Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 10 of 186
Found at i:3160181 original size:10 final size:9
Alignment explanation
Indices: 3160162--3160191 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
3160152 TTACCCTAAA
3160162 TTTTACAAT
1 TTTTACAAT
3160171 TTTTAACAAT
1 TTTT-ACAAT
3160181 TTTTACAAT
1 TTTTACAAT
3160190 TT
1 TT
3160192 AGTCCCTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (9 bp):
TTTTACAAT
Found at i:3162951 original size:19 final size:19
Alignment explanation
Indices: 3162927--3162974 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
3162917 TGGTTGGTTT
3162927 CCCTTTTGATTCGTAGCCC
1 CCCTTTTGATTCGTAGCCC
* *
3162946 CCCTTTTGATTTGTAGCCT
1 CCCTTTTGATTCGTAGCCC
*
3162965 CTCTTTTGAT
1 CCCTTTTGAT
3162975 CTTTTTCTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.10, C:0.29, G:0.15, T:0.46
Consensus pattern (19 bp):
CCCTTTTGATTCGTAGCCC
Found at i:3164815 original size:148 final size:146
Alignment explanation
Indices: 3164509--3164999 Score: 642
Period size: 147 Copynumber: 3.3 Consensus size: 146
3164499 CAATAACCCA
* * * * * * * * *
3164509 AAGTCTTATCTTTCTAAGGCAGTAAGAAAGTAGACTGAAGATTGAAGATTGGAAAAGGAAAATAT
1 AAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTGAAGATTGGAAGAGGCAAATAT
* * * *
3164574 TATCTCCATGTATCGGTAATAGAGCATATTTAAGCCCCAAGCCTTATCTCTCTGATGTAGTAAGA
66 TATCTCCATGTATCGGCAATGGAGCAGATTTAAG-CCCAAGCCTTATCTCTCTGAGGTAGTAAGA
*
3164639 GAGCATGTTGAAGATTG
130 GAGCAGGTTGAAGATTG
* * *
3164656 AAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTAAAGATTGGAAGAGGCGAATCT
1 AAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTGAAGATTGGAAGAGGCAAATAT
* *
3164721 TATCTCCATGTACCGGCAATGGAGCAGATTTAAGCCTCAAGGCCTTATCTCTCTGAGGTAGCAAG
66 TATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC-CAA-GCCTTATCTCTCTGAGGTAGTAAG
3164786 AGAGCAGGTTGAAGATTG
129 AGAGCAGGTTGAAGATTG
* * * * *
3164804 AAGTCTTATCTTCCTCAGATAGCAAGGAAGCAAACTGAAGATTGAAGATTGG-GGATGACAAATT
1 AAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTGAAGATTGGAAGA-GGCAAATA
*
3164868 TTATCTCCATGTATCGGCAATGGAGCAGATTTAAGTCCCAAGCCTTATCTCTCTAAGGTAGTAAG
65 TTATCTCCATGTATCGGCAATGGAGCAGATTTAAG-CCCAAGCCTTATCTCTCTGAGGTAGTAAG
* ** *
3164933 ATAGCAGGTTGGCGGTTG
129 AGAGCAGGTTGAAGATTG
** *
3164951 TGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
1 AAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTGAAGAT
3165000 CTTATTTCCC
Statistics
Matches: 302, Mismatches: 38, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
146 2 0.01
147 168 0.56
148 130 0.43
149 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (146 bp):
AAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTGAAGATTGGAAGAGGCAAATAT
TATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCAAGCCTTATCTCTCTGAGGTAGTAAGAG
AGCAGGTTGAAGATTG
Found at i:3166301 original size:16 final size:17
Alignment explanation
Indices: 3166276--3166318 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
3166266 GTTTTTTTAA
*
3166276 ATATTACTTTAATTTGT
1 ATATTGCTTTAATTTGT
*
3166293 -TATTGCTTTCATTTGT
1 ATATTGCTTTAATTTGT
3166309 ATAATTGCTT
1 AT-ATTGCTT
3166319 CTTGAAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 14 0.64
17 1 0.05
18 7 0.32
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (17 bp):
ATATTGCTTTAATTTGT
Found at i:3170406 original size:30 final size:30
Alignment explanation
Indices: 3170372--3170432 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3170362 TCCTTAACTC
3170372 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
3170402 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
3170432 A
1 A
3170433 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:3171558 original size:17 final size:18
Alignment explanation
Indices: 3171536--3171576 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
3171526 TTCTATATAG
*
3171536 ATTTTACT-TTGTATTTT
1 ATTTTACTACTGTATTTT
3171553 ATTTTACTACTGTATTTT
1 ATTTTACTACTGTATTTT
3171571 ATTTTA
1 ATTTTA
3171577 ACAAGAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (18 bp):
ATTTTACTACTGTATTTT
Found at i:3173031 original size:30 final size:31
Alignment explanation
Indices: 3172997--3173054 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
3172987 CCAAATTTTT
*
3172997 TTTTA-CCAAATTTTAAAGAACCTAAAATAA
1 TTTTATCCAAATCTTAAAGAACCTAAAATAA
* * *
3173027 TTTTATCCAACTCTTAAGGAACTTAAAA
1 TTTTATCCAAATCTTAAAGAACCTAAAA
3173055 CCCCATTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 5 0.22
31 18 0.78
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (31 bp):
TTTTATCCAAATCTTAAAGAACCTAAAATAA
Found at i:3173928 original size:47 final size:48
Alignment explanation
Indices: 3173849--3173965 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 48
3173839 TAAAATTTAA
*
3173849 AAAATTTAAAAAAAATATAAAATCTATTTTTTA-AAAATTAAAAATCATT
1 AAAA-TTAAAAAAAATATAAAATCTATTTTTTAGAAAATT-AAAACCATT
* * *
3173898 AAAATTACAAAAAATTTAGAA-CTATTTTTTAGAAAATTAAAACCATT
1 AAAATTAAAAAAAATATAAAATCTATTTTTTAGAAAATTAAAACCATT
3173945 AAAATTATAAAAAAAT-TAAAA
1 AAAATTA-AAAAAAATATAAAA
3173966 AAAATTATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
47 29 0.48
48 27 0.45
49 4 0.07
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (48 bp):
AAAATTAAAAAAAATATAAAATCTATTTTTTAGAAAATTAAAACCATT
Found at i:3173966 original size:10 final size:11
Alignment explanation
Indices: 3173945--3173974 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
3173935 TAAAACCATT
3173945 AAAATTATAAA
1 AAAATTATAAA
3173956 AAAATTA-AAA
1 AAAATTATAAA
3173966 AAAATTATA
1 AAAATTATA
3173975 TATTTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:3175944 original size:17 final size:17
Alignment explanation
Indices: 3175918--3175971 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
3175908 GATAAAATAT
3175918 AATTATTAAATTATTAA
1 AATTATTAAATTATTAA
* *
3175935 AATTAATAAA--A-TAT
1 AATTATTAAATTATTAA
*
3175949 AGTTATTAAATTATTAA
1 AATTATTAAATTATTAA
3175966 AATTAT
1 AATTAT
3175972 GTGCATAAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
14 10 0.36
15 1 0.04
16 1 0.04
17 16 0.57
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTATTAAATTATTAA
Found at i:3175944 original size:31 final size:31
Alignment explanation
Indices: 3175909--3175970 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
3175899 TAGATAAAAG
3175909 ATAAAATATAATTATTAAATTATTAAAATTA
1 ATAAAATATAATTATTAAATTATTAAAATTA
*
3175940 ATAAAATATAGTTATTAAATTATTAAAATTA
1 ATAAAATATAATTATTAAATTATTAAAATTA
3175971 TGTGCATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (31 bp):
ATAAAATATAATTATTAAATTATTAAAATTA
Found at i:3189858 original size:15 final size:16
Alignment explanation
Indices: 3189833--3189864 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
3189823 TTAAAAGTCA
3189833 TAAAAATTATTAAAAT
1 TAAAAATTATTAAAAT
3189849 TAAAAA-TATTAAAAT
1 TAAAAATTATTAAAAT
3189864 T
1 T
3189865 GATATAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAAATTATTAAAAT
Found at i:3189882 original size:20 final size:19
Alignment explanation
Indices: 3189832--3189921 Score: 73
Period size: 19 Copynumber: 4.9 Consensus size: 19
3189822 ATTAAAAGTC
*
3189832 ATAAAAA-TTATTAAAA-T
1 ATAAAAACTTATAAAAATT
*
3189849 -TAAAAA--TATTAAAATT
1 ATAAAAACTTATAAAAATT
* *
3189865 GATATAAACTTATAAAAAATC
1 -ATAAAAACTTAT-AAAAATT
*
3189886 ATAAAAACTTATAAATATT
1 ATAAAAACTTATAAAAATT
*
3189905 ATAAAAATTTATAAAAA
1 ATAAAAACTTATAAAAA
3189922 ATTTATTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
15 8 0.14
16 7 0.12
18 5 0.08
19 20 0.34
20 14 0.24
21 5 0.08
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (19 bp):
ATAAAAACTTATAAAAATT
Found at i:3189891 original size:10 final size:10
Alignment explanation
Indices: 3189859--3189924 Score: 62
Period size: 10 Copynumber: 6.6 Consensus size: 10
3189849 TAAAAATATT
*
3189859 AAAATTGATAT
1 AAAATT-ATAA
*
3189870 AAACTTATAA
1 AAAATTATAA
*
3189880 AAAATCATAA
1 AAAATTATAA
*
3189890 AAACTTAT-A
1 AAAATTATAA
*
3189899 AATATTATAA
1 AAAATTATAA
*
3189909 AAATTTATAA
1 AAAATTATAA
3189919 AAAATT
1 AAAATT
3189925 TATTTTTTAT
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
9 7 0.16
10 31 0.72
11 5 0.12
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAATTATAA
Found at i:3190023 original size:17 final size:19
Alignment explanation
Indices: 3190001--3190077 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 19
3189991 AAGTTCATAC
3190001 AAAATTATAA-AAA-TATA
1 AAAATTATAATAAATTATA
*
3190018 AAAATTCTAATAAATTATA
1 AAAATTATAATAAATTATA
** *
3190037 AACTTTTATAA-AATTTATA
1 AA-AATTATAATAAATTATA
*
3190056 AAAA--A-CATAAATTATA
1 AAAATTATAATAAATTATA
3190072 AAAATT
1 AAAATT
3190078 TGAAATTACA
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
15 1 0.02
16 12 0.27
17 9 0.20
18 3 0.07
19 15 0.33
20 5 0.11
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTATAATAAATTATA
Found at i:3190076 original size:9 final size:9
Alignment explanation
Indices: 3189832--3190077 Score: 73
Period size: 9 Copynumber: 27.0 Consensus size: 9
3189822 ATTAAAAGTC
3189832 ATAAAAATT
1 ATAAAAATT
*
3189841 ATTAAAA-T
1 ATAAAAATT
3189849 -TAAAAA-T
1 ATAAAAATT
*
3189856 ATTAAAATT
1 ATAAAAATT
*
3189865 GATATAAACTT
1 -ATA-AAAATT
*
3189876 ATAAAAAATC
1 AT-AAAAATT
3189886 ATAAAAACTT
1 ATAAAAA-TT
*
3189896 ATAAATATT
1 ATAAAAATT
3189905 ATAAAAATTT
1 ATAAAAA-TT
3189915 ATAAAAAATT
1 AT-AAAAATT
****
3189925 -TATTTTTT
1 ATAAAAATT
*
3189933 AT-AAAATGA
1 ATAAAAAT-T
3189942 ATAAAACA-T
1 ATAAAA-ATT
3189951 ATAAAATATT
1 ATAAAA-ATT
* *
3189961 -T-TATATT
1 ATAAAAATT
* * **
3189968 TTATATTTT
1 ATAAAAATT
*
3189977 ATAAAAACGT
1 ATAAAAA-TT
*
3189987 ATAAAAGTT
1 ATAAAAATT
3189996 CATACAAAATT
1 -ATA-AAAATT
3190007 ATAAAAA-T
1 ATAAAAATT
3190015 ATAAAAATT
1 ATAAAAATT
*
3190024 CTAATAAATT
1 ATAA-AAATT
**
3190034 ATAAACTTTT
1 ATAAA-AATT
*
3190044 ATAAAATTT
1 ATAAAAATT
3190053 ATAAAAA--
1 ATAAAAATT
* *
3190060 ACATAAATT
1 ATAAAAATT
3190069 ATAAAAATT
1 ATAAAAATT
3190078 TGAAATTACA
Statistics
Matches: 172, Mismatches: 42, Indels: 46
0.66 0.16 0.18
Matches are distributed among these distances:
7 14 0.08
8 20 0.12
9 66 0.38
10 55 0.32
11 17 0.10
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (9 bp):
ATAAAAATT
Found at i:3190956 original size:19 final size:18
Alignment explanation
Indices: 3190934--3190969 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
3190924 AATAATTATT
*
3190934 TTAAATATCATTATTTTTC
1 TTAAATATAATT-TTTTTC
3190953 TTAAATATAATTTTTTT
1 TTAAATATAATTTTTTT
3190970 ATGTGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAAATATAATTTTTTTC
Found at i:3191106 original size:21 final size:21
Alignment explanation
Indices: 3191082--3191122 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3191072 TTTGAATGAA
3191082 TAATATTATA-CGATTATATAT
1 TAATATTATAGC-ATTATATAT
*
3191103 TAATATTTTAGCATTATATA
1 TAATATTATAGCATTATATA
3191123 CTTGTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (21 bp):
TAATATTATAGCATTATATAT
Found at i:3193309 original size:18 final size:18
Alignment explanation
Indices: 3193286--3193320 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3193276 AGTCCCTAAT
3193286 AATTTAATGTTTTTAAAC
1 AATTTAATGTTTTTAAAC
* *
3193304 AATTTATTTTTTTTAAA
1 AATTTAATGTTTTTAAA
3193321 TGAGGTGAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
AATTTAATGTTTTTAAAC
Found at i:3198692 original size:78 final size:78
Alignment explanation
Indices: 3198525--3198689 Score: 237
Period size: 78 Copynumber: 2.2 Consensus size: 78
3198515 TTGTTTTATC
* * * **
3198525 TATTTATTTATTTCTTTATTATTCTTTTACTTTTTAAACACTTAAATTTAATATTTTTTTATATT
1 TATTTATTTATTTATTTATTATTCTTTTACTTCTTAAACACTTAAATTTAATATTTATGCATATT
3198590 TGTTTTATCAATT
66 TGTTTTATCAATT
*
3198603 TATTTATTTATTTATTTATTATTCTTTTACTTCTTAAATACTTAAATTTAATA-TTATGCATA-T
1 TATTTATTTATTTATTTATTATTCTTTTACTTCTTAAACACTTAAATTTAATATTTATGCATATT
* *
3198666 T-TTTTATCTATC
66 TGTTTTATCAATT
3198678 TATTTATTTATT
1 TATTTATTTATT
3198690 ATTCTTTTAC
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 21 0.27
76 2 0.03
77 6 0.08
78 50 0.63
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (78 bp):
TATTTATTTATTTATTTATTATTCTTTTACTTCTTAAACACTTAAATTTAATATTTATGCATATT
TGTTTTATCAATT
Found at i:3198725 original size:35 final size:34
Alignment explanation
Indices: 3198619--3198725 Score: 78
Period size: 34 Copynumber: 3.1 Consensus size: 34
3198609 TTTATTTATT
* *
3198619 TATTATTCTTTTACTTCTTAAATACTTAAATTTAA
1 TATTATTCTTTTACTTTTTAAATATTTAAATTT-A
* * * ** *
3198654 TATTATGC--ATATTTTTTATCTATCT--ATTTA
1 TATTATTCTTTTACTTTTTAAATATTTAAATTTA
3198684 TTTATTATTCTTTTACTTTTTAAATATTTAAATTTGA
1 --TATTATTCTTTTACTTTTTAAATATTTAAATTT-A
3198721 TATTA
1 TATTA
3198726 CTTATACTTC
Statistics
Matches: 51, Mismatches: 14, Indels: 14
0.65 0.18 0.18
Matches are distributed among these distances:
30 1 0.02
31 4 0.08
32 7 0.14
33 10 0.20
34 12 0.24
35 12 0.24
36 4 0.08
37 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (34 bp):
TATTATTCTTTTACTTTTTAAATATTTAAATTTA
Found at i:3199898 original size:20 final size:20
Alignment explanation
Indices: 3199860--3199907 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
3199850 TAAATTCTAA
* **
3199860 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
3199880 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
3199900 AAA-ATAAA
1 AAAGATAAA
3199908 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:3199951 original size:15 final size:15
Alignment explanation
Indices: 3199931--3199960 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3199921 ATAATCCTAA
*
3199931 TAATTATCTTAATAT
1 TAATTATCCTAATAT
3199946 TAATTATCCTAATAT
1 TAATTATCCTAATAT
3199961 AAAAAAATGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:3200572 original size:8 final size:9
Alignment explanation
Indices: 3200540--3200572 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
3200530 TATTTTCTCT
3200540 TTTTTTTTC
1 TTTTTTTTC
3200549 TTTTTTTTC
1 TTTTTTTTC
3200558 TTTTTTTTC
1 TTTTTTTTC
3200567 TTTTTT
1 TTTTTT
3200573 CTGTATGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:3201520 original size:15 final size:15
