Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 107 of 325
Found at i:34300753 original size:17 final size:17
Alignment explanation
Indices: 34300716--34300752 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
34300706 ATTAAGCTAA
34300716 TTTTAAAGTATTTTATG
1 TTTTAAAGTATTTTATG
*
34300733 TTTTAAATTATTTTAT-
1 TTTTAAAGTATTTTATG
34300749 TTTT
1 TTTT
34300753 TTCTCGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTAAAGTATTTTATG
Found at i:34302543 original size:15 final size:15
Alignment explanation
Indices: 34302523--34302559 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
34302513 CGAGGGTTAG
34302523 ATTATTACTATTACT
1 ATTATTACTATTACT
**
34302538 ATTATTTTTATTACT
1 ATTATTACTATTACT
34302553 ATTATTA
1 ATTATTA
34302560 TTACTATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTACTATTACT
Found at i:34314115 original size:45 final size:45
Alignment explanation
Indices: 34314057--34314146 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
34314047 TTCATCTTAT
* * * *
34314057 TCATTTTGTATTTTGGCAAAATGTGCTATCTTGATTAATTTATTC
1 TCATGTTGTATTTTAGCAAAATGTGCTATCGTGATTAATTCATTC
*
34314102 TCATGTTGTATTTTAGCAAAATTTGCTATCGTGATTAATTCATTC
1 TCATGTTGTATTTTAGCAAAATGTGCTATCGTGATTAATTCATTC
34314147 CGAGCTTTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (45 bp):
TCATGTTGTATTTTAGCAAAATGTGCTATCGTGATTAATTCATTC
Found at i:34314827 original size:89 final size:88
Alignment explanation
Indices: 34314716--34315282 Score: 460
Period size: 89 Copynumber: 6.4 Consensus size: 88
34314706 TACCATGGCG
* * * * * *
34314716 AATCTTATCTCCCTGAAGTTGCAGTGTAGCAGATTGATGTCACAAACCTTATCTCTCTAAAGTTG
1 AATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAACCTTATCTCCCTGAAGTTG
* * *
34314781 TAGTGGAACAGGTTAAAAATAACA
66 CAGTGGAGCAGGTT-AAAGTAACA
* * * *
34314805 AATCTTATCACCCTGAAGTTGCAGTGGGGTAGATTGTAGTTACAGATCC-TATCTCCCTGAAGTT
1 AATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA-AACCTTATCTCCCTGAAGTT
* ** *
34314869 GCAGTGGAGTAGGTCGAAGTTAGCA
65 GCAGTGGAGCAGGTTAAAG-TAACA
* * * * * *
34314894 AACCTTATCCCCCTAAAGTTGCAGTGGAGTAGGTTGAAGTTAGCAAACCTTATCCCCCTGAAGTT
1 AATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAACCTTATCTCCCTGAAGTT
* * *
34314959 GCAATGGAGCAGGTTGAAGTTACA
65 GCAGTGGAGCAGGTTAAAGTAACA
* * *
34314983 AATCTTATCTCCCT-AGAGTTGCAGTGGAGCAGACTGAAAGTTACAAACTTTATCTCCCTGAAGT
1 AATCTTATCACCCTGA-AGTTGCAGTGGAGCAGATTG-AAGTTACAAACCTTATCTCCCTGAAGT
* *
34315047 TGCAGTGGAGCAGGTTGAAGTTACA
64 TGCAGTGGAGCAGGTTAAAGTAACA
* * * * * * * **
34315072 AATCTTATCTA-TCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAATCTTATCTATCTGAAGTT
1 AATCTTATC-ACCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAACCTTATCTCCCTGAAGTT
* * * * *
34315136 GCAATAGAGTAGATTAAAGCT-ATA
65 GCAGTGGAGCAGGTTAAAG-TAACA
* * * * * *
34315160 AATCTTATCTA-TCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCCCTGAAGTT
1 AATCTTATC-ACCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAACCTTATCTCCCTGAAGTT
* * * * ** *
34315224 GCAGTGGGGTAGATTGAAGCCACT
65 GCAGTGGAGCAGGTTAAAGTAACA
* * * *
34315248 AGTCTTGTCTCCCTGAAGTTGCAGTGGAACAGATT
1 AATCTTATCACCCTGAAGTTGCAGTGGAGCAGATT
34315283 AAAGCTATGA
Statistics
Matches: 394, Mismatches: 73, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
88 145 0.37
89 207 0.53
90 42 0.11
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (88 bp):
AATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAACCTTATCTCCCTGAAGTTG
CAGTGGAGCAGGTTAAAGTAACA
Found at i:34314919 original size:45 final size:44
Alignment explanation
Indices: 34314719--34315275 Score: 452
Period size: 44 Copynumber: 12.6 Consensus size: 44
34314709 CATGGCGAAT
* * * *
34314719 CTTATCTCCCTGAAGTTGCAGTGTAGCAGATTGATGTCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAAC
* * * * * * * *
34314763 CTTATCTCTCTAAAGTTGTAGTGGAACAGGTTAAAAATAACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-GAAGTTACAAAC
* * * * * *
34314808 CTTATCACCCTGAAGTTGCAGTGGGGTAGATTGTAGTTACAGATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA-AAC
* *
34314853 C-TATCTCCCTGAAGTTGCAGTGGAGTAGGTCGAAGTTAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAAC
* * *
34314897 CTTATCCCCCTAAAGTTGCAGTGGAGTAGGTTGAAGTTAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAAC
* * *
34314942 CTTATCCCCCTGAAGTTGCAATGGAGCAGGTTGAAGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAAC
**
34314986 CTTATCTCCCT-AGAGTTGCAGTGGAGCAGACTGAAAGTTACAAAC
1 CTTATCTCCCTGA-AGTTGCAGTGGAGCAGGTTG-AAGTTACAAAC
* *
34315031 TTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAAC
** * * * * * * *
34315075 CTTATCTATCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAAC
** * * * * * * * *
34315119 CTTATCTATCTGAAGTTGCAATAGAGTAGATTAAAGCTATAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAAC
** * * * * * *
34315163 CTTATCTATCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAAC
* * * ** * **
34315207 CTTATCTCCCTGAAGTTGCAGTGGGGTAGATTGAAGCCACTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAAC
*
34315251 CTTGTCTCCCTGAAGTTGCAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
34315276 ACAGATTAAA
Statistics
Matches: 435, Mismatches: 71, Indels: 14
0.84 0.14 0.03
Matches are distributed among these distances:
43 1 0.00
44 284 0.65
45 149 0.34
46 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAAC
Found at i:34315881 original size:23 final size:23
Alignment explanation
Indices: 34315854--34315897 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
34315844 GCAGAGAAAT
*
34315854 AACAGTAGCAAAATCAAGTCATG
1 AACAGTAACAAAATCAAGTCATG
34315877 AACAGTAACAAAATCAAGTCA
1 AACAGTAACAAAATCAAGTCA
34315898 AGTGTAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.52, C:0.18, G:0.14, T:0.16
Consensus pattern (23 bp):
AACAGTAACAAAATCAAGTCATG
Found at i:34316920 original size:15 final size:15
Alignment explanation
Indices: 34316900--34316936 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
34316890 CGAGGGTTAG
34316900 ATTATTACTATTACT
1 ATTATTACTATTACT
**
34316915 ATTATTTTTATTACT
1 ATTATTACTATTACT
34316930 ATTATTA
1 ATTATTA
34316937 TTACTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTACTATTACT
Found at i:34316932 original size:12 final size:12
Alignment explanation
Indices: 34316917--34316946 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34316907 CTATTACTAT
34316917 TATTTTTATTAC
1 TATTTTTATTAC
*
34316929 TATTATTATTAC
1 TATTTTTATTAC
34316941 TATTTT
1 TATTTT
34316947 CGTTATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTTTATTAC
Found at i:34317145 original size:44 final size:44
Alignment explanation
Indices: 34317096--34317184 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
34317086 TTATTTATTA
*
34317096 TTTGTATTTGTTATAATTATTATTATTAGTATTATATTTAAAAC
1 TTTGTATTTGTTATAATTATTATTATAAGTATTATATTTAAAAC
34317140 TTTGTATTTGTTATAATTATTATTATAAGTATTATATTTAAAAC
1 TTTGTATTTGTTATAATTATTATTATAAGTATTATATTTAAAAC
34317184 T
1 T
34317185 ACTTTACTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (44 bp):
TTTGTATTTGTTATAATTATTATTATAAGTATTATATTTAAAAC
Found at i:34327518 original size:15 final size:16
Alignment explanation
Indices: 34327498--34327530 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34327488 TAATTTCATG
34327498 TTGAAA-CATATAAAT
1 TTGAAACCATATAAAT
*
34327513 TTGAAACCATATATAT
1 TTGAAACCATATAAAT
34327529 TT
1 TT
34327531 AAAAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (16 bp):
TTGAAACCATATAAAT
Found at i:34327716 original size:9 final size:9
Alignment explanation
Indices: 34327702--34327727 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34327692 CCAACCTATT
34327702 ATTCGAATC
1 ATTCGAATC
34327711 ATTCGAATC
1 ATTCGAATC
34327720 ATTCGAAT
1 ATTCGAAT
34327728 TATAAAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (9 bp):
ATTCGAATC
Found at i:34330835 original size:17 final size:17
Alignment explanation
Indices: 34330765--34330851 Score: 70
Period size: 17 Copynumber: 5.0 Consensus size: 17
34330755 ACAAAAGAAT
34330765 AAAAGAAATGAAAGAATAG
1 AAAAGAAA-GAAAGAA-AG
* **
34330784 AAAAGAAACAAA-ATGTG
1 AAAAGAAAGAAAGA-AAG
* *
34330801 AAACGAAA-ACAGAGAAG
1 AAAAGAAAGAAAGA-AAG
*
34330818 AAAAGAAGGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
34330835 AAAAGAAAGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
34330852 GGAAATTAGG
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
16 2 0.04
17 36 0.68
18 7 0.13
19 8 0.15
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.05
Consensus pattern (17 bp):
AAAAGAAAGAAAGAAAG
Found at i:34330847 original size:13 final size:13
Alignment explanation
Indices: 34330826--34330850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34330816 AGAAAAGAAG
34330826 GAAAGAAAGAAAA
1 GAAAGAAAGAAAA
34330839 GAAAGAAAGAAA
1 GAAAGAAAGAAA
34330851 GGGAAATTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAAA
Found at i:34333376 original size:14 final size:14
Alignment explanation
Indices: 34333349--34333389 Score: 64
Period size: 14 Copynumber: 2.8 Consensus size: 14
34333339 TGAAAATAGA
34333349 GAAATGAAATTATTTG
1 GAAATG-AA-TATTTG
34333365 GAAATGAATATTTG
1 GAAATGAATATTTG
34333379 GAAATGAATAT
1 GAAATGAATAT
34333390 AGTTTTCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 17 0.68
15 2 0.08
16 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.34
Consensus pattern (14 bp):
GAAATGAATATTTG
Found at i:34335795 original size:21 final size:21
Alignment explanation
Indices: 34335769--34335811 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
34335759 AAATAATTTT
