Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008570.1 Hibiscus syriacus cultivar Beakdansim tig00111495_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: 912507
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 3 of 5
Found at i:343322 original size:21 final size:21
Alignment explanation
Indices: 343292--343374 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
343282 ATTTTCATAT
*
343292 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
343313 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
343334 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
343355 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
343375 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:343365 original size:42 final size:43
Alignment explanation
Indices: 343272--343370 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
343262 ATTTATGTGT
* *
343272 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
343313 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
343355 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
343371 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:349829 original size:24 final size:23
Alignment explanation
Indices: 349785--349829 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
349775 GTACTCAACG
* **
349785 TATAATTATATTTTAGTTAAAAA
1 TATAATCATATTTTAAATAAAAA
349808 TATAATCATAATTTTAAATAAA
1 TATAATCAT-ATTTTAAATAAA
349830 TCACAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TATAATCATATTTTAAATAAAAA
Found at i:349840 original size:16 final size:18
Alignment explanation
Indices: 349805--349838 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
349795 TTTTAGTTAA
*
349805 AAATATAATCATAATTTT
1 AAATATAATCACAATTTT
349823 AAATA-AATCACAATTT
1 AAATATAATCACAATTT
349839 AATTTAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATATAATCACAATTTT
Found at i:353792 original size:29 final size:29
Alignment explanation
Indices: 353759--353823 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
353749 TATTTAATTA
353759 TCGTATCGATAAGCATACAACGTCAATAC
1 TCGTATCGATAAGCATACAACGTCAATAC
353788 TCGTATCGATAAGCATACAACGTCAATAC
1 TCGTATCGATAAGCATACAACGTCAATAC
353817 TCGTATC
1 TCGTATC
353824 AAGCCTTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (29 bp):
TCGTATCGATAAGCATACAACGTCAATAC
Found at i:360125 original size:21 final size:20
Alignment explanation
Indices: 360080--360127 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
360070 AATTTGATTG
*
360080 AAATTATATTTCTTATTAATA
1 AAATT-TATTTCTAATTAATA
360101 AAATTTATTT-TAATTATATA
1 AAATTTATTTCTAATTA-ATA
360121 CAAATTT
1 -AAATTT
360128 TCATGTGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 11 0.46
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTTATTTCTAATTAATA
Found at i:367267 original size:18 final size:17
Alignment explanation
Indices: 367244--367286 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
367234 GTTTTCTTTA
*
367244 AAATAAAATATAACAATT
1 AAATAAAATA-AACAAAT
*
367262 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
367279 AAATAAAA
1 AAATAAAA
367287 GAGATTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:367944 original size:64 final size:65
Alignment explanation
Indices: 367870--368068 Score: 206
Period size: 64 Copynumber: 2.9 Consensus size: 65
367860 TAAAACATCT
* *
367870 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACATAAAAAAAAATATAATATTC
1 TAAATCCTAATTAAAATACTTAAAACCTATTTAAACTAAAATACATAAAAAAAAATATAATATCC
*
367934 TAAATCCTAATTAAAATAC-TAAAATCTATTTAAACTAAAATACAAAGATAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTTAAAACCTATTTAAACTAAAATAC----ATAAA-A-AAAA-AT--
367998 AAATAATATCC
57 --ATAATATCC
* * * * *
368009 TAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACA-AAGATAAAATATAAT
1 TAAATCCTAATTAAAATACTTAAAACCTATTTAAACTAAAATACATAAAAAAAAATATAAT
368069 GTTTAAAATA
Statistics
Matches: 114, Mismatches: 8, Indels: 26
0.77 0.05 0.18
Matches are distributed among these distances:
63 5 0.04
64 41 0.36
68 7 0.06
69 4 0.04
70 5 0.04
71 4 0.04
72 1 0.01
75 25 0.22
76 22 0.19
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.29
Consensus pattern (65 bp):
TAAATCCTAATTAAAATACTTAAAACCTATTTAAACTAAAATACATAAAAAAAAATATAATATCC
Found at i:368012 original size:75 final size:75
Alignment explanation
Indices: 367913--368089 Score: 234
Period size: 76 Copynumber: 2.4 Consensus size: 75
367903 ACTAAAATAC
* *
367913 ATAAAA-A-AAAATATAATATTCTAAATCCTAATTAAAATACT-AAAATCTATTTAAACTAAAAT
1 ATAAAATATAAAA-ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAAT
367975 ACAAAGATAAA
65 ACAAAGATAAA
* *
367986 GATAAAATATAAAAATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAAT
1 -ATAAAATATAAAAATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAAT
368051 ACAAAGATAAA
65 ACAAAGATAAA
* * * *
368062 ATATAATGTTTAAAATATTATCCTAAAT
1 ATAAAAT-ATAAAAATAATATCCTAAAT
368090 TTGAGTTTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
74 6 0.07
75 33 0.37
76 51 0.57
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (75 bp):
ATAAAATATAAAAATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATA
CAAAGATAAA
Found at i:369733 original size:53 final size:52
Alignment explanation
Indices: 369653--369766 Score: 192
Period size: 53 Copynumber: 2.2 Consensus size: 52
369643 TGTCCGATGA
369653 TGCACTGTTATGTTCGAACTTTTCTGCACAGTTCGAACCAAATCAGTTTTTTC
1 TGCACTGTTATGTTCGAACTTTTCTGCACAGTTCGAACCAAATCAG-TTTTTC
* * *
369706 TGCACTGTTCTGTTCGAATTTTTCTGCACAGTTCGAACCAAGTCAGTTTTTC
1 TGCACTGTTATGTTCGAACTTTTCTGCACAGTTCGAACCAAATCAGTTTTTC
369758 TGCACTGTT
1 TGCACTGTT
369767 TTTTTTCGTT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
52 15 0.26
53 43 0.74
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (52 bp):
TGCACTGTTATGTTCGAACTTTTCTGCACAGTTCGAACCAAATCAGTTTTTC
Found at i:369897 original size:19 final size:20
Alignment explanation
Indices: 369860--369905 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
369850 AAATTCGCTA
369860 AAAAATAAAAAAAATAAAAC
1 AAAAATAAAAAAAATAAAAC
* *
369880 GAAAATAAAAAATA-AAAAC
1 AAAAATAAAAAAAATAAAAC
369899 AAAAATA
1 AAAAATA
369906 TAACGAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAATAAAAAAAATAAAAC
Found at i:373824 original size:15 final size:15
Alignment explanation
Indices: 373804--373836 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
373794 TCCTCTTGTA
373804 CTTCCTGATGTGCGT
1 CTTCCTGATGTGCGT
373819 CTTCCTGATGTGCGT
1 CTTCCTGATGTGCGT
373834 CTT
1 CTT
373837 TTTCTGCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.27, G:0.24, T:0.42
Consensus pattern (15 bp):
CTTCCTGATGTGCGT
Found at i:375620 original size:4 final size:4
Alignment explanation
Indices: 375607--375647 Score: 73
Period size: 4 Copynumber: 10.0 Consensus size: 4
375597 ATATAACAAT
375607 TAAA TAAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
375648 AGAGATTGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 32 0.89
5 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:376238 original size:21 final size:20
Alignment explanation
Indices: 376214--376260 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
376204 TTCAAAATCC
376214 TAAAACC-AAGCTAAAACATCT
1 TAAAACCTAA-CTAAAACA-CT
* *
376235 TAAATCCTAATTAAAACACT
1 TAAAACCTAACTAAAACACT
376255 TAAAAC
1 TAAAAC
376261 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.32
21 13 0.59
22 2 0.09
ACGTcount: A:0.53, C:0.21, G:0.02, T:0.23
Consensus pattern (20 bp):
TAAAACCTAACTAAAACACT
Found at i:376326 original size:19 final size:19
Alignment explanation
Indices: 376270--376332 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
376260 CTATTTAAAA
**
376270 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
376290 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
376310 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
376329 TAAA
1 TAAA
376333 CTAAAATACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:376360 original size:64 final size:68
Alignment explanation
Indices: 376235--376432 Score: 199
Period size: 64 Copynumber: 2.8 Consensus size: 68
376225 TAAAACATCT
* * ** *
376235 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAAATAAAATAC--CTA-AAAAAT-AATATAAT
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAGATAAAAATAAAAATAAT
*
376295 ATTC
65 ATCC
376299 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGATAAAATATAAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAC------AAAGATAAAA-ATAAA
376364 AATAATATCC
59 AATAATATCC
* *
376374 TAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAA-ATAA
376433 TGTTTAAAAT
Statistics
Matches: 113, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
63 5 0.04
64 35 0.31
70 15 0.13
72 1 0.01
73 4 0.04
74 2 0.02
75 28 0.25
76 23 0.20
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.28
Consensus pattern (68 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAAATAAAAATAATA
TCC
Found at i:376377 original size:75 final size:76
Alignment explanation
Indices: 376290--376454 Score: 244
Period size: 76 Copynumber: 2.2 Consensus size: 76
376280 AAAAAATAAT
*
376290 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAA-AT
376354 AAAAT-ATAAAA
65 AAAATGATAAAA
* *
376365 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
* * *
376430 TAATGTTTAAA
66 AAATGATAAAA
*
376441 ATATTATCCTAAAT
1 ATAATATCCTAAAT
376455 TTGAGTTTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 32 0.40
76 48 0.60
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
AAATGATAAAA
Found at i:377060 original size:50 final size:50
Alignment explanation
Indices: 376977--377076 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 50
376967 TTAGACACTT
* *
376977 CTATTTAAAAAAATGTAATAAAGAATATTCTTATATGAGATTGTAGTGCA
1 CTATTTAAAAAAATGTAATAAAGAACATACTTATATGAGATTGTAGTGCA
*
377027 CTATTTCAAAAAAA-GTAATAAAGAACATACTTATATGATATTGTAGTGCA
1 CTATTT-AAAAAAATGTAATAAAGAACATACTTATATGAGATTGTAGTGCA
377077 TTAGTGTAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 39 0.85
51 7 0.15
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (50 bp):
CTATTTAAAAAAATGTAATAAAGAACATACTTATATGAGATTGTAGTGCA
Found at i:378333 original size:76 final size:77
Alignment explanation
Indices: 378202--378562 Score: 384
Period size: 77 Copynumber: 4.7 Consensus size: 77
378192 GATTGTGCCT
* ** * * *
378202 AAAAATGTCATGGTTCACTAGGAAATATGTTGTGGTCTAGAATGTTAATATTTTTATTAATAAAA
1 AAAAATGTCATTGTTCACTAAAAAATATGTTGCGATCTGGAATGTTAATATTTTTATTAATAAAA
* *
378267 T-GGTTGCACTC
66 TGGGTTGCGCCC
* * * * * *
378278 AATATTGTCATTATTCACTAAAAAATATGTTGTGATCTGGAATGTTAATATTTTTATTAGTCAAA
1 AAAAATGTCATTGTTCACTAAAAAATATGTTGCGATCTGGAATGTTAATATTTTTATTAATAAAA
378343 TGGGTTGCGCCC
66 TGGGTTGCGCCC
* * * *
378355 AAAAATGTCATTGTTCACTAAAAAACATGTTACAATCTGGAATGTTAATATTTTTATTAGTAAAA
1 AAAAATGTCATTGTTCACTAAAAAATATGTTGCGATCTGGAATGTTAATATTTTTATTAATAAAA
378420 TGGGTTGCGCCC
66 TGGGTTGCGCCC
* * * * * * *
378432 AAGAATCTCATGGTTCACTAAGAAATAGGTTGCGATATGAAATGTTAATATTTTTATTAATAAAA
1 AAAAATGTCATTGTTCACTAAAAAATATGTTGCGATCTGGAATGTTAATATTTTTATTAATAAAA
*
378497 TGGGTTGCGCAC
66 TGGGTTGCGCCC
* * * * ** * **
378509 AAGAATGTTATGGTTTACTAAGAAAGCAAGTTGAAATCTGGAATGTTAAT-TTTT