Alignment explanation
Indices: 3201500--3201551 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
3201490 TTAATATCTA
3201500 AAAATAATAAATAAT
1 AAAATAATAAATAAT
3201515 AAAATAATAAGATAAAAT
1 AAAATAATAA-AT--AAT
*
3201533 AAATAAAATAAA-AAT
1 AAA-ATAATAAATAAT
3201548 AAAA
1 AAAA
3201552 ATAAAAATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.50
16 2 0.06
18 7 0.22
19 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAATAAT
Found at i:3201543 original size:14 final size:14
Alignment explanation
Indices: 3201512--3201550 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
3201502 AATAATAAAT
3201512 AATAAAAT-AATAA
1 AATAAAATAAATAA
*
3201525 GATAAAATAAATAA
1 AATAAAATAAATAA
3201539 AATAAAAATAAA
1 AAT-AAAATAAA
3201551 AATAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 7 0.32
14 7 0.32
15 8 0.36
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:3201548 original size:6 final size:6
Alignment explanation
Indices: 3201498--3201559 Score: 52
Period size: 6 Copynumber: 9.2 Consensus size: 6
3201488 TATTAATATC
*
3201498 TAAAAA TAATAAA TAATAAAA TAATAAGA TAAAATA AATAAAA TAAAAA
1 TAAAAA TAA-AAA T-A-AAAA TAA-AA-A TAAAA-A TA-AAAA TAAAAA
3201547 TAAAAA TAAAAA T
1 TAAAAA TAAAAA T
3201560 TGGGTTGCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
6 21 0.45
7 13 0.28
8 12 0.26
9 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.23
Consensus pattern (6 bp):
TAAAAA
Found at i:3201552 original size:21 final size:21
Alignment explanation
Indices: 3201498--3201556 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
3201488 TATTAATATC
3201498 TAAAAATAATAAAT-AATAAAA
1 TAAAAATAA-AAATAAATAAAA
3201519 TAATAAGAT-AAAATAAATAAAA
1 TAA-AA-ATAAAAATAAATAAAA
3201541 TAAAAATAAAAATAAA
1 TAAAAATAAAAATAAA
3201557 AATTGGGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
20 2 0.06
21 17 0.50
22 13 0.38
23 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAAAATAAAAATAAATAAAA
Found at i:3205761 original size:24 final size:24
Alignment explanation
Indices: 3205710--3205761 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
3205700 TAAGGGTCGT
* *
3205710 ATCATCATCCAAATGGGCCATAGT
1 ATCATCATCCAAATGGGACATAGC
*
3205734 ATCATCATTCAAACTGGGACAT-GC
1 ATCATCATCCAAA-TGGGACATAGC
3205758 ATCA
1 ATCA
3205762 GTTGTATGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (24 bp):
ATCATCATCCAAATGGGACATAGC
Found at i:3207884 original size:20 final size:20
Alignment explanation
Indices: 3207846--3207893 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
3207836 TAAATTCTAA
* **
3207846 AAAGATAAATATATTTAATT
1 AAAGATAAATAAAGATAATT
3207866 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
3207886 AAA-ATAAA
1 AAAGATAAA
3207894 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:3207937 original size:15 final size:15
Alignment explanation
Indices: 3207917--3207946 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3207907 ATAATCCTAA
*
3207917 TAATTATCTTAATAT
1 TAATTATCCTAATAT
3207932 TAATTATCCTAATAT
1 TAATTATCCTAATAT
3207947 AAAAAAATGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:3219798 original size:17 final size:18
Alignment explanation
Indices: 3219776--3219809 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3219766 GAACATTGCC
3219776 TTACTT-TGAAAATTTTT
1 TTACTTCTGAAAATTTTT
*
3219793 TTACTTCTTAAAATTTT
1 TTACTTCTGAAAATTTT
3219810 ATCAAACGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (18 bp):
TTACTTCTGAAAATTTTT
Found at i:3220220 original size:18 final size:16
Alignment explanation
Indices: 3220174--3220248 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 16
3220164 CACAATTTGT
3220174 AATAAAACATATATAATA
1 AATAAAA-ATA-ATAATA
* *
3220192 ATATGACAATAATAATA
1 A-ATAAAAATAATAATA
*
3220209 AATAAATA-AATAATGA
1 AATAAAAATAATAAT-A
*
3220225 TAATAAAAATAATAGTA
1 -AATAAAAATAATAATA
*
3220242 AAGAAAA
1 AATAAAA
3220249 TACAGTTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
15 6 0.13
16 11 0.24
17 15 0.33
18 9 0.20
19 4 0.09
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (16 bp):
AATAAAAATAATAATA
Found at i:3220309 original size:25 final size:26
Alignment explanation
Indices: 3220281--3220331 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
3220271 AATAACGAAT
* *
3220281 ATAAGTAATAGTAGT-AAAAATAATA
1 ATAAATAATAATAGTAAAAAATAATA
3220306 ATAAATAATAATAGTAAAAAATAATA
1 ATAAATAATAATAGTAAAAAATAATA
3220332 GTAACAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (26 bp):
ATAAATAATAATAGTAAAAAATAATA
Found at i:3220340 original size:25 final size:27
Alignment explanation
Indices: 3220286--3220342 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
3220276 CGAATATAAG
*
3220286 TAATAGTAGTAAAAATAATAATAAATAA
1 TAATAGTAG-AAAAATAATAATAAACAA
*
3220314 TAATAGTA-AAAAATAATAGT-AACAA
1 TAATAGTAGAAAAATAATAATAAACAA
3220339 TAAT
1 TAAT
3220343 GATAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 11 0.41
28 8 0.30
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (27 bp):
TAATAGTAGAAAAATAATAATAAACAA
Found at i:3220496 original size:25 final size:25
Alignment explanation
Indices: 3220436--3220517 Score: 112
Period size: 25 Copynumber: 3.2 Consensus size: 25
3220426 AAATAAAAAT
*
3220436 AATAATATAGTAATAATAATGAAAGAAAA
1 AATAA-ATAGTAATAATAATG---GTAAA
3220465 AAT-AATAGTAATAATAATGGTAAA
1 AATAAATAGTAATAATAATGGTAAA
3220489 AATAAATAGTAATAATAATGGTAAA
1 AATAAATAGTAATAATAATGGTAAA
3220514 AATA
1 AATA
3220518 CGAATAATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
24 7 0.14
25 25 0.49
27 15 0.29
28 1 0.02
29 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (25 bp):
AATAAATAGTAATAATAATGGTAAA
Found at i:3220526 original size:3 final size:3
Alignment explanation
Indices: 3220186--3220507 Score: 92
Period size: 3 Copynumber: 106.7 Consensus size: 3
3220176 TAAAACATAT
* * * *
3220186 ATA ATA AT- ATG ACA ATA ATA ATAA ATAA ATAA ATA ATG ATA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A ATA ATA ATA ATA ATA
* * * *
3220233 ATA ATA GTA A-A GAAA ATA CAGTTA A-A ATTA ATA ATG ATA ATA ACGA
1 ATA ATA ATA ATA -ATA ATA -A--TA ATA A-TA ATA ATA ATA ATA A-TA
* * * *
3220279 AT- ATA AGTA ATA GTA GTA AAA ATA ATA ATAA ATA ATA ATA GTA A-A
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * ** *
3220324 A-A ATA ATA GTA ACA ATA ATG ATA ATAA ATA TTA GCA GTA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
** * * * * * *
3220367 ATA ATA ATA GGA ATA ATA AGA ATA TTA ATA TTA GTA TTA ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
3220415 ATA ATA GTA GAAA ATA AAA ATA ATA AT- ATA GTA ATA ATA ATG A-A
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
3220459 AGA A-A A-A ATA ATA GTA ATA ATA ATG GTA AAA ATAA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
3220503 ATA AT
1 ATA AT
3220508 GGTAAAAATA
Statistics
Matches: 233, Mismatches: 65, Indels: 42
0.69 0.19 0.12
Matches are distributed among these distances:
2 22 0.09
3 178 0.76
4 30 0.13
5 1 0.00
6 2 0.01
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:3220530 original size:25 final size:23
Alignment explanation
Indices: 3220462--3220532 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 23
3220452 TAATGAAAGA
3220462 AAAAATAATAGTAAT-AATAATGGT
1 AAAAATAA-A-TAATAAATAATGGT
*
3220486 AAAAATAAATAGTAATAATAATGGT
1 AAAAATAAATAAT-A-AATAATGGT
3220511 AAAAATACGAATAATAAATAAT
1 AAAAATA--AATAATAAATAAT
3220533 CTAAAGTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 3 0.08
23 1 0.03
24 8 0.20
25 22 0.55
26 1 0.03
27 5 0.12
ACGTcount: A:0.62, C:0.01, G:0.10, T:0.27
Consensus pattern (23 bp):
AAAAATAAATAATAAATAATGGT
Found at i:3220748 original size:25 final size:29
Alignment explanation
Indices: 3220687--3220748 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
3220677 ATGCAAAAAA
*
3220687 AAATATATAATAAAAATATATTAGATAGT
1 AAATAAATAATAAAAATATATTAGATAGT
*
3220716 AAAT-AATAATAATAATA-A-TA-ATAG-
1 AAATAAATAATAAAAATATATTAGATAGT
3220740 AAATAAATA
1 AAATAAATA
3220749 TATTGTGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 4 0.13
25 8 0.27
26 2 0.07
27 1 0.03
28 11 0.37
29 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (29 bp):
AAATAAATAATAAAAATATATTAGATAGT
Found at i:3220827 original size:13 final size:13
Alignment explanation
Indices: 3220795--3220850 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 13
3220785 ATGATAAATG
*
3220795 TAATAATAGAAAG
1 TAATAATAGAAAA
3220808 TAATAATA-AAAA
1 TAATAATAGAAAA
*
3220820 TAATTAATTTGAAAA
1 TAA-TAA-TAGAAAA
*
3220835 TAA-AATAGCAAA
1 TAATAATAGAAAA
3220847 TAAT
1 TAAT
3220851 GGGAAAGGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 14 0.40
13 13 0.37
14 1 0.03
15 7 0.20
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (13 bp):
TAATAATAGAAAA
Found at i:3221966 original size:34 final size:30
Alignment explanation
Indices: 3221926--3221993 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 30
3221916 AGGGTTAGGT
*
3221926 TTTGGGTTTTGTTTGTAATTTGGGCTATTTGGG
1 TTTGGGTTTTGTTGGT-A-TTGGGC-ATTTGGG
3221959 ATTTGGGTTTTGTTGGTATTGGGCATTTGGG
1 -TTTGGGTTTTGTTGGTATTGGGCATTTGGG
3221990 TTTG
1 TTTG
3221994 TACTCAGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
30 4 0.12
31 7 0.21
32 6 0.18
33 1 0.03
34 15 0.45
ACGTcount: A:0.09, C:0.03, G:0.35, T:0.53
Consensus pattern (30 bp):
TTTGGGTTTTGTTGGTATTGGGCATTTGGG
Found at i:3222593 original size:44 final size:44
Alignment explanation
Indices: 3222521--3222924 Score: 339
Period size: 44 Copynumber: 9.1 Consensus size: 44
3222511 GTTATCGTGG
* * * * *
3222521 CAAATATTATCTCCCTAAAATTGTAGTGGAGTAGATTAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* *
3222565 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-ATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAGCTA
* * * *
3222609 GTAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * *
3222654 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGATGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * * ** * *
3222698 GCAAATATTGTCTCTCTAAAGTTGTAGTAAAATAGATTGAAG-TCA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCT-A
* * *
3222743 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * *
3222787 CCAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * * *
3222831 CGAGTCTCAT-TGCCCTGAAGTTGCAATGGAGCAAATTAAAGCTA
1 CAAATCTTATCT-CCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * *
3222875 CAAATCTAATATCCCTAAAGTTGTAGTGGAGTAGATTGAAA-CAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAGCTA
3222919 CAAATC
1 CAAATC
3222925 CTATACATTT
Statistics
Matches: 299, Mismatches: 52, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.00
44 219 0.73
45 79 0.26
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
Found at i:3222648 original size:89 final size:89
Alignment explanation
Indices: 3222520--3222924 Score: 386
Period size: 89 Copynumber: 4.6 Consensus size: 89
3222510 AGTTATCGTG
* *
3222520 GCAAATATTATCTCCCTAAAATTGTAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAG
1 GCAAATATTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAG
*
3222585 TTGCAGTGGAGCAGATTGAAAATA
66 TTGCAGTGGAGCAGATTGAAGATA
* * * * * *
3222609 GTAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCTCTGAAG
1 GCAAATATTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAG
* * *
3222674 TTGCAGTAGAGTAGATTGATGATA
66 TTGCAGTGGAGCAGATTGAAGATA
* * * ** * * *
3222698 GCAAATATTGTCTCTCTAAAGTTGTAGTAAAATAGATTGAAGTCACAAATCTTATCTCCCTGAAG
1 GCAAATATTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAG
* * *
3222763 TTGTAGTGGAGTAGATTGAAGTTA
66 TTGCAGTGGAGCAGATTGAAGATA
* * * * * ** * * *
3222787 -CCAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACGAGTCTCAT-TGCCCTGAA
1 GCAAATATTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCT-CCCTGAA
* * * *
3222850 GTTGCAATGGAGCAAATTAAAGCTA
65 GTTGCAGTGGAGCAGATTGAAGATA
* * * * *
3222875 -CAAATCTAATATCCCTAAAGTTGTAGTGGAGTAGATTGAAA-CAACAAATC
1 GCAAATATTATCTCCCTAAAGTTGCAGTGGAGTAGATT-AAAGCCACAAATC
3222925 CTATACATTT
Statistics
Matches: 255, Mismatches: 59, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
87 1 0.00
88 102 0.40
89 152 0.60
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (89 bp):
GCAAATATTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATTGAAGATA
Found at i:3223143 original size:17 final size:18
Alignment explanation
Indices: 3223111--3223146 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3223101 GCCCAAACAG
*
3223111 AAACCCAAATAGAAAAAA
1 AAACCAAAATAGAAAAAA
3223129 AAACCAAAATA-AAAAAA
1 AAACCAAAATAGAAAAAA
3223146 A
1 A
3223147 TAATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.78, C:0.14, G:0.03, T:0.06
Consensus pattern (18 bp):
AAACCAAAATAGAAAAAA
Found at i:3224454 original size:72 final size:70
Alignment explanation
Indices: 3224378--3224635 Score: 260
Period size: 68 Copynumber: 3.7 Consensus size: 70
3224368 TTGTTTTATC
* * * *
3224378 TATTTATCTATTTGTTTATTATTCTTTTACTTTTTTAACACTTAAATTTAATCGATTTATTTATT
1 TATTTATTTATTTATTTATTATTCTTTTACTTTTTAAACACTTAAATTTAATC-ATTTATATATT
*
3224443 A--TTC
65 ATTTTT
*
3224447 T-TTTATTTATTTATTTATTATTCTTTTACTTTTAAAACACTTAAATTTAATCTTATTTATAT-T
1 TATTTATTTATTTATTTATTATTCTTTTACTTTTTAAACACTTAAATTTAATC--ATTTATATAT
*
3224510 TGTTTTAT
64 TATTTT-T
* * * * * *
3224518 CGATTTATTTATTTATTTATTGTCCTTTTACTTCTTAAA-TCTTAAATTTAAT-ATTATGTATAT
1 -TATTTATTTATTTATTTATTATTCTTTTACTTTTTAAACACTTAAATTTAATCATT-TATATAT
*
3224581 T-TGTTT
64 TATTTTT
* * *
3224587 TATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTT
1 TATTTATTTATTTATTTATTATTCTTTTACTTTTTAAACACTTAAATTT
3224636 GATACTACTT
Statistics
Matches: 157, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
68 82 0.52
69 20 0.13
70 9 0.06
71 2 0.01
72 12 0.08
73 32 0.20
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (70 bp):
TATTTATTTATTTATTTATTATTCTTTTACTTTTTAAACACTTAAATTTAATCATTTATATATTA
TTTTT
Found at i:3224518 original size:141 final size:141
Alignment explanation
Indices: 3224361--3224635 Score: 355
Period size: 141 Copynumber: 2.0 Consensus size: 141
