Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 106 of 185
Found at i:33523783 original size:20 final size:20
Alignment explanation
Indices: 33523745--33523783 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33523735 TGGAGCAGGA
*
33523745 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
33523765 ATATCGATACTTTAAGAAA
1 ATATCGATACCTTAAGAAA
33523784 AGTGTCGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:33526110 original size:31 final size:31
Alignment explanation
Indices: 33526072--33526133 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
33526062 AGGCAAATTA
33526072 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
33526103 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
33526134 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:33531707 original size:21 final size:20
Alignment explanation
Indices: 33531681--33531726 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 20
33531671 GGTAGGCAAC
33531681 TTTTTTTTGCGCTTTTTGCT
1 TTTTTTTTGCGCTTTTTGCT
33531701 TCTTTTTTTGCGCTTTTTGCT
1 T-TTTTTTTGCGCTTTTTGCT
33531722 TTTTT
1 TTTTT
33531727 CTGTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.00, C:0.15, G:0.13, T:0.72
Consensus pattern (20 bp):
TTTTTTTTGCGCTTTTTGCT
Found at i:33532310 original size:31 final size:31
Alignment explanation
Indices: 33532272--33532333 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
33532262 AGGCAAATTA
33532272 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
33532303 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
33532334 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:33534051 original size:43 final size:43
Alignment explanation
Indices: 33533991--33534142 Score: 209
Period size: 43 Copynumber: 3.6 Consensus size: 43
33533981 TTTAAATGCC
*
33533991 CACACGGCCTGAG--ACACGGGCGTGTCTCTTAGCCGTGTGAGA
1 CACACGGCCT-AGCCACACGGGCGTGTCTCTTGGCCGTGTGAGA
*
33534033 CACACGGCCTAGCCACACGGGCGTGTCTCTTGGCCATGTGAGA
1 CACACGGCCTAGCCACACGGGCGTGTCTCTTGGCCGTGTGAGA
* * * *
33534076 CATACGGCCTGGCCACACGAGTGTGTCTCTTGGCCGTGTGAGA
1 CACACGGCCTAGCCACACGGGCGTGTCTCTTGGCCGTGTGAGA
* *
33534119 CACACAGCCTGGCCACACGGGCGT
1 CACACGGCCTAGCCACACGGGCGT
33534143 ATATCCCCTG
Statistics
Matches: 97, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.02
42 10 0.10
43 85 0.88
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.18
Consensus pattern (43 bp):
CACACGGCCTAGCCACACGGGCGTGTCTCTTGGCCGTGTGAGA
Found at i:33536524 original size:8 final size:8
Alignment explanation
Indices: 33536513--33536542 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
33536503 ATAAAAAATA
33536513 AAAATTTT
1 AAAATTTT
33536521 AAAAATTTT
1 -AAAATTTT
33536530 AAAATTTT
1 AAAATTTT
33536538 AAAAT
1 AAAAT
33536543 ATATATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AAAATTTT
Found at i:33536525 original size:9 final size:9
Alignment explanation
Indices: 33536511--33536541 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
33536501 TTATAAAAAA
33536511 TAAAAATTT
1 TAAAAATTT
33536520 TAAAAATTT
1 TAAAAATTT
33536529 T-AAAATTT
1 TAAAAATTT
33536537 TAAAA
1 TAAAA
33536542 TATATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAAAAATTT
Found at i:33536815 original size:9 final size:10
Alignment explanation
Indices: 33536776--33536876 Score: 54
Period size: 10 Copynumber: 10.4 Consensus size: 10
33536766 TTTTGGTACG
33536776 ATAA-TTTTT
1 ATAATTTTTT
33536785 ATAAATTTTTT
1 AT-AATTTTTT
*
33536796 ATGAA--TATT
1 AT-AATTTTTT
33536805 AT-ATTTTTT
1 ATAATTTTTT
33536814 ATAATTTTCTT
1 ATAATTTT-TT
**
33536825 ACGA--TTTT
1 ATAATTTTTT
**
33536833 ATAAAATTTT
1 ATAATTTTTT
33536843 ATAATTTTTT
1 ATAATTTTTT
*
33536853 -TAAGATTTTT
1 ATAA-TTTTTT
*
33536863 ATAATTTTTA
1 ATAATTTTTT
33536873 ATAA
1 ATAA
33536877 AATTTAAATA
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
7 1 0.01
8 4 0.06
9 17 0.24
10 32 0.46
11 16 0.23
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:33536842 original size:29 final size:28
Alignment explanation
Indices: 33536810--33536874 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
33536800 ATATTATATT
*
33536810 TTTTATAATTTTCTTACGATTTTATAAAA
1 TTTTATAATTTTCTTAAGATTTT-TAAAA
* *
33536839 TTTTATAATTTTTTTAAGATTTTTATAA
1 TTTTATAATTTTCTTAAGATTTTTAAAA
33536867 TTTT-TAAT
1 TTTTATAAT
33536875 AAAATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 4 0.12
28 8 0.24
29 21 0.64
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTTATAATTTTCTTAAGATTTTTAAAA
Found at i:33540864 original size:51 final size:51
Alignment explanation
Indices: 33540809--33540945 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
33540799 TATGGTAACT
*
33540809 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
* * * ** * * **
33540860 AATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
*
33540911 AATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 AATCTTAGAAGATATGATATTATAATCTTAGAGAT
33540946 TTGATGGTAG
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
Found at i:33562514 original size:20 final size:21
Alignment explanation
Indices: 33562489--33562529 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33562479 ATATATATAG
*
33562489 ATATAATC-TGTAATTTTAAT
1 ATATAAACATGTAATTTTAAT
*
33562509 ATATAAACATGTCATTTTAAT
1 ATATAAACATGTAATTTTAAT
33562530 TATTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (21 bp):
ATATAAACATGTAATTTTAAT
Found at i:33563550 original size:22 final size:22
Alignment explanation
Indices: 33563524--33563566 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
33563514 ACTTAGGCTA
33563524 ATATGGTA-ACTAATCTTAGAAG
1 ATATGGTATA-TAATCTTAGAAG
33563546 ATATGGTATTATAATCTTAGA
1 ATATGGTA-TATAATCTTAGA
33563567 GATCTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 10 0.53
24 1 0.05
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (22 bp):
ATATGGTATATAATCTTAGAAG
Found at i:33563590 original size:51 final size:51
Alignment explanation
Indices: 33563535--33563671 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 51
33563525 TATGGTAACT
* *
33563535 AATCTTAGAAGATATGGTATTATAATCTTAGAGATCTTAGATATGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
* * * ** * * **
33563586 AATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
*
33563637 AATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 AATCTTAGAAGATATGATATTATAATCTTAGAGAT
33563672 TTGATGGTAG
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.40
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
Found at i:33568835 original size:12 final size:12
Alignment explanation
Indices: 33568815--33568850 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
33568805 CGGTCCGGCC
33568815 ATATTATTTTTT
1 ATATTATTTTTT
*