1 AAAAATGTCATTGTTCACTAA-AAAATATGTTGCGATCTGGAATGTTAATATTTT
378563 CAATTATAAA
Statistics
Matches: 240, Mismatches: 43, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
76 56 0.23
77 164 0.68
78 20 0.08
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (77 bp):
AAAAATGTCATTGTTCACTAAAAAATATGTTGCGATCTGGAATGTTAATATTTTTATTAATAAAA
TGGGTTGCGCCC
Found at i:378516 original size:40 final size:40
Alignment explanation
Indices: 378394--378518 Score: 105
Period size: 40 Copynumber: 3.2 Consensus size: 40
378384 TTACAATCTG
* *
378394 GAATGTTAATATTTTTATTAGTAAAATGGGTTGCGCCCAA
1 GAATGTTAATATTTTTATTAATAAAATGGGTTGCGCACAA
* * ** * * * * * *
378434 GAAT-CTCAT-GGTTCACTAA-GAAATAGGTTGCG-ATAT
1 GAATGTTAATATTTTTATTAATAAAATGGGTTGCGCACAA
378470 GAAATGTTAATATTTTTATTAATAAAATGGGTTGCGCACAA
1 G-AATGTTAATATTTTTATTAATAAAATGGGTTGCGCACAA
378511 GAATGTTA
1 GAATGTTA
378519 TGGTTTACTA
Statistics
Matches: 58, Mismatches: 22, Indels: 10
0.64 0.24 0.11
Matches are distributed among these distances:
36 2 0.03
37 14 0.24
38 8 0.14
39 9 0.16
40 22 0.38
41 3 0.05
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (40 bp):
GAATGTTAATATTTTTATTAATAAAATGGGTTGCGCACAA
Found at i:378855 original size:155 final size:154
Alignment explanation
Indices: 378573--378978 Score: 568
Period size: 155 Copynumber: 2.6 Consensus size: 154
378563 CAATTATAAA
* * * *
378573 AAATTTGAAAGTATATATACTTTTTCAAAAGTATTGATACTTTAAAATTTAAAG-AAAACATGGA
1 AAATTTGAAAGTAT-GATACTTTTTCAAAAGTATCGATACTTTCAAATTTAAAGAAAAACATGAA
*
378637 AAATGAGAAGGATGCAAAGTATCGATATTTTTGAAAAAGTATCGAAACTTTTAAATTCAAAAGTT
65 AAATGAGAAGGATGCAAAGTATCGATATTTTTCAAAAAGTATCGAAACTTTTAAATTCAAAAGTT
* *
378702 -AAATATCATTTTCCATTTTTTTTTT
130 AAAATATCATTTCCCA-ATTTTTTTT
* *
378727 AAATTCGAAAGTATCGATACTTTTTCAAAAATATCGATACTTTCAAATTTAAAGAAAAACATGAA
1 AAATTTGAAAGTAT-GATACTTTTTCAAAAGTATCGATACTTTCAAATTTAAAGAAAAACATGAA
* * ** *
378792 AAATGAGAAGGCTGCAAAGTATCGATATTTTTCTAAAAGTATCGATTCTTTTAAATTCGAAAGTT
65 AAATGAGAAGGATGCAAAGTATCGATATTTTTCAAAAAGTATCGAAACTTTTAAATTCAAAAGTT
378857 AAAATATCATTTCCCAATTTTTTTT
130 AAAATATCATTTCCCAATTTTTTTT
* *
378882 AAATTTGAAAGTATG-TA-TATTCCAAAAGTATCGATACTTTCAAATTTAAAGAAAAACATGAAA
1 AAATTTGAAAGTATGATACTTTTTCAAAAGTATCGATACTTTCAAATTTAAAGAAAAACATGAAA
* * * * *
378945 AATGAGAAAGTTGCCAAGTATCAATACTTTTCAA
66 AATGAGAAGGATGCAAAGTATCGATATTTTTCAA
378979 CAAATACCTA
Statistics
Matches: 225, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
152 71 0.32
153 2 0.01
154 49 0.22
155 89 0.40
156 14 0.06
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (154 bp):
AAATTTGAAAGTATGATACTTTTTCAAAAGTATCGATACTTTCAAATTTAAAGAAAAACATGAAA
AATGAGAAGGATGCAAAGTATCGATATTTTTCAAAAAGTATCGAAACTTTTAAATTCAAAAGTTA
AAATATCATTTCCCAATTTTTTTT
Found at i:379331 original size:77 final size:77
Alignment explanation
Indices: 379203--379385 Score: 285
Period size: 77 Copynumber: 2.4 Consensus size: 77
379193 AGTATGAAAT
* * *
379203 CGTTTATATTATGCAAAAGTAAGACAAAATATGTTGCTCATGTTAACGTACTAAGTAGCGCTTTT
1 CGTTTATATTATGCAAAAGTAAGACAAAACATGTTGCTCATGATAACGTACTAAGTAGCACTTTT
379268 TTTAATGTCAAC
66 TTTAATGTCAAC
* *
379280 CGTTTATATTATGCAAAAGTAAGACAAAACATGTTGCTCATGATAATGTACTAGGTAGCACTTTT
1 CGTTTATATTATGCAAAAGTAAGACAAAACATGTTGCTCATGATAACGTACTAAGTAGCACTTTT
379345 TTTAATGTCAAC
66 TTTAATGTCAAC
* ** *
379357 CGTTTAAATTATATAAAAGTAAAACAAAA
1 CGTTTATATTATGCAAAAGTAAGACAAAA
379386 TAGGTTTTTC
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 97 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.34
Consensus pattern (77 bp):
CGTTTATATTATGCAAAAGTAAGACAAAACATGTTGCTCATGATAACGTACTAAGTAGCACTTTT
TTTAATGTCAAC
Found at i:379412 original size:77 final size:77
Alignment explanation
Indices: 379203--379425 Score: 221
Period size: 77 Copynumber: 2.9 Consensus size: 77
379193 AGTATGAAAT
* * * * * ** ** * *
379203 CGTTTATATTATGCAAAAGTAAGACAAAATATGTTGCTCATGTTAACGTACTAAGTAGCGCTTTT
1 CGTTTAAATTATACAAAAGTAAAACAAAACAGGTTGCTCATCATAATATAATAGGTAGCGCTTTT
379268 TTTAATGTCAAC
66 TTTAATGTCAAC
* * * * * * * *
379280 CGTTTATATTATGCAAAAGTAAGACAAAACATGTTGCTCATGATAATGTACTAGGTAGCACTTTT
1 CGTTTAAATTATACAAAAGTAAAACAAAACAGGTTGCTCATCATAATATAATAGGTAGCGCTTTT
379345 TTTAATGTCAAC
66 TTTAATGTCAAC
* * ** * *
379357 CGTTTAAATTATATAAAAGTAAAACAAAATAGGTTTTTCATCATTATATAATAGGTAGCGCCTTT
1 CGTTTAAATTATACAAAAGTAAAACAAAACAGGTTGCTCATCATAATATAATAGGTAGCGCTTTT
379422 TTTA
66 TTTA
379426 TGCAAAAGTA
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
77 127 1.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (77 bp):
CGTTTAAATTATACAAAAGTAAAACAAAACAGGTTGCTCATCATAATATAATAGGTAGCGCTTTT
TTTAATGTCAAC
Found at i:384845 original size:54 final size:54
Alignment explanation
Indices: 384756--384867 Score: 179
Period size: 54 Copynumber: 2.1 Consensus size: 54
384746 GAGTTTATAC
*
384756 TCAAAGGAAATCTATATTCTTAGAAGATCAGAATTAAATAAAAATTCAAGGATT
1 TCAAAGGAAATCTATATTCTTAGAAGATCAAAATTAAATAAAAATTCAAGGATT
* * * *
384810 TCAAGGGAAATCTATCTTCTTAGAATATCAAAATTAAATAAAGATTCAAGGATT
1 TCAAAGGAAATCTATATTCTTAGAAGATCAAAATTAAATAAAAATTCAAGGATT
384864 TCAA
1 TCAA
384868 CTTATCAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.30
Consensus pattern (54 bp):
TCAAAGGAAATCTATATTCTTAGAAGATCAAAATTAAATAAAAATTCAAGGATT
Found at i:385695 original size:27 final size:25
Alignment explanation
Indices: 385660--385733 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 25
385650 ATTATATAAA
385660 TATTAAATACATAAATAATATTATTTAT
1 TATT-AATA-ATAAATAATATTATTT-T
*
385688 TATTAATAATTAAATAATGTTATTTT
1 TATTAATAA-TAAATAATATTATTTT
*
385714 TATGAAATTAATAAATAATA
1 TAT-TAA-TAATAAATAATA
385734 AAAAATTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 5 0.12
27 28 0.70
28 7 0.17
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (25 bp):
TATTAATAATAAATAATATTATTTT
Found at i:385835 original size:17 final size:17
Alignment explanation
Indices: 385813--385851 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
385803 TTGACTATAT
385813 TATTATAATATTAAAAA
1 TATTATAATATTAAAAA
* *
385830 TATTATATTATTAGAAA
1 TATTATAATATTAAAAA
385847 TATTA
1 TATTA
385852 ATAAATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TATTATAATATTAAAAA
Found at i:385842 original size:25 final size:27
Alignment explanation
Indices: 385808--385858 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
385798 TATGATTGAC
*
385808 TATATTATTA-TAATATTAA-AAATAT
1 TATATTATTAGAAATATTAATAAATAT
385833 TATATTATTAGAAATATTAATAAATA
1 TATATTATTAGAAATATTAATAAATA
385859 CATTTTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
26 8 0.35
27 5 0.22
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
TATATTATTAGAAATATTAATAAATAT
Found at i:385912 original size:19 final size:20
Alignment explanation
Indices: 385890--385930 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
385880 TAATAGTTTG
385890 ATTAAAATAATATTAAA-AT
1 ATTAAAATAATATTAAATAT
* *
385909 ATTATAGTAATATTAAATAT
1 ATTAAAATAATATTAAATAT
385929 AT
1 AT
385931 AAATTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTAAAATAATATTAAATAT
Found at i:387665 original size:29 final size:29
Alignment explanation
Indices: 387623--387681 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
387613 AAAATATTAA
387623 TGGAGGGTTAACTGTCACATCATAAAAAT
1 TGGAGGGTTAACTGTCACATCATAAAAAT
387652 TGGAGGGTTAACTGTCACATCATAAAAAT
1 TGGAGGGTTAACTGTCACATCATAAAAAT
387681 T
1 T
387682 AAAGGAAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (29 bp):
TGGAGGGTTAACTGTCACATCATAAAAAT
Found at i:389675 original size:21 final size:21
Alignment explanation
Indices: 389649--389693 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
389639 AAACATAGAT
389649 TTTGCACTAAGTAAATAATAA
1 TTTGCACTAAGTAAATAATAA
389670 TTTGCACTAAGTAAATAATAA
1 TTTGCACTAAGTAAATAATAA
389691 TTT
1 TTT
389694 TCACCTCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (21 bp):
TTTGCACTAAGTAAATAATAA
Found at i:391048 original size:12 final size:12
Alignment explanation
Indices: 391033--391076 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
391023 TCGATACTCG
391033 TATCAATACCAA
1 TATCAATACCAA
*
391045 TATCAATACCCA
1 TATCAATACCAA
*
391057 CATCAATACCAA
1 TATCAATACCAA
391069 TATCAATA
1 TATCAATA
391077 TTGTCAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (12 bp):
TATCAATACCAA
Found at i:403217 original size:20 final size:20
Alignment explanation
Indices: 403192--403271 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 20
403182 TTTTTGTGCA
*
403192 GAGGGAATCGATCCCCCCAT
1 GAGGGAACCGATCCCCCCAT
**
403212 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGA-TCCCCCCAT
*
403233 GAAGGGGAACCGATTCCCCCA-
1 G-A-GGGAACCGATCCCCCCAT
*
403254 G-GGGAATCGATACCCCCC
1 GAGGGAACCGAT-CCCCCC
403272 TGGGGTTCTG
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
18 9 0.19
19 5 0.10
20 10 0.21
21 9 0.19
22 6 0.12
23 9 0.19
ACGTcount: A:0.24, C:0.35, G:0.26, T:0.15
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCAT
Found at i:416466 original size:24 final size:25
Alignment explanation
Indices: 416437--416483 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
416427 AGTTTTTAAG
*
416437 TTAGTAAG-ATGAATTTATAAAATT
1 TTAGTAAGAATGAACTTATAAAATT
416461 TTAGTAAGAATGAACTTATAAAA
1 TTAGTAAGAATGAACTTATAAAA
416484 CTTTGTAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (25 bp):
TTAGTAAGAATGAACTTATAAAATT
Found at i:421513 original size:91 final size:92
Alignment explanation
Indices: 421406--421594 Score: 362
Period size: 91 Copynumber: 2.1 Consensus size: 92
421396 CCTGAAGAAT
421406 AGTGGAATGAATTAACATCTCGAGATCTGATTTTTCTTGAAGAAGCAGCGGAACAGAT-CCCTCT
1 AGTGGAATGAATTAACATCTCGAGATCTGATTTTTCTTGAAGAAGCAGCGGAACAGATCCCCTCT
421470 TTCCAAATTTGATCTTCCCTGAGTAGC
66 TTCCAAATTTGATCTTCCCTGAGTAGC
421497 AGTGGAATGAATTAACATCTCGAGATCTGATTTTTCTTGAAGAAGCAGCGGAACAGATCCCCTCT
1 AGTGGAATGAATTAACATCTCGAGATCTGATTTTTCTTGAAGAAGCAGCGGAACAGATCCCCTCT
*
421562 TTCCAAATTTGATTTTCCCTGAGTAGC
66 TTCCAAATTTGATCTTCCCTGAGTAGC
421589 AGTGGA
1 AGTGGA
421595 GCAAGTCTGC
Statistics
Matches: 96, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
91 58 0.60
92 38 0.40
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (92 bp):
AGTGGAATGAATTAACATCTCGAGATCTGATTTTTCTTGAAGAAGCAGCGGAACAGATCCCCTCT
TTCCAAATTTGATCTTCCCTGAGTAGC
Found at i:421823 original size:3 final size:3
Alignment explanation
Indices: 421815--421941 Score: 193
Period size: 3 Copynumber: 42.7 Consensus size: 3
421805 TTCATCCCAC
421815 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
421863 TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAG TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
421910 TAT AAT TAT TAT TAT TAG TAT AAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
421942 GTTTTTATTT
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
2 2 0.02
3 109 0.98
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:424125 original size:131 final size:130
Alignment explanation
Indices: 423975--424338 Score: 419
Period size: 131 Copynumber: 2.8 Consensus size: 130
423965 TCGATATTGA
* * * * * * * *
423975 GAATAGTAATATCTTTTCATTTCGGTAGGAATAATAAATGATCGCTTTAAGACATAAGACGTCTT
1 GAATAGTGATATCTCTTCATTTC-GTAGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCAT
* * * *
424040 TTATTCTCGATTGGAAATAATTCGATATT-TCCGTTTTCTCTTGAA-CTAATATTGATTTTTAAG
65 TTATTCTAGATTGGAAATAATTAGATATTAT-CGTTTTCACTTGAATC-AATATTGAATTTTAAG
424103 ACG
128 ACG
* * *
424106 GAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATTATTGCTTTAAGGTATGAGAGGTCAT
1 GAATAGTGATATCTCTTCATTTCG-TAGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCAT
** * *
424171 TTATTCTAGATTAAAAATCATTAGATATTATCGTTTTCACTTGAATCGATATTGAATTTTAAGAC
65 TTATTCTAGATTGGAAATAATTAGATATTATCGTTTTCACTTGAATCAATATTGAATTTTAAGAC
424236 G
130 G
* * * * *
424237 AAATAGTGATATCTCTTCTTTTC-TATTGAGTAATAAATGATTGTTTTAAGGCATGTGAGGTCAT
1 GAATAGTGATATCTCTTCATTTCGTA-GGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCAT
* * *
424301 TTATTCTTGATTGGAAATAATTATATATTATTGTTTTC
65 TTATTCTAGATTGGAAATAATTAGATATTATCGTTTTC
424339 TCTCTTAAAA
Statistics
Matches: 196, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
129 1 0.01
130 66 0.34
131 127 0.65
132 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.42
Consensus pattern (130 bp):
GAATAGTGATATCTCTTCATTTCGTAGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATT
TATTCTAGATTGGAAATAATTAGATATTATCGTTTTCACTTGAATCAATATTGAATTTTAAGACG
Found at i:426214 original size:11 final size:12
Alignment explanation
Indices: 426198--426226 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
426188 GACACTTTAA
426198 TATTAT-GATTT
1 TATTATGGATTT
426209 TATTATGGATTT
1 TATTATGGATTT
426221 TATTAT
1 TATTAT
426227 TTTAGAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (12 bp):
TATTATGGATTT
Found at i:426263 original size:75 final size:76
Alignment explanation
Indices: 426146--426332 Score: 238
Period size: 75 Copynumber: 2.5 Consensus size: 76
426136 TTGGGTTTAA
*
426146 TATT-TTTCTAGACTTAATATTATGATTTGAGTCTT-AAGATTTGACACTTTAATATTATGATTT
1 TATTATTT-TAGACTTAATATTATGGTTTGAGTCTTGAAGATTTGACACTTTAATATTATGATTT
426209 -TATTATGGATTT
65 GT-TTATGGATTT
* * * * *
426221 TATTATTTTAGAGTTAATATTATGGTTTTAATCTTGAA-ATTTGACATTTTAATATTGTGATTTG
1 TATTATTTTAGACTTAATATTATGGTTTGAGTCTTGAAGATTTGACACTTTAATATTATGATTTG
426285 TTTATGGATTT
66 TTTATGGATTT
* * * *
426296 TAATATTCTAAACTTAATATTATTGTTTGAGTCTTGA
1 TATTATTTTAGACTTAATATTATGGTTTGAGTCTTGA
426333 TTTTAACTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
75 90 0.94
76 6 0.06
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.52
Consensus pattern (76 bp):
TATTATTTTAGACTTAATATTATGGTTTGAGTCTTGAAGATTTGACACTTTAATATTATGATTTG
TTTATGGATTT
Found at i:426359 original size:2 final size:2
Alignment explanation
Indices: 426352--426382 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
426342 TATTTATGAT
426352 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 T
426383 TTATTTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:426391 original size:10 final size:10
Alignment explanation
Indices: 426340--426391 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
426330 TGATTTTAAC
*
426340 TTTATTTATGA
1 TTTATATAT-A
426351 TTATATATATA
1 TT-TATATATA
*
426362 TATATATATA
1 TTTATATATA
*
426372 TATATATATA
1 TTTATATATA
*
426382 TTTATTTATA
1 TTTATATATA
426392 ATTTTAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 26 0.72
11 4 0.11
12 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TTTATATATA
Found at i:429543 original size:186 final size:185
Alignment explanation
Indices: 429200--429590 Score: 592
Period size: 186 Copynumber: 2.1 Consensus size: 185
429190 TTTTCTAATT
* * * *
429200 TATATAA-AAATTAAATAGTTTTTAATTAAAAAAACAGTTTCTAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTAAAAAAACAATTTCTAATTAATTTAAATAATATATAA
* *
429264 TTATAAAATAAAAATTGTATATAATTTTTTTAATTAATTAAAATTGATTTAGGTTTAAAAGTTGT
66 TTATAAAATAAAAATTGTATATAATATTTTTAATTAATTAAAATTGATTTAGGTTTAAAAGTTAT
*
429329 TGGATCTTAAATTATTAATTAGGTTTTAAATGATTAGGGCTGAGCCCATATGTTA
131 TGAATCTTAAATTATTAATTAGGTTTTAAATGATTAGGGCTGAGCCCATATGTTA
429384 TATATAATATATTTAATATTTTTTAATTCAAAAAAAACAATTTAC-AATTAATTTAAATAATATA
1 TATATAATATATTTAATATTTTTTAATT--AAAAAAACAATTT-CTAATTAATTTAAATAATATA
* * * *
429448 TAATTATAAAATAAAAATTTTATATAA-ATTTTTAATTAATTAATATTGATTTCGGTTTAAAATT
63 TAATTATAAAATAAAAATTGTATATAATATTTTTAATTAATTAAAATTGATTTAGGTTTAAAAGT
* *
429512 TATTGAATCTTAAATTATTAATT-GAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
128 TATTGAATCTTAAATTATTAATTAG-GTTTTAAATGATTAGGGCTGAGCCCATATGTTA
*
429570 TATATAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
429591 AAAATTTAAT
Statistics
Matches: 188, Mismatches: 14, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
184 7 0.04
185 18 0.10
186 105 0.56
187 57 0.30
188 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (185 bp):
TATATAATATATTTAATATTTTTTAATTAAAAAAACAATTTCTAATTAATTTAAATAATATATAA
TTATAAAATAAAAATTGTATATAATATTTTTAATTAATTAAAATTGATTTAGGTTTAAAAGTTAT
TGAATCTTAAATTATTAATTAGGTTTTAAATGATTAGGGCTGAGCCCATATGTTA
Found at i:440940 original size:19 final size:19
Alignment explanation
Indices: 440916--440963 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
440906 ATGTGATCTT
440916 TTGACCAACGTTTTCGTCG
1 TTGACCAACGTTTTCGTCG
440935 TTGACCAACGTTTTCGTCG
1 TTGACCAACGTTTTCGTCG
*
440954 TTAACCAACG
1 TTGACCAACG
440964 ACTCCGTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (19 bp):
TTGACCAACGTTTTCGTCG
Found at i:441330 original size:29 final size:30
Alignment explanation
Indices: 441297--441358 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
441287 TTAAAATTTT
*
441297 AAAATTAT-ATTGAAA-CAAAAAATATTCCC
1 AAAATTATAATT-AAATAAAAAAATATTCCC
441326 AAAATTATAATTAAATTAAAAAAATATTCCC
1 AAAATTATAATTAAA-TAAAAAAATATTCCC
441357 AA
1 AA
441359 TGCTTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 11 0.38
30 3 0.10
31 15 0.52
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (30 bp):
AAAATTATAATTAAATAAAAAAATATTCCC
Found at i:445123 original size:20 final size:20
Alignment explanation
Indices: 445098--445195 Score: 108
Period size: 20 Copynumber: 4.9 Consensus size: 20
445088 CGAGATCGAA
* *
445098 TGGTCTCCATATCGAAGGAC
1 TGGTCTCCATACCGAAGGAT
*
445118 TGGTCTCCATACCGTAGGAT
1 TGGTCTCCATACCGAAGGAT
*
445138 TGGTCTCCACACCGAAGGAT
1 TGGTCTCCATACCGAAGGAT
* *
445158 TGGTATCCATACC-AAAGAT
1 TGGTCTCCATACCGAAGGAT
* *
445177 TGAGTATCCATATCGAAGG
1 TG-GTCTCCATACCGAAGG
445196 CTTGATATCA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
19 7 0.11
20 56 0.85
21 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (20 bp):
TGGTCTCCATACCGAAGGAT
Found at i:456768 original size:20 final size:20
Alignment explanation
Indices: 456745--456789 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
456735 ACTAGTCTCA
*
456745 ATACCGAAAAATTGGCCTCT
1 ATACCGAAAAATTGGCCTCC
* * *
456765 ATACTGAAGAATTGGTCTCC
1 ATACCGAAAAATTGGCCTCC
456785 ATACC
1 ATACC
456790 AAAGATTAAG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (20 bp):
ATACCGAAAAATTGGCCTCC
Found at i:456794 original size:20 final size:20
Alignment explanation
Indices: 456739--456794 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
456729 CGAAGGACTA
456739 GTCTCAATACCGAAA-AATTG
1 GTCTCAATACC-AAAGAATTG
* * **
456759 GCCTCTATACTGAAGAATTG
1 GTCTCAATACCAAAGAATTG
*
456779 GTCTCCATACCAAAGA
1 GTCTCAATACCAAAGA
456795 TTAAGTATCC
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (20 bp):
GTCTCAATACCAAAGAATTG
Found at i:460476 original size:5 final size:5
Alignment explanation
Indices: 460466--460518 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
460456 TTGGTTTCTT
** *
460466 TTTTA TTTTA TTTTA TTATTA TTTTTA TTTTA AATTA TATTA TTTTTA
1 TTTTA TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA -TTTTA
460514 TTTTA
1 TTTTA
460519 AAATTACTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 29 0.71
6 10 0.24
7 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:460489 original size:16 final size:15
Alignment explanation
Indices: 460468--460511 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
460458 GGTTTCTTTT
*
460468 TTATTTTATTTTATTA
1 TTATTTTATTTTA-AA
460484 TTATTTTTATTTTAAA
1 TTA-TTTTATTTTAAA
*
460500 TTATATTATTTT
1 TTATTTTATTTT
460512 TATTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.32
16 7 0.28
17 10 0.40
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTTATTTTAAA
Found at i:460524 original size:22 final size:22
Alignment explanation
Indices: 460465--460520 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
460455 CTTGGTTTCT
**
460465 TTTTTATTTTATTTTATTATTA
1 TTTTTATTTTAAATTATTATTA
460487 TTTTTATTTTAAATTA-TATTA
1 TTTTTATTTTAAATTATTATTA
460508 TTTTTATTTTAAA
1 TTTTTATTTTAAA
460521 ATTACTTCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTATTTTAAATTATTATTA
Found at i:460635 original size:15 final size:15
Alignment explanation
Indices: 460617--460648 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
460607 AAATTTATAA
*
460617 TTTTATTTTTTATTT
1 TTTTATATTTTATTT
460632 TTTTATATTTTATTT
1 TTTTATATTTTATTT
460647 TT
1 TT
460649 AGATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTATATTTTATTT
Found at i:468997 original size:19 final size:19
Alignment explanation
Indices: 468949--468997 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
468939 TAATGACGTG
* * * *
468949 ATTTAAACATTTAACTTTT
1 ATTTAAAAATTTAAATGTA
468968 ATTTAAAAAATTTAAATGTA
1 ATTT-AAAAATTTAAATGTA
468988 ATTTAAAAAT
1 ATTTAAAAAT
468998 AATTCATCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTAAAAATTTAAATGTA
Found at i:474331 original size:54 final size:54
Alignment explanation
Indices: 474267--474381 Score: 221
Period size: 54 Copynumber: 2.1 Consensus size: 54
474257 GACGAAAACT
*
474267 AACAAATAGCAGTTACAAAACCACCACATAACAGTTCAAATCAGAATAAATTCA
1 AACAAGTAGCAGTTACAAAACCACCACATAACAGTTCAAATCAGAATAAATTCA
474321 AACAAGTAGCAGTTACAAAACCACCACATAACAGTTCAAATCAGAATAAATTCA
1 AACAAGTAGCAGTTACAAAACCACCACATAACAGTTCAAATCAGAATAAATTCA
474375 AACAAGT
1 AACAAGT
474382 GTGCACTCCG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.51, C:0.22, G:0.09, T:0.18
Consensus pattern (54 bp):
AACAAGTAGCAGTTACAAAACCACCACATAACAGTTCAAATCAGAATAAATTCA
Found at i:489555 original size:23 final size:23
Alignment explanation
Indices: 489529--489578 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
489519 ATTTTAATAA
* **
489529 TTATGTCTTTATGACACGTTTTT
1 TTATATCTTTATGACACAATTTT
*
489552 TTATATTTTTATGACACAATTTT
1 TTATATCTTTATGACACAATTTT
489575 TTAT
1 TTAT
489579 CTTTTGGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.58
Consensus pattern (23 bp):
TTATATCTTTATGACACAATTTT
Found at i:489589 original size:25 final size:23
Alignment explanation
Indices: 489536--489583 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
489526 TAATTATGTC
**
489536 TTTATGACACGTTTTTTTATATT
1 TTTATGACACAATTTTTTATATT
*
489559 TTTATGACACAATTTTTTATCTT
1 TTTATGACACAATTTTTTATATT
489582 TT
1 TT
489584 GGTATGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.06, T:0.60
Consensus pattern (23 bp):
TTTATGACACAATTTTTTATATT
Found at i:490962 original size:13 final size:11
Alignment explanation
Indices: 490930--490963 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
490920 AGGAAAGGCA
490930 GGTTAATATAT
1 GGTTAATATAT
490941 GGTTAATATAT
1 GGTTAATATAT