3224351 ATTTCATCCT
* * * *
3224361 TTTACATTTGTTTTATCTATTTATCTATTTGTTTATTATTCTTTTACTTTTTTAACA-CTTAAAT
1 TTTACATTTGTTTTATCGATTTATCTATTTATTTATTATCCTTTTAC-TTCTTAA-ATCTTAAAT
3224425 TTAATCGATTTAT-T-TATTAT-TCTT-T-TATTTATTTATTTATTATTCTTTTACTTTTAAAAC
64 TTAAT--A-TTATGTATATT-TGTCTTATCTATTTATTTATTTATTATTCTTTTACTTTTAAAAC
3224485 ACTTAAATTTAATCTTA
125 ACTTAAATTTAATCTTA
* * *
3224502 TTTATATTTGTTTTATCGATTTATTTATTTATTTATTGTCCTTTTACTTCTTAAATCTTAAATTT
1 TTTACATTTGTTTTATCGATTTATCTATTTATTTATTATCCTTTTACTTCTTAAATCTTAAATTT
* * * *
3224567 AATATTATGTATATTTGTTTTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAA
66 AATATTATGTATATTTGTCTTATCTATTTATTTATTTATTATTCTTTTACTTTTAAAACACTTAA
3224632 ATTT
131 ATTT
3224636 GATACTACTT
Statistics
Matches: 117, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
137 4 0.03
138 3 0.03
139 8 0.07
140 19 0.16
141 83 0.71
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (141 bp):
TTTACATTTGTTTTATCGATTTATCTATTTATTTATTATCCTTTTACTTCTTAAATCTTAAATTT
AATATTATGTATATTTGTCTTATCTATTTATTTATTTATTATTCTTTTACTTTTAAAACACTTAA
ATTTAATCTTA
Found at i:3228190 original size:22 final size:20
Alignment explanation
Indices: 3228146--3228190 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
3228136 AATAGAGCAG
3228146 AAATTAAAAGTAAGAAAATT
1 AAATTAAAAGTAAGAAAATT
*
3228166 AAATTAAAATGTATAGAGAATT
1 AAATTAAAA-GTA-AGAAAATT
3228188 AAA
1 AAA
3228191 ACTCCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 3 0.14
22 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (20 bp):
AAATTAAAAGTAAGAAAATT
Found at i:3230956 original size:14 final size:14
Alignment explanation
Indices: 3230917--3230958 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
3230907 TAATAATATT
3230917 TTAATATTATTAAAA
1 TTAA-ATTATTAAAA
3230932 TTAAA-TATTAAAGA
1 TTAAATTATTAAA-A
3230946 -TAAATTATTAAAA
1 TTAAATTATTAAAA
3230959 AAAAATACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 12 0.48
14 9 0.36
15 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TTAAATTATTAAAA
Found at i:3230964 original size:14 final size:14
Alignment explanation
Indices: 3230922--3230964 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
3230912 ATATTTTAAT
*
3230922 ATTATTAAAATTAA
1 ATTATTAAAAATAA
*
3230936 A-TATTAAAGATAA
1 ATTATTAAAAATAA
*
3230949 ATTATTAAAAAAAA
1 ATTATTAAAAATAA
3230963 AT
1 AT
3230965 ACTTTTGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
ATTATTAAAAATAA
Found at i:3231381 original size:24 final size:22
Alignment explanation
Indices: 3231350--3231396 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 22
3231340 GTTATTAAAA
3231350 TTTGAAATTAAAAAAATTATATTT
1 TTTGAAATT--AAAAATTATATTT
*
3231374 TTTGAAATTCAAAATTATATTT
1 TTTGAAATTAAAAATTATATTT
3231396 T
1 T
3231397 ACTAAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
24 9 0.41
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTGAAATTAAAAATTATATTT
Found at i:3231412 original size:22 final size:22
Alignment explanation
Indices: 3231362--3231405 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3231352 TGAAATTAAA
* *
3231362 AAAATTATATTTTTTGAAATTC
1 AAAATTATATTTTCTAAAATTC
3231384 AAAATTATATTTTACTAAAATT
1 AAAATTATATTTT-CTAAAATT
3231406 GAAATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAATTATATTTTCTAAAATTC
Found at i:3234274 original size:10 final size:10
Alignment explanation
Indices: 3234259--3234283 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3234249 TATCTATGCT
3234259 TTTTTTTTTC
1 TTTTTTTTTC
3234269 TTTTTTTTTC
1 TTTTTTTTTC
3234279 TTTTT
1 TTTTT
3234284 GTGATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:3234333 original size:277 final size:275
Alignment explanation
Indices: 3233839--3234397 Score: 1064
Period size: 277 Copynumber: 2.0 Consensus size: 275
3233829 CCCCAATCCG
*
3233839 TCGATGTCCACTGTTAGATCGTCGCAAGCTTGAGATATGTTGTTCTCCTCAACCCCTTCTTTACC
1 TCGATGTCCACTATTAGATCGTCGCAAGCTTGAGATATGTTGTTCTCCTCAACCCCTTCTTTACC
3233904 TTGGTTGTTCGGATTGTTGAACAAAGCTTCAATACCCAAATAATCATGAAGCCCTAAAAGATGAG
66 TTGGTTGTTCGGATTGTTGAACAAAGCTTCAATACCCAAATAATCATGAAGCCCTAAAAGATGAG
3233969 TTCTATCTATGCTTTTTTTTTTCTTTTTTATTATTTTTGTGATTTATTCTTTTCTTCTTGCTTTC
131 TTCTATCTATGCTTTTTTTTTTCTTTTTTATTATTTTTGTGATTTATTCTTTTCTTCTTGCTTTC
3234034 TATCTTTTTCTTGATTTTTTTTATTTCATTCTTCCTTTGTCGTATGTTTAGGTTTAAGACTTTTT
196 TATCTTTTTCTTGATTTTTTTTATTTCATTCTTCCTTTGTCGTATGTTTAGGTTTAAGA--TTTT
3234099 TTTTATTTTCTCTTTTT
259 TTTTATTTTCTCTTTTT
3234116 TCGATGTCCACTATTAGATCGTCGCAAGCTTGAGATATGTTGTTCTCCTCAACCCCTTCTTTACC
1 TCGATGTCCACTATTAGATCGTCGCAAGCTTGAGATATGTTGTTCTCCTCAACCCCTTCTTTACC
3234181 TTGGTTGTTCGGATTGTTGAACAAAGCTTCAATACCCAAATAATCATGAAGCCCTAAAAGATGAG
66 TTGGTTGTTCGGATTGTTGAACAAAGCTTCAATACCCAAATAATCATGAAGCCCTAAAAGATGAG
* *
3234246 TTCTATCTATGCTTTTTTTTTTCTTTTTTTTTCTTTTTGTGATTTATTCTTTTCTTCTTGCTTTC
131 TTCTATCTATGCTTTTTTTTTTCTTTTTTATTATTTTTGTGATTTATTCTTTTCTTCTTGCTTTC
*
3234311 TATCTTTTTCTTGATTTTTTTTATTTCATTCTTCCTTTGTCTTATGTTTAGGTTTAAGATTTTTT
196 TATCTTTTTCTTGATTTTTTTTATTTCATTCTTCCTTTGTCGTATGTTTAGGTTTAAGATTTTTT
3234376 TTATTTTCTCTTTTT
261 TTATTTTCTCTTTTT
3234391 TCGATGT
1 TCGATGT
3234398 GTGTGGGGTG
Statistics
Matches: 278, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
275 28 0.10
277 250 0.90
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.52
Consensus pattern (275 bp):
TCGATGTCCACTATTAGATCGTCGCAAGCTTGAGATATGTTGTTCTCCTCAACCCCTTCTTTACC
TTGGTTGTTCGGATTGTTGAACAAAGCTTCAATACCCAAATAATCATGAAGCCCTAAAAGATGAG
TTCTATCTATGCTTTTTTTTTTCTTTTTTATTATTTTTGTGATTTATTCTTTTCTTCTTGCTTTC
TATCTTTTTCTTGATTTTTTTTATTTCATTCTTCCTTTGTCGTATGTTTAGGTTTAAGATTTTTT
TTATTTTCTCTTTTT
Found at i:3250983 original size:26 final size:26
Alignment explanation
Indices: 3250952--3251059 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
3250942 TGAAATGCCC
*
3250952 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
3250978 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
3251004 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
3251030 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
3251056 ATCA
1 ATCA
3251060 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:3258059 original size:26 final size:26
Alignment explanation
Indices: 3258023--3258106 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
3258013 CATGAAATTC
3258023 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
3258049 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
3258075 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
3258101 TTATCA
1 TTATCA
3258107 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:3259464 original size:13 final size:13
Alignment explanation
Indices: 3259446--3259474 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3259436 TTTACTTTCC
3259446 AGAGAGGTAGAAA
1 AGAGAGGTAGAAA
3259459 AGAGAGGTAGAAA
1 AGAGAGGTAGAAA
3259472 AGA
1 AGA
3259475 AAATCTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.38, T:0.07
Consensus pattern (13 bp):
AGAGAGGTAGAAA
Found at i:3267774 original size:210 final size:210
Alignment explanation
Indices: 3267406--3267798 Score: 723
Period size: 210 Copynumber: 1.9 Consensus size: 210
3267396 TCATCGGGGC
* * * *
3267406 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCATATCGAAGATATAGTTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
3267471 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
66 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
*
3267536 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATTTTACCTTCAGA
131 ACAAATCGAAGTCTGGCATTTCCACTTTGATAGAAGGCAGACACATAGCAGATTTTACCTTCAGA
3267601 TGTTTATGCTGAAGT
196 TGTTTATGCTGAAGT
* *
3267616 AGATCCAAGATGACAGATCTTATCTCTTTGTATTTGGCAGGGAGCAGATCGAAGATATAGCTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
3267681 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
66 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
3267746 ACAAATCGAAGTCTGGCATTTCCACTTTGATAGAAGGCAGACACATAGCAGAT
131 ACAAATCGAAGTCTGGCATTTCCACTTTGATAGAAGGCAGACACATAGCAGAT
3267799 CCAAGATGAC
Statistics
Matches: 176, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
210 176 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (210 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
ACAAATCGAAGTCTGGCATTTCCACTTTGATAGAAGGCAGACACATAGCAGATTTTACCTTCAGA
TGTTTATGCTGAAGT
Found at i:3267807 original size:87 final size:86
Alignment explanation
Indices: 3267705--3267979 Score: 202
Period size: 87 Copynumber: 3.1 Consensus size: 86
3267695 TTTACGATGA
3267705 AGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCA
1 AGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCA
3267770 CTTTGATAGAAGGCAGACACAT
66 CTTTGAT-GAAGGCAGACACAT
* * * * * * * * * *
3267792 AGCAGATCCAAGATGACAGATCTTATC-TCTCTTTATTCGGCAGGGAGCAGATCGAAGATATAGC
1 AGCAAATCTAAGAT----GAT-TTGTCGTCTCTGTATT-GTCAGAGAACAAATCGAAG-TCTGGC
* **** **
3267856 TGATTTGGC-CTTCATG-TGTTTTC-GA-TGA-
59 --ATTT-CCACTT--TGATGAAGGCAGACACAT
*
3267884 AGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATTTCCA
1 AGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCA
*
3267949 CTTTAATGGAAGGCAGACACAT
66 CTTTGAT-GAAGGCAGACACAT
*
3267971 AGCAGATCT
1 AGCAAATCT
3267980 TACCCTCAGA
Statistics
Matches: 132, Mismatches: 37, Indels: 38
0.64 0.18 0.18
Matches are distributed among these distances:
82 1 0.01
83 2 0.02
84 9 0.07
85 2 0.02
86 5 0.04
87 38 0.29
88 12 0.09
91 12 0.09
92 31 0.23
93 5 0.04
94 2 0.02
95 9 0.07
96 2 0.02
97 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (86 bp):
AGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCA
CTTTGATGAAGGCAGACACAT
Found at i:3267916 original size:179 final size:179
Alignment explanation
Indices: 3267616--3267978 Score: 647
Period size: 179 Copynumber: 2.0 Consensus size: 179
3267606 ATGCTGAAGT
*
3267616 AGATCCAAGATGACAGATCTTATCTCTTTGTATTTGGCAGGGAGCAGATCGAAGATATAGCTGAT
1 AGATCCAAGATGACAGATCTTATCTCTTTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
*
3267681 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
66 TTGGCCTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
*
3267746 ACAAATCGAAGTCTGGCATTTCCACTTTGATAGAAGGCAGACACATAGC
131 ACAAATCGAAGTCTGGCATTTCCACTTTAATAGAAGGCAGACACATAGC
3267795 AGATCCAAGATGACAGATCTTATCTCTCTT-TATTCGGCAGGGAGCAGATCGAAGATATAGCTGA
1 AGATCCAAGATGACAGATCTTATCTCT-TTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGA
* *
3267859 TTTGGCCTTCATGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
65 TTTGGCCTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
* *
3267924 AACAAATTGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGC
130 AACAAATCGAAGTCTGGCATTTCCACTTTAATAGAAGGCAGACACATAGC
3267974 AGATC
1 AGATC
3267979 TTACCCTCAG
Statistics
Matches: 176, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
179 174 0.99
180 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (179 bp):
AGATCCAAGATGACAGATCTTATCTCTTTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
TTGGCCTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
ACAAATCGAAGTCTGGCATTTCCACTTTAATAGAAGGCAGACACATAGC
Found at i:3268121 original size:389 final size:389
Alignment explanation
Indices: 3267404--3268188 Score: 1363
Period size: 389 Copynumber: 2.0 Consensus size: 389
3267394 CTTCATCGGG
* * * *
3267404 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCATATCGAAGATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
*
3267469 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCCTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * *
3267534 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATTTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTTACCCTCA
* * * * * *
3267599 GATGTTTATGCTGAAGTAGATCCAAGATGACAGATCTTATCTCTTTGTATTTGGCAGGGAGCAGA
196 GATGTTTACGCTGAAGCAGATCCAAGATGAAAGATCTTATCTCTCTGTATTCGGCAGGGAACAGA
3267664 TCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGT
261 TCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGT
*
3267729 CTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATAGAAGGCAGACACATA
326 CTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTAATAGAAGGCAGACACATA
*
3267793 GCAGATCCAAGATGACAGATCTTATCTCTCTTTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* *
3267858 ATTTGGCCTTCATGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCCTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
3267923 GAACAAATTGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTTACCCTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTTACCCTCA
3267988 GATGTTTACGCTGAAGCAGATCCAAGATGAAAGATCTTATCTCTCTGTATTCGGCAGGGAACAGA
196 GATGTTTACGCTGAAGCAGATCCAAGATGAAAGATCTTATCTCTCTGTATTCGGCAGGGAACAGA
*
3268053 TCGAAGATATAGCTGATTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGT
261 TCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGT
* * *
3268118 CTCTGTATTGTCAGAGAACAACTTGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATA
326 CTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTAATAGAAGGCAGACACATA
3268182 GCAGATC
1 GCAGATC
3268189 TCGCCTTCGG
Statistics
Matches: 373, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
389 373 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (389 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
ATTTGGCCTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTTACCCTCA
GATGTTTACGCTGAAGCAGATCCAAGATGAAAGATCTTATCTCTCTGTATTCGGCAGGGAACAGA
TCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGT
CTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTAATAGAAGGCAGACACATA
Found at i:3268154 original size:210 final size:210
Alignment explanation
Indices: 3267792--3268226 Score: 744
Period size: 210 Copynumber: 2.1 Consensus size: 210
3267782 GCAGACACAT
* * *
3267792 AGCAGATCCAAGATGACAGATCTTATCTCTCTTTATTCGGCAGGGAGCAGATCGAAGATATAGCT
1 AGCAGATCCAAGATGAAAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAGCT
*
3267857 GATTTGGCCTTCATGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCCTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
*
3267922 AGAACAAATTGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTTACCCTC
131 AGAACAAATTGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTCACCCTC
* *
3267987 AGATGTTTACGCTGA
196 AGATGCTAACGCTGA
3268002 AGCAGATCCAAGATGAAAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAGCT
1 AGCAGATCCAAGATGAAAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAGCT
*
3268067 GATTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCCTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* * *
3268132 AGAACAACTTGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTCGCCTTC
131 AGAACAAATTGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTCACCCTC
* *
3268197 GGATGCTAATGCTGA
196 AGATGCTAACGCTGA
*
3268212 AGCGGATCCAAGATG
1 AGCAGATCCAAGATG
3268227 GTTTGGCATC
Statistics
Matches: 211, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
210 211 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (210 bp):
AGCAGATCCAAGATGAAAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAGCT
GATTTGGCCTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
AGAACAAATTGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTCACCCTC
AGATGCTAACGCTGA
Found at i:3268493 original size:45 final size:45
Alignment explanation
Indices: 3268440--3268525 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
3268430 GAAGAAGCAA
* * *
3268440 ATTTGGCGTCTCTGTATTAGAC-AGGGAGTAGATCGAAGATAATAG
1 ATTTGGCGTCTCTGTAGTAGACGAGGG-GCAGATCAAAGATAATAG
3268485 ATTTGGCGTCTCTGTAGTAGACGAGGGGCAGATCAAAGATA
1 ATTTGGCGTCTCTGTAGTAGACGAGGGGCAGATCAAAGATA
3268526 GCAGATATCG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 33 0.89
46 4 0.11
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (45 bp):
ATTTGGCGTCTCTGTAGTAGACGAGGGGCAGATCAAAGATAATAG
Found at i:3269621 original size:78 final size:71
Alignment explanation
Indices: 3269539--3269721 Score: 213
Period size: 72 Copynumber: 2.5 Consensus size: 71
3269529 ATAAAGTATG
* ** *
3269539 GTTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
1 GTTTTAATTAATAATAAAACAAAATAGCATG-GG--G-AG-TGGAATTAACAATAAAACAAAAAA
*
3269604 GTATGGGGAAAT
61 GCATGGGG-AAT
*
3269616 AGTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTGGAATTAACAATAAAACAAAAAAGCAT
1 -GTTTTAATTAATAATAAAACAAAATAGCATGGGGAGTGGAATTAACAATAAAACAAAAAAGCAT
*
3269681 GGGGAGT
65 GGGGAAT
* *
3269688 GTTTTTGATTAATAATAAAACAAAGTAGCATGGG
1 G-TTTTAATTAATAATAAAACAAAATAGCATGGG
3269722 AGGAGTAGAA
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
71 1 0.01
72 31 0.33
73 28 0.30
74 2 0.02
75 1 0.01
77 2 0.02
78 29 0.31
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.27
Consensus pattern (71 bp):
GTTTTAATTAATAATAAAACAAAATAGCATGGGGAGTGGAATTAACAATAAAACAAAAAAGCATG
GGGAAT
Found at i:3269660 original size:34 final size:34
Alignment explanation
Indices: 3269583--3269688 Score: 131
Period size: 34 Copynumber: 3.0 Consensus size: 34
3269573 AAGTAGTTTT
* **
3269583 AATTAACAATAAAACAAAATAGTATGGGGAAATAGTTTT
1 AATTAACAATAAAACAAAATAGCATGGGG----AG-TGG
3269622 AATTAACAATAAAACAAAATAGCATGGGGAGTGG
1 AATTAACAATAAAACAAAATAGCATGGGGAGTGG
*
3269656 AATTAACAATAAAACAAAAAAGCATGGGGAGTG
1 AATTAACAATAAAACAAAATAGCATGGGGAGTG
3269689 TTTTTGATTA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
34 33 0.52
35 2 0.03
39 28 0.44
ACGTcount: A:0.52, C:0.08, G:0.20, T:0.21
Consensus pattern (34 bp):
AATTAACAATAAAACAAAATAGCATGGGGAGTGG
Found at i:3269708 original size:38 final size:38
Alignment explanation
Indices: 3269539--3269721 Score: 214
Period size: 39 Copynumber: 4.9 Consensus size: 38
3269529 ATAAAGTATG
* * *
3269539 GTTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGCATG-GGGAGTA
* *
3269578 GTTTTAATTAACAATAAAACAAAATAGTATGGGGAAATA
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGG-AGTA
3269617 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGT-
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTA
* *
3269654 G---GAATTAACAATAAAACAAAAAAGCATGGGGAGT-
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTA
* * *
3269688 GTTTTTGATTAATAATAAAACAAAGTAGCATGGG
1 G-TTTTAATTAACAATAAAACAAAATAGCATGGG
3269722 AGGAGTAGAA
Statistics
Matches: 127, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
34 32 0.25
37 1 0.01
38 28 0.22
39 66 0.52
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.27
Consensus pattern (38 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTA
Found at i:3274276 original size:31 final size:31
Alignment explanation
Indices: 3274240--3274298 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
3274230 TTAGTCACTA
*
3274240 ACGTTTT-GAATTTTTTCTATTCTGGTCATTT
1 ACGTTTTAG-ATTATTTCTATTCTGGTCATTT
*
3274271 ACGTTTTAGATTATTTCTATTTTGGTCA
1 ACGTTTTAGATTATTTCTATTCTGGTCA
3274299 CTCTTCGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (31 bp):
ACGTTTTAGATTATTTCTATTCTGGTCATTT
Found at i:3275282 original size:16 final size:16
Alignment explanation
Indices: 3275261--3275293 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3275251 ATAAAATGTG
3275261 TTTATATATAATTATA
1 TTTATATATAATTATA
*
3275277 TTTATATTTAATTATA
1 TTTATATATAATTATA
3275293 T
1 T
3275294 GTGTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATATATAATTATA
Found at i:3275618 original size:2 final size:2
Alignment explanation
Indices: 3275613--3275639 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3275603 ATAAGAATAA
3275613 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3275640 AGGTTAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3276879 original size:133 final size:134
Alignment explanation
Indices: 3276643--3276969 Score: 453
Period size: 133 Copynumber: 2.4 Consensus size: 134
3276633 GTCATAATCA
* * * ** *
3276643 TAAATCAATTATCTGAAGTTGTGATTGTAAATCAGTGAGCTTTAAAAAAGACAGTTGTGATTGAA
1 TAAATCAATAAACTGAAGTTGTGATCGTAAATCAACGAGCTTTAAAAAAGACAGTTGTGACTGAA
*
3276708 AATCAACGAACTATTTAAGTAGACTTGTGATTGTAAATCGGCAAACTCTTAATAAAGTGTTCATG
66 AATCAACGAACTATTTAAGTAGACTTGGGATTGTAAATCGGCAAACTCTTAATAAAGTGTTCATG
3276773 ACCG
131 ACCG
* * *
3276777 TAAATCAATGAACTGAAGTTGTGATCGTAAAACAACGAGCTTTAAAAATA-A-AGTTGTGACTGT
1 TAAATCAATAAACTGAAGTTGTGATCGTAAATCAACGAGCTTTAAAAA-AGACAGTTGTGACTGA
* * *
3276840 AAATCAACGAACTATTTAAGTGGAGTTGGGATTGTAAATCGGCAAACTCTTAATGAAGTGTTCAT
65 AAATCAACGAACTATTTAAGTAGACTTGGGATTGTAAATCGGCAAACTCTTAATAAAGTGTTCAT
*
3276905 GATCG
130 GACCG
* * **
3276910 TAAATCAATAAACTGAAGTCT-TGATCATAAATCAACAAGCTTTAAAATTGACAGTTGTGA
1 TAAATCAATAAACTGAAGT-TGTGATCGTAAATCAACGAGCTTTAAAAAAGACAGTTGTGA
3276970 TCGTATATCA
Statistics
Matches: 170, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
133 117 0.69
134 52 0.31
135 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (134 bp):
TAAATCAATAAACTGAAGTTGTGATCGTAAATCAACGAGCTTTAAAAAAGACAGTTGTGACTGAA
AATCAACGAACTATTTAAGTAGACTTGGGATTGTAAATCGGCAAACTCTTAATAAAGTGTTCATG
ACCG
Found at i:3277530 original size:97 final size:97
Alignment explanation
Indices: 3277357--3277546 Score: 260
Period size: 97 Copynumber: 2.0 Consensus size: 97
3277347 CGTAAATCAA
* * *
3277357 TGAATTGAAGCCAGGATTGTAAATCAGTAAGCTTTAAAAATGACAGTTCTGATCGTAGATTTATG
1 TGAATTGAAGCCAGGATTGTAAATCAGTAAGCTTTAAAAATGACAGTTCTGATCGTAGAATCACG
3277422 AACTATATAAGTGGAGTTGCGATCATAAGTAG
66 AACTATATAAGTGGAGTTGCGATCATAAGTAG
* * * *
3277454 TGAATTGAAGCC-GTGATTGTAAATGAGTGAGTTTTAAAAATGACAGTTGTGATCGTA-AATCAG
1 TGAATTGAAGCCAG-GATTGTAAATCAGTAAGCTTTAAAAATGACAGTTCTGATCGTAGAATCA-
*
3277517 CGAACTGCT-TAAGTGGAGTTGCGATCATAA
64 CGAACT-ATATAAGTGGAGTTGCGATCATAA
3277547 ATTGACCAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
96 4 0.05
97 77 0.94
98 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.31
Consensus pattern (97 bp):
TGAATTGAAGCCAGGATTGTAAATCAGTAAGCTTTAAAAATGACAGTTCTGATCGTAGAATCACG
AACTATATAAGTGGAGTTGCGATCATAAGTAG
Found at i:3277703 original size:134 final size:135
Alignment explanation
Indices: 3277454--3277734 Score: 370
Period size: 134 Copynumber: 2.1 Consensus size: 135
3277444 TCATAAGTAG
* * * * *
3277454 TGAATTGAAGCCGTGATTGTAAATGAGTGAGTTTTAAAAATGACAGTTGTGATCGTAAATCAGCG
1 TGAACTGAAGCCGTCATTGTAAATCAGCGAGTTTTAAAAATGACAGTTGTGATCGTAAATCAGCA
* *
3277519 AACTGCTTAAGTGGAGTTGCGATCATAAATTGACCAATATCTAATAAAGTGTTCAAGATCGT-AA
66 AACTGCTTAAGTAGAGTTGCGATCATAAATCGACCAATATCTAATAAAGTGTTCAAGATCGTAAA
3277583 ATCAA
131 ATCAA
* * *
3277588 TGAACTGAAGTCGTCATTGTAAATCAGCGAGTTTTAAAAGTGACAGTTGTGATCGTAAATTAGCA
1 TGAACTGAAGCCGTCATTGTAAATCAGCGAGTTTTAAAAATGACAGTTGTGATCGTAAATCAGCA
* *** * * *
3277653 AACTAG-TTAAGTAGAGTTGCGATCGTAAATCGGTGAAT-TCTTAATGAAGTGTTCATGATTGTA
66 AACT-GCTTAAGTAGAGTTGCGATCATAAATCGACCAATATC-TAATAAAGTGTTCAAGATCGTA
3277716 AAATCAA
129 AAATCAA
3277723 TGAACTGAAGCC
1 TGAACTGAAGCC
3277735 ATGATCGTAA
Statistics
Matches: 126, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
133 2 0.02
134 105 0.83
135 19 0.15
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (135 bp):
TGAACTGAAGCCGTCATTGTAAATCAGCGAGTTTTAAAAATGACAGTTGTGATCGTAAATCAGCA
AACTGCTTAAGTAGAGTTGCGATCATAAATCGACCAATATCTAATAAAGTGTTCAAGATCGTAAA
ATCAA
Found at i:3293211 original size:19 final size:19
Alignment explanation
Indices: 3293174--3293213 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3293164 GACTTGCATG
* * *
3293174 AATACATATATATATTATA
1 AATACATATAAAAAATATA
3293193 AATACATATAAAAAATATA
1 AATACATATAAAAAATATA
3293212 AA
1 AA
3293214 AAAATACCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AATACATATAAAAAATATA
Found at i:3293836 original size:22 final size:22
Alignment explanation
Indices: 3293811--3293865 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
3293801 TTAATTTTAA
*
3293811 TATTATGTA-TACTATTATATTT
1 TATTATCTATTACTATTATA-TT
*
3293833 TATTA-CTATTATTATTATATT
1 TATTATCTATTACTATTATATT
*
3293854 TATTATTTATTA
1 TATTATCTATTA
3293866 GCATTAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTATCTATTACTATTATATT
Found at i:3293871 original size:22 final size:22
Alignment explanation
Indices: 3293824--3293883 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
3293814 TATGTATACT
* **
3293824 ATTATATTTTATTA-CTATTATT
1 ATTATA-TTTATTATTTATTAGC
3293846 ATTATATTTATTATTTATTAGC
1 ATTATATTTATTATTTATTAGC
3293868 ATTAGTA-TTATT-TTTA
1 ATTA-TATTTATTATTTA
3293884 CTTAATACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 11 0.33
22 20 0.61
23 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (22 bp):
ATTATATTTATTATTTATTAGC
Found at i:3294439 original size:27 final size:26
Alignment explanation
Indices: 3294408--3294481 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 26
3294398 TTTTTAATAC
3294408 TATATTTTTAATACCATATATATTG-TG
1 TATATTTTTAATA-C-TATATATTGATG
*
3294435 TATATTCTTAATACTATATATTGTATG
1 TATATTTTTAATACTATATATTG-ATG
*
3294462 TATTTTTTTAATAACTATAT
1 TATATTTTTAAT-ACTATAT
3294482 TATATGTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.22
26 1 0.02
27 24 0.59
28 7 0.17
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (26 bp):
TATATTTTTAATACTATATATTGATG
Found at i:3294543 original size:20 final size:20
Alignment explanation
Indices: 3294493--3294676 Score: 81
Period size: 20 Copynumber: 8.5 Consensus size: 20
3294483 ATATGTATAT
*
3294493 ATATTATGTACGTA-TTTTTA
1 ATATTAT-TATGTATTTTTTA
3294513 ATATTATTATGTATTTTTTA
1 ATATTATTATGTATTTTTTA
*
3294533 ATATATATATGTGTATATTTATGTA
1 ATAT-TAT-TATGTAT-TTT-T-TA
*
3294558 GTATTATTAATAGT-TGTTTTTA
1 ATATTATT-AT-GTAT-TTTTTA
3294580 ATATTATTAT-T-TTTTCTAATA
1 ATATTATTATGTATTTT-T--TA
*
3294601 TGTATATATTATGTATATATTTTTA
1 -ATAT-TATTATG--TAT-TTTTTA
* *
3294626 ATACTATGTATATA-TTTTTA
1 ATATTAT-TATGTATTTTTTA
* *
3294646 ATATTATGTATATACTTTTTA
1 ATATTAT-TATGTATTTTTTA
*
3294667 ATACTATTAT
1 ATATTATTAT
3294677 TATGTTTATA
Statistics
Matches: 132, Mismatches: 12, Indels: 40
0.72 0.07 0.22
Matches are distributed among these distances:
18 3 0.02
19 8 0.06
20 39 0.30
21 19 0.14
22 20 0.15
23 14 0.11
24 14 0.11
25 9 0.07
26 1 0.01
27 2 0.02
28 3 0.02
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.58
Consensus pattern (20 bp):
ATATTATTATGTATTTTTTA
Found at i:3294615 original size:11 final size:11
Alignment explanation
Indices: 3294599--3294659 Score: 67
Period size: 11 Copynumber: 5.9 Consensus size: 11
3294589 TTTTTTCTAA
3294599 TATGTATATAT
1 TATGTATATAT
3294610 TATGTATATAT
1 TATGTATATAT
* *
3294621 T-TTTA-ATAC
1 TATGTATATAT
3294630 TATGTATATAT
1 TATGTATATAT
*
3294641 T-TTTA-ATAT
1 TATGTATATAT
3294650 TATGTATATA
1 TATGTATATA
3294660 CTTTTTAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 9 0.22
10 12 0.30
11 19 0.47
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (11 bp):
TATGTATATAT
Found at i:3294627 original size:59 final size:60
Alignment explanation
Indices: 3294544--3294828 Score: 185
Period size: 59 Copynumber: 4.6 Consensus size: 60
3294534 TATATATATG
* *
3294544 TGTATAT-TTATGTA-GTATTATTAATAGT-TGTTTTTAATATTATTATTTTTTCTAATA
1 TGTATATATTATGTATATATTTTTAATAGTATGTTTTTAATATTATTATTTTTTCTAATA
*
3294601 TGTATATATTATGTATATATTTTTAATACTATGTATATATTTTTAATATTATGTATATACTTTT-
1 TGTATATATTATGTATATATTTTT-A-A-TA-G--TATGTTTTTAATATTAT-TAT-T--TTTTC
3294665 TAATA
56 TAATA
* * * * * * *
3294670 -CTAT-TATTATGTTTATATTTTAATATATA-TACGTATGTATATAGGTAACTT-TTTTTAATAT
1 TGTATATATTATGTATATATTTT--TA-ATAGTATGTTTTTA-ATA--TTA-TTATTTTT--TCT
3294731 ATATA
57 A-ATA
* * *
3294736 TGTGTATATTTATGTA-GTATTATTAATAGT-TGTTTTTAATATTATTATTTTTTCTAATA
1 TGTATATA-TTATGTATATATTTTTAATAGTATGTTTTTAATATTATTATTTTTTCTAATA
*
3294795 TGTATATATTATGTATATATTTTTAATACTATGT
1 TGTATATATTATGTATATATTTTTAATAGTATGT
3294829 ATATATTTTT
Statistics
Matches: 174, Mismatches: 24, Indels: 57
0.68 0.09 0.22
Matches are distributed among these distances:
57 7 0.04
58 14 0.08
59 27 0.16
60 7 0.04
61 3 0.02
62 12 0.07
63 7 0.04
64 8 0.05
65 12 0.07
66 23 0.13
67 24 0.14
68 14 0.08
69 12 0.07
70 4 0.02
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (60 bp):
TGTATATATTATGTATATATTTTTAATAGTATGTTTTTAATATTATTATTTTTTCTAATA
Found at i:3294634 original size:90 final size:90
Alignment explanation
Indices: 3294540--3294836 Score: 321
Period size: 90 Copynumber: 3.1 Consensus size: 90
3294530 TTAATATATA
*
3294540 TATGTGTATATTTATGTAGTATTATTAATAGTTGTTTTTAATATTATTATTTTTTCTAATATGTA