33568827 ATTTTATTTTTT
1 ATATTATTTTTT
*
33568839 ATATAATTTTTT
1 ATATTATTTTTT
33568851 TAAAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
ATATTATTTTTT
Found at i:33568873 original size:16 final size:18
Alignment explanation
Indices: 33568852--33568888 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
33568842 TAATTTTTTT
*
33568852 AAAAATA-TAATACA-TA
1 AAAAATACTAAAACATTA
33568868 AAAAATACTAAAACATTA
1 AAAAATACTAAAACATTA
33568886 AAA
1 AAA
33568889 CAAATGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAATACTAAAACATTA
Found at i:33569053 original size:11 final size:11
Alignment explanation
Indices: 33569034--33569079 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
33569024 AATAGTGAAA
33569034 AAAACAACAAG
1 AAAACAACAAG
* *
33569045 AAAATAACAAT
1 AAAACAACAAG
*
33569056 AAAACAATAA-
1 AAAACAACAAG
33569066 AAAACAACAAG
1 AAAACAACAAG
33569077 AAA
1 AAA
33569080 GCAGTAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.76, C:0.13, G:0.04, T:0.07
Consensus pattern (11 bp):
AAAACAACAAG
Found at i:33569074 original size:21 final size:21
Alignment explanation
Indices: 33569034--33569090 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
33569024 AATAGTGAAA
* * *
33569034 AAAACAACAAGAAAATAACAAT
1 AAAACAATAA-AAAACAACAAG
33569056 AAAACAATAAAAAACAACAAG
1 AAAACAATAAAAAACAACAAG
* *
33569077 AAAGCAGTAAAAAA
1 AAAACAATAAAAAA
33569091 AATTTCTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.74, C:0.12, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAACAATAAAAAACAACAAG
Found at i:33572681 original size:27 final size:27
Alignment explanation
Indices: 33572645--33572703 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
33572635 CAACATTTGG
* *
33572645 AGTCCGTCGAGACAT-TAAACATGGGGT
1 AGTCCATCGAGA-ATATAAAAATGGGGT
33572672 AGTCCATCGAGAATATAAAAATGGGGT
1 AGTCCATCGAGAATATAAAAATGGGGT
33572699 AGTCC
1 AGTCC
33572704 GTTAGGACGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (27 bp):
AGTCCATCGAGAATATAAAAATGGGGT
Found at i:33577139 original size:45 final size:44
Alignment explanation
Indices: 33577083--33577201 Score: 150
Period size: 45 Copynumber: 2.7 Consensus size: 44
33577073 ATTAACTTGG
* * * *
33577083 GAAAAGAGAAAGACCATGGTTGAAAGATATCATGGCATTATAACC
1 GAAAAGAGAAAGACCATAGTTGAAAGATACCATGGAAATA-AACC
*
33577128 GAAATGAGAAAGACCATAGTTGAAAGATACCATGGAAATAAACC
1 GAAAAGAGAAAGACCATAGTTGAAAGATACCATGGAAATAAACC
* *
33577172 -AAAACGAGTAAGACCCTAGTTGAAAGATAC
1 GAAAA-GAGAAAGACCATAGTTGAAAGATAC
33577202 TATGACACTA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
43 3 0.05
44 27 0.42
45 35 0.54
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (44 bp):
GAAAAGAGAAAGACCATAGTTGAAAGATACCATGGAAATAAACC
Found at i:33578511 original size:10 final size:10
Alignment explanation
Indices: 33578496--33578558 Score: 56
Period size: 10 Copynumber: 5.9 Consensus size: 10
33578486 AAAACAAATA
33578496 AAAGAAAAAG
1 AAAGAAAAAG
33578506 AAAGAAAAAGG
1 AAAGAAAAA-G
*
33578517 AATACAAAACCA-
1 AA-AGAAAA--AG
*
33578529 AAACGAAACAG
1 AAA-GAAAAAG
33578540 AAAGAAAAAG
1 AAAGAAAAAG
33578550 AAAGAAAAA
1 AAAGAAAAA
33578559 AAGAAATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 25 0.58
11 7 0.16
12 10 0.23
14 1 0.02
ACGTcount: A:0.75, C:0.08, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:33592104 original size:14 final size:15
Alignment explanation
Indices: 33592085--33592114 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
33592075 CATTTCTTGG
33592085 TCGGTTCAGTT-AAC
1 TCGGTTCAGTTCAAC
33592099 TCGGTTCAGTTCAAC
1 TCGGTTCAGTTCAAC
33592114 T
1 T
33592115 GGACCACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (15 bp):
TCGGTTCAGTTCAAC
Found at i:33604917 original size:26 final size:25
Alignment explanation
Indices: 33604888--33604936 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
33604878 CGGTGAGCCA
33604888 TTAATCAGGAAGCTTACAAAGAGCTT
1 TTAATCAGGAAGC-TACAAAGAGCTT
* *
33604914 TTAATCGGGAAGCTCCAAAGAGC
1 TTAATCAGGAAGCTACAAAGAGC
33604937 CATATATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (25 bp):
TTAATCAGGAAGCTACAAAGAGCTT
Found at i:33614794 original size:62 final size:59
Alignment explanation
Indices: 33614714--33614830 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 59
33614704 AATGGTTATC
* *
33614714 TTAATATTAAATTAAATTTAATGTTTATCTTATAGATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTAAATTTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGAT
*
33614776 TTAATATTAAATTTAATTTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAAATTTAATATTTATCTTGATAAATATTATATTAATTTAATA
33614831 TTAAAGTGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 23 0.44
60 1 0.02
61 1 0.02
62 27 0.52
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTAAATTTAATATTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:33615891 original size:21 final size:21
Alignment explanation
Indices: 33615858--33615900 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
33615848 AAATAGTCTT
* *
33615858 ATTTAACAACCAAGTTCTTAA
1 ATTTAACAACCAACTTCATAA
* *
33615879 ATTTATCATCCAACTTCATAA
1 ATTTAACAACCAACTTCATAA
33615900 A
1 A
33615901 CAACTCAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (21 bp):
ATTTAACAACCAACTTCATAA
Found at i:33617252 original size:19 final size:19
Alignment explanation
Indices: 33617216--33617255 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33617206 AGTTAATAAC
*
33617216 AAATTTGATTACGGTGGGT
1 AAATTTGATTACGATGGGT
*
33617235 AAATTTGATTACTATGGGT
1 AAATTTGATTACGATGGGT
33617254 AA
1 AA
33617256 CTATGGCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.38
Consensus pattern (19 bp):
AAATTTGATTACGATGGGT
Found at i:33625553 original size:18 final size:17
Alignment explanation
Indices: 33625526--33625559 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33625516 ATTTGGGCCA
*
33625526 TGTGGGCCACATGGGCG
1 TGTGGGCCACACGGGCG
33625543 TGTGGGCCCACACGGGC
1 TGTGGG-CCACACGGGC
33625560 AAACATCATG
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:0.12, C:0.29, G:0.44, T:0.15
Consensus pattern (17 bp):
TGTGGGCCACACGGGCG
Found at i:33626550 original size:18 final size:18
Alignment explanation
Indices: 33626506--33626553 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
33626496 GCAATAAGAA
33626506 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
* *
33626524 AACGATTTGTAAA-TGAAT
1 AATGTTTTG-AAATTGAAT
33626542 AATGTTTTGAAA
1 AATGTTTTGAAA
33626554 ACAAGCGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:33628890 original size:21 final size:22
Alignment explanation
Indices: 33628846--33628896 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
33628836 TTGTTATAAC
*
33628846 TTTATAAAACACACAAATTATT
1 TTTATAATACACACAAATTATT