490952 GGTTAATATAT
1 GGTTAATATAT
490963 G
1 G
490964 ATATTATCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (11 bp):
GGTTAATATAT
Found at i:491613 original size:231 final size:229
Alignment explanation
Indices: 491212--491709 Score: 924
Period size: 231 Copynumber: 2.2 Consensus size: 229
491202 GTTATATTGT
* *
491212 AAAGTATCTATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
* *
491277 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
66 TATTTGGTTAATATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
491342 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAA
491407 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
491441 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAAAACATATTTATTAT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTG--AAAACATATTTATTAT
491506 TATATTTGGTTAATATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCA
64 TATATTTGGTTAATATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCA
*
491571 AATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT
129 AATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATT
491636 AAAAAAAATTGAAACATAAATTACATAACTTTAAAA
194 AAAAAAAATTGAAACATAAATTACATAACTTTAAAA
*
491672 AAAGTATATATCATTTTTATAAAAGTGTCAATACTTAT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
491710 AAAAATAGGT
Statistics
Matches: 261, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
229 46 0.18
231 215 0.82
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
TATTTGGTTAATATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:492011 original size:20 final size:19
Alignment explanation
Indices: 491988--492034 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
491978 CGATATACCA
491988 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
492008 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
492028 GGTAAAA
1 GGTAAAA
492035 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:492112 original size:181 final size:182
Alignment explanation
Indices: 491776--492248 Score: 680
Period size: 181 Copynumber: 2.6 Consensus size: 182
491766 GATTCAAATT
* * * *
491776 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * *
491840 AAAATCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
491905 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
** *
491958 AAAAATGTATCGATCCAGTACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* * *
492023 AAACCGGTAAAACGTTACCGGATATATTGAATGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
492087 ATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 ATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * * *
492139 AAAAATATATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
*
492204 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
492249 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 166 0.64
182 94 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
ATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:492217 original size:17 final size:19
Alignment explanation
Indices: 492178--492220 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
492168 ATGTAAAAAT
492178 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
492198 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
492215 ATGATA
1 ATGATA
492221 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:494454 original size:21 final size:21
Alignment explanation
Indices: 494428--494492 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
494418 AAGACAATCA
*
494428 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
*
494449 AGAGTCGAAGAGAAACTTTAG
1 AGAGTCGAAGAGAAACTTGAG
* *
494470 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
494491 AG
1 AG
494493 GCATAAGGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:494568 original size:33 final size:33
Alignment explanation
Indices: 494526--494591 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
494516 AAATAGATGG
*
494526 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
494559 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
494592 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:496408 original size:19 final size:19
Alignment explanation
Indices: 496384--496432 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
496374 AATGTAGGGT
496384 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
496403 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
496422 TAATTTTGTAT
1 TAATTTTGTAT
496433 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:497307 original size:399 final size:400
Alignment explanation
Indices: 496525--497898 Score: 2590
Period size: 399 Copynumber: 3.4 Consensus size: 400
496515 ATAAACATTA
*
496525 AGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAAGTGTCGATCCCAAAAACATCGAAAACC
1 AGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAAACATCGAAAACC
496590 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
65 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
* *
496655 ATATGTCTAAATAATGTGTCTACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
130 ATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATG
496720 GAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAAACATCG
195 GAAAACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAAACATCG
496785 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
259 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
*
496850 GAGAGAATATGTCTAAATAATGTGTCGGCACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAA
324 GAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAA
496915 TGAATGGAAAAC
389 TGAATGGAAAAC
496927 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
496992 AAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
*
497056 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTGGTCCAGAATGAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATGG
*
497121 AAAATAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAA
196 AAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAA
497186 AACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
261 AACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
* * *
497251 GAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTTTGTCGATATTTTTGGTCCAGAATA
326 GAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATG
497316 AATGGAAAAC
391 AATGGAAAAC
*
497326 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
*
497391 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
*
497456 TATGTCTAAATAATGTGTCGGCACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATGG
497521 AAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAA
196 AAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAA
497586 AACCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
261 AACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
*
497650 GAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTGGTCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATG
*
497715 AATGGAAAAT
391 AATGGAAAAC
497725 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
497790 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
497855 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
497899 CTAATTTAAA
Statistics
Matches: 951, Mismatches: 20, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
399 529 0.56
400 337 0.35
401 54 0.06
402 31 0.03
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (400 bp):
AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATGG
AAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAA
AACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATG
AATGGAAAAC
Found at i:497323 original size:200 final size:200
Alignment explanation
Indices: 496525--497898 Score: 2590
Period size: 200 Copynumber: 6.9 Consensus size: 200
496515 ATAAACATTA
*
496525 AGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAAGTGTCGATCCCAAAAACATCGAAAACC
1 AGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAAACATCGAAAACC
496590 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
65 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
* *
496655 ATATGTCTAAATAATGTGTCTACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
130 ATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATG
496720 GAAAAC
195 GAAAAC
496726 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAAACATCGAAAACC
1 AGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAAACATCGAAAACC
496791 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
65 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
*
496856 ATATGTCTAAATAATGTGTCGGCACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATG
130 ATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATG
496921 GAAAAC
195 GAAAAC
496927 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
496992 AAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
*
497056 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTGGTCCAGAATGAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATGG
*
497121 AAAAT
196 AAAAC
497126 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
497191 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
* * *
497256 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTTTGTCGATATTTTTGGTCCAGAATAAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATGG
497321 AAAAC
196 AAAAC
*
497326 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
*
497391 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
*
497456 TATGTCTAAATAATGTGTCGGCACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATGG
497521 AAAAC
196 AAAAC
497526 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
497591 AAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
*
497655 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTGGTCCAGAATGAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATGG
*
497720 AAAAT
196 AAAAC
497725 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
497790 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
497855 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
497899 CTAATTTAAA
Statistics
Matches: 1149, Mismatches: 22, Indels: 5
0.98 0.02 0.00
Matches are distributed among these distances:
199 391 0.34
200 529 0.46
201 229 0.20
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (200 bp):
AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAATGG
AAAAC
Found at i:497696 original size:599 final size:600
Alignment explanation
Indices: 496525--497898 Score: 2678
Period size: 599 Copynumber: 2.3 Consensus size: 600
496515 ATAAACATTA
*
496525 AGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAAGTGTCGATCCCAAAAACATCGAAAACC
1 AGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAAACATCGAAAACC
496590 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
65 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
* *
496655 ATATGTCTAAATAATGTGTCTACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
130 ATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATAAATG
*
496720 GAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAAACATCG
195 GAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCG
*
496785 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