1 TATGTATATATTTATGTAGTATTATTAATAGTTGTTTTTAATATTATTATTTTTTCTAATATGTA
3294605 TATATTATGTATATATTTTTAATAC
66 TATATTATGTATATATTTTTAATAC
* * * * *
3294630 TATGTATATATTT-T-TAATATTATGTATATACTT-TTTAATACTATTATTATGTTTATATTTTA
1 TATGTATATATTTATGTAGTATTAT-TA-ATAGTTGTTT-TTAATATTATTA--TTT-T-TTCTA
* * * *
3294692 ATATATATACGTATGTATATAGGTAACTTTTTTTAATATATA
59 ATATGTATA--TAT-TATGTA--T-A-TATTTTTAAT--A-C
*
3294734 TATGTGTATATTTATGTAGTATTATTAATAGTTGTTTTTAATATTATTATTTTTTCTAATATGTA
1 TATGTATATATTTATGTAGTATTATTAATAGTTGTTTTTAATATTATTATTTTTTCTAATATGTA
3294799 TATATTATGTATATATTTTTAATAC
66 TATATTATGTATATATTTTTAATAC
3294824 TATGTATATATTT
1 TATGTATATATTT
3294837 TTAATATTAT
Statistics
Matches: 166, Mismatches: 21, Indels: 40
0.73 0.09 0.18
Matches are distributed among these distances:
88 8 0.05
89 6 0.04
90 39 0.23
91 1 0.01
92 3 0.02
93 10 0.06
94 13 0.08
95 1 0.01
96 3 0.02
97 10 0.06
98 3 0.02
99 1 0.01
100 13 0.08
101 10 0.06
102 3 0.02
103 1 0.01
104 27 0.16
105 6 0.04
106 8 0.05
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (90 bp):
TATGTATATATTTATGTAGTATTATTAATAGTTGTTTTTAATATTATTATTTTTTCTAATATGTA
TATATTATGTATATATTTTTAATAC
Found at i:3294650 original size:40 final size:38
Alignment explanation
Indices: 3294599--3294882 Score: 148
Period size: 41 Copynumber: 7.3 Consensus size: 38
3294589 TTTTTTCTAA
*
3294599 TATGTATATATTATGTATATA-TTTTTAATACTATGTAT
1 TATGTTTATATTATGTATATACTTTTTAATACTAT-TAT
*
3294637 ATATTTTTAATATTATGTATATACTTTTTAATACTATTAT
1 -TATGTTT-ATATTATGTATATACTTTTTAATACTATTAT
* * * *
3294677 TATGTTTATATTTTAATATATATACGTATGTATATAGGTAACTT-T
1 TATGTTTATA--TT-ATGTATATAC-TTTTTA-ATA-CT-A-TTAT
* * * *
3294722 T-T-TTAATATATATATGTGTATA-TTTATGTAGTATTATTAA
1 TATGTT--TATAT-TATGTATATACTTT-T-TAATACTATTAT
* *
3294762 TAGTTGTTTTTAATAT-TAT-TA-TTTTT--T-CTA--A-
1 TA--TGTTTATATTATGTATATACTTTTTAATACTATTAT
*
3294793 TATGTATATATTATGTATATA-TTTTTAATACTATGTAT
1 TATGTTTATATTATGTATATACTTTTTAATACTAT-TAT
*
3294831 ATATTTTTAATATTATGTATATACTTTTTAATACTATTAT
1 -TATGTTT-ATATTATGTATATACTTTTTAATACTATTAT
3294871 TATGTTTATATT
1 TATGTTTATATT
3294883 TTAATATATA
Statistics
Matches: 189, Mismatches: 24, Indels: 65
0.68 0.09 0.23
Matches are distributed among these distances:
29 9 0.05
30 3 0.02
31 9 0.05
32 1 0.01
33 1 0.01
34 5 0.03
35 1 0.01
37 2 0.01
38 9 0.05
39 29 0.15
40 40 0.21
41 41 0.22
42 9 0.05
43 16 0.08
44 5 0.03
45 7 0.04
46 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (38 bp):
TATGTTTATATTATGTATATACTTTTTAATACTATTAT
Found at i:3294729 original size:194 final size:194
Alignment explanation
Indices: 3294526--3294912 Score: 774
Period size: 194 Copynumber: 2.0 Consensus size: 194
3294516 TTATTATGTA
3294526 TTTTTTAATATATATATGTGTATATTTATGTAGTATTATTAATAGTTGTTTTTAATATTATTATT
1 TTTTTTAATATATATATGTGTATATTTATGTAGTATTATTAATAGTTGTTTTTAATATTATTATT
3294591 TTTTCTAATATGTATATATTATGTATATATTTTTAATACTATGTATATATTTTTAATATTATGTA
66 TTTTCTAATATGTATATATTATGTATATATTTTTAATACTATGTATATATTTTTAATATTATGTA
3294656 TATACTTTTTAATACTATTATTATGTTTATATTTTAATATATATACGTATGTATATAGGTAACT
131 TATACTTTTTAATACTATTATTATGTTTATATTTTAATATATATACGTATGTATATAGGTAACT
3294720 TTTTTTAATATATATATGTGTATATTTATGTAGTATTATTAATAGTTGTTTTTAATATTATTATT
1 TTTTTTAATATATATATGTGTATATTTATGTAGTATTATTAATAGTTGTTTTTAATATTATTATT
3294785 TTTTCTAATATGTATATATTATGTATATATTTTTAATACTATGTATATATTTTTAATATTATGTA
66 TTTTCTAATATGTATATATTATGTATATATTTTTAATACTATGTATATATTTTTAATATTATGTA
3294850 TATACTTTTTAATACTATTATTATGTTTATATTTTAATATATATACGTATGTATATAGGTAAC
131 TATACTTTTTAATACTATTATTATGTTTATATTTTAATATATATACGTATGTATATAGGTAAC
3294913 ATTATTAGTG
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
194 193 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (194 bp):
TTTTTTAATATATATATGTGTATATTTATGTAGTATTATTAATAGTTGTTTTTAATATTATTATT
TTTTCTAATATGTATATATTATGTATATATTTTTAATACTATGTATATATTTTTAATATTATGTA
TATACTTTTTAATACTATTATTATGTTTATATTTTAATATATATACGTATGTATATAGGTAACT
Found at i:3294809 original size:11 final size:11
Alignment explanation
Indices: 3294793--3294853 Score: 67
Period size: 11 Copynumber: 5.9 Consensus size: 11
3294783 TTTTTTCTAA
3294793 TATGTATATAT
1 TATGTATATAT
3294804 TATGTATATAT
1 TATGTATATAT
* *
3294815 T-TTTA-ATAC
1 TATGTATATAT
3294824 TATGTATATAT
1 TATGTATATAT
*
3294835 T-TTTA-ATAT
1 TATGTATATAT
3294844 TATGTATATA
1 TATGTATATA
3294854 CTTTTTAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 9 0.22
10 12 0.30
11 19 0.47
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (11 bp):
TATGTATATAT
Found at i:3294829 original size:20 final size:20
Alignment explanation
Indices: 3294804--3294867 Score: 110
Period size: 20 Copynumber: 3.1 Consensus size: 20
3294794 ATGTATATAT
3294804 TATGTATATATTTTTAATAC
1 TATGTATATATTTTTAATAC
*
3294824 TATGTATATATTTTTAATAT
1 TATGTATATATTTTTAATAC
3294844 TATGTATATACTTTTTAATAC
1 TATGTATATA-TTTTTAATAC
3294865 TAT
1 TAT
3294868 TATTATGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 29 0.71
21 12 0.29
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (20 bp):
TATGTATATATTTTTAATAC
Found at i:3298857 original size:22 final size:22
Alignment explanation
Indices: 3298832--3298876 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3298822 ATTCATGACT
3298832 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
* **
3298854 AACATTTATTTTTCATTTATTC
1 AACATTCATTCGTCATTTATTC
3298876 A
1 A
3298877 TTCATCCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.18, G:0.02, T:0.51
Consensus pattern (22 bp):
AACATTCATTCGTCATTTATTC
Found at i:3307303 original size:84 final size:80
Alignment explanation
Indices: 3307115--3307432 Score: 325
Period size: 84 Copynumber: 4.0 Consensus size: 80
3307105 ATCTGTTTTC
* * * *
3307115 AAAAATC-ACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGTTGAGGTATCTTCAATT
1 AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATT
*
3307179 TCTGTCTTTC-----AAA
63 TCTGTTTTTCAATTTAAA
**
3307192 AAAAATCAACACATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTTC
* **
3307257 CG-TTTTCAATTTATGTTTC
65 TGTTTTTCAATTTA----AA
*
3307276 AAAAATCAATTCATATTGCGAGAGGTGAGATGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTTC
3307341 TGTTTTTCAA---AAA
65 TGTTTTTCAATTTAAA
* * *
3307354 AAAAATTAAGCTT-ATATTGCGAGAGGTGAGTTGAACCTCGAGACACGCTGAGGTATTTTCAGTT
1 AAAAATCAA--TTCATATTGCGAGAGGTGAGTTGAGCCTCG-GACACGCTGAGGTATTTTCAATT
3307418 TCTGTTTTTCAATTT
63 TCTGTTTTTCAATTT
3307433 CTATTTTTCA
Statistics
Matches: 204, Mismatches: 19, Indels: 31
0.80 0.07 0.12
Matches are distributed among these distances:
75 4 0.02
76 23 0.11
77 7 0.03
78 37 0.18
79 60 0.29
80 3 0.01
82 1 0.00
84 62 0.30
85 7 0.03
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (80 bp):
AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTCAATTTAAA
Found at i:3307401 original size:163 final size:161
Alignment explanation
Indices: 3307111--3307432 Score: 452
Period size: 163 Copynumber: 2.0 Consensus size: 161
3307101 TTATATCTGT
* * *
3307111 TTTCAAAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGTTGAGGTATCTTCA
1 TTTCAAAAATCACTCATATTGCGAGAGGTGAGATGAGCCTCGGC-CACACGCTGAGGTATCTTCA
*
3307176 ATTTCTGTCTTTCAAAAAAAATCAACACATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
65 ATTTCTGTCTTTCAAAAAAAATCAACACATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTG
3307241 AGGTATTTTCAATTTCCG-TTTTCAATTTATG
130 AGGTATTTTCAATTTCCGTTTTTCAATTTATG
* * *
3307272 TTTCAAAAATCAATTCATATTGCGAGAGGTGAGATGAGCCTCGG-GACACGCTGAGGTATTTTCA
1 TTTCAAAAATC-ACTCATATTGCGAGAGGTGAGATGAGCCTCGGCCACACGCTGAGGTATCTTCA
* * **
3307336 ATTTCTGTTTTTCAAAAAAAAAATTAAGCTTATATTGCGAGAGGTGAGTTGAACCTC-GAGACAC
65 ATTTCTGTCTTTC--AAAAAAAATCAA-CACATATTGCGAGAGGTGAGTTGAACCTCAG-GACAC
* *
3307400 GCTGAGGTATTTTCAGTTTCTGTTTTTCAATTT
126 GCTGAGGTATTTTCAATTTCCGTTTTTCAATTT
3307433 CTATTTTTCA
Statistics
Matches: 142, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
160 29 0.20
161 11 0.08
162 41 0.29
163 51 0.36
164 10 0.07
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (161 bp):
TTTCAAAAATCACTCATATTGCGAGAGGTGAGATGAGCCTCGGCCACACGCTGAGGTATCTTCAA
TTTCTGTCTTTCAAAAAAAATCAACACATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGA
GGTATTTTCAATTTCCGTTTTTCAATTTATG
Found at i:3307403 original size:79 final size:78
Alignment explanation
Indices: 3307115--3307429 Score: 329
Period size: 79 Copynumber: 4.0 Consensus size: 78
3307105 ATCTGTTTTC
* * * *
3307115 AAAAATC-ACTCATATTGCGAGAGGTGAGTTGAGCCTTG-GCTCACACGTTGAGGTATCTTCAAT
1 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGAG---ACACGCTGAGGTATTTTCAAT
*
3307178 TTCTGTCTTTC--AAA
63 TTCTGTTTTTCAAAAA
**
3307192 AAAAATCAACACATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGA-GACACGCTGAGGTATTTTCAATTT
* **
3307256 CCG-TTTTCAATTTATGTTTC
65 CTGTTTTTCAA---A----AA
* *
3307276 AAAAATCAA-TTCATATTGCGAGAGGTGAGATGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTT-ATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTCAATTT
3307340 CTGTTTTTCAAAAA
65 CTGTTTTTCAAAAA
* * *
3307354 AAAAATTAAGCTTATATTGCGAGAGGTGAGTTGAACCTCGAGACACGCTGAGGTATTTTCAGTTT
1 AAAAATCAA-CTTATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTCAATTT
3307419 CTGTTTTTCAA
65 CTGTTTTTCAA
3307430 TTTCTATTTT
Statistics
Matches: 201, Mismatches: 20, Indels: 32
0.79 0.08 0.13
Matches are distributed among these distances:
75 4 0.02
76 23 0.11
77 7 0.03
78 36 0.18
79 60 0.30
80 3 0.01
82 1 0.00
84 60 0.30
85 7 0.03
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (78 bp):
AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAAAAA
Found at i:3307428 original size:14 final size:14
Alignment explanation
Indices: 3307409--3307457 Score: 80
Period size: 14 Copynumber: 3.5 Consensus size: 14
3307399 CGCTGAGGTA
*
3307409 TTTTCAGTTTCTGT
1 TTTTCAATTTCTGT
*
3307423 TTTTCAATTTCTAT
1 TTTTCAATTTCTGT
3307437 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
3307451 TTTTCAA
1 TTTTCAA
3307458 AAATCAACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.16, C:0.14, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:3307521 original size:103 final size:103
Alignment explanation
Indices: 3307330--3307523 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 103
3307320 CGCTGAGGTA
* *
3307330 TTTTCAATTTCTGTTTTTCAAAAAAAAAATTAAGCTTATATTGCGAGAGGTGAGTTGAACCTCGA
1 TTTTCAATTTCTGTTTTTC----AAAAAATCAAGCTCATATTGCGAGAGGTGAGTTGAACCTCGA
3307395 GACACGCTGAGGTATTTTCAGTTTCTGTTTTTCAATTTCTAT
62 GACACGCTGAGGTATTTTCAGTTTCTGTTTTTCAATTTCTAT
* * *
3307437 TTTTCAATTTCTGTTTTTC-AAAAATCAA-CTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAATCAAGCTCATATTGCGAGAGGTGAGTTGAACCTCGAG--A
*
3307500 CACGCTGAGGTATTTTTAGTTTCT
64 CACGCTGAGGTATTTTCAGTTTCT
3307524 ATCAACTCAT
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
101 28 0.35
102 8 0.10
103 24 0.30
107 19 0.24
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (103 bp):
TTTTCAATTTCTGTTTTTCAAAAAATCAAGCTCATATTGCGAGAGGTGAGTTGAACCTCGAGACA
CGCTGAGGTATTTTCAGTTTCTGTTTTTCAATTTCTAT
Found at i:3307578 original size:64 final size:64
Alignment explanation
Indices: 3307460--3307579 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 64
3307450 TTTTTCAAAA
* * * * * * *
3307460 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTGCAAGAGATGAGTTGACCCTCGGGCCACACGCCGAGATATTTTTAGTTTCT
*
3307524 ATCAACTCATATTGCAAGAGATGAGTTGACCCTCGGGCCACATGCCGAGATATTTT
1 ATCAACTCATATTGCAAGAGATGAGTTGACCCTCGGGCCACACGCCGAGATATTTT
3307580 CAATTTTTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (64 bp):
ATCAACTCATATTGCAAGAGATGAGTTGACCCTCGGGCCACACGCCGAGATATTTTTAGTTTCT
Found at i:3307597 original size:13 final size:14
Alignment explanation
Indices: 3307576--3307609 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
3307566 TGCCGAGATA
3307576 TTTTCAATTTTTG-
1 TTTTCAATTTTTGC
*
3307589 TTTTTAATTTTTGC
1 TTTTCAATTTTTGC
3307603 TTTTCAA
1 TTTTCAA
3307610 GAAAATCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.68
Consensus pattern (14 bp):
TTTTCAATTTTTGC
Found at i:3307916 original size:63 final size:63
Alignment explanation
Indices: 3307807--3307954 Score: 233
Period size: 63 Copynumber: 2.3 Consensus size: 63
3307797 GATTTTGCTT
* * *
3307807 CCCTGGAGTTGCAGTGGAGCAGGTTGAAATTACAAGTTTGATCTCCATAAAGTTGTAGCGGAA
1 CCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTGACCTCCATAAAGTTGTAGCGGAA
* * *
3307870 CCTTGAAGTTGCAATGGAGCAGGTTGAAATTACAAGTCTGACCTCCATGAAGTTGTAGCGGAA
1 CCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTGACCTCCATAAAGTTGTAGCGGAA
*
3307933 CCCTGAAGTTGTAGTGGAGCAG
1 CCCTGAAGTTGCAGTGGAGCAG
3307955 ACTGAAGATA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 76 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (63 bp):
CCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTGACCTCCATAAAGTTGTAGCGGAA
Found at i:3308001 original size:45 final size:45
Alignment explanation
Indices: 3307933--3308037 Score: 158
Period size: 45 Copynumber: 2.3 Consensus size: 45
3307923 TGTAGCGGAA
* * * *
3307933 CCCTGAAGTTGTAGTGGAGCAGACTGAAGATATTAGACCTTATCT
1 CCCTGAAATTGTAGTCGAACAGACTAAAGATATTAGACCTTATCT
3307978 CCCTGAAATTGTAGTCGAACAGACTAAAGATATTAGACCTTATCT
1 CCCTGAAATTGTAGTCGAACAGACTAAAGATATTAGACCTTATCT
3308023 CCCT-AAATTTGTAGT
1 CCCTGAAA-TTGTAGT
3308038 GGAGAAGTGA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 3 0.05
45 52 0.95
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (45 bp):
CCCTGAAATTGTAGTCGAACAGACTAAAGATATTAGACCTTATCT
Found at i:3309576 original size:22 final size:22
Alignment explanation
Indices: 3309551--3309605 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
3309541 TTAATTTTAA
*
3309551 TATTATGTA-TACTATTATATTT
1 TATTATCTATTACTATTATA-TT
*
3309573 TATTA-CTATTATTATTATATT
1 TATTATCTATTACTATTATATT
*
3309594 TATTATTTATTA
1 TATTATCTATTA
3309606 GCAGTAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTATCTATTACTATTATATT
Found at i:3310176 original size:16 final size:14
Alignment explanation
Indices: 3310147--3310202 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
3310137 TATATTATGT
3310147 TTTTTAATACTATA
1 TTTTTAATACTATA