* *
33628868 TTTATAATACA-AGAAATTGTT
1 TTTATAATACACACAAATTATT
*
33628889 TTCATAAT
1 TTTATAAT
33628897 CATCCCAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (22 bp):
TTTATAATACACACAAATTATT
Found at i:33629482 original size:21 final size:23
Alignment explanation
Indices: 33629458--33629499 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
33629448 AAAAATAAAT
33629458 AAAAGTTAT-ATAAA-AATATTA
1 AAAAGTTATAATAAAGAATATTA
*
33629479 AAAATTTATAATAAAGAATAT
1 AAAAGTTATAATAAAGAATAT
33629500 AGAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
AAAAGTTATAATAAAGAATATTA
Found at i:33630134 original size:18 final size:17
Alignment explanation
Indices: 33630113--33630187 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 17
33630103 ATCTTACGAC
*
33630113 TTTATAAAATTTTATATT
1 TTTAT-AAATTTTATAAT
*
33630131 TTTATATATTTTATAAAT
1 TTTATAAATTTTAT-AAT
33630149 TTTATAAATTTTATAAAT
1 TTTATAAATTTTAT-AAT
*
33630167 TTT-TAGTATTTTTATAAT
1 TTTATA--AATTTTATAAT
33630185 TTT
1 TTT
33630188 TTCTAATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.20
18 33 0.66
19 7 0.14
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (17 bp):
TTTATAAATTTTATAAT
Found at i:33630144 original size:9 final size:9
Alignment explanation
Indices: 33630121--33630218 Score: 69
Period size: 9 Copynumber: 10.7 Consensus size: 9
33630111 ACTTTATAAA
33630121 ATTTTATAT
1 ATTTTATAT
33630130 -TTTTATAT
1 ATTTTATAT
*
33630138 ATTTTATAA
1 ATTTTATAT
*
33630147 ATTTTATAA
1 ATTTTATAT
*
33630156 ATTTTATAA
1 ATTTTATAT
33630165 ATTTT-TAGT
1 ATTTTATA-T
33630174 ATTTT-TAT
1 ATTTTATAT
* *
33630182 AATTTTTTCT
1 -ATTTTATAT
33630192 AATTTT-TAAT
1 -ATTTTAT-AT
33630202 ATTTTTATTAT
1 A-TTTTA-TAT
33630213 ATTTTA
1 ATTTTA
33630219 ATAATTTCAG
Statistics
Matches: 77, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
8 11 0.14
9 44 0.57
10 18 0.23
11 3 0.04
12 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (9 bp):
ATTTTATAT
Found at i:33630144 original size:27 final size:27
Alignment explanation
Indices: 33630113--33630169 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
33630103 ATCTTACGAC
* *
33630113 TTTATAAAATTTTAT-ATTTTTATATAT
1 TTTAT-AAATTTTATAAATTTTATAAAT
33630140 TTTATAAATTTTATAAATTTTATAAAT
1 TTTATAAATTTTATAAATTTTATAAAT
33630167 TTT
1 TTT
33630170 TAGTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTATAAATTTTATAAATTTTATAAAT
Found at i:33630217 original size:28 final size:28
Alignment explanation
Indices: 33630148--33630217 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
33630138 ATTTTATAAA
* *
33630148 TTTTATAA-ATTTTATAAATTTTTAGTAT
1 TTTTATAATATTTTCT-AATTTTTAATAT
*
33630176 TTTTATAATTTTTTCTAATTTTTAATAT
1 TTTTATAATATTTTCTAATTTTTAATAT
*
33630204 TTTTATTATATTTT
1 TTTTATAATATTTT
33630218 AATAATTTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 31 0.86
29 5 0.14
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (28 bp):
TTTTATAATATTTTCTAATTTTTAATAT
Found at i:33630236 original size:19 final size:18
Alignment explanation
Indices: 33630187--33630237 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
33630177 TTTATAATTT
*
33630187 TTTC-TAATTTTTAATAT
1 TTTCATAATTTTTAATAA
* *
33630204 TTTTATTATATTTTAATAA
1 TTTCATAAT-TTTTAATAA
33630223 TTTCAGTAATTTTTA
1 TTTCA-TAATTTTTA
33630238 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 3 0.12
18 3 0.12
19 17 0.65
20 3 0.12
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTCATAATTTTTAATAA
Found at i:33632889 original size:14 final size:14
Alignment explanation
Indices: 33632867--33632900 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
33632857 GCTGCTAAAC
*
33632867 TCATCTCATACATT
1 TCATTTCATACATT
*
33632881 TCATTTCATACTTT
1 TCATTTCATACATT
33632895 TCATTT
1 TCATTT
33632901 AGACTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.53
Consensus pattern (14 bp):
TCATTTCATACATT
Found at i:33633026 original size:14 final size:13
Alignment explanation
Indices: 33632990--33633027 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
33632980 TCTATCACCA
*
33632990 AATTGTTAACTTT
1 AATTGTTAACATT
33633003 AATT-TTAACATT
1 AATTGTTAACATT
33633015 AATTGATTAACAT
1 AATTG-TTAACAT
33633028 ATACAGTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 4 0.18
14 7 0.32
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (13 bp):
AATTGTTAACATT
Found at i:33640833 original size:15 final size:14
Alignment explanation
Indices: 33640787--33640825 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
33640777 CCTACAGGGG
33640787 ACACATGGCTGTGT
1 ACACATGGCTGTGT
*
33640801 -CACATAGCTGTGT
1 ACACATGGCTGTGT
33640814 CACACATGGCTG
1 -ACACATGGCTG
33640826 AGTAACACGC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 12 0.57
15 9 0.43
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (14 bp):
ACACATGGCTGTGT
Found at i:33643414 original size:24 final size:24
Alignment explanation
Indices: 33643366--33643414 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33643356 ACTGGTCATA
* * *
33643366 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGAGAAAATTG
*
33643390 GAGAGATTTGAGGAGAGAAAATTG
1 GAGAGAATTGAGGAGAGAAAATTG
33643414 G
1 G
33643415 GATTTGGGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (24 bp):
GAGAGAATTGAGGAGAGAAAATTG
Found at i:33644173 original size:54 final size:54
Alignment explanation
Indices: 33644084--33644253 Score: 241
Period size: 54 Copynumber: 3.1 Consensus size: 54
33644074 AGAGGTCGAT
*
33644084 AAATGACCGAAATACCCTCTATAGGTTAAAATGACCAAAATACCCCCATAGGATA
1 AAATGACCGAAATACCC-CTATAGGGTAAAATGACCAAAATACCCCCATAGGATA
** * ** *
33644139 AAATGACCGAAATACCCCCGTAGGGTAAAATGACCGAAATACCTTCATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCCATAGGATA
* * *
33644193 AAATGACCGAAATATCCCTATAGGGTAAAATGACTAAAATACCCCCATAGGATG
1 AAATGACCGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCCATAGGATA
33644247 AAATGAC
1 AAATGAC
33644254 TGTTATACCC
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 82 0.83
55 17 0.17
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.19
Consensus pattern (54 bp):
AAATGACCGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCCATAGGATA
Found at i:33644264 original size:27 final size:27
Alignment explanation
Indices: 33644084--33644253 Score: 214
Period size: 27 Copynumber: 6.3 Consensus size: 27
33644074 AGAGGTCGAT
* *
33644084 AAATGACCGAAATACCCTCTATAGGTTA
1 AAATGACCGAAATACCC-CCATAGGGTA
* *
33644112 AAATGACCAAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
*
33644139 AAATGACCGAAATACCCCCGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
33644166 AAATGACCGAAATACCTTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