34335769 ATTTTATTAATCATATGTATA
1 ATTTTATTAATCATATGTATA
*
34335790 ATTTTATTAATCGTATGTATA
1 ATTTTATTAATCATATGTATA
34335811 A
1 A
34335812 AGCTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (21 bp):
ATTTTATTAATCATATGTATA
Found at i:34338506 original size:26 final size:25
Alignment explanation
Indices: 34338457--34338512 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
34338447 TTTGTTATTA
* * * *
34338457 AATTTTAATTAAATTATTATTAAAT
1 AATTTTAATAAAAATAATAATAAAT
34338482 ATATTTTAATAAAAATAATAATAAAT
1 A-ATTTTAATAAAAATAATAATAAAT
34338508 AATTT
1 AATTT
34338513 AATCATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AATTTTAATAAAAATAATAATAAAT
Found at i:34338524 original size:61 final size:60
Alignment explanation
Indices: 34338458--34338630 Score: 178
Period size: 61 Copynumber: 2.9 Consensus size: 60
34338448 TTGTTATTAA
*
34338458 ATTTTAATTAAATTATTATTAAATATATTTTAATAAAAATAATAATAAATAATTTAATCAT
1 ATTTTAATTAAATTATTATTAAATATATTTTAATAAAAATAATAAT-AATAATTTAATAAT
* * * *
34338519 ATTTTAA-CACGATTATTATTAAATACAATTTAAT-AAAATAAT-AT-ATAATTTAATAAT
1 ATTTTAATTA-AATTATTATTAAATATATTTTAATAAAAATAATAATAATAATTTAATAAT
* *
34338576 ATTTTTAATATAAA-TATTATTAAA-ATATGAATTAATAAAAATCATAATATATAAT
1 A-TTTTAAT-TAAATTATTATTAAATATAT--TTTAATAAAAATAATAATA-ATAAT
34338631 ATTATAAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
57 15 0.16
58 16 0.18
59 8 0.09
60 17 0.19
61 30 0.33
63 5 0.05
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (60 bp):
ATTTTAATTAAATTATTATTAAATATATTTTAATAAAAATAATAATAATAATTTAATAAT
Found at i:34341897 original size:22 final size:22
Alignment explanation
Indices: 34341871--34341914 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34341861 AGAAAAATGA
34341871 ACAATACATATTAAGAATCTTT
1 ACAATACATATTAAGAATCTTT
34341893 ACAATACATATTAAGAATCTTT
1 ACAATACATATTAAGAATCTTT
34341915 GCAAAGCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (22 bp):
ACAATACATATTAAGAATCTTT
Found at i:34345801 original size:13 final size:13
Alignment explanation
Indices: 34345783--34345810 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34345773 CTACTTGTTA
34345783 TGCTTGGAAATTT
1 TGCTTGGAAATTT
34345796 TGCTTGGAAATTT
1 TGCTTGGAAATTT
34345809 TG
1 TG
34345811 GATTCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGCTTGGAAATTT
Found at i:34346790 original size:22 final size:19
Alignment explanation
Indices: 34346745--34346814 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 19
34346735 CTTTAGAAAT
34346745 TTTTTAAAAAT-TTTAAT-AA
1 TTTTTAAAAATATTT--TGAA
34346764 TTTTTAAAAATAAATTTTGGAA
1 TTTTTAAAAAT--ATTTT-GAA
*
34346786 TTTTTATAAATATTTTGAA
1 TTTTTAAAAATATTTTGAA
34346805 -TTTTAAAAAT
1 TTTTTAAAAAT
34346815 TATTATTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
18 9 0.20
19 14 0.32
20 6 0.14
22 15 0.34
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
TTTTTAAAAATATTTTGAA
Found at i:34346796 original size:18 final size:19
Alignment explanation
Indices: 34346773--34346808 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34346763 ATTTTTAAAA
34346773 ATAAAT-TTTGGAATTTTT
1 ATAAATATTTGGAATTTTT
*
34346791 ATAAATATTTTGAATTTT
1 ATAAATATTTGGAATTTT
34346809 AAAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
ATAAATATTTGGAATTTTT
Found at i:34346814 original size:18 final size:21
Alignment explanation
Indices: 34346762--34346814 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
34346752 AAATTTTAAT
34346762 AATTTTTAAAAATAAATTTTGG
1 AATTTTTAAAAAT-AATTTTGG
*
34346784 AATTTTTATAAAT-ATTTT-G
1 AATTTTTAAAAATAATTTTGG
34346803 AA-TTTTAAAAAT
1 AATTTTTAAAAAT
34346815 TATTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 9 0.31
19 3 0.10
20 5 0.17
22 12 0.41
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (21 bp):
AATTTTTAAAAATAATTTTGG
Found at i:34348013 original size:3 final size:3
Alignment explanation
Indices: 34348005--34348041 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
34347995 TGACTCAAAT
34348005 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
34348042 CCACATGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:34354748 original size:21 final size:21
Alignment explanation
Indices: 34354722--34354762 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
34354712 AAACCTGAAG
*
34354722 GCTAAACAAAAGCACATAAGT
1 GCTAAACAAAAACACATAAGT
*
34354743 GCTAAACAAAAACCCATAAG
1 GCTAAACAAAAACACATAAG
34354763 GGTTGAATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.22, G:0.12, T:0.12
Consensus pattern (21 bp):
GCTAAACAAAAACACATAAGT
Found at i:34354802 original size:21 final size:21
Alignment explanation
Indices: 34354776--34354900 Score: 83
Period size: 21 Copynumber: 6.0 Consensus size: 21
34354766 TGAATGGTAG
*
34354776 CTCATAAGAGCTAAACGGAAA
1 CTCATAAGAGCTAAACTGAAA
* * *
34354797 CCCATAA-AGGTTAAACTGAAG
1 CTCATAAGA-GCTAAACTGAAA
* *
34354818 CTCAAAAGAGCTGAACTGAAA
1 CTCATAAGAGCTAAACTGAAA
* * * * *
34354839 CCCCTTAGGGTTAAACTGAAA
1 CTCATAAGAGCTAAACTGAAA
* * *
34354860 CTCATATGAG-TTAACTGAAG
1 CTCATAAGAGCTAAACTGAAA
* *
34354880 CTCATGAGAGCTAAACGGAAA
1 CTCATAAGAGCTAAACTGAAA
34354901 GTAAAAACGA
Statistics
Matches: 73, Mismatches: 28, Indels: 6
0.68 0.26 0.06
Matches are distributed among these distances:
20 17 0.23
21 55 0.75
22 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (21 bp):
CTCATAAGAGCTAAACTGAAA
Found at i:34354820 original size:42 final size:42
Alignment explanation
Indices: 34354731--34354865 Score: 137
Period size: 42 Copynumber: 3.2 Consensus size: 42
34354721 GGCTAAACAA
* * * *
34354731 AAGCACATAAGTGCTAAACAAAAACCCATAAGGGTTGAA-TGG
1 AAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAAACT-G
* * *
34354773 TAGCTCATAAGAGCTAAACGGAAACCCATAAAGGTTAAACTG
1 AAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAAACTG
* * * * *
34354815 AAGCTCAAAAGAGCTGAACTGAAACCCCTTAGGGTTAAACTG
1 AAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAAACTG
*
34354857 AAACTCATA
1 AAGCTCATA
34354866 TGAGTTAACT
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 75 0.99
43 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (42 bp):
AAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAAACTG
Found at i:34357891 original size:25 final size:25
Alignment explanation
Indices: 34357863--34357963 Score: 130
Period size: 25 Copynumber: 4.0 Consensus size: 25
34357853 CCACAGCTTA
* *
34357863 TATGAGCTTCCTGATTTACAGGTCG
1 TATGAGCTTCCTAATTTACAGCTCG
*
34357888 TATGAGCTTCCTAATTTACAGCTCA
1 TATGAGCTTCCTAATTTACAGCTCG
* *
34357913 TATGAGCTTCCTAATTTGCAGCTCT
1 TATGAGCTTCCTAATTTACAGCTCG
** *
34357938 TATGAGCTTCCCGATTCACAGCTCG
1 TATGAGCTTCCTAATTTACAGCTCG
34357963 T
1 T
34357964 GAGAGCATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (25 bp):
TATGAGCTTCCTAATTTACAGCTCG
Found at i:34357959 original size:50 final size:50
Alignment explanation
Indices: 34357854--34357961 Score: 144
Period size: 50 Copynumber: 2.2 Consensus size: 50
34357844 GCAGACACAC
* * * *
34357854 CACAGCTTATATGAGCTTCCTGATTTACAGGTCGTATGAGCTTCCTAATT
1 CACAGCTCATATGAGCTTCCTAATTTACAGCTCGTATGAGCTTCCCAATT
* * * *
34357904 TACAGCTCATATGAGCTTCCTAATTTGCAGCTCTTATGAGCTTCCCGATT
1 CACAGCTCATATGAGCTTCCTAATTTACAGCTCGTATGAGCTTCCCAATT
34357954 CACAGCTC
1 CACAGCTC
34357962 GTGAGAGCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (50 bp):
CACAGCTCATATGAGCTTCCTAATTTACAGCTCGTATGAGCTTCCCAATT
Found at i:34357978 original size:25 final size:25
Alignment explanation
Indices: 34357950--34357997 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
34357940 TGAGCTTCCC
34357950 GATTCACAGCTCGTGA-GAGCATATT
1 GATTCACAGCTCGT-ATGAGCATATT
*
34357975 GATTCATAGCTCGTATGAGCATA
1 GATTCACAGCTCGTATGAGCATA
34357998 CATGAATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (25 bp):
GATTCACAGCTCGTATGAGCATATT
Found at i:34359607 original size:17 final size:17
Alignment explanation
Indices: 34359585--34359618 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34359575 TCCATCAATT
*
34359585 GAATGAGCATTTTCTTA
1 GAATGAACATTTTCTTA
34359602 GAATGAACATTTTCTTA
1 GAATGAACATTTTCTTA
34359619 AGCCTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (17 bp):
GAATGAACATTTTCTTA
Found at i:34367401 original size:32 final size:32
Alignment explanation
Indices: 34367359--34367447 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 32
34367349 CACATCACAG
*
34367359 TATCAATTGGGCCTAGCCCATTTCAGAATCAA
1 TATCAATTGGGCCTAGCCCATTTCAGAACCAA
* *
34367391 TATCAGTTGGGCCTAGCCC-TTATCAGAACCAT
1 TATCAATTGGGCCTAGCCCATT-TCAGAACCAA
* *
34367423 TATTAATTGGGCCTGGCCCATTTCA
1 TATCAATTGGGCCTAGCCCATTTCA
34367448 ATATCCAACC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.04
32 45 0.92
33 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (32 bp):
TATCAATTGGGCCTAGCCCATTTCAGAACCAA
Found at i:34372272 original size:12 final size:12
Alignment explanation
Indices: 34372255--34372279 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34372245 CCTCTGGGTA
34372255 TTTTTTTCTTTT
1 TTTTTTTCTTTT
34372267 TTTTTTTCTTTT
1 TTTTTTTCTTTT
34372279 T
1 T
34372280 GAAAATGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:34375722 original size:46 final size:45
Alignment explanation
Indices: 34375672--34375920 Score: 320
Period size: 46 Copynumber: 5.5 Consensus size: 45
34375662 TATTCATTTC
*
34375672 TATCTTTCAACCATGGTCTTCTTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTT-CTGTCATGTTGCCATGG
* *
34375718 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTGGCCATAG
1 TATCTTTCAACCATGGTCTTATTCATTT-CTGTCATGTTGCCATGG
* * *