260 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTTAT
496850 GAGAGAATATGTCTAAATAATGTGTCGGCACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAA
325 GAGAGAATATGTCTAAATAATGTGTCGGCACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAA
496915 TGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAA
390 TGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAA
496980 CATCGAAAACCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAAGTATACCGGTT
455 CATCGAAAACCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAAGTATACCGGTT
497045 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTGGTCC
520 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTGGTCC
497110 AGAATGAATGGAAAAT
585 AGAATGAATGGAAAAT
497126 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
497191 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
*
497256 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTTTGTCGATATTTTTGGTCCAGAATAAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATAAATGG
497321 AAAACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAAGTGTCAATCCCAAAAACATCGA
196 AAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGA
497385 AAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTTATG
261 AAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTTATG
497450 AGAGAATATGTCTAAATAATGTGTCGGCACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAAT
326 AGAGAATATGTCTAAATAATGTGTCGGCACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAAT
497515 GAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAAC
391 GAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAAC
497580 ATCGAAAACCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAAGTATACCGGTTT
456 ATCGAAAACCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAAGTATACCGGTTT
497645 TATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTGGTCCA
521 TATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTGGTCCA
497710 GAATGAATGGAAAAT
586 GAATGAATGGAAAAT
497725 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
497790 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
497855 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
497899 CTAATTTAAA
Statistics
Matches: 766, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
599 538 0.70
600 197 0.26
601 31 0.04
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (600 bp):
AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATAAATGG
AAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGA
AAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTTATG
AGAGAATATGTCTAAATAATGTGTCGGCACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAAT
GAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAAC
ATCGAAAACCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAAGTATACCGGTTT
TATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTGGTCCA
GAATGAATGGAAAAT
Found at i:499372 original size:6 final size:6
Alignment explanation
Indices: 499361--499408 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
499351 CAAGCGGTCA
* * * * *
499361 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
499409 CTGATGACGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.40, C:0.08, G:0.33, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:499383 original size:12 final size:12
Alignment explanation
Indices: 499361--499427 Score: 71
Period size: 12 Copynumber: 5.3 Consensus size: 12
499351 CAAGCGGTCA
*
499361 ATGAAGATGAAG
1 ATGACGATGAAG
*
499373 CTGACGATGAAG
1 ATGACGATGAAG
*
499385 ATGACGATGATG
1 ATGACGATGAAG
499397 ATGACGATGAAGCTG
1 ATGACGATGAA---G
*
499412 ATGACGATGATG
1 ATGACGATGAAG
499424 ATGA
1 ATGA
499428 TCCAAATAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
12 35 0.76
15 11 0.24
ACGTcount: A:0.37, C:0.09, G:0.33, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:499413 original size:18 final size:18
Alignment explanation
Indices: 499361--499415 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
499351 CAAGCGGTCA
*
499361 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGCTGATG
* *
499379 ATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGATG
*
499397 ATGACGATGAAGCTGATG
1 ATGAAGATGAAGCTGATG
499415 A
1 A
499416 CGATGATGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.33, T:0.20
Consensus pattern (18 bp):
ATGAAGATGAAGCTGATG
Found at i:499420 original size:6 final size:6
Alignment explanation
Indices: 499374--499427 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
499364 AAGATGAAGC
* * *
499374 TGACGA TGAAGA TGACGA TGATGA TGACGA TGAAGCTGA TGACGA TGATGA
1 TGACGA TGACGA TGACGA TGACGA TGACGA TG-A-C-GA TGACGA TGACGA
499425 TGA
1 TGA
499428 TCCAAATAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 32 0.80
7 2 0.05
8 2 0.05
9 4 0.10
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.22
Consensus pattern (6 bp):
TGACGA
Found at i:503252 original size:29 final size:26
Alignment explanation
Indices: 503210--503273 Score: 94
Period size: 25 Copynumber: 2.4 Consensus size: 26
503200 TTATCATTAA
503210 ATTTAGGTATGTACGTACAATAACTACAT
1 ATTTAGGTAT-T--GTACAATAACTACAT
503239 ATTTAGGTA-TGTACAATAACTACAT
1 ATTTAGGTATTGTACAATAACTACAT
503264 ATTTAGGTAT
1 ATTTAGGTAT
503274 ATACATCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
25 24 0.71
27 1 0.03
29 9 0.26
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (26 bp):
ATTTAGGTATTGTACAATAACTACAT
Found at i:503258 original size:25 final size:25
Alignment explanation
Indices: 503224--503278 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
503214 AGGTATGTAC
503224 GTACAATAACTACATATTTAGGTAT
1 GTACAATAACTACATATTTAGGTAT
503249 GTACAATAACTACATATTTAGGTAT
1 GTACAATAACTACATATTTAGGTAT
*
503274 ATACA
1 GTACA
503279 TCTTTTGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (25 bp):
GTACAATAACTACATATTTAGGTAT
Found at i:503656 original size:23 final size:23
Alignment explanation
Indices: 503625--503719 Score: 156
Period size: 23 Copynumber: 4.2 Consensus size: 23
503615 ATAGGTAAAA
*
503625 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
503648 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
503671 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
503694 ATATAATGTAATAGGTAG-TCTT
1 ATATAATGTAATAGGTAGCGCTT
503716 ATAT
1 ATAT
503720 TATAAAGTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
22 6 0.09
23 62 0.91
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:504169 original size:23 final size:23
Alignment explanation
Indices: 504138--504210 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
504128 ATAGGTAAAA
*
504138 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
504161 ATATAATGTAAAAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
504184 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
504207 ATAT
1 ATAT
504211 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:504599 original size:23 final size:23
Alignment explanation
Indices: 504568--504640 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
504558 ATAGGTAAAA
*
504568 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
504591 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
504614 ATATAATGTAATATGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
504637 ATAT
1 ATAT
504641 TGTAAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:504735 original size:430 final size:431
Alignment explanation
Indices: 503929--504807 Score: 1616
Period size: 430 Copynumber: 2.0 Consensus size: 431
503919 CTTTGGTTAA
* *
503929 TATTGTTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAATAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
503994 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
* *
504059 AACATAAATTACATAACTTTAAAGGAAGTATCAATTCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCAATCCTTTTTATAAAAAGTATGGACACTTTCAA
*
504124 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAAAAGGTATCGTTTATATA
196 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAAAAGGTAGCGTTTATATA
* * * *
504189 ATGTAATAGGTAGTGGTTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCTATACTTTTTT
261 ATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
504254 CACTGTGGAAAACATTAATTTAAAGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAAGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
*
504319 ATAGGCGTCTAATGATTTATTTTTTACTTTACGATATATAT
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
*
504360 TATTATTAAATTAAAAATTTTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
504425 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
*
504489 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCAATCCTTTTTATAAAAAGTATGGACACTTTCAA
*
504554 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
196 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAAAAGGTAGCGTTTATATA
*
504619 ATGTAATATGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
261 ATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
*
504684 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAAGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
504749 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
504790 TATTATTAAATTAAAAAT
1 TATTATTAAATTAAAAAT
504808 AATAAACATA
Statistics
Matches: 433, Mismatches: 15, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
430 318 0.73
431 115 0.27
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (431 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
AACATAAATTACATAACTTTAAAAGAAGTATCAATCCTTTTTATAAAAAGTATGGACACTTTCAA
TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAAAAGGTAGCGTTTATATA
ATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
CACTGTGGAAAACATTAATTTAAAGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
Found at i:507470 original size:20 final size:20
Alignment explanation
Indices: 507445--507482 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
507435 TAAGTTAGGG
507445 TATCGATACTGAATGAATAA
1 TATCGATACTGAATGAATAA
* *
507465 TATCGATATTGGATGAAT
1 TATCGATACTGAATGAAT
507483 TGGGATGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (20 bp):
TATCGATACTGAATGAATAA
Found at i:508554 original size:19 final size:19
Alignment explanation
Indices: 508530--508582 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
508520 AATTGTTCAG
508530 AGTGTATCGATGCACAGGA
1 AGTGTATCGATGCACAGGA
*
508549 AGTGTATCGATACACAGGA
1 AGTGTATCGATGCACAGGA
* *
508568 AATGCATCGATGCAC
1 AGTGTATCGATGCAC
508583 CCATTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (19 bp):
AGTGTATCGATGCACAGGA
Found at i:508685 original size:64 final size:64
Alignment explanation
Indices: 508570--508709 Score: 171
Period size: 64 Copynumber: 2.2 Consensus size: 64
508560 ACACAGGAAA
*
508570 TGCATCGATGCA-CCCATTAAAATGGAAACATCGAATGCAGTTAGTGCATCGATGCATAAGG-AG
1 TGCATCGATGCACCCCATTAAAATGAAAACATCGAATGCAGTTAGTGCATCGATGCAT-AGGTAG
* * * * *
508633 TGCATCTATGCACCCCCTTAAAATGAAAACATCGAAGGTG-A-TTTGTGTATCGATGCATGGGTA
1 TGCATCGATGCACCCCATTAAAATGAAAACATCGAA--TGCAGTTAGTGCATCGATGCATAGGTA
508696 G
64 G
508697 TGCATCGATGCAC
1 TGCATCGATGCAC
508710 TGTAGAATGC
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