33644193 AAATGACCGAAATATCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** * *
33644220 AAATGACTAAAATACCCCCATAGGATG
1 AAATGACCGAAATACCCCCATAGGGTA
33644247 AAATGAC
1 AAATGAC
33644254 TGTTATACCC
Statistics
Matches: 123, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 107 0.87
28 16 0.13
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:33654336 original size:21 final size:21
Alignment explanation
Indices: 33654292--33654349 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
33654282 TAACACACTT
*
33654292 AGATGCATCCACAACAAAGCC
1 AGATGCATCCACAACAAAACC
* * *
33654313 AGATGCATCCATACCAAAATC
1 AGATGCATCCACAACAAAACC
* *
33654334 AGATGTAGCCACAACA
1 AGATGCATCCACAACA
33654350 CTTTTTAGTG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (21 bp):
AGATGCATCCACAACAAAACC
Found at i:33673717 original size:51 final size:52
Alignment explanation
Indices: 33673524--33673724 Score: 207
Period size: 51 Copynumber: 4.0 Consensus size: 52
33673514 TGAAAGTGAA
* * * * * *
33673524 AGTGAT-GGTCACGTGTGTAGTACTATGCGTAGGTTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* **
33673574 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* * * * *
33673625 AGCT--TCGATCACGTGTGTAGTACTATGTGCAAGCTACTATGTGTATCGGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* *
33673676 AGTGAT-GGTCACATGTGCAGTACTATGTGCAGGCTACTATGTGAACCGG
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGG
33673725 TATCATTAAT
Statistics
Matches: 122, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
49 4 0.03
50 37 0.30
51 79 0.65
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
Found at i:33673724 original size:102 final size:101
Alignment explanation
Indices: 33673532--33673716 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
33673522 AAAGTGATGG
* * * * *
33673532 TCACGTGTGTAGTACTATGCGTAGGTTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGCGCAAGCTACTACGTGTACCAGAATGATAGGTCACATGTGCAGTAC
33673597 TATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
* * * *
33673633 TCACGTGTGTAGTACTATGTGCAAGCTACTATGTGTATCGGATAGTGAT-GGTCACATGTGCAGT
1 TCACGTGTGTAGTACTATGCGCAAGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGCAGT
33673697 ACTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
33673717 TGAACCGGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 35 0.48
102 34 0.47
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGCGCAAGCTACTACGTGTACCAGAATGATAGGTCACATGTGCAGTAC
TATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
Found at i:33673811 original size:46 final size:43
Alignment explanation
Indices: 33673720--33673804 Score: 107
Period size: 46 Copynumber: 1.9 Consensus size: 43
33673710 TACTATGTGA
* *
33673720 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGTTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
* *
33673763 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGA
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGA
33673805 ATCCACCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 5 0.14
44 11 0.31
45 2 0.06
46 17 0.49
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
Found at i:33678024 original size:29 final size:29
Alignment explanation
Indices: 33677961--33678028 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
33677951 TAATCAACCG
*
33677961 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
33677990 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
33678019 CGCACACTTA
1 CGCACACTTA
33678029 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:33678198 original size:29 final size:29
Alignment explanation
Indices: 33678135--33678202 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
33678125 TAATCAACCG
33678135 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
33678164 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
33678193 CGCACACTTA
1 CGCACACTTA
33678203 CCTTTTTCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:33678343 original size:29 final size:30
Alignment explanation
Indices: 33678304--33678382 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
33678294 CTTAATAATC
33678304 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
33678334 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
33678363 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
33678383 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:33678376 original size:174 final size:174
Alignment explanation
Indices: 33677850--33678351 Score: 932
Period size: 174 Copynumber: 2.9 Consensus size: 174
33677840 AACTCAAGGT
* *
33677850 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
33677915 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
33677980 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
33678024 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
33678089 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
33678154 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
33678198 ACTTACCTTTTTCGCTGTCCAAAATCGACTCGGTAAAGTCACACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
33678263 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
33678328 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
33678352 TGTACAATTT
Statistics
Matches: 318, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 318 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:33681501 original size:45 final size:45
Alignment explanation
Indices: 33681346--33681502 Score: 163
Period size: 45 Copynumber: 3.5 Consensus size: 45
33681336 GTGTACTAAG
* * **
33681346 TATCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACCGGG
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATACCACCGAA
* * *
33681391 TACCATTGATTATAAAGGTGGTTGCTATGTGCTGACACAACCAGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATACCACC-GAA
* ** * * *
33681437 -ATCACTGAAAATAAAGGTGGTTGCTATATGCTAATGCCACCGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATACCACCGAA
* *
33681481 TATAATTGATTATAAGGGTGGT
1 TATCATTGATTATAAAGGTGGT
33681503 GCAATGCGCT
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
44 3 0.03
45 85 0.96
46 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (45 bp):
TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATACCACCGAA
Found at i:33686706 original size:45 final size:45
Alignment explanation
Indices: 33686642--33686814 Score: 156
Period size: 45 Copynumber: 3.9 Consensus size: 45
33686632 TACTGAGTAT
* * **
33686642 CATTGATTATAAAGGTGGTTGCTATGTACTGATTCCACCGGGTAC
1 CATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCGGAAAC
* * * *
33686687 CATTGACTATAAAGGTGGTTGCTATGTGCTGACTCCACCAGAAAT
1 CATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCGGAAAC
* * * * *
33686732 CACTGAAAATAAAGGTGGTTGCTATATGCTGATTTCACC-GAATAT