34375764 TATCTTTCAACCATGGTCTTATTCATTT-TATAATGTTACCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCTGTCATGTTGCCATGG
*
34375808 TATCTTTCAACCATGGTCTTATTCATTTTCTATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCA-TTTCTGTCATGTTGCCATGG
* ** * **
34375854 TATCTTTCAACCATAGTCTTATTTGTTTCTCGTCATATTGCCATAA
1 TATCTTTCAACCATGGTCTTATTCATTTCT-GTCATGTTGCCATGG
* *
34375900 TATATTTCAACTATGGTCTTA
1 TATCTTTCAACCATGGTCTTA
34375921 CATATCTTAA
Statistics
Matches: 180, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
44 36 0.20
45 8 0.04
46 136 0.76
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (45 bp):
TATCTTTCAACCATGGTCTTATTCATTTCTGTCATGTTGCCATGG
Found at i:34375827 original size:90 final size:91
Alignment explanation
Indices: 34375672--34375876 Score: 313
Period size: 90 Copynumber: 2.3 Consensus size: 91
34375662 TATTCATTTC
* * * *
34375672 TATCTTTCAACCATGGTCTTCTTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTATTCATTT-CTATAATGTTACCATGGTATCTTTCAACCATGGTCT
*
34375737 TATTCATTTCCTGTCATGTGGCCATAG
65 TATTCATTTCCTATCATGTGGCCATAG
34375764 TATCTTTCAACCATGGTCTTATTCATTT-TATAATGTTACCATGGTATCTTTCAACCATGGTCTT
1 TATCTTTCAACCATGGTCTTATTCATTTCTATAATGTTACCATGGTATCTTTCAACCATGGTCTT
* * *
34375828 ATTCATTTTCTATCATGTTGCCATGG
66 ATTCATTTCCTATCATGTGGCCATAG
*
34375854 TATCTTTCAACCATAGTCTTATT
1 TATCTTTCAACCATGGTCTTATT
34375877 TGTTTCTCGT
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
90 77 0.74
92 27 0.26
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (91 bp):
TATCTTTCAACCATGGTCTTATTCATTTCTATAATGTTACCATGGTATCTTTCAACCATGGTCTT
ATTCATTTCCTATCATGTGGCCATAG
Found at i:34375916 original size:136 final size:136
Alignment explanation
Indices: 34375672--34375920 Score: 383
Period size: 136 Copynumber: 1.8 Consensus size: 136
34375662 TATTCATTTC
* * *
34375672 TATCTTTCAACCATGGTCTTCTTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCATAGTCT
* * *
34375737 TATTCATTTCCTGTCATGTGGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTATAATGTTA
66 TATTCATTTCCTGTCATATGGCCATAATATATTTCAACCATGGTCTTATTCATTTTATAATGTTA
34375802 CCATGG
131 CCATGG
*
34375808 TATCTTTCAACCATGGTCTTATTCATTTTCTATCATGTTGCCATGGTATCTTTCAACCATAGTCT
1 TATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCATAGTCT
** * *
34375873 TATTTGTTT-CTCGTCATATTGCCATAATATATTTCAACTATGGTCTTA
66 TATTCATTTCCT-GTCATATGGCCATAATATATTTCAACCATGGTCTTA
34375921 CATATCTTAA
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
135 2 0.02
136 99 0.98
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (136 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCATAGTCT
TATTCATTTCCTGTCATATGGCCATAATATATTTCAACCATGGTCTTATTCATTTTATAATGTTA
CCATGG
Found at i:34375953 original size:45 final size:45
Alignment explanation
Indices: 34375904--34376015 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 45
34375894 CCATAATATA
* *
34375904 TTTCAACTATGGTCTTACAT-ATCTTAATCGTGATGCCATAACGTC
1 TTTCAACTATGGTCTTAC-TCATCTGAATCGCGATGCCATAACGTC
* **
34375949 TTTCAGCTATGGTCTTACTCATCTGAATCGCGATGCCATTGCGTC
1 TTTCAACTATGGTCTTACTCATCTGAATCGCGATGCCATAACGTC
34375994 TTTCAACTATGGTCTTACTCAT
1 TTTCAACTATGGTCTTACTCAT
34376016 TTCTGGTATG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.02
45 59 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (45 bp):
TTTCAACTATGGTCTTACTCATCTGAATCGCGATGCCATAACGTC
Found at i:34376029 original size:45 final size:42
Alignment explanation
Indices: 34375904--34376033 Score: 118
Period size: 45 Copynumber: 2.9 Consensus size: 42
34375894 CCATAATATA
*
34375904 TTTCAACTATGGTCTTACAT-ATCTTAATCGTGATGCCATAACGTC
1 TTTCAACTATGGTCTTAC-TCATCTGAA---TGATGCCATAACGTC
* **
34375949 TTTCAGCTATGGTCTTACTCATCTGAATCGCGATGCCATTGCGTC
1 TTTCAACTATGGTCTTACTCATCTGAAT---GATGCCATAACGTC
*
34375994 TTTCAACTATGGTCTTACTCATTTCTGGTATGATGCCATA
1 TTTCAACTATGGTCTTACTCA--TCT-GAATGATGCCATA
34376034 GTCCAACTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
42 1 0.01
44 1 0.01
45 63 0.89
47 3 0.04
48 3 0.04
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (42 bp):
TTTCAACTATGGTCTTACTCATCTGAATGATGCCATAACGTC
Found at i:34376082 original size:33 final size:33
Alignment explanation
Indices: 34376027--34376182 Score: 120
Period size: 33 Copynumber: 4.7 Consensus size: 33
34376017 TCTGGTATGA
* * * *
34376027 TGCCATAGTCCAACTATAGTCTTACACATGTAT
1 TGCCATAGCCCAGCCATGGTCTTACACATGTAT
* * *
34376060 TGCCATGGCGCAGCCATGGTCTTACAC-TCGTAG
1 TGCCATAGCCCAGCCATGGTCTTACACAT-GTAT
* ** *
34376093 TGCCATATCCCAGATATGGTCTTATCATCA-GGA-
1 TGCCATAGCCCAGCCATGGTCTTA-CA-CATGTAT
* * * *
34376126 TCCCATAGCCTAGCTATGGTCTTACACATATAT
1 TGCCATAGCCCAGCCATGGTCTTACACATGTAT
*
34376159 TGCCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAGCCATGGTCTTA
34376183 TCCGTCAATT
Statistics
Matches: 94, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
31 2 0.02
32 4 0.04
33 83 0.88
34 4 0.04
35 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (33 bp):
TGCCATAGCCCAGCCATGGTCTTACACATGTAT
Found at i:34377784 original size:11 final size:11
Alignment explanation
Indices: 34377768--34377792 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34377758 CTTTCTTTAT
34377768 ATACTAATAAA
1 ATACTAATAAA
34377779 ATACTAATAAA
1 ATACTAATAAA
34377790 ATA
1 ATA
34377793 ATAACAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATACTAATAAA
Found at i:34383270 original size:29 final size:30
Alignment explanation
Indices: 34383225--34383294 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
34383215 TTATATTATC
34383225 TAAATATATTTTA-TTTTGTGATTGAA-AAAT
1 TAAA-ATATTTTATTTTTGTGATT-AAGAAAT
*
34383255 TAAAATATTTTATTTTTGTGGTTAAGAAAT
1 TAAAATATTTTATTTTTGTGATTAAGAAAT
*
34383285 TCAAATATTT
1 TAAAATATTT
34383295 GAATTTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.50
Consensus pattern (30 bp):
TAAAATATTTTATTTTTGTGATTAAGAAAT
Found at i:34383366 original size:13 final size:13
Alignment explanation
Indices: 34383348--34383372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34383338 TAACTTTATT
34383348 TTTAAATATTTTG
1 TTTAAATATTTTG
34383361 TTTAAATATTTT
1 TTTAAATATTTT
34383373 TCTACTTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTAAATATTTTG
Found at i:34386672 original size:2 final size:2
Alignment explanation
Indices: 34386665--34386691 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34386655 TACTATGAGT
34386665 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
34386692 TCATTTATGT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:34390130 original size:17 final size:17
Alignment explanation
Indices: 34390098--34390145 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
34390088 GAACCAATTC
*
34390098 TTGTTATCTGTTTTCTTA
1 TTGTT-TCTTTTTTCTTA
*
34390116 TTGTTTCTTTTTTCTTT
1 TTGTTTCTTTTTTCTTA
34390133 TTGGTTT-TTTTTT
1 TT-GTTTCTTTTTT
34390146 TTGGGGGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.04, C:0.08, G:0.10, T:0.77
Consensus pattern (17 bp):
TTGTTTCTTTTTTCTTA
Found at i:34393902 original size:3 final size:3
Alignment explanation
Indices: 34393894--34393927 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
34393884 AGTCTTTGCT
34393894 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34393928 TCATTGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:34394299 original size:2 final size:2
Alignment explanation
Indices: 34394292--34394319 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34394282 GGAGTTTGAG
34394292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34394320 TATTTTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34396350 original size:20 final size:20
Alignment explanation
Indices: 34396312--34396350 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
34396302 TTAAGATAAC
34396312 TTTTATTTAAAAATCACATT
1 TTTTATTTAAAAATCACATT
*
34396332 TTTTAATTTCAAAAT-ACAT
1 TTTT-ATTTAAAAATCACAT
34396351 AGTGACGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTATTTAAAAATCACATT
Found at i:34398901 original size:22 final size:22
Alignment explanation
Indices: 34398876--34398965 Score: 83
Period size: 22 Copynumber: 4.1 Consensus size: 22
34398866 GAAACAGAAA
*
34398876 CAGAGCATATCAAGTACTGATG
1 CAGAGCATATCAAGTACAGATG
*
34398898 CAGAGCATAT-TAGATACAGATG
1 CAGAGCATATCAAG-TACAGATG
* * * *
34398920 TAGAACATATCAAATACAAATG
1 CAGAGCATATCAAGTACAGATG
* * *
34398942 CGGAGTATATCAGGTACAGATG
1 CAGAGCATATCAAGTACAGATG
34398964 CA
1 CA
34398966 AAATCCTACC
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
21 2 0.04
22 48 0.94
23 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (22 bp):
CAGAGCATATCAAGTACAGATG
Found at i:34399618 original size:42 final size:42
Alignment explanation
Indices: 34399538--34399638 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
34399528 ACGGCCTGAC
* * ** *
34399538 ACACGGCCTGGCACAAGGTCGTGCGACTTAAGTTAGTGAGTT
1 ACACGGCCTGGCACAAGGCCGTGCAACTTAAGCCAGTGACTT
* * *
34399580 ACACGTCCTGGCACATGGCCGTGTAACTTAAGCCAGTGACTT
1 ACACGGCCTGGCACAAGGCCGTGCAACTTAAGCCAGTGACTT
* *
34399622 ACAAGGGCTGTGCACAA
1 ACACGGCCTG-GCACAA
34399639 AGTTGTGTGT
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
42 41 0.89
43 5 0.11
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (42 bp):
ACACGGCCTGGCACAAGGCCGTGCAACTTAAGCCAGTGACTT
Found at i:34400201 original size:22 final size:22
Alignment explanation
Indices: 34400176--34400217 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34400166 TACCAGGAAG
34400176 AAAAGAAAAGAA-AAGAAAAAAC
1 AAAAG-AAAGAAGAAGAAAAAAC
*
34400198 AAAAGAACGAAGAAGAAAAA
1 AAAAGAAAGAAGAAGAAAAA
34400218 GAATGATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.79, C:0.05, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAGAAAGAAGAAGAAAAAAC
Found at i:34412329 original size:29 final size:31
Alignment explanation
Indices: 34412288--34412347 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
34412278 AAATTACCGA
* *
34412288 TAGATAAACTAAATCTAAAAACATTAAAATT
1 TAGATAAACTAAAACCAAAAACATTAAAATT
*
34412319 TAGA-AAA-TAAAACCAAAAGCATTAAAATT
1 TAGATAAACTAAAACCAAAAACATTAAAATT
34412348 ATAATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 19 0.73
30 3 0.12
31 4 0.15
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.25
Consensus pattern (31 bp):
TAGATAAACTAAAACCAAAAACATTAAAATT
Found at i:34417138 original size:10 final size:10
Alignment explanation
Indices: 34417125--34417160 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
34417115 ACATAAATAC
34417125 AGATAATTAA
1 AGATAATTAA
34417135 AGATAATTAA
1 AGATAATTAA
*
34417145 ATATAATTAA
1 AGATAATTAA
34417155 AGATAA
1 AGATAA
34417161 AAGCTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (10 bp):
AGATAATTAA
Found at i:34417821 original size:4 final size:4
Alignment explanation
Indices: 34417814--34417841 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
34417804 TTTTTTAAAA
34417814 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
34417842 TTGCTTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:34422037 original size:10 final size:10
Alignment explanation
Indices: 34422020--34422058 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
34422010 TTAAATTCTA
34422020 AAAGATAAAT
1 AAAGATAAAT
* *
34422030 ACAGATAATT
1 AAAGATAAAT
34422040 AAAGATAAAT
1 AAAGATAAAT
34422050 AAAGATAAA
1 AAAGATAAA
34422059 AGCTAGAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:34422045 original size:20 final size:20
Alignment explanation
Indices: 34422020--34422057 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34422010 TTAAATTCTA
*
34422020 AAAGATAAATACAGATAATT
1 AAAGATAAATAAAGATAATT
34422040 AAAGATAAATAAAGATAA
1 AAAGATAAATAAAGATAA
34422058 AAGCTAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:34425666 original size:21 final size:21
Alignment explanation
Indices: 34425642--34425681 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34425632 TGCAAGTTAG
*
34425642 ATAAAGAAAAGACA-GTAAATA
1 ATAAACAAAAG-CATGTAAATA
34425663 ATAAACAAAAGCATGTAAA
1 ATAAACAAAAGCATGTAAA
34425682 ATGGCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.65, C:0.07, G:0.12, T:0.15
Consensus pattern (21 bp):
ATAAACAAAAGCATGTAAATA
Found at i:34426537 original size:186 final size:193
Alignment explanation
Indices: 34426236--34426607 Score: 650
Period size: 186 Copynumber: 2.0 Consensus size: 193
34426226 ACCCACTCCA
*
34426236 GGCTTAGGACCCGCGTGTTTTTAATGGAAGGGCTAATTGCACTTTTAGCCCTTCCACTTTTTTAT
1 GGCTTAGGACCCGCGTCTTTTTAATGGAAGGGCTAATTGCACTTTTAGCCCTT-C-CTTTTTTAT
34426301 TGTTTTGAAATTAGATTTTTCATTATTTATAATTTTGCCCTGTAATTTATTTTGACCTTCAATTT
64 TGTTTTGAAATTAGATTTTTCATTATTTATAATTTTGCCCTGTAATTTATTTTGACCTTCAATTT
34426366 GGTCCCTCTTGGTGCTGTGCGTTTT-GG-GG-GGGGATATTGCCCATTTTGGTCCTTGTATCCGC
129 GGTCCCTCTTGGTGCTGTGCGTTTTGGGAGGAGGGGATATTGCCCATTTTGGTCCTTGTATCCGC
* *
34426428 GGCTT-GGACCCGCTTCTTTTTAATGGAAGGGCTAATTGCACTTTTAGCCCTT-GTTTTTTATT-
1 GGCTTAGGACCCGCGTCTTTTTAATGGAAGGGCTAATTGCACTTTTAGCCCTTCCTTTTTTATTG
34426490 TTTTGAAATTA-ATTTTTCATTATTTATAATTTTGCCCTGTAATTTATTTTGACCTTCAATTTGG
66 TTTTGAAATTAGATTTTTCATTATTTATAATTTTGCCCTGTAATTTATTTTGACCTTCAATTTGG
34426554 TCCCTCTTGGTGCTGTGCGTTTTGGGAGGAGGGGATATTGCCCATTTTGGTCCT
131 TCCCTCTTGGTGCTGTGCGTTTTGGGAGGAGGGGATATTGCCCATTTTGGTCCT
34426608 CCCTTGTTAT
Statistics
Matches: 174, Mismatches: 3, Indels: 9
0.94 0.02 0.05
Matches are distributed among these distances:
186 76 0.44
187 13 0.07
188 11 0.06
189 24 0.14
191 45 0.26
192 5 0.03
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (193 bp):
GGCTTAGGACCCGCGTCTTTTTAATGGAAGGGCTAATTGCACTTTTAGCCCTTCCTTTTTTATTG
TTTTGAAATTAGATTTTTCATTATTTATAATTTTGCCCTGTAATTTATTTTGACCTTCAATTTGG
TCCCTCTTGGTGCTGTGCGTTTTGGGAGGAGGGGATATTGCCCATTTTGGTCCTTGTATCCGC
Found at i:34439069 original size:93 final size:91
Alignment explanation
Indices: 34438911--34439082 Score: 236
Period size: 93 Copynumber: 1.9 Consensus size: 91
34438901 TGATATTTTT
* * * **
34438911 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCCACATGCTGA
1 ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAACCCTCGAGCCACACACTGA
*
34438976 GGTATTTTCAATTTCTATTTTTTAAA
66 GGTATCTTCAATTTCTATTTTTTAAA
* * * *
34439002 ATTTCTGCTTTTCAAAAAAATTAACTTATATTGCGAGAGGTGAGTTAACCCTCGGGTCACACACT
1 ATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTAACCCTCGAGCCACACACT
34439067 GAGGTATCTTCAATTT
64 GAGGTATCTTCAATTT
34439083 ATGTTTCAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
91 12 0.17
93 57 0.83
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (91 bp):
ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAACCCTCGAGCCACACACTGA
GGTATCTTCAATTTCTATTTTTTAAA
Found at i:34439137 original size:77 final size:77
Alignment explanation
Indices: 34439015--34439288 Score: 309
Period size: 78 Copynumber: 3.5 Consensus size: 77
34439005 TCTGCTTTTC
* * * * * *
34439015 AAAAAAATTAACTTATATTGCGAGAGGTGAGTTAACCCTCGGGTCACACACTGAGGTATCTTCAA
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACACTGAGGTATTTTCAA
*
34439080 TTTATGTTTCAA
66 TTTATTTTTCAA
* *
34439092 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCACACACTGAGGTATTTTTTA
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACACTGAGGTA-TTTTCA
*
34439157 GTTTGTATTTTTC--
65 -ATT-TATTTTTCAA
* * * * *
34439170 AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGTCTCGGGACACACGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACACTGAGGTATTTTCAA
34439235 TTTACATTTTTTCAA
66 TTT--A-TTTTTCAA
* ** *
34439250 AAAAAATTTGACTCATATTGCAAGAAGTGAGTTGAGCCT
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
34439289 TTTAGTCTCT
Statistics
Matches: 164, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
75 1 0.01
76 2 0.01
77 58 0.35
78 62 0.38
79 2 0.01
80 39 0.24
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACACTGAGGTATTTTCAA
TTTATTTTTCAA
Found at i:34441405 original size:28 final size:29
Alignment explanation
Indices: 34441373--34441428 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
34441363 TTTCTACTAT
*
34441373 TATTA-CAAATATATTATTTCTT-TTATTA
1 TATTATCAAA-ATATTATTTATTATTATTA
*
34441401 TATTATTAAAATATTATTTATTATTATT
1 TATTATCAAAATATTATTTATTATTATT
34441429 TTCTTTATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (29 bp):
TATTATCAAAATATTATTTATTATTATTA
Found at i:34441459 original size:24 final size:23
Alignment explanation
Indices: 34441419--34441477 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
34441409 AAATATTATT
34441419 TATTATTATTT-TCTTTA-TCGTGAA
1 TATTATT-TTTATCTTTATTC-T-AA
*
34441443 TATTATTTTTATTTTTATTCTAA
1 TATTATTTTTATCTTTATTCTAA
34441466 TATTATATTTTA
1 TATTAT-TTTTA
34441478 ATATTTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 11 0.35
24 18 0.58
25 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.64
Consensus pattern (23 bp):
TATTATTTTTATCTTTATTCTAA
Found at i:34442077 original size:25 final size:25
Alignment explanation
Indices: 34442049--34442103 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
34442039 ACGTAGCTAC
*
34442049 AAATATTTTATTTTAATTATTAT-TT
1 AAATATTTGATTTTAATT-TTATATT
*
34442074 AAAT-TTTGGTTTTAATTTTATACTT
1 AAATATTTGATTTTAATTTTATA-TT
34442099 AAATA
1 AAATA
34442104 ATAAATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 4 0.16
24 11 0.44
25 10 0.40
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (25 bp):
AAATATTTGATTTTAATTTTATATT
Found at i:34444511 original size:20 final size:22
Alignment explanation
Indices: 34444482--34444523 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
34444472 AATAAAATAG
*
34444482 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
34444502 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
34444524 TATTAACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:34444537 original size:22 final size:22
Alignment explanation
Indices: 34444494--34444537 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
34444484 ATATTAAATA
*
34444494 ATTTATTAAAATAATAAATTAT
1 ATTTATTAAAATAACAAATTAT
* * *
34444516 ATTTATTATATTAACAATTTAT
1 ATTTATTAAAATAACAAATTAT
34444538 CATATAAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTATTAAAATAACAAATTAT
Found at i:34447169 original size:54 final size:54
Alignment explanation
Indices: 34447087--34447200 Score: 210
Period size: 54 Copynumber: 2.1 Consensus size: 54
34447077 AAGAATGTGA
* *
34447087 AGGAAACGTACCATATTGTTATGGAGTTTGATATCAACCTTAAAAAATGGCAGG
1 AGGAAACGTACCATATAGTTATGGAGTTTGATATCAACCTTAAAAAATGGCAGC
34447141 AGGAAACGTACCATATAGTTATGGAGTTTGATATCAACCTTAAAAAATGGCAGC
1 AGGAAACGTACCATATAGTTATGGAGTTTGATATCAACCTTAAAAAATGGCAGC
34447195 AGGAAA
1 AGGAAA
34447201 ACTACAATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (54 bp):
AGGAAACGTACCATATAGTTATGGAGTTTGATATCAACCTTAAAAAATGGCAGC
Found at i:34455616 original size:14 final size:14
Alignment explanation
Indices: 34455597--34455626 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34455587 CATAGTAACC
*
34455597 CTTATGCTATGCAT
1 CTTATGCTATACAT
34455611 CTTATGCTATACAT
1 CTTATGCTATACAT
34455625 CT
1 CT
34455627 CGGTGGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (14 bp):
CTTATGCTATACAT
Found at i:34460735 original size:27 final size:26
Alignment explanation
Indices: 34460705--34460762 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