63 13 0.20
64 50 0.76
65 1 0.02
66 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (64 bp):
TGCATCGATGCACCCCATTAAAATGAAAACATCGAATGCAGTTAGTGCATCGATGCATAGGTAG
Found at i:510201 original size:23 final size:23
Alignment explanation
Indices: 510168--510230 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
510158 AATCTTAGAT
* *
510168 GGCACTCCGGTGCATTTTTACGC
1 GGCACTACGGTGCATTTCTACGC
* *
510191 GGCACTACGGTGCAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
*
510214 GGCACTTCGGTGCATTT
1 GGCACTACGGTGCATTT
510231 ATATGAGTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:515260 original size:13 final size:13
Alignment explanation
Indices: 515242--515296 Score: 83
Period size: 13 Copynumber: 4.2 Consensus size: 13
515232 TGCGTCATAA
*
515242 ATTTATGACGTGC
1 ATTTATGACGCGC
*
515255 ATTTATGACACGC
1 ATTTATGACGCGC
515268 ATTTATGACGCGC
1 ATTTATGACGCGC
*
515281 ATTTATGACGCTC
1 ATTTATGACGCGC
515294 ATT
1 ATT
515297 GCGCGTCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:515415 original size:85 final size:85
Alignment explanation
Indices: 515269--515433 Score: 201
Period size: 85 Copynumber: 1.9 Consensus size: 85
515259 ATGACACGCA
* * * * * * *
515269 TTTATGACGCGCATTTATGACGCTCATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGATGTC
1 TTTATGACACGCATGTATGACGCTCATTGCGCGTCATTGAAGCACACATCATAAATAAAGATGAC
515334 ACACATT-TGTGTGTCATAAC
66 ACACATTAT-TGTGTCATAAC
* *
515354 TTTATGACACGCATGTATGAC-TTACATTGCGTGTCATTGAAGCACACATCATTAAA-AAAGATG
1 TTTATGACACGCATGTATGACGCT-CATTGCGCGTCATTGAAGCACACATCA-TAAATAAAGATG
515417 ACACACATTATTGTGTC
64 ACACACATTATTGTGTC
515434 GTGAATGTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
84 1 0.01
85 62 0.91
86 5 0.07
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (85 bp):
TTTATGACACGCATGTATGACGCTCATTGCGCGTCATTGAAGCACACATCATAAATAAAGATGAC
ACACATTATTGTGTCATAAC
Found at i:519528 original size:11 final size:11
Alignment explanation
Indices: 519512--519574 Score: 57
Period size: 11 Copynumber: 6.3 Consensus size: 11
519502 TTCATTTTAC
519512 TTAAATTATTA
1 TTAAATTATTA
*
519523 TTAAATAATTA
1 TTAAATTATTA
519534 TTAAA-TATTA
1 TTAAATTATTA
519544 -T--A-TA-TA
1 TTAAATTATTA
*
519550 TTATATTATTA
1 TTAAATTATTA
*
519561 TTAAATAATTA
1 TTAAATTATTA
519572 TTA
1 TTA
519575 CAAGCCCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 2 0.05
7 4 0.09
9 2 0.05
10 6 0.14
11 29 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTAAATTATTA
Found at i:522073 original size:20 final size:21
Alignment explanation
Indices: 522050--522101 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
522040 AGAAATTAAA
522050 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
522070 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
522092 -ATT-ATTTATT
1 AATTCATTTATT
522102 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:528600 original size:114 final size:114
Alignment explanation
Indices: 528400--528739 Score: 572
Period size: 114 Copynumber: 3.0 Consensus size: 114
528390 AAGTTCCACA
* *
528400 TTCTCGTACTAGAAATAAGAAGACCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
1 TTCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
*
528465 TGATTTGGTATAAACCCCAAAACCAATCATTGGATTTGAAAAATGAATT
66 TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAAATGAATT
528514 TTCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
1 TTCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
*
528579 TGATTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAAATGAATT
66 TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAAATGAATT
* *
528628 TTCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATC
1 TTCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * *
528693 TGGTTCGGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAAATGAA
528740 CTGCATGATC
Statistics
Matches: 213, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 213 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (114 bp):
TTCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAAATGAATT
Found at i:529828 original size:76 final size:76
Alignment explanation
Indices: 529690--529834 Score: 184
Period size: 76 Copynumber: 1.9 Consensus size: 76
529680 CAAATGTTGG
* * * *
529690 GGCATGCTGAAAACCCTTGTCAATCAGAATCAGGAATGTTGATGTATCCTGAATGTTTATATCAG
1 GGCATGCTGAAAACCCTTGTCAATCAGAATCAAGAATGTTGATGTATCCTGAACGCTCATATCAG
529755 CAAAATGCTAA
66 CAAAATGCTAA
* * * * **
529766 GGCATGCTGAAAGCCCCTT-TCAATCATAATGAAGACTGTTGATGTATTTTGAACGCTCATATCA
1 GGCATGCTGAAA-ACCCTTGTCAATCAGAATCAAGAATGTTGATGTATCCTGAACGCTCATATCA
529830 GCAAA
65 GCAAA
529835 TATTGGGGCA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
76 53 0.91
77 5 0.09
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (76 bp):
GGCATGCTGAAAACCCTTGTCAATCAGAATCAAGAATGTTGATGTATCCTGAACGCTCATATCAG
CAAAATGCTAA
Found at i:530812 original size:54 final size:54
Alignment explanation
Indices: 530727--530830 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
530717 TAATTGAGAA
* *
530727 ATCTGAACAGAAGCCACAGAAAATGATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATCTGAACAGAAGCCACAGAAAAGGAAGAATGTGTTGTCAAATGCTTTACGAAC
* * * *
530781 ATCTGAGCAGAAGCTACA-AGAAAGGAAGAATGTGTTTTCAAATGTTTTAC
1 ATCTGAACAGAAGCCACAGA-AAAGGAAGAATGTGTTGTCAAATGCTTTAC
530831 ATCTCGACAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.02
54 42 0.98
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (54 bp):
ATCTGAACAGAAGCCACAGAAAAGGAAGAATGTGTTGTCAAATGCTTTACGAAC
Found at i:531194 original size:22 final size:23
Alignment explanation
Indices: 531143--531198 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
531133 ATCTACACTC
531143 TTCAAAGATGATAGATTATCTTT
1 TTCAAAGATGATAGATTATCTTT
* *
531166 TTAAAAGATGATAGATTCTC-TT
1 TTCAAAGATGATAGATTATCTTT
531188 TTCAAAGATGA
1 TTCAAAGATGA
531199 AAGCTTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (23 bp):
TTCAAAGATGATAGATTATCTTT
Found at i:532025 original size:165 final size:167
Alignment explanation
Indices: 531713--532037 Score: 496
Period size: 165 Copynumber: 2.0 Consensus size: 167
531703 AAAATGAGCA
531713 TTATCTTCAGATTGGGTCATGTTACCCAATCAACATGTTATTTCAAAAAAACAGAATGAGAAAAC
1 TTATCTTCAGATTGGGTCATGTTACCCAATCAACATGTTATTT-AAAAAAACAGAATGAGAAAAC
* * **
531778 GATTTTCATAGTTTTTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
65 GATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
* *
531843 TCTTAGTTTTTTTACTTAGTAAACTATTTCTAACAGCC
130 TCATAGTTTTCTTACTTAGTAAACTATTTCTAACAGCC
* * ** *
531881 TTATCTTGAGATTGGAG-CATTTTACCCAATCAACATGTTATTT-TGAAAA-ATAATGAGAAAAC
1 TTATCTTCAGATTGG-GTCATGTTACCCAATCAACATGTTATTTAAAAAAACAGAATGAGAAAAC
531943 GATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
65 GATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATT
532008 TTCATAG-TTTCTTACTTAGTAAACTATTTC
129 TTCATAGTTTTCTTACTTAGTAAACTATTTC
532038 CCACATCTGT
Statistics
Matches: 144, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
165 61 0.42
166 43 0.30
168 39 0.27
169 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (167 bp):
TTATCTTCAGATTGGGTCATGTTACCCAATCAACATGTTATTTAAAAAAACAGAATGAGAAAACG
ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
CATAGTTTTCTTACTTAGTAAACTATTTCTAACAGCC
Found at i:532167 original size:76 final size:76
Alignment explanation
Indices: 532041--532404 Score: 683
Period size: 76 Copynumber: 4.8 Consensus size: 76
532031 CTATTTCCCA
*
532041 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
532106 AACCTTAGGGT
66 AACCTTAGGGT
532117 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
532182 AACCTTAGGGT
66 AACCTTAGGGT
*
532193 CATTTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
532258 AACCTTAGGGT
66 AACCTTAGGGT
*
532269 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
532334 AACCTTAGGGT
66 AACCTTAGGGT
* *
532345 CATCTGTAAGTCCTGTAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
532405 GTTACTTTGA
Statistics
Matches: 281, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 281 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGT
Found at i:532725 original size:75 final size:76
Alignment explanation
Indices: 532530--532822 Score: 534
Period size: 76 Copynumber: 3.9 Consensus size: 76
532520 CTATTTCCCA
*
532530 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
532595 AGCTTTAGGGT
66 AGCCTTAGGGT
532606 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
532670 AGCCTTCGGGT
66 AGCCTTAGGGT
532681 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
532746 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
532757 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAACAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
532822 A
66 A
532823 ACCCTTCAGT
Statistics
Matches: 210, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
75 73 0.35
76 137 0.65
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:532778 original size:151 final size:151
Alignment explanation
Indices: 532530--532821 Score: 548
Period size: 151 Copynumber: 1.9 Consensus size: 151
532520 CTATTTCCCA
532530 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
532595 AGCTTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
532660 GATGTTTTCAAGCCTTCGGGT
131 GATGTTTTCAAGCCTTCGGGT
*
532681 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
532746 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAACAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
532811 GATGTTTTCAA
131 GATGTTTTCAA
532822 AACCCTTCAG
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
151 137 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (151 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAGCCTTCGGGT
Found at i:532906 original size:488 final size:485
Alignment explanation
Indices: 531924--532825 Score: 1491
Period size: 488 Copynumber: 1.9 Consensus size: 485
531914 CATGTTATTT
531924 TGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTT
1 TGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTT
*
531989 GAAAAGTAAGAAAACGATTTTCATAGTTTCTTACTTAGTAAACTATTTCCCACATCTGTAAGTCC
66 GAAAAGTAAGAAAACGATTTCCATAGTTTCTTACTTAGTAAACTATTTCCCACATCTGTAAGTCC
*
532054 TGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCA
131 TACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCA
532119 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAA
196 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAA
*
532184 CCTTAGGGTCATTTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
261 CCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
*
532249 TGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAATCCTTCGG
326 TGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGG
* * * * *
532314 GAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTGTAGTGCATGATGTTTTCAA
391 GAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATATGTAAGACCTCTAGTGAATGATGCTTTCAA
*** * ** * **
532379 AAAGCCTTCGGGAGCTTTTTGATGTTGTTACTT
456 AAA-CCTTC--GAGCTTTCAAAAGAAGTCACAA
*
532412 TGAAAAATAATGAGAAAATGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTT
1 TGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTT
* * *
532477 GAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTATTTAGTAAACTATTTCCCACATCTGTAAGTC