1 CATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCGGAA-AC
* * *
33686777 AATTGATTAT-AAGCGTGG-TGTTATGTGCTGA-TCCACCG
1 CATTGAATATAAAG-GTGGTTGCTATGTGCTGATTCCACCG
33686815 TGTAACCGTT
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
43 5 0.05
44 17 0.16
45 83 0.79
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (45 bp):
CATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCGGAAAC
Found at i:33690008 original size:24 final size:25
Alignment explanation
Indices: 33689966--33690034 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 25
33689956 TAAGAATAAT
* *
33689966 AATAATAATGATGATAATAAAACTAA-G
1 AATAATAATGA--AAAATAAAAC-AACA
33689993 AATAATAA-GAAAAATAAAACAACA
1 AATAATAATGAAAAATAAAACAACA
*
33690017 AATAATAATTAAAAATAA
1 AATAATAATGAAAAATAA
33690035 TAAAAAGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 2 0.05
24 17 0.46
25 8 0.22
26 2 0.05
27 8 0.22
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.22
Consensus pattern (25 bp):
AATAATAATGAAAAATAAAACAACA
Found at i:33690009 original size:27 final size:25
Alignment explanation
Indices: 33689966--33690039 Score: 64
Period size: 27 Copynumber: 2.9 Consensus size: 25
33689956 TAAGAATAAT
**
33689966 AATAATAATG-ATGATAATAAAACTAA
1 AATAATAATGAAAAATAATAAAAC--A
33689992 GAATAATAA-GAAAAATAA-AACAACA
1 -AATAATAATGAAAAATAATAA-AACA
*
33690017 AATAATAATTAAAAATAATAAAA
1 AATAATAATGAAAAATAATAAAA
33690040 AGAAATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
24 8 0.20
25 11 0.28
26 5 0.12
27 16 0.40
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.22
Consensus pattern (25 bp):
AATAATAATGAAAAATAATAAAACA
Found at i:33693892 original size:28 final size:29
Alignment explanation
Indices: 33693843--33693897 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
33693833 CAGAATAAGA
* *
33693843 AAAAAAATTAGAATGTAAAAATTAAATTT
1 AAAAAAATTAGAATATAAAAATAAAATTT
* *
33693872 AAAAAAA-TATAATATATAAATAAAAT
1 AAAAAAATTAGAATATAAAAATAAAAT
33693898 AAAAATGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 15 0.68
29 7 0.32
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (29 bp):
AAAAAAATTAGAATATAAAAATAAAATTT
Found at i:33696114 original size:16 final size:15
Alignment explanation
Indices: 33696085--33696117 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
33696075 AAGGAGTTTA
33696085 AGAAATTTTATTTTT
1 AGAAATTTTATTTTT
33696100 AGAAATTTTATTTTT
1 AGAAATTTTATTTTT
33696115 AGA
1 AGA
33696118 GAGCAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (15 bp):
AGAAATTTTATTTTT
Found at i:33713060 original size:40 final size:39
Alignment explanation
Indices: 33713008--33713135 Score: 175
Period size: 40 Copynumber: 3.2 Consensus size: 39
33712998 TAACTCATAC
* * *
33713008 AATGCCTTCGGGACTTAACCCGGATTTTAAAACACGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
33713048 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
*
33713088 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
33713128 AATGCCTT
1 AATGCCTT
33713136 TGGATCTTAG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:33713175 original size:80 final size:79
Alignment explanation
Indices: 33713006--33713191 Score: 200
Period size: 80 Copynumber: 2.3 Consensus size: 79
33712996 AGTAACTCAT
* * *
33713006 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACACGCACGAATGCCTTCGGGACTTAACCCGG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACACGCACAAATGCCTTCGGGACTTAACCCGG
*
33713071 AATTAGTATCTCGC
66 AATTAGTATCTAGC
* * **
33713085 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTT-TGGATCTTAGTC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACACGCACAAATGCCTTCGGGA-CTTAACC
*
33713148 CGG-GTATAGTCA-CTTAGC
63 CGGAAT-TAGT-ATC-TAGC
*
33713166 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
33713192 CAGCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
79 12 0.13
80 70 0.77
81 9 0.10
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACACGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTATCTAGC
Found at i:33715223 original size:42 final size:43
Alignment explanation
Indices: 33715125--33715264 Score: 124
Period size: 43 Copynumber: 3.3 Consensus size: 43
33715115 TCGTACAATT
***
33715125 CCAATGTCCCAGAC-GAGGTCTTACATTTAATCAAATATCGATG
1 CCAATGTCCCAGACAG-GGTCTTACACGAAATCAAATATCGATG
* * *
33715168 CCACTATCCCAGACAGGGTCTTACACGAAATCATATA-CGATG
1 CCAATGTCCCAGACAGGGTCTTACACGAAATCAAATATCGATG
* * * * * *
33715210 CCAATGTCTCAGACATGGTCTTATACTTAAATCTCAA-ATCGATA
1 CCAATGTCCCAGACAGGGTCTTACAC-GAAATC-AAATATCGATG
33715254 CCAATGTCCCA
1 CCAATGTCCCA
33715265 TACGTGGTTT
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
42 26 0.34
43 35 0.45
44 16 0.21
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
CCAATGTCCCAGACAGGGTCTTACACGAAATCAAATATCGATG
Found at i:33716407 original size:20 final size:21
Alignment explanation
Indices: 33716370--33716409 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
33716360 AAGTCCTTTT
33716370 ATAAAATTTTCACACACAAACG
1 ATAAAATTTT-ACACACAAACG
33716392 ATAAAATTTT-CACACAAA
1 ATAAAATTTTACACACAAA
33716410 ATTTTCACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.53, C:0.20, G:0.03, T:0.25
Consensus pattern (21 bp):
ATAAAATTTTACACACAAACG
Found at i:33716412 original size:13 final size:13
Alignment explanation
Indices: 33716394--33716420 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33716384 CACAAACGAT
33716394 AAAATTTTCACAC
1 AAAATTTTCACAC
33716407 AAAATTTTCACAC
1 AAAATTTTCACAC
33716420 A
1 A
33716421 TATCACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:33717141 original size:54 final size:54
Alignment explanation
Indices: 33717008--33717141 Score: 128
Period size: 54 Copynumber: 2.5 Consensus size: 54
33716998 TGGTTTGTCA
*
33717008 TGCTGATTTACGAA-CACGACCTTCTACTTTCGAGATTTTATGAATCTCACAGTC
1 TGCTGATTTAC-AATCACGACCTTCTACTTTCGAGATTTTACGAATCTCACAGTC
** * * ** * ** *
33717062 CACTGATTTACTATCACAATTTTCTACTTTTGAGATTTTACGAATCTTC-TGGTT
1 TGCTGATTTACAATCACGACCTTCTACTTTCGAGATTTTACGAATC-TCACAGTC
*
33717116 TGCTGATTTACAATTACGACCTTCTA
1 TGCTGATTTACAATCACGACCTTCTA
33717142 TATACAAGAT
Statistics
Matches: 60, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
53 1 0.02
54 57 0.95
55 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (54 bp):
TGCTGATTTACAATCACGACCTTCTACTTTCGAGATTTTACGAATCTCACAGTC
Found at i:33717264 original size:24 final size:24
Alignment explanation
Indices: 33717206--33717272 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
33717196 TGTTTACAAA
* *
33717206 ATTTATGCAAATACAATTCAAAAC
1 ATTTCTGCAAATACAGTTCAAAAC
* ** *
33717230 ATGTCAACAAATATAGTTCAAAAC
1 ATTTCTGCAAATACAGTTCAAAAC
33717254 ATTTCTGCAAATACAGTTC
1 ATTTCTGCAAATACAGTTC