34460695 CACATAAACT
*
34460705 GGAAGCCCCCTCTCGAGCCATATAAAA
1 GGAAGCCCCATCT-GAGCCATATAAAA
* * *
34460732 GGAAG-CTCATGTGAGCCATATAACA
1 GGAAGCCCCATCTGAGCCATATAAAA
34460757 GGAAGC
1 GGAAGC
34460763 TCATACGAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 17 0.65
26 4 0.15
27 5 0.19
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (26 bp):
GGAAGCCCCATCTGAGCCATATAAAA
Found at i:34460772 original size:25 final size:25
Alignment explanation
Indices: 34460718--34460779 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
34460708 AGCCCCCTCT
* *
34460718 CGAGCCATATAAAAGGAAGCTCATG
1 CGAGCCATATAACAGGAAGCTCATA
*
34460743 TGAGCCATATAACAGGAAGCTCATA
1 CGAGCCATATAACAGGAAGCTCATA
34460768 CGAGCCA-ATAAC
1 CGAGCCATATAAC
34460780 GGGTAGTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
24 5 0.15
25 28 0.85
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTCATA
Found at i:34460901 original size:26 final size:26
Alignment explanation
Indices: 34460854--34460913 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
34460844 AGTTATATCG
*
34460854 GGAAGCTC-CAGAGAGCCATTAATCA
1 GGAAGCTCACAAAGAGCCATTAATCA
* *
34460879 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCATTAATCA
34460905 GGAAGCTCA
1 GGAAGCTCA
34460914 TGAAAAGCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 8 0.26
26 23 0.74
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCATTAATCA
Found at i:34460922 original size:26 final size:25
Alignment explanation
Indices: 34460850--34460924 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
34460840 AGCGAGTTAT
*
34460850 ATCGGGAAGCTCCAG-AGAGCCATTA
1 ATCGGGAAGCT-CAGAAAAGCCATTA
* * *
34460875 ATCAGGAAGCTCACAAAGAGCCTTTA
1 ATCGGGAAGCTCAGAAA-AGCCATTA
34460901 ATCGGGAAGCTCATGAAAAGCCAT
1 ATCGGGAAGCTCA-GAAAAGCCAT
34460925 ATATAGGGAC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
24 2 0.05
25 11 0.28
26 24 0.60
27 3 0.08
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (25 bp):
ATCGGGAAGCTCAGAAAAGCCATTA
Found at i:34465117 original size:24 final size:26
Alignment explanation
Indices: 34465090--34465141 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
34465080 GGCGTTTATT
34465090 GGAAAAAAA-CGCCGCTAAA-GTCAA
1 GGAAAAAAAGCGCCGCTAAAGGTCAA
34465114 GGAAAAAAAGCGCCGCTAAAGGTCAA
1 GGAAAAAAAGCGCCGCTAAAGGTCAA
34465140 GG
1 GG
34465142 CTTTTAGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 9 0.35
25 10 0.38
26 7 0.27
ACGTcount: A:0.46, C:0.19, G:0.27, T:0.08
Consensus pattern (26 bp):
GGAAAAAAAGCGCCGCTAAAGGTCAA
Found at i:34465305 original size:43 final size:43
Alignment explanation
Indices: 34465119--34465282 Score: 294
Period size: 43 Copynumber: 3.8 Consensus size: 43
34465109 GTCAAGGAAA
*
34465119 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
34465162 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
34465205 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGCGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GT
*
34465249 -AAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
34465283 CTTTTTTTAC
Statistics
Matches: 118, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
43 116 0.98
44 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
Found at i:34465727 original size:21 final size:21
Alignment explanation
Indices: 34465677--34465727 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
34465667 CCATCGCTCG
*
34465677 TGCCTCTGCCTCTCTCGCTGC
1 TGCCTCTGCCTCCCTCGCTGC
* * * *
34465698 AGTCGCTGCCTCCCTCTCTGC
1 TGCCTCTGCCTCCCTCGCTGC
34465719 TGCCTCTGC
1 TGCCTCTGC
34465728 TCTAAGTTGT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.47, G:0.20, T:0.31
Consensus pattern (21 bp):
TGCCTCTGCCTCCCTCGCTGC
Found at i:34471554 original size:27 final size:26
Alignment explanation
Indices: 34471524--34471581 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
34471514 CACATAAACT
*
34471524 GGAAGCCCCCTCTCGAGCCATATAAAA
1 GGAAGCCCCATCT-GAGCCATATAAAA
* * *
34471551 GGAAG-CTCATGTGAGCCATATAACA
1 GGAAGCCCCATCTGAGCCATATAAAA
34471576 GGAAGC
1 GGAAGC
34471582 TCATACGAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 17 0.65
26 4 0.15
27 5 0.19
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (26 bp):
GGAAGCCCCATCTGAGCCATATAAAA
Found at i:34471591 original size:25 final size:25
Alignment explanation
Indices: 34471537--34471598 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
34471527 AGCCCCCTCT
* *
34471537 CGAGCCATATAAAAGGAAGCTCATG
1 CGAGCCATATAACAGGAAGCTCATA
*
34471562 TGAGCCATATAACAGGAAGCTCATA
1 CGAGCCATATAACAGGAAGCTCATA
34471587 CGAGCCA-ATAAC
1 CGAGCCATATAAC
34471599 GGGTAGTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
24 5 0.15
25 28 0.85
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTCATA
Found at i:34471740 original size:25 final size:26
Alignment explanation
Indices: 34471673--34471731 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 26
34471663 AGTTATATCG
*
34471673 GGAAGCTC-CAGAGAGCCATTAATCA
1 GGAAGCTCACAAAGAGCCATTAATCA
*
34471698 GGAAGCTCACAAAGAGCCTTTAATC-
1 GGAAGCTCACAAAGAGCCATTAATCA
34471723 GGAAGCTCA
1 GGAAGCTCA
34471732 TGAAAAGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 17 0.55
26 14 0.45
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCATTAATCA
Found at i:34475960 original size:43 final size:43
Alignment explanation
Indices: 34475912--34476090 Score: 279
Period size: 43 Copynumber: 4.2 Consensus size: 43
34475902 CCCGCAAAGC
* *
34475912 AGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGCTTTT
1 AGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAGGCTTTT
34475955 AGCGGCGTTTGTGGGAAAA-CGCCGCTAAACGTCAAGGCTTTTT
1 AGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAGGC-TTTT
* * *
34475998 AGCGGCGTTTGTGGTAAAAGTGCCGCTAAAGGTCAAGGCTTTT
1 AGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAGGCTTTT
* *
34476041 AGCGGCGTTTGTGCGTAAAGCGCCGCTAAACGTCAAGGCTTTT
1 AGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAGGCTTTT
34476084 AGCGGCG
1 AGCGGCG
34476091 CTTTTTTTAC
Statistics
Matches: 124, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
42 17 0.14
43 90 0.73
44 17 0.14
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (43 bp):
AGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAGGCTTTT
Found at i:34476199 original size:31 final size:31
Alignment explanation
Indices: 34476164--34476244 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
34476154 CTTCCTGCAT
* *
34476164 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
34476195 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
34476226 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
34476245 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:34476534 original size:21 final size:21
Alignment explanation
Indices: 34476484--34476534 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
34476474 CCATCGCTCG
*
34476484 TGCCTCTGCCTCTCTCGCTGC
1 TGCCTCTGCCTCCCTCGCTGC
* * * *
34476505 AGTCGCTGCCTCCCTCTCTGC
1 TGCCTCTGCCTCCCTCGCTGC
34476526 TGCCTCTGC
1 TGCCTCTGC
34476535 TCTAAGTTGT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.47, G:0.20, T:0.31
Consensus pattern (21 bp):
TGCCTCTGCCTCCCTCGCTGC
Found at i:34482082 original size:9 final size:9
Alignment explanation
Indices: 34482068--34482264 Score: 100
Period size: 9 Copynumber: 21.6 Consensus size: 9
34482058 TATTTAAGTA
34482068 TTATGTAAG
1 TTATGTAAG
*
34482077 TTATGTAAT
1 TTATGTAAG
34482086 TTATG--A-
1 TTATGTAAG
*
34482092 -TATGATATAT
1 TTATG-TA-AG
*
34482102 TTATGTAAA
1 TTATGTAAG
* *
34482111 TTATAT-AT
1 TTATGTAAG
*
34482119 TTATCTAAG
1 TTATGTAAG
*
34482128 TTATATAAG
1 TTATGTAAG
34482137 TTATGTAAG
1 TTATGTAAG
*
34482146 TTATGTAAA
1 TTATGTAAG
*
34482155 TTATGATATAAAA
1 TTATG---T-AAG
*
34482168 TATATTTAAG
1 T-TATGTAAG
34482178 TATTATGTAAG
1 --TTATGTAAG
34482189 TTATGTAAG
1 TTATGTAAG
* *
34482198 TTATAT-AT
1 TTATGTAAG
*
34482206 TTATCTAAG
1 TTATGTAAG
*
34482215 TTATATAAG
1 TTATGTAAG
*
34482224 TTATATAAG
1 TTATGTAAG
*
34482233 TTATGTACG
1 TTATGTAAG
*
34482242 TTTTGTAAG
1 TTATGTAAG
* *
34482251 TTATATAAA
1 TTATGTAAG
34482260 TTATG
1 TTATG
34482265 ATATCAAATA
Statistics
Matches: 148, Mismatches: 25, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
5 4 0.03
7 1 0.01
8 12 0.08
9 106 0.72
10 4 0.03
11 12 0.08
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:34482183 original size:69 final size:68
Alignment explanation
Indices: 34482068--34482227 Score: 180
Period size: 69 Copynumber: 2.3 Consensus size: 68
34482058 TATTTAAGTA
* * * *
34482068 TTATGTAAGTTATGTAATTTATGATATGATATATTTATGTAAATTATAT-ATTTATCTAAGTTAT
1 TTATGTAAGTTATGTAAATTATGATATAATATATTTAAGT-AATTATATAAGTTATCTAAGTTAT
34482132 ATAAG
65 AT-AG
* *
34482137 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGT-ATTATGTAAGTTATGTAAGTTA
1 TTATGTAAGTTATGTAAATTATGATAT--AATATATTTAAGTAATTATATAAGTTATCTAAGTTA
*
34482201 TATAT
64 TATAG
* * *
34482206 TTATCTAAGTTATATAAGTTAT
1 TTATGTAAGTTATGTAAATTAT
34482228 ATAAGTTATG
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
69 52 0.67
70 15 0.19
71 11 0.14
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (68 bp):
TTATGTAAGTTATGTAAATTATGATATAATATATTTAAGTAATTATATAAGTTATCTAAGTTATA
TAG
Found at i:34482275 original size:105 final size:104
Alignment explanation
Indices: 34482096--34482295 Score: 301
Period size: 105 Copynumber: 1.9 Consensus size: 104
34482086 TTATGATATG
* * * *
34482096 ATATATTTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGA
1 ATATATTTATCTAAATTATATAGTTATATAAGTTATATAAGTTATGTAAGTTATATAAATTATGA