*
3310161 TTTTTAATACCATA
1 TTTTTAATACTATA
* *
3310175 TATATT-AT-GTATA
1 T-TTTTAATACTATA
*
3310188 TTCTTAATACTATA
1 TTTTTAATACTATA
3310202 T
1 T
3310203 ATTGTATGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
12 3 0.09
13 6 0.18
14 21 0.64
15 3 0.09
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.54
Consensus pattern (14 bp):
TTTTTAATACTATA
Found at i:3310188 original size:27 final size:27
Alignment explanation
Indices: 3310157--3310222 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
3310147 TTTTTAATAC
3310157 TATATTTTTAATACCATATATAT-TATG
1 TATATTTTTAATACCATATAT-TGTATG
* *
3310184 TATATTCTTAATACTATATATTGTATG
1 TATATTTTTAATACCATATATTGTATG
3310211 TAT-TTTTTAATA
1 TATATTTTTAATA
3310223 AATATTATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.26
27 26 0.74
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.55
Consensus pattern (27 bp):
TATATTTTTAATACCATATATTGTATG
Found at i:3310227 original size:23 final size:23
Alignment explanation
Indices: 3310201--3310270 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 23
3310191 TTAATACTAT
3310201 ATATTGTATGTATTTTTTAATAA
1 ATATTGTATGTATTTTTTAATAA
*
3310224 ATATTATGTACGTA-TTTTTAAT-A
1 ATA-T-TGTATGTATTTTTTAATAA
* *
3310247 TTA-T-TATGT-TTTTTTAATAT
1 ATATTGTATGTATTTTTTAATAA
3310267 ATAT
1 ATAT
3310271 ATATGTGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
19 12 0.32
20 3 0.08
23 6 0.16
24 9 0.24
25 7 0.19
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.59
Consensus pattern (23 bp):
ATATTGTATGTATTTTTTAATAA
Found at i:3310227 original size:25 final size:25
Alignment explanation
Indices: 3310161--3310274 Score: 84
Period size: 27 Copynumber: 4.7 Consensus size: 25
3310151 TAATACTATA
*
3310161 TTTTTAATACCATATATATTATGTAT
1 TTTTTAATA-TATATATATTATGTAT
*
3310187 ATTCTTAATACTATATAT-TGTATGTAT
1 -TTTTTAATA-TATATATAT-TATGTAT
* *
3310214 TTTTTAATAAATAT-TATGTACGTA-
1 TTTTTAATATATATATAT-TATGTAT
3310238 -TTTT--TA-ATAT-TATTATGT-T
1 TTTTTAATATATATATATTATGTAT
3310257 TTTTTAATATATATATAT
1 TTTTTAATATATATATAT
3310275 GTGTATATTT
Statistics
Matches: 73, Mismatches: 6, Indels: 19
0.74 0.06 0.19
Matches are distributed among these distances:
19 4 0.05
20 11 0.15
21 2 0.03
22 2 0.03
23 8 0.11
24 4 0.05
25 11 0.15
26 9 0.12
27 22 0.30
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.56
Consensus pattern (25 bp):
TTTTTAATATATATATATTATGTAT
Found at i:3310232 original size:21 final size:21
Alignment explanation
Indices: 3310207--3310276 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 21
3310197 CTATATATTG
3310207 TATGTATTTTTTAATAAATAT
1 TATGTATTTTTTAATAAATAT
*
3310228 TATGTACGTATTTTTAAT-ATTAT
1 TATGTA--T-TTTTTAATAAATAT
*
3310251 TATGT-TTTTTTAATATATAT
1 TATGTATTTTTTAATAAATAT
3310271 ATATGT
1 -TATGT
3310277 GTATATTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
19 8 0.20
20 4 0.10
21 11 0.27
23 10 0.24
24 8 0.20
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.59
Consensus pattern (21 bp):
TATGTATTTTTTAATAAATAT
Found at i:3310262 original size:19 final size:20
Alignment explanation
Indices: 3310223--3310276 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
3310213 TTTTTTAATA
* *
3310223 AATATTATGTACGTATTTTT
1 AATATTATATATGTATTTTT
*
3310243 AATATTAT-TATGTTTTTTT
1 AATATTATATATGTATTTTT
3310262 AATATATATATATGT
1 AATAT-TATATATGT
3310277 GTATATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 14 0.47
20 11 0.37
21 5 0.17
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (20 bp):
AATATTATATATGTATTTTT
Found at i:3310285 original size:23 final size:22
Alignment explanation
Indices: 3310172--3310285 Score: 92
Period size: 23 Copynumber: 5.0 Consensus size: 22
3310162 TTTTAATACC
* *
3310172 ATATATATTATGTATATTCTTA
1 ATATATATTATGTGTATTTTTA
3310194 ATACTATA-TATTGTATGTATTTTTTA
1 ATA-TATATTA-TG--TGTA-TTTTTA
*
3310220 ATAAATATTATGTACGTATTTTTA
1 ATATATATTATGT--GTATTTTTA
3310244 ATAT-TATTATGT-T-TTTTTA
1 ATATATATTATGTGTATTTTTA
*
3310263 ATATATATATATGTGTATATTTA
1 ATATATAT-TATGTGTATTTTTA
3310286 TGTAGTATTA
Statistics
Matches: 75, Mismatches: 5, Indels: 23
0.73 0.05 0.22
Matches are distributed among these distances:
19 10 0.13
20 4 0.05
21 5 0.07
22 6 0.08
23 20 0.27
24 9 0.12
25 11 0.15
26 10 0.13
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (22 bp):
ATATATATTATGTGTATTTTTA
Found at i:3310295 original size:43 final size:43
Alignment explanation
Indices: 3310207--3310295 Score: 101
Period size: 43 Copynumber: 2.0 Consensus size: 43
3310197 CTATATATTG
* *
3310207 TATGTATTTTTTAATAAATATTATGTACGTATTTTTAATATTAT
1 TATGTATTTTTTAATAAATATTATGTA-GTATATTTAATAGTAT
* *
3310251 TATGT-TTTTTTAATATATATATATGT-GTATATTTATGTAGTAT
1 TATGTATTTTTTAATAAATAT-TATGTAGTATATTTA-ATAGTAT
3310294 TA
1 TA
3310296 CTAATAGTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
42 8 0.21
43 21 0.54
44 10 0.26
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.57
Consensus pattern (43 bp):
TATGTATTTTTTAATAAATATTATGTAGTATATTTAATAGTAT
Found at i:3310367 original size:20 final size:20
Alignment explanation
Indices: 3310342--3310432 Score: 137
Period size: 20 Copynumber: 4.3 Consensus size: 20
3310332 ATGTATATAT
3310342 TATGTATATATTTTTAATAC
1 TATGTATATATTTTTAATAC
3310362 TATGTATATATTTTTTAATAC
1 TATGTATATA-TTTTTAATAC
3310383 TATGTATATACTATTTTTAATAC
1 TATG--TATA-TATTTTTAATAC
*
3310406 TATGTATATATTTTTGATAC
1 TATGTATATATTTTTAATAC
3310426 TATGTAT
1 TATGTAT
3310433 CGCATGCATG
Statistics
Matches: 66, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
20 28 0.42
21 18 0.27
23 18 0.27
24 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (20 bp):
TATGTATATATTTTTAATAC
Found at i:3310403 original size:44 final size:42
Alignment explanation
Indices: 3310346--3310432 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 42
3310336 ATATATTATG
3310346 TATATATTTTTAATACTATGTATATATTTTTTAATACTATGTA
1 TATATATTTTTAATACTATGTATATA-TTTTTAATACTATGTA
*
3310389 TATACTATTTTTAATACTATGTATATATTTTTGATACTATGTA
1 TATA-TATTTTTAATACTATGTATATATTTTTAATACTATGTA
3310432 T
1 T
3310433 CGCATGCATG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 20 0.48
44 22 0.52
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (42 bp):
TATATATTTTTAATACTATGTATATATTTTTAATACTATGTA
Found at i:3313478 original size:33 final size:33
Alignment explanation
Indices: 3313428--3313506 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
3313418 ACTCCCGTAA
* * ** * *
3313428 GGCCCATATGGCTTAATTTGGTTTAGCCTGTGT
1 GGCCCACATGGCCTAATTCAGTTTAGCCCGTGC
*
3313461 GGTCCACATGGCCTAATTCAGTTTAGCCCGTGC
1 GGCCCACATGGCCTAATTCAGTTTAGCCCGTGC
3313494 GGCCCACATGGCC
1 GGCCCACATGGCC
3313507 ACACCCCGAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.16, C:0.28, G:0.27, T:0.29
Consensus pattern (33 bp):
GGCCCACATGGCCTAATTCAGTTTAGCCCGTGC
Found at i:3315425 original size:36 final size:35
Alignment explanation
Indices: 3315360--3315442 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 35
3315350 AACAGAAGTC
*
3315360 GTGATTGTAAATCAACGAGCTTTAAAAATGACAGTT
1 GTGATTGTAAATCAACGACCTTTAAAAATG-CAGTT
* * *
3315396 GTGATTGTAAATCAATGACCTGTT-TAAATGGAGTT
1 GTGATTGTAAATCAACGACCT-TTAAAAATGCAGTT
* *
3315431 GCGATCGTAAAT
1 GTGATTGTAAAT
3315443 TGAAGGACTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
35 14 0.35
36 24 0.60
37 2 0.05
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (35 bp):
GTGATTGTAAATCAACGACCTTTAAAAATGCAGTT
Found at i:3316336 original size:398 final size:398
Alignment explanation
Indices: 3315592--3316345 Score: 1026
Period size: 398 Copynumber: 1.9 Consensus size: 398
3315582 TCGTGACCAT
* * * * *
3315592 AAATTAGCTGAAGCTTTTCATAAAGTTCCTAGTTTTTTTATCAGATAGGTCCATTTCAAGCCTCC
1 AAATTAGCTGAAGCTTTTCAGAAAGTTCCTAGTTTTTTTAGCAGATAGATCCATTTCAAACCTCA
* * *
3315657 TTTTAGACGTACGGTGAAGAGAAGTAGCTTTAGCCTCACAAAGACAATGTAACAAAATTGTTTCC
66 TTTTAGACATACGGTGAAGAGAAGTAGCTTTAGCATCACAAAGACAATGTAACAAAATTGATTCC
* ** * * *
3315722 TCTATCATCCTTCTTTCAATGTTAGTTTTGAATTCTTCCTGGACACGTCTATATTTATAATCTTT
131 TCTATCATCCTTCTTTCAATGTCAGTTTTGAATTCTTCCTCAACACGACTATATTCATAATATTT
* * * *
3315787 AGCATCTAACCTGCTTTGAAAGGCAGAGAGGTCAAAATTAGCTAGTTGAAAATCATCTCTGGCCA
196 AGCATCTAACCTGCTCTGAAAGGCAGAGAAGTCAAAATTAGCTAGTTGAAAATCATCTATGACCA
*
3315852 CGCTTAGAACTAGTTCAGCAAATTTACATTCCTTGTAAACTAAGAAGTGTTCATGATCATAAATC
261 CGCTTAGAACTAGTTCAGCAAATTTACATTCATTGTAAACTAAGAAGTGTTCATGATCATAAATC
3315917 AATGAACTGAAGCCATGATTGTAAATCAGTGGACCGTGAGATTTGTAACATCCTATAAATAGGTT
326 AATGAACTGAAGCCATGATTGTAAATCAGTGGACCGTGAGATTTGTAACATCCTATAAATAGGTT
3315982 ATGATAAA
391 ATGATAAA
* * * * * *
3315990 AAATTAGTTGAAGCTTTTCAGAAATTTCCTTATTTTTTTTAGCAGATCGATCCATTTTAAACCTT
1 AAATTAGCTGAAGCTTTTCAGAAAGTTCC-TAGTTTTTTTAGCAGATAGATCCATTTCAAACCTC
* * *
3316055 ATTTTAGGCATACGGTTAATAGAAGTAGCTTTAGCATCACAAAGACAATGTAAC-AAATTGATTC
65 ATTTTAGACATACGGTGAAGAGAAGTAGCTTTAGCATCACAAAGACAATGTAACAAAATTGATTC
* ** * *
3316119 CTCTATTATTTTTCTTTCAATGTCAGTTTTGAGTTCTTTCTCAACACGACTATATTCATAATATT
130 CTCTATCATCCTTCTTTCAATGTCAGTTTTGAATTCTTCCTCAACACGACTATATTCATAATATT
* ** * * * * * * *
3316184 TAGGATCTGGCTTGCTCTGAAGGGTAGAGAAGTTAGAATTAGCTAGTTGAAAATTATTTATGACC
195 TAGCATCTAACCTGCTCTGAAAGGCAGAGAAGTCAAAATTAGCTAGTTGAAAATCATCTATGACC
* * * *
3316249 ATGCTTAGAACTAGTTTAGCAAATTTACATTCATTGTGAAGC-AAGAAGTGTTCATGATCTTAAA
260 ACGCTTAGAACTAGTTCAGCAAATTTACATTCATTGT-AAACTAAGAAGTGTTCATGATCATAAA
* **
3316313 TCACTGAACTGAAGCTGTGATTGTAAATCAGTG
324 TCAATGAACTGAAGCCATGATTGTAAATCAGTG
3316346 AACTTTAAAA
Statistics
Matches: 304, Mismatches: 50, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
398 225 0.74
399 79 0.26
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (398 bp):
AAATTAGCTGAAGCTTTTCAGAAAGTTCCTAGTTTTTTTAGCAGATAGATCCATTTCAAACCTCA
TTTTAGACATACGGTGAAGAGAAGTAGCTTTAGCATCACAAAGACAATGTAACAAAATTGATTCC
TCTATCATCCTTCTTTCAATGTCAGTTTTGAATTCTTCCTCAACACGACTATATTCATAATATTT
AGCATCTAACCTGCTCTGAAAGGCAGAGAAGTCAAAATTAGCTAGTTGAAAATCATCTATGACCA
CGCTTAGAACTAGTTCAGCAAATTTACATTCATTGTAAACTAAGAAGTGTTCATGATCATAAATC
AATGAACTGAAGCCATGATTGTAAATCAGTGGACCGTGAGATTTGTAACATCCTATAAATAGGTT
ATGATAAA
Found at i:3316600 original size:134 final size:134
Alignment explanation
Indices: 3316298--3316627 Score: 351
Period size: 134 Copynumber: 2.5 Consensus size: 134
3316288 AGCAAGAAGT
* ** *
3316298 GTTCATGATCTTAAATCACTGAACTGAAGCTGTGATTGTAAATCAGTGAA-CTTTAAAAATGACA
1 GTTCATGATCTTAAATCAATGAACTGAAGCCATGATTGTAAATCA-TCAAGCTTTAAAAATGACA
* * * * *
3316362 GTTGTAATCTGCAATCAGCGAATTGCTTAAGTGGAGTTGCGATCATAAATTGGCCAGCTTTTAAT
65 GTTGTAATCTGAAATCAACGAACTGCTTAAGTGGAGTTGCGATCATAAATTGGCCAACTCTTAAT
* *
3316427 GAAGT
130 AAAGC
* * * * * * * * *
3316432 GTTCAAGATTTTAAATTAATGAAC-AATAGTCATGATAGTAAATTAACAAGCTTTAAAAATGATA
1 GTTCATGATCTTAAATCAATGAACTGA-AGCCATGATTGTAAATCATCAAGCTTTAAAAATGACA
* * * * **
3316496 GTTGTGATCAT-AAATCAACGAACTGTTTAAGTGGAGTTGGGATCATAAGTTGGTGAACTCTTAA
65 GTTGTAATC-TGAAATCAACGAACTGCTTAAGTGGAGTTGCGATCATAAATTGGCCAACTCTTAA
3316560 TAAAGC
129 TAAAGC
* * *
3316566 GTTCATGATCGTAAATCAATGAACTGAACCCATGATTGTAAATCATCAAGTTTTAAAAATGA
1 GTTCATGATCTTAAATCAATGAACTGAAGCCATGATTGTAAATCATCAAGCTTTAAAAATGA
3316628 AATTTTTGAT
Statistics
Matches: 155, Mismatches: 37, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
133 3 0.02
134 150 0.97
135 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (134 bp):
GTTCATGATCTTAAATCAATGAACTGAAGCCATGATTGTAAATCATCAAGCTTTAAAAATGACAG
TTGTAATCTGAAATCAACGAACTGCTTAAGTGGAGTTGCGATCATAAATTGGCCAACTCTTAATA
AAGC
Found at i:3318034 original size:134 final size:134
Alignment explanation
Indices: 3317692--3318034 Score: 402
Period size: 134 Copynumber: 2.6 Consensus size: 134
3317682 TTAAACCAAG
* * * * * *
3317692 AAGTGTTCATAATCGTAAATCAATGAACTGAAGCCGTGATTGTAAATTAACGAGGTTTAAAAATA
1 AAGTATTCATGATCGTAAATCAATGAACTGAAGCTGTGATTGTAAATTAGCGAGCTTTAAAAATG
** ** * *
3317757 ACAGTTGCGAATGTAAATTAGTGAACTACTTAAGTGGAGTTGCAATCATAAATTGGTGAACACTT
66 ACAGTTGTAAACATAAATCAGTGAACTACTTAAGTGGAGTTGCAATCATAAATCGGTGAACACTT
*
3317822 AATG
131 AATA
*
3317826 AAGTATTCATGATCGTAAATCAATGAACTGAAGCTATGATTGTAAATTAGCGAGCTTTAAAAATG
1 AAGTATTCATGATCGTAAATCAATGAACTGAAGCTGTGATTGTAAATTAGCGAGCTTTAAAAATG
* * * * ** * *
3317891 ACTA-CTGTAAACATAAATCAGTGAACTCCTTAGGTGGAGTTTCAATTGTAAATCGGTGACCTCT
66 AC-AGTTGTAAACATAAATCAGTGAACTACTTAAGTGGAGTTGCAATCATAAATCGGTGAACACT
3317955 TAATA
130 TAATA
* * * * * *
3317960 AAGTTTTCATGATCATAAATCAATGAATTGAATCTGTGATCT-TAAATCAGTGAGCTTTAAAAAT
1 AAGTATTCATGATCGTAAATCAATGAACTGAAGCTGTGAT-TGTAAATTAGCGAGCTTTAAAAAT
3318024 GACAGTTGTAA
65 GACAGTTGTAA
3318035 TTGTAAATTA
Statistics
Matches: 176, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
133 1 0.01
134 173 0.98
135 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (134 bp):
AAGTATTCATGATCGTAAATCAATGAACTGAAGCTGTGATTGTAAATTAGCGAGCTTTAAAAATG
ACAGTTGTAAACATAAATCAGTGAACTACTTAAGTGGAGTTGCAATCATAAATCGGTGAACACTT
AATA
Found at i:3319682 original size:134 final size:134
Alignment explanation
Indices: 3319470--3319730 Score: 321
Period size: 134 Copynumber: 1.9 Consensus size: 134
3319460 AACTGAAGCT
* * * * *
3319470 GTGATTGTAAATCAGCGAGCTTTAAAAATGACAGTTGTGATATTAAATCAGTGAATTTCTTAAGT
1 GTGATCGTAAATCAACGAACTTTAAAAATGACAGTTGTGATATTAAATCAATGAATGTCTTAAGT
* * **
3319535 GGAGTTGCAATCATAAATTGGCT-AACTTTTAATGAAGTGATCAAGATTTTAAATCAATGAACAA
66 AGAGTTGCAATCATAAATTGG-TGAACTCTTAATGAAGTGATCAAGATAGTAAATCAATGAACAA
3319599 TAGTC
130 TAGTC
* *
3319604 GTGATCGTAAATTAACGAACTTTAAAAATGATAGTTGTGATCA-TAAATCAATGAACTGT-TTAA
1 GTGATCGTAAATCAACGAACTTTAAAAATGACAGTTGTGAT-ATTAAATCAATGAA-TGTCTTAA
* * ** * *
3319667 GTATATTTGGGATCATAAATTGGTGAACTCTTAATGAAGTGTTCATGATAGTAAATCAATGAAC
64 GTAGAGTTGCAATCATAAATTGGTGAACTCTTAATGAAGTGATCAAGATAGTAAATCAATGAAC
3319731 TTCATGATCT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
133 1 0.01
134 103 0.96
135 3 0.03
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (134 bp):
GTGATCGTAAATCAACGAACTTTAAAAATGACAGTTGTGATATTAAATCAATGAATGTCTTAAGT
AGAGTTGCAATCATAAATTGGTGAACTCTTAATGAAGTGATCAAGATAGTAAATCAATGAACAAT
AGTC
Found at i:3319754 original size:23 final size:23
Alignment explanation