33717273 GCAATATTCT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (24 bp):
ATTTCTGCAAATACAGTTCAAAAC
Found at i:33717364 original size:24 final size:24
Alignment explanation
Indices: 33717343--33717389 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
33717333 ATGTAGTTTT
33717343 CAACATTTATGTAAATACAGTTCA
1 CAACATTTATGTAAATACAGTTCA
*
33717367 CAACATTTTTGTAAATACAGTTC
1 CAACATTTATGTAAATACAGTTC
33717390 GTAATATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (24 bp):
CAACATTTATGTAAATACAGTTCA
Found at i:33719728 original size:20 final size:21
Alignment explanation
Indices: 33719693--33719731 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
33719683 TGAGTTAGTT
33719693 TTGAAATGGAAAAGTATTGGA
1 TTGAAATGGAAAAGTATTGGA
*
33719714 TTGAAAT-GTAAAGTATTG
1 TTGAAATGGAAAAGTATTG
33719732 AATGGTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (21 bp):
TTGAAATGGAAAAGTATTGGA
Found at i:33722641 original size:10 final size:10
Alignment explanation
Indices: 33722626--33722673 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
33722616 TAAAGTTTAA
33722626 TAATTAAAAT
1 TAATTAAAAT
*
33722636 TAATT-AAGT
1 TAATTAAAAT
*
33722645 TAATTAATTAT
1 TAATTAA-AAT
33722656 TAATTAAAAT
1 TAATTAAAAT
*
33722666 TAAATAAA
1 TAATTAAA
33722674 GTATAAAAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
9 8 0.26
10 15 0.48
11 8 0.26
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
TAATTAAAAT
Found at i:33749468 original size:27 final size:27
Alignment explanation
Indices: 33749433--33749484 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
33749423 AACTTCTTTT
* * * *
33749433 TTAGGGTGACCAAATTAATAAAAACAA
1 TTAGAGTGAACAAAATAAGAAAAACAA
33749460 TTAGAGTGAACAAAATAAGAAAAAC
1 TTAGAGTGAACAAAATAAGAAAAAC
33749485 CCCAATTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (27 bp):
TTAGAGTGAACAAAATAAGAAAAACAA
Found at i:33750119 original size:66 final size:66
Alignment explanation
Indices: 33750043--33750176 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 66
33750033 GAACATGAAG
* * * *
33750043 TAAAATTTTGAGTTTCATTTATTAAATAAATTGAATATAAATATTCCTTGTTAACATGTATTTAA
1 TAAAATTTTGAGTTTCATTTATTAAATAAATTGAACATAAATATTCCTCGTAAACATGCATTTAA
33750108 T
66 T
*
33750109 TAAAATTTTGAGTTTTATTTATTAAATAAATTGAACATAAATATTCCTCGTAAACATGCATTTAA
1 TAAAATTTTGAGTTTCATTTATTAAATAAATTGAACATAAATATTCCTCGTAAACATGCATTTAA
33750174 T
66 T
33750175 TA
1 TA
33750177 TATATTCATG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (66 bp):
TAAAATTTTGAGTTTCATTTATTAAATAAATTGAACATAAATATTCCTCGTAAACATGCATTTAA
T
Found at i:33750589 original size:85 final size:85
Alignment explanation
Indices: 33750494--33750655 Score: 263
Period size: 85 Copynumber: 1.9 Consensus size: 85
33750484 GTTTACAAAC
* *
33750494 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCCT-AGAAAAAAACGCCGCTAAAGACCATG
1 AAAAACGCCGCTAAAGAACAGGTTCTTTAGCGGCGCCTAAG-AAAAAACGCCGCTAAAGACCATG
33750558 TTCTTTAGCGGCGCTTAGAAA
65 TTCTTTAGCGGCGCTTAGAAA
* * *
33750579 AAAAACGCCGCTAAAGAACAGGTTCTTTAGCGGCGCTTAAGGAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGAACAGGTTCTTTAGCGGCGCCTAAGAAAAAACGCCGCTAAAGACCATGT
33750644 TCTTTAGCGGCG
66 TCTTTAGCGGCG
33750656 TTTTTTCCTA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
85 69 0.97
86 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (85 bp):
AAAAACGCCGCTAAAGAACAGGTTCTTTAGCGGCGCCTAAGAAAAAACGCCGCTAAAGACCATGT
TCTTTAGCGGCGCTTAGAAA
Found at i:33750801 original size:43 final size:42
Alignment explanation
Indices: 33750496--33750829 Score: 269
Period size: 42 Copynumber: 7.9 Consensus size: 42
33750486 TTACAAACAA
* ** *** **
33750496 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCCTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTACT
* **** **
33750538 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTACT
* **** *
33750581 AAACGCCGCTAAAGAACAGGTTCTTTAGCGGCGCTTAAGGA-A
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTACT
* *
33750623 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTCCT
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTACT
* * * **
33750665 AATCGCCTCTAAAGAACGTGTTCTTTAGCGGCGTTTTTCCCT
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTACT
* * **
33750707 AAGCGCCTCTAAAGAATGTGTTCTTTAGCGGCGTTTTTTTAC-
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTACT
* * *
33750749 AAGCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTTTTTAC-
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGC--GTTTTTTACT
* *
33750792 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGCTTTT
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
33750830 ATACAAAAAC
Statistics
Matches: 252, Mismatches: 35, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
41 6 0.02
42 161 0.64
43 85 0.34
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTACT
Found at i:33750920 original size:14 final size:14
Alignment explanation
Indices: 33750897--33750930 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
33750887 GCCCTCTTGT
*
33750897 AGCAAAAATTCAAA
1 AGCAACAATTCAAA
33750911 AGCAACAATTCAAA
1 AGCAACAATTCAAA
33750925 AGCAAC
1 AGCAAC
33750931 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.21, G:0.09, T:0.12
Consensus pattern (14 bp):
AGCAACAATTCAAA
Found at i:33751223 original size:21 final size:21
Alignment explanation
Indices: 33751155--33751225 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
33751145 TTTTGCTCTG
* *
33751155 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTTCAGC
* *
33751176 CTCCGCTTCCCTCG-TTGCAGT
1 CTCTGCTTCCCTCGCTT-CAGC
* *
33751197 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTTCAGC
33751218 CTCTGCTT
1 CTCTGCTT
33751226 TAAGTTGTAG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.03
21 36 0.92
22 2 0.05
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTTCAGC
Found at i:33756760 original size:9 final size:9
Alignment explanation
Indices: 33756738--33756873 Score: 101
Period size: 9 Copynumber: 16.0 Consensus size: 9
33756728 TGATAGGAAG
33756738 GTTATGT-A
1 GTTATGTAA
33756746 -TTATGTAA
1 GTTATGTAA
33756754 GTTATGTAA
1 GTTATGTAA
*
33756763 GTTGTGT-A
1 GTTATGTAA
*
33756771 -TTATGTGA
1 GTTATGTAA
33756779 GTTATGTAA
1 GTTATGTAA
*
33756788 GTTATTTAA
1 GTTATGTAA
*
33756797 TTTATGTAA
1 GTTATGTAA
*
33756806 GTTATGTAG
1 GTTATGTAA
*
33756815 GCTATGT-A
1 GTTATGTAA
*
33756823 -TTATCTAA
1 GTTATGTAA
* *
33756831 ATAATGTAA
1 GTTATGTAA
* *
33756840 GCTA-GGAA
1 GTTATGTAA
33756848 GGTTATGT-A
1 -GTTATGTAA
33756857 -TTATGTAA
1 GTTATGTAA
33756865 GTTATGTAA
1 GTTATGTAA
33756874 TTCGAAATTT
Statistics
Matches: 98, Mismatches: 20, Indels: 19
0.72 0.15 0.14
Matches are distributed among these distances:
7 21 0.21
8 8 0.08
9 68 0.69