34482161 TATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTT
66 TATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTT
* * * *
34482200 ATATATTTATCTAAGTTATATAAGTTATATAAGTTATGTACGTTTTGTAAGTTATATAAATTATG
1 ATATATTTATCTAAATTATAT-AGTTATATAAGTTATATAAGTTATGTAAGTTATATAAATTATG
* *
34482265 ATATCAAATATATTTATGTATTATGTAAGTT
65 ATATAAAATATATTTAAGTATTATGTAAGTT
34482296 TTTTATTTCA
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
104 19 0.22
105 66 0.78
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (104 bp):
ATATATTTATCTAAATTATATAGTTATATAAGTTATATAAGTTATGTAAGTTATATAAATTATGA
TATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTT
Found at i:34482303 original size:96 final size:96
Alignment explanation
Indices: 34482119--34482295 Score: 218
Period size: 96 Copynumber: 1.8 Consensus size: 96
34482109 AATTATATAT
* ** *
34482119 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTAT
1 TTATATAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAAATATATCAAAATATTAT
34482184 GTAAGTTATGTAAGTTATATATTTATCTAAG
66 GTAAGTTATGTAAGTTATATATTTATCTAAG
* * * *
34482215 TTATATAAGTTATATAAGTTATGTACGTTTTGTAAGTTAT-ATA-AATTATGATATCAAATATAT
1 TTATATAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAA-AAT-ATATCAAA-ATA-
34482278 TTATGT-A-TTATGTAAGTT
62 TTATGTAAGTTATGTAAGTT
34482296 TTTTATTTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
94 2 0.03
95 5 0.07
96 53 0.77
97 3 0.04
98 6 0.09
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.47
Consensus pattern (96 bp):
TTATATAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAAATATATCAAAATATTAT
GTAAGTTATGTAAGTTATATATTTATCTAAG
Found at i:34482382 original size:15 final size:15
Alignment explanation
Indices: 34482362--34482417 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
34482352 AAGTAGCGGG
34482362 ATTAAATAATATTTA
1 ATTAAATAATATTTA
34482377 ATTAAATAATATTT-
1 ATTAAATAATATTTA
34482391 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
34482406 ATTAAGTAATAT
1 ATTAAATAATAT
34482418 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:34486932 original size:10 final size:11
Alignment explanation
Indices: 34486911--34486961 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
34486901 ACTAAACCAC
34486911 TTTTCATATATA
1 TTTT-ATATATA
34486923 TATTTATATATA
1 T-TTTATATATA
*
34486935 TTTTAAAATAATA
1 TTTT-ATAT-ATA
34486948 TTTTATATATA
1 TTTTATATATA
34486959 TTT
1 TTT
34486962 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:34486970 original size:15 final size:15
Alignment explanation
Indices: 34486950--34486981 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
34486940 AAATAATATT
*
34486950 TTATATATATTTATC
1 TTATATACATTTATC
34486965 TTATATACATTTATC
1 TTATATACATTTATC
34486980 TT
1 TT
34486982 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:34488050 original size:41 final size:41
Alignment explanation
Indices: 34487993--34488170 Score: 295
Period size: 41 Copynumber: 4.4 Consensus size: 41
34487983 GTTATGAGAT
* *
34487993 TTTTAGCAGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
** *
34488034 TTTTAGCGGCGTTTTACCTAACGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
34488075 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
*
34488116 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
34488156 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
34488171 TTACTAAAAC
Statistics
Matches: 130, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 16 0.12
41 114 0.88
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
Found at i:34488234 original size:39 final size:40
Alignment explanation
Indices: 34487993--34488211 Score: 280
Period size: 41 Copynumber: 5.4 Consensus size: 40
34487983 GTTATGAGAT
* *
34487993 TTTTAGCAGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCT-GC
** *
34488034 TTTTAGCGGCGTTTTACCTAACGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCT-GC
34488075 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCT-GC
*
34488116 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGC
** *
34488156 TTTTAGCGGCGTTTTTTACTA-AAA-CGCCGCTGTTGCTCTGT
1 TTTTAGCGGCG--TTTTAC-AGAAAGCGCCGCTAATGCTCTGC
*
34488197 TTTTAGCGGCATTTT
1 TTTTAGCGGCGTTTT
34488212 TTTAGAACGC
Statistics
Matches: 165, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
39 4 0.02
40 12 0.07
41 139 0.84
42 9 0.05
43 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGC
Found at i:34488270 original size:12 final size:12
Alignment explanation
Indices: 34488255--34488281 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
34488245 TTTTGGCGAA
34488255 AAAAACGCCGCT
1 AAAAACGCCGCT
34488267 AAAAACGCCGCT
1 AAAAACGCCGCT
34488279 AAA
1 AAA
34488282 GCCCTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAAACGCCGCT
Found at i:34493290 original size:18 final size:20
Alignment explanation
Indices: 34493274--34493345 Score: 73
Period size: 20 Copynumber: 3.7 Consensus size: 20
34493264 AAAAATATAA
34493274 ATTTTGAATTTTTTATAAAT
1 ATTTTGAATTTTTTATAAAT
*
34493294 ATTTTGAA--TTTTAAAAACT
1 ATTTTGAATTTTTTATAAA-T
34493313 ATTTTGAA-TTTTTA-AAACTT
1 ATTTTGAATTTTTTATAAA--T
34493333 ATTTTG-ATTTTTT
1 ATTTTGAATTTTTT
34493346 TTTATAATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.17
19 13 0.28
20 25 0.54
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTTATAAAT
Found at i:34493345 original size:20 final size:19
Alignment explanation
Indices: 34493274--34493344 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
34493264 AAAAATATAA
34493274 ATTTTGAATTTTTTATAAA-T
1 ATTTTGAA-TTTTTA-AAACT
*
34493294 ATTTTGAATTTTAAAAACT
1 ATTTTGAATTTTTAAAACT
34493313 ATTTTGAATTTTTAAAACTT
1 ATTTTGAATTTTTAAAAC-T
34493333 ATTTTG-ATTTTT
1 ATTTTGAATTTTT
34493345 TTTTATAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.06
19 29 0.62
20 15 0.32
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAACT
Found at i:34495365 original size:51 final size:51
Alignment explanation
Indices: 34495301--34495409 Score: 157
Period size: 51 Copynumber: 2.1 Consensus size: 51
34495291 AATAGAAAGG
* * *
34495301 ATGAAAATGGAGAAATGAAAAACATTTG-GAATGATTATGGTTTTCTCCAAA
1 ATGAAAATAGAGAAATG-AAAACATTTGAAAATGAATATGGTTTTCTCCAAA
* *
34495352 ATGAAAATAGAGAAATGAAATCATTTGAAAATGAATGTGGTTTTCTCCAAA
1 ATGAAAATAGAGAAATGAAAACATTTGAAAATGAATATGGTTTTCTCCAAA
34495403 ATGAAAA
1 ATGAAAA
34495410 ATAAAAATGA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
50 9 0.17
51 43 0.83
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.28
Consensus pattern (51 bp):
ATGAAAATAGAGAAATGAAAACATTTGAAAATGAATATGGTTTTCTCCAAA
Found at i:34498080 original size:22 final size:23
Alignment explanation
Indices: 34498050--34498093 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
34498040 TTTGATGTTA
34498050 AAAAAATAAGA-AAAAA-AAGTTT
1 AAAAAATAA-ATAAAAAGAAGTTT
*
34498072 AAAATATAAATAAAAAGAAGTT
1 AAAAAATAAATAAAAAGAAGTT
34498094 AGAAAGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.05
22 13 0.68
23 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (23 bp):
AAAAAATAAATAAAAAGAAGTTT
Found at i:34500993 original size:25 final size:25
Alignment explanation
Indices: 34500972--34501019 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
34500962 ACCTAATAGG
*
34500972 TGAAA-AACTTAAAATAAGTAATAA
1 TGAAACAACTTAAAATAAATAATAA
*
34500996 TGAAACAATTTAAAATAAATAATA
1 TGAAACAACTTAAAATAAATAATA
34501020 TGAGGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (25 bp):
TGAAACAACTTAAAATAAATAATAA
Found at i:34501358 original size:15 final size:15
Alignment explanation
Indices: 34501325--34501363 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
34501315 AATTGGAAAC
*
34501325 GAAATAAAATTAAAG
1 GAAATAAAATTAAAA
34501340 GAAA-AAAATTAAAAA
1 GAAATAAAATT-AAAA
34501355 GAAATAAAA
1 GAAATAAAA
34501364 CAGGATTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 11 0.52
16 4 0.19
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.15
Consensus pattern (15 bp):
GAAATAAAATTAAAA
Found at i:34502982 original size:51 final size:45
Alignment explanation
Indices: 34502922--34503134 Score: 158
Period size: 45 Copynumber: 4.5 Consensus size: 45
34502912 CTTCAACTGG
* *
34502922 CTCCACTGCAACTTCAGGGAGACAAGGTTTGTCATTTGTAGCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGACAA-G-AT-TC---TCTAGCTTCAATCTA
* * *
34502973 CTCCACTGCAACTTCAGGGAGACAAGATTCTCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGACAAGATTCTCTAGCTTCAATCTA
* * * * * * *
34503018 CTCTACTGCAACTTCAGGGAGATAAGATTCTCTATCTTTAGTGTG
1 CTCCACTGCAACTTCAGGGAGACAAGATTCTCTAGCTTCAATCTA
* * *
34503063 CTCCACTGCTACTTCAGGGAGATAAGGTTTGTGATT-TGTAGCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGACAA-------GATTCTCTAGCTTCAATCTA
*
34503114 TTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAG
34503135 GTGAGATTGG
Statistics
Matches: 136, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
45 75 0.55
48 2 0.01
49 1 0.01
50 1 0.01
51 53 0.39
52 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGACAAGATTCTCTAGCTTCAATCTA
Found at i:34503008 original size:119 final size:119
Alignment explanation
Indices: 34502804--34503020 Score: 353
Period size: 119 Copynumber: 1.8 Consensus size: 119
34502794 TTCAACCTGT
* * * *
34502804 TCCACTGCAATTTTAGGGAGATAAGGTTTATGATTTCTACCTTCAATCTACTCCACTGCAACTTC
1 TCCACTGCAACTTCAGGGAGACAAGGTTTATCATTTCTACCTTCAATCTACTCCACTGCAACTTC
*
34502869 AGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCATTGTAACACTTCAACTGGC
66 AGGGAGACAAGATTCGCTATCTTCAGTCTGCTCCATTGTAACACTTCAACTGGC
* * *