66 GAAAAGTAAGAAAACGATTTCCATAG-TTTCTTACTTAGTAAACTATTTCCCACATCTGTAAGTC
* * *
532542 CTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCTTTAGGGTC
130 CTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAACCTTAGGGTC
532607 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AA
195 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
* *
532671 GCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
260 ACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
* * *
532736 ATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAACAGCCTTCG
325 ATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCG
532801 GGAGCTTTTTGATGTTTTCAAAACC
390 GGAGCTTTTTGATGTTTTCAAAACC
532826 CTTCAGTGCA
Statistics
Matches: 397, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
488 238 0.60
489 159 0.40
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (485 bp):
TGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTT
GAAAAGTAAGAAAACGATTTCCATAGTTTCTTACTTAGTAAACTATTTCCCACATCTGTAAGTCC
TACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCA
TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAA
CCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
TGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGG
GAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATATGTAAGACCTCTAGTGAATGATGCTTTCAA
AAACCTTCGAGCTTTCAAAAGAAGTCACAA
Found at i:533032 original size:11 final size:10
Alignment explanation
Indices: 533015--533071 Score: 57
Period size: 11 Copynumber: 5.8 Consensus size: 10
533005 TTAAAATTAT
533015 TATTATTAAA
1 TATTATTAAA
533025 TAATTATTAAA
1 T-ATTATTAAA
*
533036 TATTA-TATA
1 TATTATTAAA
*
533045 TATTA-T-AT
1 TATTATTAAA
533053 TATTATTAAA
1 TATTATTAAA
533063 TAATTATTA
1 T-ATTATTA
533072 CAAGCCCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 5 0.13
9 10 0.26
10 7 0.18
11 17 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TATTATTAAA
Found at i:540820 original size:6 final size:6
Alignment explanation
Indices: 540788--540978 Score: 187
Period size: 6 Copynumber: 32.0 Consensus size: 6
540778 TCTCCTTCAA
*
540788 TATTTT TATTATT GATTTT T-TCCTTT TATTTT TATTTT TATTTTTT TATTTT
1 TATTTT TATT-TT TATTTT TAT--TTT TATTTT TATTTT TA--TTTT TATTTT
* *
540840 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATGTT TATGTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
* * * * * *
540888 TATGTT TATGTT T-TTTT TATTTT TATGTT TATGTT TATGTT TA--TA
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
* * *
540933 TATTTT TA-TTT TATTTT TATGTT TATGTT TATGTT TA-TTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
540979 AAAGTTTAAT
Statistics
Matches: 165, Mismatches: 9, Indels: 22
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.02
5 14 0.08
6 132 0.80
7 9 0.05
8 7 0.04
ACGTcount: A:0.17, C:0.01, G:0.06, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:540946 original size:27 final size:28
Alignment explanation
Indices: 540846--540958 Score: 120
Period size: 29 Copynumber: 4.0 Consensus size: 28
540836 TTTTTATTTT
* * * *
540846 TATTTTTATTTTTATTTTTATTTTTATTTT
1 TATTTTTATGTTTATGTTTATGTTTA--TA
* * *
540876 TATGTTTATGTTTATGTTTATGTTTTTTT
1 TATTTTTATGTTTATGTTTATG-TTTATA
540905 TATTTTTATGTTTATGTTTATGTTTATA
1 TATTTTTATGTTTATGTTTATGTTTATA
*
540933 TATTTTTAT-TTTATTTTTATGTTTAT
1 TATTTTTATGTTTATGTTTATGTTTAT
540959 GTTTATGTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 16 0.22
28 13 0.18
29 23 0.32
30 18 0.25
31 3 0.04
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (28 bp):
TATTTTTATGTTTATGTTTATGTTTATA
Found at i:541859 original size:281 final size:283
Alignment explanation
Indices: 541401--541915 Score: 669
Period size: 281 Copynumber: 1.8 Consensus size: 283
541391 TTTGGGGGAT
* * * **
541401 TTTTATTCATTTTGCATTTGCTATGTCATGCTTTATGGTTGCATTAATTTTTGTTGTTCAGTTAA
1 TTTTATTCATATTGCATTTACTATGTCATGCTTTATGATTGCATTAATTAATGTTGTTCAGTTAA
* ** * * * *
541466 GCTTCCCATGGCATTTGTTTATTATGAAAATTATACATAGAAACAATTATCGAGAATATTTACTT
66 GCTTCCCATGACATCGGTTTATTATGAAAATTACACAGACAAACAATTATCAAGAATATTTACTT
* * *
541531 ACTTATGATGAGATAATTACCAATAACACTTTAATACCGAGAATCTTAGGACTTATAGATAAATT
131 ACCTATGATGAGATAATTACCAATAACACTTTAACACCGAGAATCTTAGGACTTAGAGATAAATT
**
541596 GAGATTGTTTTAATGATTATTATGATGCTATAATCATTTGCATGCATTGAGGGCAATGTTCTTCT
196 GAGATTGCCTTAATGATTATTATGATGCTATAATCATTTGCATGCATTGAGGGCAATGTTCTTCT
541661 CAAGTTTAGGGGGTTGTTATTCA
261 CAAGTTTAGGGGGTTGTTATTCA
* *
541684 TTTTA-TCATATTGTATTTACTATGTCATGCTTTGTGATTGCATT-ATTAATGTTGTTCAGTTAA
1 TTTTATTCATATTGCATTTACTATGTCATGCTTTATGATTGCATTAATTAATGTTGTTCAGTTAA
* * *
541747 GCTTCCCATGACATCGGTTTTTTATGACAATTACACAGACAAACAATTA-CTAAGACGT-TTTAC
66 GCTTCCCATGACATCGGTTTATTATGAAAATTACACAGACAAACAATTATC-AAGA-ATATTTAC
* **** * * * * *
541810 TTACCTATGATGATATAATTGTTGATAGCACTTTAACGCCGATAATCTTAGGACTTAGAGATCAT
129 TTACCTATGATGAGATAATTACCAATAACACTTTAACACCGAGAATCTTAGGACTTAGAGATAAA
* * *
541875 TTGATATTGCCTTAATGATTCTTATGATGCTATAATTATTT
194 TTGAGATTGCCTTAATGATTATTATGATGCTATAATCATTT
541916 ACCGAAAGTC
Statistics
Matches: 195, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
280 1 0.01
281 154 0.79
282 35 0.18
283 5 0.03
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (283 bp):
TTTTATTCATATTGCATTTACTATGTCATGCTTTATGATTGCATTAATTAATGTTGTTCAGTTAA
GCTTCCCATGACATCGGTTTATTATGAAAATTACACAGACAAACAATTATCAAGAATATTTACTT
ACCTATGATGAGATAATTACCAATAACACTTTAACACCGAGAATCTTAGGACTTAGAGATAAATT
GAGATTGCCTTAATGATTATTATGATGCTATAATCATTTGCATGCATTGAGGGCAATGTTCTTCT
CAAGTTTAGGGGGTTGTTATTCA
Found at i:542689 original size:220 final size:220
Alignment explanation
Indices: 542297--542733 Score: 676
Period size: 220 Copynumber: 2.0 Consensus size: 220
542287 ATTACTTTGA
* * * *
542297 TAATTATGATATTCTCTGTAAATACCCATGGGGTGAACCTTCTCAACTAAGAGCACACATATACA
1 TAATTATGATATTCTCTGCAAATACCCATGAGATGAACCTTCTCAACTAAGAGCACACACATACA
* * *
542362 CGAGCATCATAAGTTGATTTGAGTTGATTTTTAGTTATCTTGAGGTTTGAAGTTGATTAGCATAA
66 CGAGCATCATAAGTTGATTTGAGATGATTTTTAGTTATCTTGAGGTTTGAAGGTGATTAGCAGAA
* * * *
542427 AATTGCTAAGGTTATGAGATAACATGTGCAAAGAAAGTGTAAGAGTGATGTTATCTTATTGCTAT
131 AATCGCTAAGGATATGAGATAACATGTCCAAAGAAAGTGTAAGAGTGATGTTATCTAATTGCTAT
542492 GAGAAAGTGGATGTCATGCATTGTC
196 GAGAAAGTGGATGTCATGCATTGTC
* * * *
542517 TAATTATGATATTCTCTGCAAATACTCATGAGATGGACCTTCTCGACTAAGAGCACATACATACA
1 TAATTATGATATTCTCTGCAAATACCCATGAGATGAACCTTCTCAACTAAGAGCACACACATACA
* *
542582 GGAGCATCATAAGTTGATTTGAGATGATTTTTAGTTGTCTTGAGGTTTGAAGGTGATTAGCAGAA
66 CGAGCATCATAAGTTGATTTGAGATGATTTTTAGTTATCTTGAGGTTTGAAGGTGATTAGCAGAA
* * * * *
542647 AATCGCTAAGGATATGAGGTAATATGTCCAAAGCATGTGTAAGAGTGATGTTGTCTAATTGCTAT
131 AATCGCTAAGGATATGAGATAACATGTCCAAAGAAAGTGTAAGAGTGATGTTATCTAATTGCTAT
542712 GAGAAAGTGGATGTCATGCATT
196 GAGAAAGTGGATGTCATGCATT
542734 ACTTAAGGAC
Statistics
Matches: 195, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
220 195 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.33
Consensus pattern (220 bp):
TAATTATGATATTCTCTGCAAATACCCATGAGATGAACCTTCTCAACTAAGAGCACACACATACA
CGAGCATCATAAGTTGATTTGAGATGATTTTTAGTTATCTTGAGGTTTGAAGGTGATTAGCAGAA
AATCGCTAAGGATATGAGATAACATGTCCAAAGAAAGTGTAAGAGTGATGTTATCTAATTGCTAT
GAGAAAGTGGATGTCATGCATTGTC
Found at i:544150 original size:32 final size:32
Alignment explanation
Indices: 544106--544291 Score: 194
Period size: 32 Copynumber: 5.8 Consensus size: 32
544096 ACTAGATACT
* * * **
544106 AGTCAGGGTTACATCCAAATAATGCATATTAG
1 AGTCAGTGTTACATTCAGATAATGCATGGTAG
* *
544138 TGTCAGTCTTACATTCAGATAATGCATGGTAG
1 AGTCAGTGTTACATTCAGATAATGCATGGTAG
544170 AGTCAGTGTTACATTCAGATAATGCATGGTAG
1 AGTCAGTGTTACATTCAGATAATGCATGGTAG
****
544202 AGTCAGTGTTACATTCAGATAATGCACAACAG
1 AGTCAGTGTTACATTCAGATAATGCATGGTAG
* * * * * *
544234 AGTCAATGTTGCATTTAGATAATTCATAGTAT
1 AGTCAGTGTTACATTCAGATAATGCATGGTAG
*
544266 AGTCA-TCGTTGCATTCAGATAATGCA
1 AGTCAGT-GTTACATTCAGATAATGCA
544292 CATGACTGTC
Statistics
Matches: 130, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
31 1 0.01
32 129 0.99
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (32 bp):
AGTCAGTGTTACATTCAGATAATGCATGGTAG
Found at i:544207 original size:64 final size:64
Alignment explanation
Indices: 544106--544325 Score: 208
Period size: 64 Copynumber: 3.4 Consensus size: 64
544096 ACTAGATACT
* * * * * ****
544106 AGTCAGGGTTACATCCAAATAATGCATATTAGTGTCAGTCTTACATTCAGATAATGCATGGTAG
1 AGTCAGTGTTACATTCAGATAATGCATAGTAGAGTCAGTCTTACATTCAGATAATGCACAACAG
* *
544170 AGTCAGTGTTACATTCAGATAATGCATGGTAGAGTCAGTGTTACATTCAGATAATGCACAACAG
1 AGTCAGTGTTACATTCAGATAATGCATAGTAGAGTCAGTCTTACATTCAGATAATGCACAACAG
* * * * * * ** *
544234 AGTCAATGTTGCATTTAGATAATTCATAGTATAGTCA-TCGTTGCATTCAGATAATGCACATGAC
1 AGTCAGTGTTACATTCAGATAATGCATAGTAGAGTCAGTC-TTACATTCAGATAATGCACAACAG
* ** *
544298 TGTCAGTGTCGCATTTAGATAATGCATA
1 AGTCAGTGTTACATTCAGATAATGCATA
544326 ACATATACAA
Statistics
Matches: 129, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
63 1 0.01
64 128 0.99
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (64 bp):
AGTCAGTGTTACATTCAGATAATGCATAGTAGAGTCAGTCTTACATTCAGATAATGCACAACAG
Found at i:545297 original size:39 final size:39
Alignment explanation
Indices: 545183--545299 Score: 162
Period size: 39 Copynumber: 3.0 Consensus size: 39
545173 AAAATAAATG
* *
545183 GATAAAATTATAGTTAATCTAAACTACTAAATCAAACAA
1 GATAAAATTATAATTAATCTAAACTACTAAATCAAATAA
* * *
545222 GATAAAATTATACTTAATCTAAACTACCAAATCAAATAG
1 GATAAAATTATAATTAATCTAAACTACTAAATCAAATAA
* * *
545261 GTTAAAGTTATAATTAATCTAAACTACTAATTCAAATAA
1 GATAAAATTATAATTAATCTAAACTACTAAATCAAATAA
545300 TTTATTATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (39 bp):
GATAAAATTATAATTAATCTAAACTACTAAATCAAATAA
Found at i:547230 original size:20 final size:19
Alignment explanation
Indices: 547205--547258 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
547195 TGACCAACAA
547205 AATCGCAATGCGATCTCCAG
1 AATCGCAATGCGATC-CCAG
*
547225 AATCGCAAAT-CAGTTCCCAG
1 AATCGC-AATGC-GATCCCAG
547245 AATCGCAATGCGAT
1 AATCGCAATGCGAT
547259 AGTACAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 5 0.17
20 18 0.62
21 6 0.21
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (19 bp):
AATCGCAATGCGATCCCAG
Found at i:547315 original size:20 final size:20
Alignment explanation
Indices: 547287--547339 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
547277 GATTTTCAAG
* *
547287 AATCACAACGCGAATAT-TAA
1 AATCGCAACGCGAACATAT-A
547307 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAACATATA
547327 AATCGCAACGCGA
1 AATCGCAACGCGA
547340 TTCTGACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.45, C:0.25, G:0.15, T:0.15
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:547392 original size:20 final size:20
Alignment explanation
Indices: 547306--547537 Score: 173
Period size: 20 Copynumber: 11.6 Consensus size: 20
547296 GCGAATATTA
**
547306 AAATCGCAACGCGAA-CATAT
1 AAATCGCAACGCGAATC-CGT
* *
547326 AAATCGCAACGCGATTCTG-
1 AAATCGCAACGCGAATCCGT
* * *
547345 ACTATCGCAACGAGTATCCGT
1 A-AATCGCAACGCGAATCCGT
*
547366 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGAATCCGT
*
547387 AAATCGCAACGAC-AATACGT
1 AAATCGCAACG-CGAATCCGT
* *
547407 AAATCGCAACGCGTATCTGT