10 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
GTTATGTAA
Found at i:33756771 original size:25 final size:25
Alignment explanation
Indices: 33756738--33756872 Score: 121
Period size: 25 Copynumber: 5.3 Consensus size: 25
33756728 TGATAGGAAG
33756738 GTTATGTATTATGTAAGTTATGTAA
1 GTTATGTATTATGTAAGTTATGTAA
* *
33756763 GTTGTGTATTATGTGAGTTATGTAA
1 GTTATGTATTATGTAAGTTATGTAA
* *
33756788 GTTATTTAATTTATGTAAGTTATGTAG
1 GTTATGT-A-TTATGTAAGTTATGTAA
* * * *
33756815 GCTATGTATTATCTAAATAATGTAA
1 GTTATGTATTATGTAAGTTATGTAA
* * *
33756840 GCTAGGAAGGTTATGT-A-TTATGTAA
1 GTTATGTA--TTATGTAAGTTATGTAA
33756865 GTTATGTA
1 GTTATGTA
33756873 ATTCGAAATT
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
25 59 0.68
26 3 0.03
27 25 0.29
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.45
Consensus pattern (25 bp):
GTTATGTATTATGTAAGTTATGTAA
Found at i:33756820 original size:18 final size:18
Alignment explanation
Indices: 33756738--33756873 Score: 101
Period size: 16 Copynumber: 8.0 Consensus size: 18
33756728 TGATAGGAAG
33756738 GTTATGT-A-TTATGTAA
1 GTTATGTAAGTTATGTAA
*
33756754 GTTATGTAAGTTGTGT-A
1 GTTATGTAAGTTATGTAA
*
33756771 -TTATGTGAGTTATGTAA
1 GTTATGTAAGTTATGTAA
* *
33756788 GTTATTTAATTTATGTAA
1 GTTATGTAAGTTATGTAA
* *
33756806 GTTATGTAGGCTATGT-A
1 GTTATGTAAGTTATGTAA
* * *
33756823 -TTATCTAAATAATGTAA
1 GTTATGTAAGTTATGTAA
* *
33756840 GCTA-GGAAGGTTATGT-A
1 GTTATGTAA-GTTATGTAA
33756857 -TTATGTAAGTTATGTAA
1 GTTATGTAAGTTATGTAA
33756874 TTCGAAATTT
Statistics
Matches: 89, Mismatches: 22, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
16 39 0.44
17 12 0.13
18 38 0.43
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (18 bp):
GTTATGTAAGTTATGTAA
Found at i:33756872 original size:34 final size:34
Alignment explanation
Indices: 33756779--33756873 Score: 91
Period size: 34 Copynumber: 2.7 Consensus size: 34
33756769 TATTATGTGA
* * * * *
33756779 GTTATGTAAGTTATTTAATTTATGTAAGTTATGTAG
1 GTTATGT-A-TTATCTAAATTATGTAAGCTAGGAAG
* *
33756815 GCTATGTATTATCTAAATAATGTAAGCTAGGAAG
1 GTTATGTATTATCTAAATTATGTAAGCTAGGAAG
* *
33756849 GTTATGTATTATGTAAGTTATGTAA
1 GTTATGTATTATCTAAATTATGTAA
33756874 TTCGAAATTT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
34 41 0.85
35 1 0.02
36 6 0.12
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (34 bp):
GTTATGTATTATCTAAATTATGTAAGCTAGGAAG
Found at i:33756910 original size:20 final size:20
Alignment explanation
Indices: 33756885--33756923 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
33756875 TCGAAATTTG
33756885 ATCTTAATATTATAAAAGTA
1 ATCTTAATATTATAAAAGTA
*
33756905 ATCTTAATATTATATAAGT
1 ATCTTAATATTATAAAAGT
33756924 TATGTAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
ATCTTAATATTATAAAAGTA
Found at i:33756958 original size:37 final size:37
Alignment explanation
Indices: 33756905--33757013 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
33756895 TATAAAAGTA
* *
33756905 ATCTTAATATTATATAAGTTATGTAATTCGGAATTTT
1 ATCTTAATATTGTATAAGTTATGTAATTCGAAATTTT
*
33756942 ATCTTAATATTGTATAAGTTATGTAATTAGAAATTTT
1 ATCTTAATATTGTATAAGTTATGTAATTCGAAATTTT
* *
33756979 ACCTTATTATTGTATAAGTTATGTAATTCGAAATT
1 ATCTTAATATTGTATAAGTTATGTAATTCGAAATT
33757014 GTAACTTTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.48
Consensus pattern (37 bp):
ATCTTAATATTGTATAAGTTATGTAATTCGAAATTTT
Found at i:33757037 original size:37 final size:36
Alignment explanation
Indices: 33756907--33757044 Score: 106
Period size: 37 Copynumber: 3.7 Consensus size: 36
33756897 TAAAAGTAAT
* * *
33756907 CTTAATATTATATA-AGTTATGTAATTCGGAATTTTAT
1 CTTAAT-TTATGTATAGTTATGTAATTC-GAAATTTAA
* * *
33756944 CTTAATAT-TGTATAAGTTATGTAATTAGAAATTTTAC
1 CTTAATTTATGTAT-AGTTATGTAATTCGAAA-TTTAA
33756981 CTT-A-TTATTGTATAAGTTATGTAATTCGAAATTGTAA
1 CTTAATTTA-TGTAT-AGTTATGTAATTCGAAATT-TAA
33757018 CTTTAATTTATGTAT-GTTATGTGAATT
1 C-TTAATTTATGTATAGTTATGT-AATT
33757045 TTAACTTTAA
Statistics
Matches: 83, Mismatches: 8, Indels: 19
0.75 0.07 0.17
Matches are distributed among these distances:
35 4 0.05
36 7 0.08
37 57 0.69
38 6 0.07
39 6 0.07
40 3 0.04
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (36 bp):
CTTAATTTATGTATAGTTATGTAATTCGAAATTTAA
Found at i:33757655 original size:18 final size:18
Alignment explanation
Indices: 33757632--33757696 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
33757622 AATTTTATCT
33757632 ATTTATTTATAAAGACTA
1 ATTTATTTATAAAGACTA
** **
33757650 ATTTATTTATTTA-TTTAA
1 ATTTATTTATAAAGACT-A
*
33757668 ATTTTTTTTATAAAGACTA
1 A-TTTATTTATAAAGACTA
33757687 ATTTATTTAT
1 ATTTATTTAT
33757697 TTTTTGAGTA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
17 1 0.03
18 21 0.62
19 11 0.32
20 1 0.03
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTATTTATAAAGACTA
Found at i:33758836 original size:19 final size:19
Alignment explanation
Indices: 33758793--33758836 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
33758783 CTGGACTACG
*
33758793 TTGGGGAACTGTTAGGAAT
1 TTGGGGAAATGTTAGGAAT
* * *
33758812 TAGGGGAAATTTTAGGGAT
1 TTGGGGAAATGTTAGGAAT
33758831 TTGGGG
1 TTGGGG
33758837 GAGATGTCTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.02, G:0.41, T:0.32
Consensus pattern (19 bp):
TTGGGGAAATGTTAGGAAT
Found at i:33759502 original size:231 final size:230
Alignment explanation
Indices: 33759164--33759911 Score: 1106
Period size: 231 Copynumber: 3.2 Consensus size: 230
33759154 TAATGCAAAT
* *** * * *
33759164 TTGCGGCG-TTTA-ATAAAAGCGCCACTAAAACCAACTAAGGAAATGGCGCCGTTTTTCGTAACA
1 TTGCGGCGTTTTATCTAAAA-CGCCACTAAATGTAA-TAAGAAAACGGCGCCATTTTTCGTAACA
*
33759227 CCATTTCGATTTTGCGGCGTTTATATATAAGCGCCACCAAATATAAGGTCAAACGCAGTCGTTTA
64 CCATTTCGATTTTGCGGCGTTTATATATAAGCGCCACTAAATATAAGGTCAAACGCAGTCGTTTA
* * *
33759292 AAGCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATATC-C
129 AAGCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAA
* *
33759356 TTGAAAACGACGCCGTTTCTGTAACAAAGAAAATATAC
194 TGGAAAACGACGCCGTTTC-GTAACAAAGAAAACATAC
* *
33759394 TTGCGGCGTTTTATCTAAAACGCCACTAAATGTAATAAGAAAACGGTGCCATTTTTTGTAACACC
1 TTGCGGCGTTTTATCTAAAACGCCACTAAATGTAATAAGAAAACGGCGCCATTTTTCGTAACACC
*
33759459 ATTTTCGAGTTTGCGGCGTTTATATATAAGCGCCACTAAATATAAGGTCAAACGCAGTCGTTTAA
66 A-TTTCGATTTTGCGGCGTTTATATATAAGCGCCACTAAATATAAGGTCAAACGCAGTCGTTTAA
* * * * * * *
33759524 CGCAAACTCCTGTAATCTTTAAAATTTATTTGCGGCATTTCGAGTATAACGCCACTAATAACAAA
130 AGCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAAT
33759589 GGAAAACGACGCCGTTTACGTAACAAAGAAAACATAC
195 GGAAAACGACGCCGTTT-CGTAACAAAGAAAACATAC
* * *
33759626 TTGCGGCGTTTTCTCTAAAACGCCACTAAATGTAATAAAAAAACGGCGCCGTTTTTCGTAACACC
1 TTGCGGCGTTTTATCTAAAACGCCACTAAATGTAATAAGAAAACGGCGCCATTTTTCGTAACACC
* * * *
33759691 ATTTCGATTTTGCGGCGTTTATATATAAGTGACACTAAATATAATGTCAAACGCAGTCGTTTAAT
