTAGTAAGTCCTTCAGGCCATCAGTAAGC
* * * * * *
530787 CTTTCGAGCATGAAGATTAAATCTTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTTC
66 CTTTCGACCATGAAGATTAAATCCTTCGGGTCATCTGTAACTCTATCCAGCAAGATGATAAGTCC
* *
530852 TTTGGGCCATCTATAAGACCTTCGGACAAGATGTTTTCACATGATTTTAAAAAAAAATGAGAAAA
131 TTTGGACCATCCATAAGACCTTCGGACAAGATGTTTTCACATGATTTT--AAAAAAATGAGAAAA
* * * ***
530917 TGATTTCCAAAGTTTCTCA-TTCAGTGTTTTCAGAAAATG-ATTTTT
194 CGATTTCCAAAGTTGCTCATTTAAAACTTTTCAGAAAATGAATTTTT
* * * *
530962 TTTAAAAGAAAGAAAGCGATTTCAAAAGTTTTT
1 TTGAAAAGTAAGAAAACAATTTCAAAAGTTTTT
530995 AACCCAATAA
Statistics
Matches: 232, Mismatches: 38, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
239 156 0.67
240 47 0.20
241 29 0.12
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (240 bp):
TTGAAAAGTAAGAAAACAATTTCAAAAGTTTTTTACTTAGTAAGTCCTTCAGGCCATCAGTAAGC
CTTTCGACCATGAAGATTAAATCCTTCGGGTCATCTGTAACTCTATCCAGCAAGATGATAAGTCC
TTTGGACCATCCATAAGACCTTCGGACAAGATGTTTTCACATGATTTTAAAAAAATGAGAAAACG
ATTTCCAAAGTTGCTCATTTAAAACTTTTCAGAAAATGAATTTTT
Found at i:531189 original size:174 final size:176
Alignment explanation
Indices: 530855--531213 Score: 478
Period size: 174 Copynumber: 2.0 Consensus size: 176
530845 TAAGTTCTTT
*
530855 GGGCCATCTATAAGACCTTCGGACAAGATGTTTTCACATGATTTTAAAAAAAAATGAGAAAATGA
1 GGGCCATCTATAAGACCTTCGGACAAGATGTTTTCACATAATTTT-AAAAAAAATGAGAAAATGA
* * *
530920 TTTCCAAAGTTTCTCATTCAGTGTTTTCAGAAAATGATTTTTTTTAAAAGAAAGAAAGCGATTTC
65 TTTCCAAAGTTTCTCATTCAGTGATTTCAGAAAATGATATTTTTGAAAAGAAAGAAAGCGATTTC
530985 AAAAGTTTTTAACCCAATAAACTATTTCCAAAATCGGTAAGTCATTC
130 AAAAGTTTTTAACCCAATAAACTATTTCCAAAATCGGTAAGTCATTC
* * * * *
531032 GGGCCATTTATAAGACCTTCGGGCAGGATGTTTTCACATAATTTT-CAAAAACTGAGAAAAAT-A
1 GGGCCATCTATAAGACCTTCGGACAAGATGTTTTCACATAATTTTAAAAAAAATGAG-AAAATGA
* * * *
531095 TTTTCAAA-TTATCTCATTTAGT-ATTTCA-AAAATTGATATTTTTGAAAAGTAAGAAAGTGATT
65 TTTCCAAAGTT-TCTCATTCAGTGATTTCAGAAAA-TGATATTTTTGAAAAGAAAGAAAGCGATT
* * * *
531157 TCCAAAGTTTCTT-ACCCAATAAACTATTTCCAAAATTGGTAAGTCCTTT
128 TCAAAAGTTT-TTAACCCAATAAACTATTTCCAAAATCGGTAAGTCATTC
531206 GGGCCATC
1 GGGCCATC
531214 AGTAAGTCTT
Statistics
Matches: 160, Mismatches: 18, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
173 4 0.03
174 81 0.51
175 29 0.18
176 5 0.03
177 41 0.26
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (176 bp):
GGGCCATCTATAAGACCTTCGGACAAGATGTTTTCACATAATTTTAAAAAAAATGAGAAAATGAT
TTCCAAAGTTTCTCATTCAGTGATTTCAGAAAATGATATTTTTGAAAAGAAAGAAAGCGATTTCA
AAAGTTTTTAACCCAATAAACTATTTCCAAAATCGGTAAGTCATTC
Done.