Indices: 3319708--3319754 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
3319698 TAATGAAGTG
*
3319708 TTCATGATAGTAAATCAATGAAC
1 TTCATGATAGTAAATCAATAAAC
** *
3319731 TTCATGATCTTAAATCACTAAAC
1 TTCATGATAGTAAATCAATAAAC
3319754 T
1 T
3319755 GAAGCTGTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (23 bp):
TTCATGATAGTAAATCAATAAAC
Found at i:3319879 original size:157 final size:157
Alignment explanation
Indices: 3319604--3319887 Score: 376
Period size: 157 Copynumber: 1.8 Consensus size: 157
3319594 AACAATAGTC
* *
3319604 GTGATCGTAAATTAACGAACTTTAAAAATGATAGTTGTGATCATAAATCAATGAACTGTTTAAGT
1 GTGATCGTAAATCAACGAACTTTAAAAATGACAGTTGTGATCATAAATCAATGAACTGTTTAAGT
* * * * *
3319669 ATATTTGGGATCATAAATTGGTGAACTCTTAATGAAGTGTTCATGATAGTAAATCAATGAACTTC
66 AGAGTTGCGATCATAAATTGGTGAACTCTTAATGAAGTGATCAAGATAGTAAATCAATGAACTTC
3319734 ATGATCTTAAATCACTAAACTGAAGCT
131 ATGATCTTAAATCACTAAACTGAAGCT
* * * * *
3319761 GTGATTGTAAATCAGCGAGCTTTAAAAATGACAGTTGTGAT-ATTAAATCAGTGAA-TTTCTTAA
1 GTGATCGTAAATCAACGAACTTTAAAAATGACAGTTGTGATCA-TAAATCAATGAACTGT-TTAA
* * **
3319824 GTGGAGTTGCGATCATAAATTGGCT-AACTTTTAATGAAGTGATCAAGATTTTAAATCAATGAAC
64 GTAGAGTTGCGATCATAAATTGG-TGAACTCTTAATGAAGTGATCAAGATAGTAAATCAATGAAC
3319888 AATAGTCGTG
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
156 3 0.03
157 104 0.96
158 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (157 bp):
GTGATCGTAAATCAACGAACTTTAAAAATGACAGTTGTGATCATAAATCAATGAACTGTTTAAGT
AGAGTTGCGATCATAAATTGGTGAACTCTTAATGAAGTGATCAAGATAGTAAATCAATGAACTTC
ATGATCTTAAATCACTAAACTGAAGCT
Found at i:3319964 original size:291 final size:291
Alignment explanation
Indices: 3319440--3320022 Score: 1148
Period size: 291 Copynumber: 2.0 Consensus size: 291
3319430 CCAATAAGTG
3319440 TTCATGATCTTAAATCACTAAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACAGT
1 TTCATGATCTTAAATCACTAAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACAGT
3319505 TGTGATATTAAATCAGTGAATTTCTTAAGTGGAGTTGCAATCATAAATTGGCTAACTTTTAATGA
66 TGTGATATTAAATCAGTGAATTTCTTAAGTGGAGTTGCAATCATAAATTGGCTAACTTTTAATGA
3319570 AGTGATCAAGATTTTAAATCAATGAACAATAGTCGTGATCGTAAATTAACGAACTTTAAAAATGA
131 AGTGATCAAGATTTTAAATCAATGAACAATAGTCGTGATCGTAAATTAACGAACTTTAAAAATGA
3319635 TAGTTGTGATCATAAATCAATGAACTGTTTAAGTATATTTGGGATCATAAATTGGTGAACTCTTA
196 TAGTTGTGATCATAAATCAATGAACTGTTTAAGTATATTTGGGATCATAAATTGGTGAACTCTTA
*
3319700 ATGAAGTGTTCATGATAGTAAATCAATGAAC
261 ATGAAGTGTTCATGATACTAAATCAATGAAC
3319731 TTCATGATCTTAAATCACTAAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACAGT
1 TTCATGATCTTAAATCACTAAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACAGT
*
3319796 TGTGATATTAAATCAGTGAATTTCTTAAGTGGAGTTGCGATCATAAATTGGCTAACTTTTAATGA
66 TGTGATATTAAATCAGTGAATTTCTTAAGTGGAGTTGCAATCATAAATTGGCTAACTTTTAATGA
3319861 AGTGATCAAGATTTTAAATCAATGAACAATAGTCGTGATCGTAAATTAACGAACTTTAAAAATGA
131 AGTGATCAAGATTTTAAATCAATGAACAATAGTCGTGATCGTAAATTAACGAACTTTAAAAATGA
3319926 TAGTTGTGATCATAAATCAATGAACTGTTTAAGTATATTTGGGATCATAAATTGGTGAACTCTTA
196 TAGTTGTGATCATAAATCAATGAACTGTTTAAGTATATTTGGGATCATAAATTGGTGAACTCTTA
3319991 ATGAAGTGTTCATGATACTAAATCAATGAAC
261 ATGAAGTGTTCATGATACTAAATCAATGAAC
3320022 T
1 T
3320023 GAACCCATGG
Statistics
Matches: 290, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
291 290 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (291 bp):
TTCATGATCTTAAATCACTAAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACAGT
TGTGATATTAAATCAGTGAATTTCTTAAGTGGAGTTGCAATCATAAATTGGCTAACTTTTAATGA
AGTGATCAAGATTTTAAATCAATGAACAATAGTCGTGATCGTAAATTAACGAACTTTAAAAATGA
TAGTTGTGATCATAAATCAATGAACTGTTTAAGTATATTTGGGATCATAAATTGGTGAACTCTTA
ATGAAGTGTTCATGATACTAAATCAATGAAC
Found at i:3319980 original size:134 final size:134
Alignment explanation
Indices: 3319761--3320021 Score: 330
Period size: 134 Copynumber: 1.9 Consensus size: 134
3319751 AACTGAAGCT
* * * * *
3319761 GTGATTGTAAATCAGCGAGCTTTAAAAATGACAGTTGTGATATTAAATCAGTGAATTTCTTAAGT
1 GTGATCGTAAATCAACGAACTTTAAAAATGACAGTTGTGATATTAAATCAATGAATGTCTTAAGT
* * **
3319826 GGAGTTGCGATCATAAATTGGCT-AACTTTTAATGAAGTGATCAAGATTTTAAATCAATGAACAA
66 AGAGTTGCGATCATAAATTGG-TGAACTCTTAATGAAGTGATCAAGATACTAAATCAATGAACAA
3319890 TAGTC
130 TAGTC
* *
3319895 GTGATCGTAAATTAACGAACTTTAAAAATGATAGTTGTGATCA-TAAATCAATGAACTGT-TTAA
1 GTGATCGTAAATCAACGAACTTTAAAAATGACAGTTGTGAT-ATTAAATCAATGAA-TGTCTTAA
* * * * *
3319958 GTATATTTGGGATCATAAATTGGTGAACTCTTAATGAAGTGTTCATGATACTAAATCAATGAAC
64 GTAGAGTTGCGATCATAAATTGGTGAACTCTTAATGAAGTGATCAAGATACTAAATCAATGAAC
3320022 TGAACCCATG
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
133 1 0.01
134 104 0.96
135 3 0.03
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (134 bp):
GTGATCGTAAATCAACGAACTTTAAAAATGACAGTTGTGATATTAAATCAATGAATGTCTTAAGT
AGAGTTGCGATCATAAATTGGTGAACTCTTAATGAAGTGATCAAGATACTAAATCAATGAACAAT
AGTC
Found at i:3320055 original size:134 final size:133
Alignment explanation
Indices: 3319768--3320055 Score: 296
Period size: 134 Copynumber: 2.1 Consensus size: 133
3319758 GCTGTGATTG
* * * *
3319768 TAAATCAGCGAGCTTTAAAAATGACAGTTGTGATATTAAATCAGTGAATTTCTTAAGTGGAGTTG
1 TAAATCAACGAG-TTTAAAAATGACAGTTGTGATATTAAATCAATGAATGTCTTAAGTAGAGTTG
* ** ** *
3319833 CGATCATAAATTGGCTAACTTTTAATGAAGTGATCAAGATTTTAAATCAATGAACAATAGTCGTG
65 CGATCATAAATTGGCTAACTCTTAATGAAGTGATCAAGATACTAAATCAATGAACAATACCCATG
*
3319898 ATCG
130 ATCA
* * * * *
3319902 TAAATTAACGAACTTTAAAAATGATAGTTGTGATCA-TAAATCAATGAACTGT-TTAAGTATATT
1 TAAATCAACG-AGTTTAAAAATGACAGTTGTGAT-ATTAAATCAATGAA-TGTCTTAAGTAGAGT
* * * *
3319965 TGGGATCATAAATTGG-TGAACTCTTAATGAAGTGTTCATGATACTAAATCAATGAACTGA-ACC
63 TGCGATCATAAATTGGCT-AACTCTTAATGAAGTGATCAAGATACTAAATCAATGAAC-AATACC
*
3320028 CATGGTCA
126 CATGATCA
3320036 TAAATCAACGAGTTATAAAA
1 TAAATCAACGAGTT-TAAAA
3320056 CTGAAATTTT
Statistics
Matches: 125, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
133 4 0.03
134 116 0.93
135 5 0.04
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.32
Consensus pattern (133 bp):
TAAATCAACGAGTTTAAAAATGACAGTTGTGATATTAAATCAATGAATGTCTTAAGTAGAGTTGC
GATCATAAATTGGCTAACTCTTAATGAAGTGATCAAGATACTAAATCAATGAACAATACCCATGA
TCA
Found at i:3325684 original size:549 final size:534
Alignment explanation
Indices: 3324406--3326890 Score: 2012
Period size: 549 Copynumber: 4.6 Consensus size: 534
3324396 TAAGGAGAAG
* * * *
3324406 GTCGTGATTG-AAATTCCA-CTAAAGCTTTTCAGAAAGTTCCCTGTTTCTTTTAGCAGATCATAC
1 GTCGTGATTGTAAA-T-CAGCTGAAGCTTTTCAGAAAGATCCTTGATT-TTTTAGCAGATCAT-C
* * * * * * *
3324469 CATTTAAAGTCTCATTTCAAGCAAACAATTAAGAGAAGTAGCTTCAGCCTCATAATGACTATGTA
62 CATTTCAAG-CTCATTTCAAGGATACGATTAAGAGTAGTAGCTTCAGCCTCACAA-GACAATGTA
* * * * * * *
3324534 ACAAAATTGAGTCTTGTATCTTCTTTCTTT-ATAGGTT-ATTTTTGAGTTCTTCCTCAA-ACGCC
125 ACAAAATTGAGTCCTATATCCTCATTCTTTCA-A-GTTCAGTTTTAAGTTCTTCCTCAACACGCA
* * *** * *
3324596 TATATTCATCATCTCTAGCATCTACTTTGCTCTGAAGGGCCGAGAGGTCAAAATTAGTTAGTTGA
188 TATATTCATCATATCTAGCATCTAATTTGCTCTGAAGGGTAAAGAGGTCAGAATTAGCTAGTTGA
* * * * *
3324661 AAATCATCTCTGGCCATGCTTAGACCTATTTTAGCAAATTTACATTCATTGTGAACAACGAAGAG
253 AAATCATCTCTAGCCATGCTTAGAACTATTTAAGCAAATTTACATTCATTGTGAACAAAGAAAAG
* * * *
3324726 TTCATGATCTTAAATCGATAAAATAAAGACATGGTAGTAAATTAATGAGCTTTAAAAATGAAAGT
318 TTCATGATCTTAAATCAATAAACTAAGGTCATGGTAGTAAATTAATGAGCTTTAAAAATGAAAGT
* * * *
3324791 TATGATCGTAAATCAGTGAACTGTTTATGTTGAATTGCGACGTAAATCCACGAAGTCTTCATGAT
383 TATGATCGTAAACCAGTGAACTATTTAAGTTGAATTGCAACGTAAATCCACGAAGTCTTCATGAT
* *
3324856 CGTAAATCAACGATCTTTAAAAATAAAAGTTGTGATCCTAAATCTGCAGACCGTGACATTAGTAA
448 CGTAAATCAACGATCTCTAAAAATAAAAGTTATGATCCTAAATCTGCAGACCGTGACATTAGTAA
** *
3324921 AAATAACTGTTGTAATCTTAAA
513 AAATAACAATTGTAATCCTAAA
* * * *
3324943 TTTGTGATTGTAAATCAGCTGAAGCTTTTTAGAAAGATCCTTGATTTTTTAGCAGATTAATCCAT
1 GTCGTGATTGTAAATCAGCTGAAGCTTTTCAGAAAGATCCTTGATTTTTTAGCAGA-TCATCCAT
* *
3325008 TTCAAGCTCATTTCAAGGATACGATTAAGAGTAATAGCTTCAGCCTCACAAACACAATGTAACAA
65 TTCAAGCTCATTTCAAGGATACGATTAAGAGTAGTAGCTTCAGCCTCAC-AAGACAATGTAACAA
* *
3325073 AATTGAGTCCTATATCCTCATTCATTCAAGTTCAGCTTTAAGTTCTTCCTCAACACGCATATATT
129 AATTGAGTCCTATATCCTCATTCTTTCAAGTTCAGTTTTAAGTTCTTCCTCAACACGCATATATT
* *
3325138 CACCATAGT-TAGCATCTAATTTGCTCTGAAGGGTAAAGAGGCCAGAATTAGCTAGTTGAAAATC
194 CATCATA-TCTAGCATCTAATTTGCTCTGAAGGGTAAAGAGGTCAGAATTAGCTAGTTGAAAATC
* *
3325202 ATCTCTAGCCACGCTTAGAACTATTTAAG-AATATTTACGTTCATTGTGAACAAAGAAAAGTTCA
258 ATCTCTAGCCATGCTTAGAACTATTTAAGCAA-ATTTACATTCATTGTGAACAAAGAAAAGTTCA
* * *
3325266 TGATCTTAAATCAATGAACTAAGGTCATGGTTGTAAATTAATGAGCTTTAAAAAT-AATAGTTGT
322 TGATCTTAAATCAATAAACTAAGGTCATGGTAGTAAATTAATGAGCTTTAAAAATGAA-AGTTAT
* *
3325330 GATCGTAAACCAGTGAATTATTTAAGTT-AAGTTGCAATCGTAAATCGATGAACTGTTGATGAAG
386 GATCGTAAACCAGTGAACTATTTAAGTTGAA-TTGCAA-CGTAAATC------C-----ACGAAG
* * * *
3325394 TGTTCATGATTGTAAATCAGCGAGT-TCTAAAAATAAAAGTTATGATCCTAAATCTG-TGAACCG
438 TCTTCATGATCGTAAATCAACGA-TCTCTAAAAATAAAAGTTATGATCCTAAATCTGCAG-ACCG
*
3325457 TGATATTAGTAAAAATGAA-AATTGTAATCCTAAA
501 TGACATTAGTAAAAAT-AACAATTGTAATCCTAAA
* *
3325491 GTCGTGATTGTAAATCAGTTGAAGCTTTTCAGAAAGATCGTTGATTTTTTGAGCAGATCGATCCA
1 GTCGTGATTGTAAATCAGCTGAAGCTTTTCAGAAAGATCCTTGATTTTTT-AGCAGATC-ATCCA
* *
3325556 TTTCAAGCTCATTTCAAGGATACGATTATGAGTAGTAGCTTCACCCTCACATAGACAATGTAACA
64 TTTCAAGCTCATTTCAAGGATACGATTAAGAGTAGTAGCTTCAGCCTCACA-AGACAATGTAACA
* * *
3325621 AAATTGAGTCCTATATCCTCCTTCTTTCAAGTTCAGTTTTAAGTTCTTTCTCAACATGCATATAT
128 AAATTGAGTCCTATATCCTCATTCTTTCAAGTTCAGTTTTAAGTTCTTCCTCAACACGCATATAT
* * * * * *
3325686 TCATCATATCTAGCATTTAACTTT-CTCTGAAAGGTAAAGGGGTTAGAATAAGCTAGTTGGAAAT
193 TCATCATATCTAGCATCTAA-TTTGCTCTGAAGGGTAAAGAGGTCAGAATTAGCTAGTTGAAAAT
* ** ** * * * * * **
3325750 CATCTCTTGCCATGAATAGAACTAGCTCAGTAAATTTACATTCCTTTTGAACAAGGAATTGTTCA
257 CATCTCTAGCCATGCTTAGAACTATTTAAGCAAATTTACATTCATTGTGAACAAAGAAAAGTTCA
* * * ** * * * * * * *
3325815 TGATCATAAATCAATTAACTGAGGTTGTGATAGTATATCAACGAACTGATT--AAGTG-AAGTTG
322 TGATCTTAAATCAATAAACTAAGGTCATGGTAGTAAATTAATGAGCT--TTAAAAATGAAAGTTA
* * * * * * * * * *
3325877 CGATCCTAAATCA---AA--A-AT-AG-GGAA--AC-TC-TTAAT----GAAGTGTACATGATCG
385 TGATCGTAAACCAGTGAACTATTTAAGTTGAATTGCAACGTAAATCCACGAAGTCTTCATGATCG
* ** * * * * * * ** * *
3325926 TAAAACAGTGAGC-CTTAAAAATGACAGTTGTGATCGTAAATCAGTGGACCGTAAGATTCA-T-A
450 TAAATCAACGATCTC-TAAAAATAAAAGTTATGATCCTAAATCTGCAGACCGTGACATT-AGTAA
* *
3325988 AAAT--C--CTGTAA--GTAGAA
513 AAATAACAATTGTAATCCTA-AA
* * * * * * * *
3326005 GGTCGTGATTGTAATTCCA-CTAAAGCTTTTTAGAAAGTTCATTGTTTCTTTTAGTAGATCAGAC
1 -GTCGTGATTGTAAAT-CAGCTGAAGCTTTTCAGAAAGATCCTTGATT-TTTTAGCAGATCA-TC
* * * * * * * * * *
3326069 CATTTAAAGTCTCATTTCAAGTATACAATTAAAAGAAGTAGCTTCAACTTCATAATGACTATATA
62 CATTTCAAG-CTCATTTCAAGGATACGATTAAGAGTAGTAGCTTCAGCCTCACAA-GACAATGTA
* * * * * * * * *
3326134 ACAAAATTAAGTCTTGTATCTTCTTTCTTTCAAGGTT-AGTTTTGAGTTATTCCTCAATACGCCT
125 ACAAAATTGAGTCCTATATCCTCATTCTTTCAA-GTTCAGTTTTAAGTTCTTCCTCAACACGCAT
** * * * **
3326198 ATATTCATTTTCTCTAGCATCTAATTTGCTTTGAAGGGCAGGGAGGTCAGAA-TAGCTAGTTGAA
189 ATATTCATCATATCTAGCATCTAATTTGCTCTGAAGGGTAAAGAGGTCAGAATTAGCTAGTTGAA
* * *
3326262 AATCATCTCTGGCCACGCTTAGAACTATTTTAGCAAATTTACATTCATTGTGAACAAA-AAAGAG
254 AATCATCTCTAGCCATGCTTAGAACTATTTAAGCAAATTTACATTCATTGTGAACAAAGAAA-AG
* * * * * * *
3326326 TTCATGATCTTAAATCGATGAACTAAAGACATGGTTGTAAATCAATGAGCTTTAAAAATGACAGT
318 TTCATGATCTTAAATCAATAAACTAAGGTCATGGTAGTAAATTAATGAGCTTTAAAAATGAAAGT
* ** ** * * * * *
3326391 TATGATTGTAAATTAGCAAACTGTTTAAGTTGAGTTACGACCGTAAATCCGCAAATTGTTAATAA
383 TATGATCGTAAACCAGTGAACTATTTAAGTTGAATTGC-AACGTAAAT-C-C--A-CG------A
* * * * * * * * * *
3326456 AGTGTTCATGATCGTAAATTAGCGAGCTTTAAAAATGAAAGTTGTGATCATAAATCTGCGGACCA
436 AGTCTTCATGATCGTAAATCAACGATCTCTAAAAATAAAAGTTATGATCCTAAATCTGCAGACCG
* * *
3326521 TGACATTAGTAAAAATGACAGTTTTAATCCTAAA
501 TGACATTAGTAAAAATAACAATTGTAATCCTAAA
* * * * * *
3326555 GTCATGATTGTAAATCAACTAAAGCTTTTTAGAAAGATCCTTGACTTTTTGAGCAGATTGATCCA
1 GTCGTGATTGTAAATCAGCTGAAGCTTTTCAGAAAGATCCTTGA-TTTTTTAGCAGA-TCATCCA
* *
3326620 TTTCAAGCTCATTTCAAGGATACGATTAAGAGTAATAGCTTCAGCATCACAAAGACAATGTAACA
64 TTTCAAGCTCATTTCAAGGATACGATTAAGAGTAGTAGCTTCAGCCTCAC-AAGACAATGTAACA
* *
3326685 AAATTGAGT-CTAATATCCTC---CTTTCAAGTTCAGTTTTAAGCTCTTCCTCAACACCCATATA
128 AAATTGAGTCCT-ATATCCTCATTCTTTCAAGTTCAGTTTTAAGTTCTTCCTCAACACGCATATA
* * * * * * *
3326746 TTCACCATATCTAGCATCCAACTTT-CTTTGAATGGCAGAGGGGTCAGAA-TACGCTAGTTGAAA
192 TTCATCATATCTAGCATCTAA-TTTGCTCTGAAGGGTAAAGAGGTCAGAATTA-GCTAGTTGAAA
* **** * * ** * **
3326809 ATCATCTCTTGCCAAAAATAGAACTAGTTCAGCAAATTTACATTCCCTGTGAACCAAGAAGTGTT
255 ATCATCTCTAGCCATGCTTAGAACTATTTAAGCAAATTTACATTCATTGTGAACAAAGAAAAGTT
**
3326874 CATGATCGAAAATCAAT
320 CATGATCTTAAATCAAT
3326891 GAATTGAAGT
Statistics
Matches: 1561, Mismatches: 287, Indels: 191
0.77 0.14 0.09
Matches are distributed among these distances:
513 4 0.00
514 5 0.00
515 161 0.10
516 148 0.09
517 3 0.00
519 8 0.01
520 57 0.04
521 2 0.00
522 1 0.00
523 2 0.00
524 2 0.00
526 2 0.00
528 1 0.00
529 4 0.00
534 3 0.00
535 97 0.06
536 225 0.14
537 44 0.03
538 5 0.00
541 4 0.00
542 1 0.00
543 3 0.00
544 64 0.04
545 77 0.05
546 78 0.05
547 5 0.00
548 209 0.13
549 331 0.21
550 11 0.01
551 4 0.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (534 bp):
GTCGTGATTGTAAATCAGCTGAAGCTTTTCAGAAAGATCCTTGATTTTTTAGCAGATCATCCATT
TCAAGCTCATTTCAAGGATACGATTAAGAGTAGTAGCTTCAGCCTCACAAGACAATGTAACAAAA
TTGAGTCCTATATCCTCATTCTTTCAAGTTCAGTTTTAAGTTCTTCCTCAACACGCATATATTCA
TCATATCTAGCATCTAATTTGCTCTGAAGGGTAAAGAGGTCAGAATTAGCTAGTTGAAAATCATC
TCTAGCCATGCTTAGAACTATTTAAGCAAATTTACATTCATTGTGAACAAAGAAAAGTTCATGAT
CTTAAATCAATAAACTAAGGTCATGGTAGTAAATTAATGAGCTTTAAAAATGAAAGTTATGATCG
TAAACCAGTGAACTATTTAAGTTGAATTGCAACGTAAATCCACGAAGTCTTCATGATCGTAAATC
AACGATCTCTAAAAATAAAAGTTATGATCCTAAATCTGCAGACCGTGACATTAGTAAAAATAACA
ATTGTAATCCTAAA
Found at i:3328815 original size:948 final size:930
Alignment explanation
Indices: 3327153--3328934 Score: 2514
Period size: 948 Copynumber: 1.9 Consensus size: 930
3327143 TTTAAAGTCT
* *
3327153 TATGTAACAAAATTGAGTCTTGTATATTCTTTCTTTCAAGGTTAGTTTTGAGCTTGTCCTCAACA
1 TATGTAACAAAATTGAGTCTTGTATATTATTTCTTTCAAGGTTAGTTTTGAGCTTCTCCTCAACA
* *
3327218 CACAAATATTCATCATCTCTAGCATCTAATTTGCTCTGAAGGGTAGAGAGGTTACAATTAGATAG