1 AAATCGCAACGCGAATCCGT
* * *
547427 AAATCACAACGAGAATACGT
1 AAATCGCAACGCGAATCCGT
* * *
547447 AAATCGCAATGCGTATCCAT
1 AAATCGCAACGCGAATCCGT
* * *
547467 AAATAGCAATGCGAATACGT
1 AAATCGCAACGCGAATCCGT
* * *
547487 AAATCGCAATGCGAATACAT
1 AAATCGCAACGCGAATCCGT
* *
547507 AAATCGCAATGCGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
547527 AAATCACAACG
1 AAATCGCAACG
547538 AGATTCTGAC
Statistics
Matches: 170, Mismatches: 36, Indels: 12
0.78 0.17 0.06
Matches are distributed among these distances:
19 2 0.01
20 148 0.87
21 19 0.11
22 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:547395 original size:81 final size:81
Alignment explanation
Indices: 547306--547500 Score: 227
Period size: 80 Copynumber: 2.4 Consensus size: 81
547296 GCGAATATTA
* ** * * * *
547306 AAATCGCAACGCGAACATATAAATCGCAACGCGAT-TCTG-ACTATCGCAACGAGTATCCGTAAA
1 AAATCGCAACGCGAATACGTAAATCGCAACGCGATATCTGTA-AATCACAACGAGAATACGT-AA
*
547369 ATCGCAACGCGTATCCGT
64 ATCGCAACGCGTATCCAT
547387 AAATCGCAACGAC-AATACGTAAATCGCAACGCG-TATCTGTAAATCACAACGAGAATACGTAAA
1 AAATCGCAACG-CGAATACGTAAATCGCAACGCGATATCTGTAAATCACAACGAGAATACGTAAA
*
547450 TCGCAATGCGTATCCAT
65 TCGCAACGCGTATCCAT
* * *
547467 AAATAGCAATGCGAATACGTAAATCGCAATGCGA
1 AAATCGCAACGCGAATACGTAAATCGCAACGCGA
547501 ATACATAAAT
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
79 1 0.01
80 47 0.48
81 47 0.48
82 2 0.02
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.19
Consensus pattern (81 bp):
AAATCGCAACGCGAATACGTAAATCGCAACGCGATATCTGTAAATCACAACGAGAATACGTAAAT
CGCAACGCGTATCCAT
Found at i:547516 original size:40 final size:40
Alignment explanation
Indices: 547306--547537 Score: 202
Period size: 40 Copynumber: 5.8 Consensus size: 40
547296 GCGAATATTA
* ** *
547306 AAATCGCAACGCGAACATATAAATCGCAACGCG-ATTC-T
1 AAATCGCAACGCGAATACGTAAATCGCAACGCGTATCCAT
* * * * *
547344 GACTATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGT
1 -A-AATCGCAACGCGAATACGT-AAATCGCAACGCGTATCCAT
**
547387 AAATCGCAACGAC-AATACGTAAATCGCAACGCGTATCTGT
1 AAATCGCAACG-CGAATACGTAAATCGCAACGCGTATCCAT
* * *
547427 AAATCACAACGAGAATACGTAAATCGCAATGCGTATCCAT
1 AAATCGCAACGCGAATACGTAAATCGCAACGCGTATCCAT
* * * * *
547467 AAATAGCAATGCGAATACGTAAATCGCAATGCGAATACAT
1 AAATCGCAACGCGAATACGTAAATCGCAACGCGTATCCAT
* *
547507 AAATCGCAATGCGAAT-CTGTAAATCACAACG
1 AAATCGCAACGCGAATAC-GTAAATCGCAACG
547538 AGATTCTGAC
Statistics
Matches: 159, Mismatches: 27, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
39 2 0.01
40 125 0.79
41 27 0.17
42 4 0.03
43 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGCGAATACGTAAATCGCAACGCGTATCCAT
Found at i:548448 original size:24 final size:24
Alignment explanation
Indices: 548397--548450 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
548387 GTATTCGAAA
*
548397 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* * *
548421 TTTGATTTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
548445 TTTGAT
1 TTTGAT
548451 GATTTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:550990 original size:20 final size:19
Alignment explanation
Indices: 550962--551005 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
550952 CAATCATCTT
*
550962 AATGTCTATCACAACGCGGA
1 AATGACTATCACAACGC-GA
* *
550982 AATGACTATCGCAATGCGA
1 AATGACTATCACAACGCGA
551001 AATGA
1 AATGA
551006 AAATCGCAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (19 bp):
AATGACTATCACAACGCGA
Found at i:551004 original size:19 final size:17
Alignment explanation
Indices: 550989--551072 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 17
550979 GGAAATGACT
550989 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
551008 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
551022 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
**
551041 ATCGCAA--CG-AGGGA
1 ATCGCAATGCGAAATGA
551055 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
551072 A
1 A
551073 AATCGCAACG
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
14 16 0.31
16 9 0.18
17 11 0.22
19 15 0.29
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:551031 original size:33 final size:33
Alignment explanation
Indices: 550989--551082 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
550979 GGAAATGACT
550989 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
551022 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
551055 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
551083 CAATTTTAGT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:551078 original size:19 final size:19
Alignment explanation
Indices: 550989--551080 Score: 87
Period size: 19 Copynumber: 5.4 Consensus size: 19
550979 GGAAATGACT
550989 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
551008 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
551022 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
551041 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
551055 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
551074 ATCGCAA
1 ATCGCAA
551081 CGCAATTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 19 0.33
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 26 0.46
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:551117 original size:19 final size:19
Alignment explanation
Indices: 551085--551158 Score: 86
Period size: 19 Copynumber: 4.2 Consensus size: 19
551075 TCGCAACGCA
551085 ATTTTAGTTTCGCGTTGCG
1 ATTTTAGTTTCGCGTTGCG
*
551104 ATTTTAGTTTCGCGTTGTG
1 ATTTTAGTTTCGCGTTGCG
551123 ATTTT-G--T--CGTTGCG
1 ATTTTAGTTTCGCGTTGCG
* *
551137 ATTTTAATTTCGCATTGCG
1 ATTTTAGTTTCGCGTTGCG
551156 ATT
1 ATT
551159 CTCTCGTTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
14 11 0.24
16 1 0.02
17 1 0.02
18 1 0.02
19 32 0.70
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.50
Consensus pattern (19 bp):
ATTTTAGTTTCGCGTTGCG
Found at i:551139 original size:33 final size:32
Alignment explanation
Indices: 551097--551190 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 32
551087 TTTAGTTTCG
* * * *
551097 CGTTGCGATTTTAGTTTCGCGTTGTGATTTTGT
1 CGTTGCGATTTTA-TTTCGCATTGCGATTCTCT
551130 CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTT-ATTTCGCATTGCGATTCTCT
551163 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTT-ATTTCGCATTGCGAT
551191 AGTCATTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 54 0.98
34 1 0.02
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.47
Consensus pattern (32 bp):
CGTTGCGATTTTATTTCGCATTGCGATTCTCT
Found at i:551189 original size:19 final size:19
Alignment explanation
Indices: 551132--551190 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
551122 GATTTTGTCG
*
551132 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
551151 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
551165 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
551184 TTGCGAT
1 TTGCGAT
551191 AGTCATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 6 0.19
16 7 0.22
17 6 0.19
19 13 0.41
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:551316 original size:14 final size:14
Alignment explanation
Indices: 551297--551333 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
551287 CATCAATTAA
551297 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
551311 ACAAATCATCTTTT
1 ACAAATCAACTTTT
551325 ACAAATCAA
1 ACAAATCAA
551334 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:552750 original size:21 final size:21
Alignment explanation
Indices: 552684--552750 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
552674 GTGAATCGGG
*
552684 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
552704 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
552726 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
552747 CTCT
1 CTCT
552751 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:554798 original size:20 final size:20
Alignment explanation
Indices: 554773--554835 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
554763 TTTTGGTTAA
554773 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
554793 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
** *
554812 AAATGACTATCGTAACGAGAG
1 -AATGAAAATCGCAACGAGAG
554833 AAT
1 AAT
554836 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 34 0.94
21 1 0.03
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:554882 original size:19 final size:19
Alignment explanation
Indices: 554860--554973 Score: 95
Period size: 19 Copynumber: 6.5 Consensus size: 19
554850 AAAATCACAA
**
554860 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
554879 TGCGA--TT-ATCTCG--T
1 TGCGATTTTCATTTCGCGT
554893 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
554912 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
554931 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
**
554945 TGCGATAGTCATTTCCGCGT
1 TGCGATTTTCATTT-CGCGT
554965 TGCGATTTT
1 TGCGATTTT
554974 AAGTTTAGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
14 16 0.21
16 8 0.11
17 10 0.13
19 31 0.41
20 11 0.14
ACGTcount: A:0.11, C:0.21, G:0.24, T:0.45
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:554943 original size:52 final size:53
Alignment explanation
Indices: 554860--554973 Score: 176
Period size: 52 Copynumber: 2.2 Consensus size: 53
554850 AAAATCACAA
** **
554860 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGTTGCGATTTTCATTT-CGCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGTTGCGATAGTCATTTCCGCGT
*
554912 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGTTGCGATAGTCATTTCCGCGT
554965 TGCGATTTT
1 TGCGATTTT
554974 AAGTTTAGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 42 0.75
53 14 0.25
ACGTcount: A:0.11, C:0.21, G:0.24, T:0.45
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGTTGCGATAGTCATTTCCGCGT
Found at i:555347 original size:22 final size:22
Alignment explanation
Indices: 555319--555378 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
555309 GGGATTTCGC
555319 CGGAGATGGGGACGGAAATCTT
1 CGGAGATGGGGACGGAAATCTT
*
555341 CGGAGATGGGGACAGAAATCTT
1 CGGAGATGGGGACGGAAATCTT
*
555363 CAGAGATGGGGACGGA
1 CGGAGATGGGGACGGA
555379 TTTCGCCGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.30, C:0.13, G:0.42, T:0.15
Consensus pattern (22 bp):
CGGAGATGGGGACGGAAATCTT
Found at i:555581 original size:20 final size:20
Alignment explanation
Indices: 555556--555728 Score: 154
Period size: 20 Copynumber: 8.6 Consensus size: 20
555546 CTTTAAAAAT
*
555556 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGTATA
*
555576 CGCGTTGCAATTTTACGTAT-
1 CGCGTTGCGA-TTTACGTATA
* *
555596 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGTATA
* *
555617 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGTATA
* * *
555637 CTCGTTGTGATTTACATATA
1 CGCGTTGCGATTTACGTATA
555657 CGCGTTGCGATTTACGTATA
1 CGCGTTGCGATTTACGTATA
* * *
555677 CTCGTTGCGATAGT-CAGAAT-
1 CGCGTTGCGAT-TTAC-GTATA
* * *
555697 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGTATA
555717 CGCGTTGCGATT
1 CGCGTTGCGATT
555729 CTTGAAAATC
Statistics
Matches: 122, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.02
20 99 0.81
21 20 0.16
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTACGTATA
Done.