34502923 TCCACTGCAACTTCAGGGAGACAAGGTTTGTCATTTGTAGCTTCAATCTACTCCACTGCAACTTC
1 TCCACTGCAACTTCAGGGAGACAAGGTTTATCATTTCTACCTTCAATCTACTCCACTGCAACTTC
*
34502988 AGGGAGACAAGATTCTCTATCTTCAGTCTGCTC
66 AGGGAGACAAGATTCGCTATCTTCAGTCTGCTC
34503021 TACTGCAACT
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 89 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (119 bp):
TCCACTGCAACTTCAGGGAGACAAGGTTTATCATTTCTACCTTCAATCTACTCCACTGCAACTTC
AGGGAGACAAGATTCGCTATCTTCAGTCTGCTCCATTGTAACACTTCAACTGGC
Found at i:34503028 original size:45 final size:45
Alignment explanation
Indices: 34502921--34503084 Score: 184
Period size: 45 Copynumber: 3.5 Consensus size: 45
34502911 ACTTCAACTG
* * * *
34502921 GCTCCACTGCAACTTCAGGGAGACAAGGTTTGTCATTTGTAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGACAA-G-AT-TC---TCTATCTTCAGTCT
*
34502972 ACTCCACTGCAACTTCAGGGAGACAAGATTCTCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGACAAGATTCTCTATCTTCAGTCT
* * * *
34503017 GCTCTACTGCAACTTCAGGGAGATAAGATTCTCTATCTTTAGTGT
1 GCTCCACTGCAACTTCAGGGAGACAAGATTCTCTATCTTCAGTCT
*
34503062 GCTCCACTGCTACTTCAGGGAGA
1 GCTCCACTGCAACTTCAGGGAGA
34503085 TAAGGTTTGT
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
45 72 0.71
48 2 0.02
49 1 0.01
50 1 0.01
51 25 0.25
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (45 bp):
GCTCCACTGCAACTTCAGGGAGACAAGATTCTCTATCTTCAGTCT
Found at i:34503085 original size:45 final size:45
Alignment explanation
Indices: 34502963--34503088 Score: 189
Period size: 45 Copynumber: 2.8 Consensus size: 45
34502953 TCATTTGTAG
* * *
34502963 CTTCAATCTACTCCACTGCAACTTCAGGGAGACAAGATTCTCTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTCTAT
*
34503008 CTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGATTCTCTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTCTAT
* * *
34503053 CTTTAGTGTGCTCCACTGCTACTTCAGGGAGATAAG
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
34503089 GTTTGTGATT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 73 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTCTAT
Found at i:34511184 original size:19 final size:20
Alignment explanation
Indices: 34511162--34511215 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
34511152 GGTGTTTTTG
* *
34511162 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGAA
*
34511181 TGAAATGTAATGTAAATGAA
1 TGAAATGTAATGCAAATGAA
34511201 TGAAATG-AATGCAAA
1 TGAAATGTAATGCAAA
34511216 AAGAGGCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.30
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGAA
Found at i:34522373 original size:20 final size:20
Alignment explanation
Indices: 34522345--34522387 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
34522335 TAAGAAAATG
* *
34522345 AAAATAAATAAAATTATCAT
1 AAAACAAATAAAATCATCAT
*
34522365 AAAACAAATAATATCATCAT
1 AAAACAAATAAAATCATCAT
34522385 AAA
1 AAA
34522388 TATAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAACAAATAAAATCATCAT
Found at i:34522719 original size:26 final size:29
Alignment explanation
Indices: 34522690--34522748 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 29
34522680 ATCAATTCTT
*
34522690 TTAAAATCTCTATT-ATTAA-AT-AAAAA
1 TTAAAATCTATATTAATTAATATAAAAAA
* *
34522716 TTAAACTCTATTTTAATTAATATAAAAAA
1 TTAAAATCTATATTAATTAATATAAAAAA
34522745 TTAA
1 TTAA
34522749 CTCGCAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.41
27 5 0.19
28 2 0.07
29 9 0.33
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.41
Consensus pattern (29 bp):
TTAAAATCTATATTAATTAATATAAAAAA
Found at i:34525150 original size:17 final size:17
Alignment explanation
Indices: 34525130--34525163 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34525120 AAGGATATGC
34525130 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
34525147 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
34525164 GATATGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
AATCTTAGATATGATAT
Found at i:34525162 original size:5 final size:5
Alignment explanation
Indices: 34525154--34525179 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34525144 TATAATCTTA
34525154 GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT G
34525180 CAATCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:34531900 original size:13 final size:12
Alignment explanation
Indices: 34531879--34531948 Score: 54
Period size: 13 Copynumber: 5.8 Consensus size: 12
34531869 CTTCTATTTC
34531879 AAAAAAAAAGAA
1 AAAAAAAAAGAA
34531891 AAAAATAAAAGAA
1 AAAAA-AAAAGAA
*
34531904 AAATAAAAAA-AT
1 AAA-AAAAAAGAA
* *
34531916 AATAATAAA-AA
1 AAAAAAAAAGAA
* *
34531927 TAAAAAAGAGAA
1 AAAAAAAAAGAA
34531939 AAAAGAAAAA
1 AAAA-AAAAA
34531949 TGGAGAGGCC
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
11 11 0.25
12 13 0.30
13 18 0.41
14 2 0.05
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:34531911 original size:19 final size:18
Alignment explanation
Indices: 34531879--34531933 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
34531869 CTTCTATTTC
*
34531879 AAAAAAAAAGAAAAAAAT
1 AAAAAAAAATAAAAAAAT
34531897 AAAAGAAAAATAAAAAAAT
1 AAAA-AAAAATAAAAAAAT
34531916 AATAATAAAAATAAAAAA
1 AA-AA-AAAAATAAAAAA
34531934 GAGAAAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.12
19 15 0.45
20 14 0.42
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (18 bp):
AAAAAAAAATAAAAAAAT
Found at i:34532976 original size:44 final size:43
Alignment explanation
Indices: 34532837--34533228 Score: 311
Period size: 44 Copynumber: 9.0 Consensus size: 43
34532827 GAAACAAGAT
*
34532837 TTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGA
* * * * **
34532880 TCTGACATTCCTGTGCTTACAGGGAAGCAGATC---GATTTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAG-A
34532923 -TGGCATCCCTGTGTTTATAGGGAACA-AGTCGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGA
* * *
34532965 TTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAACAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGA
* * * * * **
34533009 TCTGACA-CTCCTGTGCTTACAGTGAAGCAGATCGAGGATTTCAGCA
1 T-TGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAG-A
* *
34533055 -TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGAAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGA
*
34533097 TATGGCATCCCTGTGTTTATAGGAAACAGATCGAAGATAGCAGA
1 T-TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGA
* * * * * **
34533141 TTTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCA
1 -TTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAG-A
*
34533187 -TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGA
34533229 CTTCTGTATT
Statistics
Matches: 272, Mismatches: 52, Indels: 51
0.73 0.14 0.14
Matches are distributed among these distances:
39 1 0.00
40 4 0.01
41 20 0.07
42 11 0.04
43 32 0.12
44 164 0.60
45 38 0.14
46 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
TTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGA
Found at i:34533116 original size:132 final size:132
Alignment explanation
Indices: 34532832--34533224 Score: 657
Period size: 132 Copynumber: 3.0 Consensus size: 132
34532822 TCAAAGAAAC
* *
34532832 AAGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
1 AAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
* *
34532897 TACAGGGAAGCAGATC---GATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGAT
66 TACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
34532959 AG
131 AG
* * * *
34532961 CAGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAACAGATCTGACACTCCTGTGCT
1 AAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
*
34533026 TACAGTGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
34533091 AG
131 AG
* * *
34533093 AAGATATGGCATCCCTGTGTTTATAGGAAACAGATCGAAGATAGCAGATTTGACACTCCTGTGCT
1 AAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
34533158 TACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
34533223 AG
131 AG
34533225 CAGACTTCTG
Statistics
Matches: 245, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
129 74 0.30
132 171 0.70
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
AAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
TACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
AG
Found at i:34533750 original size:45 final size:44
Alignment explanation
Indices: 34533556--34533778 Score: 161
Period size: 45 Copynumber: 5.1 Consensus size: 44
34533546 AATCTAAGAT
* * * *
34533556 GATTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAGA-AGCA
1 GATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGCA
* * *
34533599 GATTTGGCGTCTTTGTGTTCGAC-GGAGAGCAGATCGAAGATATCA
1 GATTTGGCGTCTCTGTATT-GACAGG-GAGCAGATCGAAGATAGCA
** * * * * *
34533644 -ACATGACAGTC-ATG-AGTTTACAAGGAGCAGATTGAAGA-AGCA
1 GATTTGGC-GTCTCTGTA-TTGACAGGGAGCAGATCGAAGATAGCA
* * *
34533686 AATTTAGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATT-GACAGGGAGCAGATCGAAGATAGCA
** * *
34533731 GATTTGGCGTCTCTGTATTAGATGGGGAACAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATT-GACAGGGAGCAGATCGAAGATAGCA
34533776 GAT
1 GAT
34533779 ATCGCCTTCC
Statistics
Matches: 137, Mismatches: 32, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
42 6 0.04
43 40 0.29
44 41 0.30
45 50 0.36
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGCA
Found at i:34534159 original size:17 final size:17
Alignment explanation
Indices: 34534139--34534172 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34534129 AAGGATATGC
34534139 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
34534156 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