66 CACAAATATTCATCATCTCTAGCATCTAATTTGCTCTGAAGGGCAGAGAGGTTAAAATTAGATAG
* ** *
3327283 TAGAAAATCATCTCTGGCCACGTTTAGAACTATTTAGCAAATTTACATTCATTATGAACAAAAAA
131 TAGAAAATCATCTCTAGCCACACTAAGAACTATTTAGCAAATTTACATTCATTATGAACAAAAAA
** * *
3327348 GAGTTCATGATCTTAAATCAATGAACTAAAGTCATGGTTGTAAATCAACAAGTTTAAAAATGATA
196 GAGTTCATGATCTTAAATCAATGAACTAAAGTCATGGTTGTAAATCAACAACATTAAAAATAACA
* * * * **
3327413 GTTGTGATCGTAAATCAGCGAACTGTTTAAGTTTAGTTGCGATCGTAAATCAACGAAGTATTGAT
261 GTTGTGATCGTAAACCAACGAACTGTTTAAGTTAAGTTGCGATCGTAAATCAACGAACTACGGAT
* * *
3327478 GAAGTGTTCATGATCGTAAATCAGCGAGCTTTAACAATGAAATTTATAATTCTAAACATTAGTAA
326 GAAGTGTTCATGATCGTAAATCAACGAGCTTTAACAATGAAATTTATAAATCTAAACATTAGCAA
** * ** *
3327543 AAATGACAGTTGTGTTCATAAAGTCGTGATTGTAAATTGGCTGAAGCTTTTTAGAAAGATCCTTG
391 AAATGACAGTTGTAATCATAAAGTCATGATTGTAAATCAGCTGAAGCTTTTTAGAAAGACCCTTG
** * * *
3327608 TTTTTTTGGGTAGATCGATCCATTTCAAGCTCATTTCAAGGATATGATTAAGAGTAGTAGTTTCA
456 TTTTTTTAAGCAGATCGATCCATTTCAAGCTCATTTCAAGGATACGATTAAGAGTAGTAGCTTCA
3327673 GCCTCACAAACAATGTAACAAAAATGAGTCCTATATCCTCCTTCTTTCAAGTTCAGTTTTAAGTT
521 GCCTCACAAACAATGTAACAAAAATGAGTCCTATATCCTCCTTCTTTCAAGTTCAGTTTTAAGTT
* * * *
3327738 CTTCCTCAACAAGCATATATTTATCATCTCTAGCATCTAATTTGCTCTAAAAGGCAGAGAGGTCA
586 CTTCCTCAACAAGCATATATTCACCATATCTAGAATCTAATTTGCTCTAAAAGGCAGAGAGGTCA
* *
3327803 GAATAAGCTAGTTGAAAATCATCTATTGCCATGAATAGAGCTAGTTTAGCAAATTTACATTCCTT
651 GAATAAGCTAGTTGAAAATCATCTATTGCCATGAATAGAACTAGTTCAGCAAATTTACATTCCTT
* * * * ** * *
3327868 ATGAACCAAGAAGTGTTCAGGGTCGTAAATCAATAAACTGAAGTTGTGATCATAAATCAACGAAC
716 ACGAACCAAAAAGTGTTCAAGATCAAAAATCAATAAACTAAAGTTGTAATCATAAATCAACGAAC
* * *
3327933 CAATTAAGAGAAGTTCCGATCATAAATCAGAAA-ATAGGGAAACTCTTAATGAAGTGTTTAGAAA
781 CAATTAAGAGAAGTTCCAATCATAAATAAGAAATATA--GAAACTCTTAAGGAAGTGTTTAGAAA
3327997 GTTCCGTGTTTTTTTTAGCAGATCAGACCATTTAAAGTCTCATTTCAAGCATACAGTTAAGAAAA
844 GTTCCGTGTTTTTTTTAGCAGATCAGACCATTTAAAGTCTCATTTCAAGCATACAGTTAAGAAAA
3328062 GTAGCTTCAGCCTCTTAATGAC
909 GTAGCTTCAGCCTCTTAATGAC
*
3328084 TATGTAACAAAATTGAGTCTTGTATCTTATTTCTTTCAAGGTTAGTTTTGAG-TTCTCCCTCAAC
1 TATGTAACAAAATTGAGTCTTGTATATTATTTCTTTCAAGGTTAGTTTTGAGCTTCT-CCTCAAC
** ** * * *
3328148 ATGCCTATATTCATCATCTCTAGCATCTAATTTGTTCTGAAGGGCAGAGAGGTTAAAATTAGCTT
65 ACACAAATATTCATCATCTCTAGCATCTAATTTGCTCTGAAGGGCAGAGAGGTTAAAATTAGATA
* *
3328213 GTTGAAAATCATCTCTAGCCACACTAAGAACTATTTAAG-AATATTTACATTCATTGTGAACAAA
130 GTAGAAAATCATCTCTAGCCACACTAAGAACTATTT-AGCAA-ATTTACATTCATTATGAACAAA
* *
3328277 GAAA-AGTTCATGATCTTAAATCAATGAACTAAGGTCATGGTTTTAAATCAACGAACATTAAAAA
193 -AAAGAGTTCATGATCTTAAATCAATGAACTAAAGTCATGGTTGTAAATCAAC-AACATTAAAAA
* * *
3328341 TAACAGTTGTGATCGTAAACCAACGAACTGTTTAAGTTAAGTTGCGATCGTAAATCGATGAACTG
256 TAACAGTTGTGATCGTAAACCAACGAACTGTTTAAGTTAAGTTGCGATCGTAAATCAACGAACTA
3328406 CGGATGAAGTGTTCATGATCGTAAATCAACGAGCTTTAA-AATGAAAGTTTTGATCCTAAATCTG
321 CGGATGAAGTGTTCATGATCGTAAATCAACGAGCTTTAACAATGAAA--TTT-A---TAAATCT-
* * *
3328470 CAGATCGTGACATTAGCAAAAATGACATTTGTAATCCTAAAGTCATGATTGTAAATCAGTTGAAG
379 -A-A-----ACATTAGCAAAAATGACAGTTGTAATCATAAAGTCATGATTGTAAATCAGCTGAAG
*
3328535 GTTTTTAGAAAGACCCTTGTTTTTTTAAGCAGATCGATCCATTTCAAGCTCATTTCAAGGATACG
437 CTTTTTAGAAAGACCCTTGTTTTTTTAAGCAGATCGATCCATTTCAAGCTCATTTCAAGGATACG
* * *
3328600 ATTAAGAGTAGTAGCTTCAGCCTCACATAGACAATGTAACAAAATTGAGTCTTATATCCTTCTTC
502 ATTAAGAGTAGTAGCTTCAGCCTCACA-A-ACAATGTAACAAAAATGAGTCCTATATCCTCCTTC
* *
3328665 TTTCAAGTTCAGTTTTAAGTTCTTCCTCAACACGCATATATTCACCATATCTATAATCTAACTTT
565 TTTCAAGTTCAGTTTTAAGTTCTTCCTCAACAAGCATATATTCACCATATCTAGAATCTAA-TTT
* * * * * *
3328730 -CTTTAAAGGGCAGAGGGGTTAGAATAAGCTAGTTGAAAATCTTCTCTTGCCATGAATAGAACTA
629 GCTCTAAAAGGCAGAGAGGTCAGAATAAGCTAGTTGAAAATCATCTATTGCCATGAATAGAACTA
* *
3328794 GTTCAGCAAATTTACATTCCTTGCGAACCAAAAAGTGTTCAAGATCAAAAATCAATGAACTAAAG
694 GTTCAGCAAATTTACATTCCTTACGAACCAAAAAGTGTTCAAGATCAAAAATCAATAAACTAAAG
* * ** * * *
3328859 TTGTAATCGTAAATCAATGAACTGATTAAGTGAAGTTGCAATCATAAATAAGAAATCTAGAAACT
759 TTGTAATCATAAATCAACGAACCAATTAAGAGAAGTTCCAATCATAAATAAGAAATATAGAAACT
3328924 CTTAAGGAAGT
824 CTTAAGGAAGT
3328935 TTTCGTGATT
Statistics
Matches: 740, Mismatches: 88, Indels: 30
0.86 0.10 0.03
Matches are distributed among these distances:
930 3 0.00
931 146 0.20
932 76 0.10
933 104 0.14
934 3 0.00
935 1 0.00
938 6 0.01
940 1 0.00
941 1 0.00
946 132 0.18
947 17 0.02
948 245 0.33
949 5 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (930 bp):
TATGTAACAAAATTGAGTCTTGTATATTATTTCTTTCAAGGTTAGTTTTGAGCTTCTCCTCAACA
CACAAATATTCATCATCTCTAGCATCTAATTTGCTCTGAAGGGCAGAGAGGTTAAAATTAGATAG
TAGAAAATCATCTCTAGCCACACTAAGAACTATTTAGCAAATTTACATTCATTATGAACAAAAAA
GAGTTCATGATCTTAAATCAATGAACTAAAGTCATGGTTGTAAATCAACAACATTAAAAATAACA
GTTGTGATCGTAAACCAACGAACTGTTTAAGTTAAGTTGCGATCGTAAATCAACGAACTACGGAT
GAAGTGTTCATGATCGTAAATCAACGAGCTTTAACAATGAAATTTATAAATCTAAACATTAGCAA
AAATGACAGTTGTAATCATAAAGTCATGATTGTAAATCAGCTGAAGCTTTTTAGAAAGACCCTTG
TTTTTTTAAGCAGATCGATCCATTTCAAGCTCATTTCAAGGATACGATTAAGAGTAGTAGCTTCA
GCCTCACAAACAATGTAACAAAAATGAGTCCTATATCCTCCTTCTTTCAAGTTCAGTTTTAAGTT
CTTCCTCAACAAGCATATATTCACCATATCTAGAATCTAATTTGCTCTAAAAGGCAGAGAGGTCA
GAATAAGCTAGTTGAAAATCATCTATTGCCATGAATAGAACTAGTTCAGCAAATTTACATTCCTT
ACGAACCAAAAAGTGTTCAAGATCAAAAATCAATAAACTAAAGTTGTAATCATAAATCAACGAAC
CAATTAAGAGAAGTTCCAATCATAAATAAGAAATATAGAAACTCTTAAGGAAGTGTTTAGAAAGT
TCCGTGTTTTTTTTAGCAGATCAGACCATTTAAAGTCTCATTTCAAGCATACAGTTAAGAAAAGT
AGCTTCAGCCTCTTAATGAC
Found at i:3331140 original size:287 final size:288
Alignment explanation
Indices: 3330612--3331181 Score: 786
Period size: 287 Copynumber: 2.0 Consensus size: 288
3330602 TAAATTAATG
* *
3330612 AACTGAAGTTGTGATAGTAAATCAACAAACTAATTAAGTGAAGTTGCGATCATAAATGAAAAATC
1 AACTGAAGTTGTGATAGTAAATCAACAAACTAATTAAGTGAAATTGCGATCATAAATAAAAAATC
* * * * **
3330677 GAGAAACTCTTAATGAAGTGTTCATGATCGTAAATCAGCGAGCATCAAATATTACAATTATGATC
66 GAGAAACTCTTAACGAAATGTTCATGATCGTAAATCAACGAGCATCAAAAAAGACAATTATGATC
* * * * *
3330742 GTAAATTAGTGGACCGTAAGATTCATAAAATCCTGTAAGTAGAATGTCGTGATTGCAATTCCGCT
131 GTAAATTAGCGGACCGTAAGATTCATAAAATCCTATAAGTAGAAGGTCATGATTGCAATTCCACT
* * * *
3330807 GAAGCTTTTTAGAAAGTTCCTTGTTTCTTTTAGCAGATTAGACCATTT-ATAGTCTCA-TTTCAA
196 GAAGCTTTTCAGAAAGTTACTGGTTTCTTTTACCAGATTAGACCATTTAAT-GTCTCATTTTCAA
3330870 ACATACAATTAAGAGAAGTAGCTTCAGCA
260 ACATACAATTAAGAGAAGTAGCTTCAGCA
* * ** *
3330899 AACTGAAGTTGTGATAGTAAATCAACGAACTGATTTGGTGAAATTGCGATCATAAATAAAAAATT
1 AACTGAAGTTGTGATAGTAAATCAACAAACTAATTAAGTGAAATTGCGATCATAAATAAAAAATC
* * * * *
3330964 GGGAAACTCTTAACGAAATGTTCATGATCGTAAATCAATGAGCCTCAAAAAAGAGAATTGTGATC
66 GAGAAACTCTTAACGAAATGTTCATGATCGTAAATCAACGAGCATCAAAAAAGACAATTATGATC
* * * *
3331029 GTAAATTAGCGGACCGTGAGATTCATAAAATCCTATAAGTATAAGGTCATGATTGTAATTTCACT
131 GTAAATTAGCGGACCGTAAGATTCATAAAATCCTATAAGTAGAAGGTCATGATTGCAATTCCACT
* * *
3331094 GAAGCTTTTCAGAAAGTTACTCGGTTT-TTTTTCCAGATTGGACCATTTAATGTCTCATTTTGAA
196 GAAGCTTTTCAGAAAGTTACT-GGTTTCTTTTACCAGATTAGACCATTTAATGTCTCATTTTCAA
*
3331158 GCATACAATTAAGAGAAGTAGCTT
260 ACATACAATTAAGAGAAGTAGCTT
3331182 AAACCTCATA
Statistics
Matches: 245, Mismatches: 35, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
287 211 0.86
288 34 0.14
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (288 bp):
AACTGAAGTTGTGATAGTAAATCAACAAACTAATTAAGTGAAATTGCGATCATAAATAAAAAATC
GAGAAACTCTTAACGAAATGTTCATGATCGTAAATCAACGAGCATCAAAAAAGACAATTATGATC
GTAAATTAGCGGACCGTAAGATTCATAAAATCCTATAAGTAGAAGGTCATGATTGCAATTCCACT
GAAGCTTTTCAGAAAGTTACTGGTTTCTTTTACCAGATTAGACCATTTAATGTCTCATTTTCAAA
CATACAATTAAGAGAAGTAGCTTCAGCA
Found at i:3332878 original size:568 final size:568
Alignment explanation
Indices: 3331622--3332902 Score: 1265
Period size: 568 Copynumber: 2.2 Consensus size: 568
3331612 TTGTAATCCT
* *
3331622 AAAGTCATGACTGTAAATTAGCTGAAGCTTTTTAGAAAGATCCTTGTGTTTTTT-AGTAGATCGA
1 AAAGTCATGATTGTAAATTAGCTGAAGC-TTTTA-AAAGATCCTTGT-TTTTTTAAGTAGATCAA
* * *
3331686 TCCATTTCAAGCTCATTTCAAGGATACGATTAAGAGTAGTAGCTTCAGCCTCACAAAGACAATGT
63 TCCATTTCAAGCTCATTTCAAGCATACGATTAAGAGAAGTAGCTTTAGCCTCACAAAGACAATGT
* * * *
3331751 AACAAAATTGAGCCCTATATCCTCCTTCTTGCAAGTTCATTTTTAAGTTCTTCCTCAACACGCAT
128 AACAAAATTGAGCCCTATATCCT-CTTATTGCAAGGTCAATTTTAAGTTCATCCTCAACACGCAT
* * * * * *
3331816 ATATTCAACATATCTAGCATCTAACTTTCTTTGAAAGGCAGAGGGGTCAGAAAAAGCTAGTTGAA
192 ATAATCAACATATCTAACATCTAACTTGCTCTAAAAGGCAGAGAGGTCAGAAAAAGCTAGTTGAA
* * ** * **
3331881 AATCATCTTTGCCCATGATTATTATTAGTTTGCAAAATTTACATTCCTTGTGAACTAAGAATTGT
257 AATAATCTTTGCCCAAGATTAGAACTAGTTTGCAAAATTTACATTCCTTGTGAACTAAGAAGCGT
* * * * * *
3331946 TCATGATCGTAAGTTAATTAACTGAAGTCGTGATTGTAAATCAACGAGCTTTAAAAATGACAGTT
322 TCATGATCATAAATCAATGAACTGAAGTCGTGATTATAAATCAACGAGCTTTAAAAATGACAGAT
**** * *
3332011 GTGAACGTAAATCTTTGAACTACTTAAGTGAAGTTGCGGTCATAAATTGACGAACATTTAATGGA
387 GTGAACGTAAATCAACAAACTACTTAAGTGAAGTTGCGATCATAAATTGACGAACATTTAATGAA
* * * * *
3332076 GTTTTCATGATCGTAAATCAATGAACAGAAGTCATGACTGTAAATTCGTGAGGTTTAAAAATGAC
452 GTGTTCATGATAGTAAATCAATAAACAGAAGCCATGACTGTAAATTCGTGAGCTTTAAAAATGAC
** * *
3332141 AGTTTTGATCGTAAATCAGTAGACTGTGAGATTCATAAAATTCTATAAGTAG
517 AAATATGATCGTAAATCAGTAGACTGTGAGATACATAAAATTCTATAAGTAG
* ** * * **
3332193 AAAGTCGTGATCCT-AATTCAGCTGAAGCATTTAAGAAGGTTCCTTGTTTTTAGAA-TAGATCAA
1 AAAGTCATGATTGTAAATT-AGCTGAAGCTTTTAA-AA-GATCCTTGTTTTTTTAAGTAGATCAA
** * * * ** *
3332256 TCCAAATCAAGCCTCATTT-TAGACGTACTATTTTGTA-AAATAG-TTTCAGCCTCACAAAGACA
63 TCCATTTCAAG-CTCATTTCAAG-CATACGATTAAG-AGAAGTAGCTTT-AGCCTCACAAAGACA
* ** * ** *
3332318 ATGTAAAAAAATTGATTCCTCTAT-CT-TTATTTTAAGGTCAATTTTGAGTTCATCCTCAACACG
124 ATGTAACAAAATTGAGCCCTATATCCTCTTATTGCAAGGTCAATTTTAAGTTCATCCTCAACACG
* * * * * ** *
3332381 CCTATAATCATCATGTTTAACATCTAACTTGCTCTAAAAGGCATG-GAGGTTAGAATTAGTTAGT
189 CATATAATCAACATATCTAACATCTAACTTGCTCTAAAAGGCA-GAGAGGTCAGAAAAAGCTAGT
* * *
3332445 TGAAAATTAAT-TTTGGCCAAGCTTGGAACTAG-TT-CATCAAATTTACATTCCTTGTGAAGC-A
253 TGAAAA-TAATCTTTGCCCAAGATTAGAACTAGTTTGCA--AAATTTACATTCCTTGTGAA-CTA
* * * *
3332506 AGAAGCGTTCATGATCATAAATCAATGAACTGAAGTTGTGATTATAAATTAGC-ATGTTTTAAAA
314 AGAAGCGTTCATGATCATAAATCAATGAACTGAAGTCGTGATTATAAATCAACGA-GCTTTAAAA
* * * * **
3332570 ATGACAGATGTGATCGTAAATCAACAAACTATTTGAGTTAAGTTGCGATCATAAATTGTTGAAC-
378 ATGACAGATGTGAACGTAAATCAACAAACTACTTAAGTGAAGTTGCGATCATAAATTGACGAACA
* * *
3332634 TCTTGATGAAGTGTTCATGATAGTAAATCTATAAACTA-AAGCCGTGA-TAGTAAA-TCAGTGAG
443 T-TTAATGAAGTGTTCATGATAGTAAATCAATAAAC-AGAAGCCATGACT-GTAAATTC-GTGAG
* * *
3332696 CTTTAAAAATGACAAATATGATCGTCAAT-ATGTGGA-TCGTGAGATACGTAAAA-TCTTATAAG
504 CTTTAAAAATGACAAATATGATCGTAAATCA-GTAGACT-GTGAGATACATAAAATTC-TATAAG
3332758 TAG
566 TAG
* * *
3332761 AAGGTCATGATTGTAAATTAAG-TTAAGCTTTTCGAAAAGATCCTTGTTTTTTTAAGTAGATCTA
1 AAAGTCATGATTGTAAATT-AGCTGAAGCTTTT--AAAAGATCCTTGTTTTTTTAAGTAGATCAA
* ** * *
3332825 TCCATTTCAAGTTGGTTTCAAGCATACGGTTAAGAGAAGTAGCTTTAGCCTCACAAAGAAAATGT
63 TCCATTTCAAGCTCATTTCAAGCATACGATTAAGAGAAGTAGCTTTAGCCTCACAAAGACAATGT
3332890 AACAAAATTGAGC
128 AACAAAATTGAGC
3332903 ATCTAACTTG
Statistics
Matches: 563, Mismatches: 119, Indels: 59
0.76 0.16 0.08
Matches are distributed among these distances:
566 2 0.00
567 12 0.02
568 393 0.70
569 36 0.06
570 38 0.07
571 81 0.14
572 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (568 bp):
AAAGTCATGATTGTAAATTAGCTGAAGCTTTTAAAAGATCCTTGTTTTTTTAAGTAGATCAATCC
ATTTCAAGCTCATTTCAAGCATACGATTAAGAGAAGTAGCTTTAGCCTCACAAAGACAATGTAAC
AAAATTGAGCCCTATATCCTCTTATTGCAAGGTCAATTTTAAGTTCATCCTCAACACGCATATAA
TCAACATATCTAACATCTAACTTGCTCTAAAAGGCAGAGAGGTCAGAAAAAGCTAGTTGAAAATA
ATCTTTGCCCAAGATTAGAACTAGTTTGCAAAATTTACATTCCTTGTGAACTAAGAAGCGTTCAT
GATCATAAATCAATGAACTGAAGTCGTGATTATAAATCAACGAGCTTTAAAAATGACAGATGTGA
ACGTAAATCAACAAACTACTTAAGTGAAGTTGCGATCATAAATTGACGAACATTTAATGAAGTGT
TCATGATAGTAAATCAATAAACAGAAGCCATGACTGTAAATTCGTGAGCTTTAAAAATGACAAAT
ATGATCGTAAATCAGTAGACTGTGAGATACATAAAATTCTATAAGTAG
Found at i:3334592 original size:346 final size:347
Alignment explanation
Indices: 3334036--3334669 Score: 787
Period size: 346 Copynumber: 1.8 Consensus size: 347
3334026 AGTTAAGTGT
* * ** *
3334036 AGTAGCTTCAATCTCACAATGACAATGTAACAAAATTGACTCCTCTATCCTCCTTCTTTCAAGCT
1 AGTAGCTTCAACCTCACAAAGACAATAAAACAAAATTGACTCCTCTATCCTCCATCTTTCAAGCT
* ** * * ***
3334101 CAGTTTTGAGTTCTTTCTCACCACGCTTATACCAATCATCTCTAGCATCTAACTTGCTTTGGAAG
66 CAGTTTTAAGTTCGGTCTCAACACGCCTATACCAATCATCTCTAGCATCTAACTTGCTTCAAAAG
* * * ***
3334166 GCAGAGAGGTCAAAATTATCTAGTTGAAAACCATCTCTGGCAATGCTTAGAACTAGTTTAGCAAA
131 GCAGAGAGGTCAAAATTAGCTAGTTGAAAACCATCTCTGGCAACGCTTAGAAATAGGCCAGCAAA
** * *
3334231 TTTACATTCCTTGTGA-ACCAAA-AAGAGTTCATGATCA-TAAATAAATTAACTAAAGCCGTTAT
196 AGTACATTCCTTGTGAGA--AAAGAAGAGTTCATGAT-AGTAAATAAATTAACTAAAGACGTGAT
* *
3334293 TGTAAATCATCAAGCTTTAAAAATGACAGTTCCTTTCTTTTTGAGAAAATCTATCCATTTAAGCC
258 TGTAAATAAACAAGCTTTAAAAATGACAGTTCCTTTCTTTTTGAGAAAATCTATCCATTTAAGCC
3334358 TCGTTTCAAACGTACGGTGAAGAAA
323 TCGTTTCAAACGTACGGTGAAGAAA
* *
3334383 AGTAGCTTCAGCCTCACAAAGACAATAAAAC-AAATTGATTCCTCTA-CGCTCCATCTTTCAAGC
1 AGTAGCTTCAACCTCACAAAGACAATAAAACAAAATTGACTCCTCTATC-CTCCATCTTTCAAGC
* * *
3334446 TCAGTTTTAAGTTCGGTCTCAACACGCCTATATTC-ATCATCTCTGGCATTTAACTTGC-TCAAA
65 TCAGTTTTAAGTTCGGTCTCAACACGCCTATA-CCAATCATCTCTAGCATCTAACTTGCTTCAAA
* * * * *
3334509 AGGACAGAGAGGTCAGACTTAGCTAGTTGAAAATCATCTCTGGCTACGCTTGGAAATAGGCCAGC
129 AGG-CAGAGAGGTCAAAATTAGCTAGTTGAAAACCATCTCTGGCAACGCTTAGAAATAGGCCAGC
* ** * * *
3334574 AAAAGTACATTTCTTGTGAGAAAAGAAGTTTTTATGATAGTAAATCAATTAACTGAAGACGTGAT
193 AAAAGTACATTCCTTGTGAGAAAAGAAGAGTTCATGATAGTAAATAAATTAACTAAAGACGTGAT
*
3334639 TGTAAATAAACGAGCTTTAAAAATGACAGTT
258 TGTAAATAAACAAGCTTTAAAAATGACAGTT
3334670 ATGGTCGTAA
Statistics
Matches: 239, Mismatches: 42, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
345 10 0.04
346 201 0.84
347 28 0.12
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (347 bp):
AGTAGCTTCAACCTCACAAAGACAATAAAACAAAATTGACTCCTCTATCCTCCATCTTTCAAGCT
CAGTTTTAAGTTCGGTCTCAACACGCCTATACCAATCATCTCTAGCATCTAACTTGCTTCAAAAG
GCAGAGAGGTCAAAATTAGCTAGTTGAAAACCATCTCTGGCAACGCTTAGAAATAGGCCAGCAAA
AGTACATTCCTTGTGAGAAAAGAAGAGTTCATGATAGTAAATAAATTAACTAAAGACGTGATTGT
AAATAAACAAGCTTTAAAAATGACAGTTCCTTTCTTTTTGAGAAAATCTATCCATTTAAGCCTCG
TTTCAAACGTACGGTGAAGAAA
Done.