34534173 GATATGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
AATCTTAGATATGATAT
Found at i:34537356 original size:62 final size:62
Alignment explanation
Indices: 34537225--34537511 Score: 319
Period size: 62 Copynumber: 4.6 Consensus size: 62
34537215 ATATCCTGAC
* ** * *
34537225 ACACGGCCTGGGCACATGCCTATGTGCCTTAGCCGTGTGGATTTTA-AGCACA--AGCAGTGAGT
1 ACACGGCCTGGGCACACGCCCGTGT-CCTTGGCCGTGTGG-TTTTATA-CA-ATGAACAGTGAGT
*
34537287 C
62 T
* * * * * *
34537288 ATACGGCCTAGGCACACGCTCGTGTCATTGGCCGTGTGGTTTTATACTATGAACAGCGAGTT
1 ACACGGCCTGGGCACACGCCCGTGTCCTTGGCCGTGTGGTTTTATACAATGAACAGTGAGTT
* * * * *
34537350 ACACGGCCTGGGCACAAGCCCATGTCCCTGGCCATGTGGTTTTATTCAATGAACAGTGAGTT
1 ACACGGCCTGGGCACACGCCCGTGTCCTTGGCCGTGTGGTTTTATACAATGAACAGTGAGTT
* *
34537412 ACACAGCCTGGGCACACGCTCGTGTCCTTGGCCGTGTGGTTTTATACAATGAACAGTGAGTT
1 ACACGGCCTGGGCACACGCCCGTGTCCTTGGCCGTGTGGTTTTATACAATGAACAGTGAGTT
* * *
34537474 CCACGGCCCGGACACACGCCCGTGTCCTTGGCCGTGTG
1 ACACGGCCTGGGCACACGCCCGTGTCCTTGGCCGTGTG
34537512 AACCCTGCAG
Statistics
Matches: 186, Mismatches: 35, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
60 1 0.01
61 6 0.03
62 160 0.86
63 19 0.10
ACGTcount: A:0.20, C:0.27, G:0.28, T:0.25
Consensus pattern (62 bp):
ACACGGCCTGGGCACACGCCCGTGTCCTTGGCCGTGTGGTTTTATACAATGAACAGTGAGTT
Found at i:34541503 original size:22 final size:21
Alignment explanation
Indices: 34541444--34541486 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
34541434 AATTTTTAAG
34541444 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
34541463 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
34541484 GAT
1 GAT
34541487 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:34544603 original size:14 final size:14
Alignment explanation
Indices: 34544584--34544613 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34544574 TAAAGTTATT
34544584 AAAAAGAGAAAGAA
1 AAAAAGAGAAAGAA
*
34544598 AAAAAGAGAGAGAA
1 AAAAAGAGAAAGAA
34544612 AA
1 AA
34544614 GAGGGTCACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAAAGAGAAAGAA
Found at i:34547072 original size:9 final size:9
Alignment explanation
Indices: 34547060--34547101 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
34547050 TTTCAAAACA
34547060 AAAAAAAAG
1 AAAAAAAAG
*
34547069 AAAAAAGAG
1 AAAAAAAAG
*
34547078 AAAAAATGAG
1 AAAAAA-AAG
34547088 AAAAAAAAG
1 AAAAAAAAG
34547097 AAAAA
1 AAAAA
34547102 TGAGAGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 21 0.70
10 9 0.30
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:34547083 original size:18 final size:18
Alignment explanation
Indices: 34547060--34547106 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
34547050 TTTCAAAACA
* *
34547060 AAAAAAAAGAAAAAAGAG
1 AAAAAAGAGAAAAAAAAG
34547078 AAAAAATGAGAAAAAAAAG
1 AAAAAA-GAGAAAAAAAAG
*
34547097 AAAAATGAGA
1 AAAAAAGAGA
34547107 GAAATGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (18 bp):
AAAAAAGAGAAAAAAAAG
Found at i:34547083 original size:19 final size:19
Alignment explanation
Indices: 34547054--34547101 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
34547044 CTTCTATTTC
*
34547054 AAAACAAAAAAAAAGAAAA
1 AAAAGAAAAAAAAAGAAAA
* **
34547073 AAGAGAAAAAATGAGAAAA
1 AAAAGAAAAAAAAAGAAAA
34547092 AAAAGAAAAA
1 AAAAGAAAAA
34547102 TGAGAGAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (19 bp):
AAAAGAAAAAAAAAGAAAA
Found at i:34547097 original size:28 final size:26
Alignment explanation
Indices: 34547059--34547121 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 26
34547049 ATTTCAAAAC
34547059 AAAAAAAAAGAAAAAAGAGAAAAAATG
1 AAAAAAAAAGAAAAAAGAG-AAAAATG
* *
34547086 AGAAAAAAAAGAAAAATGAGAGAAATG
1 A-AAAAAAAAGAAAAAAGAGAAAAATG
34547113 AAAAAAAAA
1 AAAAAAAAA
34547122 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 8 0.24
27 8 0.24
28 17 0.52
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (26 bp):
AAAAAAAAAGAAAAAAGAGAAAAATG
Found at i:34547108 original size:20 final size:20
Alignment explanation
Indices: 34547067--34547127 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 20
34547057 ACAAAAAAAA
*
34547067 AGAAAAAAGAGAAAAA--ATG
1 AGAAAAAAAAGAAAAATGA-G
34547086 AGAAAAAAAAGAAAAATGAG
1 AGAAAAAAAAGAAAAATGAG
*
34547106 AGAAATGAAAA-AAAAATG-G
1 AGAAA-AAAAAGAAAAATGAG
34547125 AGA
1 AGA
34547128 GGCCAAGGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
19 19 0.51
20 13 0.35
21 5 0.14
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (20 bp):
AGAAAAAAAAGAAAAATGAG
Found at i:34547118 original size:18 final size:17
Alignment explanation
Indices: 34547054--34547123 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 17
34547044 CTTCTATTTC
34547054 AAAACAAAAAAAAA-GA-
1 AAAA-AAAAAAAAATGAG
*
34547070 AAAAAGAGAAAAAATGAG
1 AAAAA-AAAAAAAATGAG
34547088 AAAAAAAAGAAAAATGAG
1 AAAAAAAA-AAAAATGAG
34547106 AGAAATGAAAAAAAAATG
1 A-AAA--AAAAAAAAATG
34547124 GAGAGGCCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
15 1 0.02
16 11 0.24
17 4 0.09
18 15 0.33
19 3 0.07
20 7 0.16
21 4 0.09
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAAAAATGAG
Found at i:34548208 original size:84 final size:84
Alignment explanation
Indices: 34548067--34548846 Score: 1171
Period size: 84 Copynumber: 9.3 Consensus size: 84
34548057 CAAAATTCAG
* * *
34548067 CGCCTTAATTCCCTAAGCAATAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAACAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
34548132 GTGGAACAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
34548151 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
34548216 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
34548235 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCATATCTCCTTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
34548300 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * **
34548319 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAG-TTTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
34548383 GTGGAGTAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
34548402 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
34548467 GTCGAGTAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
34548486 CGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTATATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
34548551 GTGGAGTAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
34548570 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
***
34548630 ACAGAGCAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
* * *
34548652 TGCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
34548717 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
34548736 CGCCTTAATCCCCTAAGCAGTACGGTAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
34548799 GCGGAGCAGATCAAAGACGAT
66 GTGGAGCAGATCGAAGAC--T
* *
34548820 GCACCTTAACCCCCTAAGCAGTAGGGT
1 -CGCCTTAATCCCCTAAGCAGTAGGGT
34548847 CCAAGATGAT
Statistics
Matches: 636, Mismatches: 48, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
79 37 0.06
81 1 0.00
82 62 0.10
83 78 0.12
84 397 0.62
85 24 0.04
87 37 0.06
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:34548513 original size:251 final size:250
Alignment explanation
Indices: 34548069--34548846 Score: 1163
Period size: 251 Copynumber: 3.1 Consensus size: 250
34548059 AAATTCAGCG
* * *
34548069 CCTTAATTCCCTAAGCAATAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAACAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCT-AAGAGTAGT
*
34548134 GGAACAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
65 GGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
* *
34548199 TATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGTAGTAGGGTAAC
130 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAAC
*
34548264 AGGTTAAATTTGCAGATCATATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACTCA
195 AGGTTAAATTTGCAGATCTTATCTCC-TAAGCAGTAGTGGAGCAGATCGAAGACTCA
* **
34548321 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAGTTTAGTG
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGAGTAGTG
*
34548386 GAGTAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
66 GAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
* * *
34548451 ATCTCCCTAAGCAGTAGTCGAGTAGATCGAAGACTCGCCTTAATCCCCTAAGCGGTAGGGTAACA
131 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACA
* * *
34548516 GGTTATATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACTCG
196 GGTTAAATTTGCAGATCTTATCT-CCTAAGCAGTAGTGGAGCAGATCGAAGACTCA
* **
34548572 CCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTAAC
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAG-AGTAGT
* * * *
34548632 AGAGCAGATCGACGACGACTTGCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGTAGA
65 GGAGCAGATCGA--A-GACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
*
34548697 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTACGGT
127 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGT
* * *
34548762 AACAGGTTAAATTTGCAGATCTTATC-CCTAAGCAGGAGCGGAGCAGATCAAAGACGATGCA
192 AACAGGTTAAATTTGCAGATCTTATCTCCTAAGCAGTAGTGGAGCAGATCGAAGAC--T-CA
*
34548823 CCTTAACCCCCTAAGCAGTAGGGT
1 CCTTAATCCCCTAAGCAGTAGGGT
34548847 CCAAGATGAT
Statistics
Matches: 479, Mismatches: 39, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
246 21 0.04
247 12 0.03
248 25 0.05
249 1 0.00
250 133 0.28
251 233 0.49
252 54 0.11
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (250 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGAGTAGTG
GAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACA
GGTTAAATTTGCAGATCTTATCTCCTAAGCAGTAGTGGAGCAGATCGAAGACTCA
Done.