66 ATTTCGATTTTGCGGCGTTTATATATAAGCGCCACTAAATATAAGGTCAAACGCAGTCGTTTAAA
* *
33759756 GCAAACTCGTGTAATCTTTAAAACATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAATG
131 GCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAATG
*
33759821 GAAAACGACGCCGTTTCCCTAACAAAGAAAACATAC
196 GAAAACGACGCCGTTT-CGTAACAAAGAAAACATAC
* *
33759857 TTGCGGCGTTTTATCTAAAACGCCACTAAATGTAATAAGAAAATGGCGCCGTTTT
1 TTGCGGCGTTTTATCTAAAACGCCACTAAATGTAATAAGAAAACGGCGCCATTTT
33759912 CTTCACAACT
Statistics
Matches: 467, Mismatches: 46, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
230 34 0.07
231 333 0.71
232 99 0.21
233 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (230 bp):
TTGCGGCGTTTTATCTAAAACGCCACTAAATGTAATAAGAAAACGGCGCCATTTTTCGTAACACC
ATTTCGATTTTGCGGCGTTTATATATAAGCGCCACTAAATATAAGGTCAAACGCAGTCGTTTAAA
GCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAATG
GAAAACGACGCCGTTTCGTAACAAAGAAAACATAC
Found at i:33760995 original size:18 final size:21
Alignment explanation
Indices: 33760972--33761020 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
33760962 ATTAATCACG
33760972 ATATTAATTTG-GTG-TTT-T
1 ATATTAATTTGTGTGATTTAT
* *
33760990 ATATTACTTTGTTTGATTTAT
1 ATATTAATTTGTGTGATTTAT
33761011 ATATTAATTT
1 ATATTAATTT
33761021 AGTCGAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 10 0.40
19 2 0.08
20 3 0.12
21 10 0.40
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (21 bp):
ATATTAATTTGTGTGATTTAT
Found at i:33761618 original size:113 final size:112
Alignment explanation
Indices: 33761355--33761701 Score: 280
Period size: 113 Copynumber: 3.1 Consensus size: 112
33761345 TTTACTATTA
* * *
33761355 GCGGCGCTTC-CAAAAAAACGCCGCTAAAGA-ACAAATCATTAGCGGCGCTTTTAAGAAAACGCC
1 GCGGCGCTTCTC-AGAAAACGCCGCTAAAGATAC-GAGCATTAGCGGCGCTTTTAA-AAAACGCC
* * * *
33761418 GCTAAAGGCCCAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTT
63 GCAAAAGGCACAAAAACAAAGAAAACGACGTCGTTGCCATTAGGTTTTTT
* *
33761468 GCGGCGCTTCTCAGAAAACGCCGCTAAAGATATGAGCATTACCGGCGCTTTTAAAAAAGCGCCGC
1 GCGGCGCTTCTCAGAAAACGCCGCTAAAGATACGAGCATTAGCGGCGCTTTTAAAAAA-CGCCGC
* ** * *
33761533 AAAAGGGACAAAAAC-TCGGAAATGACGTCGTTTG-CATTAGGTTTTTT
65 AAAAGGCACAAAAACAAAGAAAACGACGTCG-TTGCCATTAGGTTTTTT
* * * * * *
33761580 GCGGCGCTTTTTAGAAATCGCCGC-AAAG-TCCCCCGAGCATTAGCAGCGTTTTTATAAAAACGC
1 GCGGCGCTTCTCAGAAAACGCCGCTAAAGAT---ACGAGCATTAGCGGCGCTTTTA-AAAAACGC
** * * ** * *
33761643 CGTTAATGGCCCAAAAACTTAGTAAAC-AGCGTCGTTGGCC-TTA-TTTTTTT
62 CGCAAAAGGCACAAAAACAAAGAAAACGA-CGTCGTT-GCCATTAGGTTTTTT
33761693 GCGGCGCTT
1 GCGGCGCTT
33761702 TTTGTGAATC
Statistics
Matches: 191, Mismatches: 31, Indels: 24
0.78 0.13 0.10
Matches are distributed among these distances:
110 1 0.01
111 4 0.02
112 47 0.25
113 117 0.61
114 21 0.11
115 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (112 bp):
GCGGCGCTTCTCAGAAAACGCCGCTAAAGATACGAGCATTAGCGGCGCTTTTAAAAAACGCCGCA
AAAGGCACAAAAACAAAGAAAACGACGTCGTTGCCATTAGGTTTTTT
Found at i:33768307 original size:18 final size:19
Alignment explanation
Indices: 33768263--33768308 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
33768253 TTTTTTTATT
33768263 CATAACACATCAAATATTAG
1 CATAA-ACATCAAATATTAG
33768283 CAT-AACATCAACAT-TT-G
1 CATAAACATCAA-ATATTAG
33768300 CATAAACAT
1 CATAAACAT
33768309 ATTCAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 3 0.12
20 3 0.12
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.26
Consensus pattern (19 bp):
CATAAACATCAAATATTAG
Found at i:33773263 original size:28 final size:29
Alignment explanation
Indices: 33773180--33773269 Score: 103
Period size: 29 Copynumber: 3.1 Consensus size: 29
33773170 TATCGAAGCT
* * *
33773180 CATCGAATATGAAAAGGGATAG-TTACGAC
1 CATCAAATATGAAAAGGGATGGCTT-TGAC
*
33773209 CATTAAATATGAAAAGGGATGGCTTTGAC
1 CATCAAATATGAAAAGGGATGGCTTTGAC
* *
33773238 CATCAAATATG-GAAGGGATGGTTTTGAC
1 CATCAAATATGAAAAGGGATGGCTTTGAC
33773266 CATC
1 CATC
33773270 GTTTAGCACA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 19 0.36
29 32 0.60
30 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (29 bp):
CATCAAATATGAAAAGGGATGGCTTTGAC
Found at i:33778565 original size:136 final size:136
Alignment explanation
Indices: 33778307--33778690 Score: 513
Period size: 136 Copynumber: 2.8 Consensus size: 136
33778297 GTTTATAGGA
* * * * * * *
33778307 TTCGGGTGTTGCTCTTGAATGTCCTAGCAGTGGCTGAGTTCTGGCATTTATTGCGGATACTTGAT
1 TTCGGGTGCTGGTCTTGAATGTCCTACCAGTGGCTGAGTTTTGGCATTTGTTGCGGATACTAGAC
* * * ** *
33778372 AGCTTGTGGAGCAGCACCGTGTAGCTACATTCCGA-CC-TACGACTTGTGTGAGTAGACCCAGGT
66 AGCTTGTGGAGTAGCACTGTGTAGCTACGTTCCGACCCATA-G-CTTGTGTGAACAGACCCAAGT
*
33778435 TACCATAT
129 TACAATAT
* *
33778443 TTCTGGTGCTGGTCTTGAATGTCCTACCAGTGGTTGAGTTTTGGCATTTGTTGCGGATACTAGAC
1 TTCGGGTGCTGGTCTTGAATGTCCTACCAGTGGCTGAGTTTTGGCATTTGTTGCGGATACTAGAC
*
33778508 AGCTTGTGGAGTAGCACTGTGTAGCTACGTTCTGACCCATAGCTTGTGTGAACAGACCCAAGTTA
66 AGCTTGTGGAGTAGCACTGTGTAGCTACGTTCCGACCCATAGCTTGTGTGAACAGACCCAAGTTA
33778573 CAATAT
131 CAATAT
* *
33778579 TTCGGGTGCTGGTCTTGAATGTCCTACC-GATGGCTGAGTTTTAGCATTTGTTGTGGATACTAGA
1 TTCGGGTGCTGGTCTTGAATGTCCTACCAG-TGGCTGAGTTTTGGCATTTGTTGCGGATACTAGA
* * * *
33778643 CAACTTGTGGAGTAGCACTGTGTAACTACGTTCCGACCAACAGCTTGT
65 CAGCTTGTGGAGTAGCACTGTGTAGCTACGTTCCGACCCATAGCTTGT
33778691 CTGTGTAGGC
Statistics
Matches: 219, Mismatches: 26, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
135 1 0.00
136 213 0.97
137 3 0.01
138 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.33
Consensus pattern (136 bp):
TTCGGGTGCTGGTCTTGAATGTCCTACCAGTGGCTGAGTTTTGGCATTTGTTGCGGATACTAGAC
AGCTTGTGGAGTAGCACTGTGTAGCTACGTTCCGACCCATAGCTTGTGTGAACAGACCCAAGTTA
CAATAT
Found at i:33796675 original size:18 final size:18
Alignment explanation
Indices: 33796628--33796676 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
33796618 AAAGGACTAG
33796628 GTGTGTAATCACAAACAA
1 GTGTGTAATCACAAACAA
* **
33796646 GTGCGTTTTCACAAACAA
1 GTGTGTAATCACAAACAA
33796664 GTGTGTAATCACA
1 GTGTGTAATCACA
33796677 CCCTCTCTCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (18 bp):
GTGTGTAATCACAAACAA
Found at i:33796884 original size:27 final size:27
Alignment explanation
Indices: 33796840--33797090 Score: 276
Period size: 27 Copynumber: 9.3 Consensus size: 27
33796830 GTAATGGGCC
*
33796840 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * ** *
33796867 TAAAATGACCGGACTACCGACAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
33796894 TAAAATGACTGAAATA-CCTCGAATGG
1 TAAAATGACCGAAATACCCTCGAAGGG
33796920 TAAAATGA-CGAAAATACCCTCGAAGGG
1 TAAAATGACCG-AAATACCCTCGAAGGG
* *
33796947 TAAAATGAACGAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
** * * *
33796974 TAAAATGATTGAAATACCTTTGAAGGA
1 TAAAATGACCGAAATACCCTCGAAGGG
*
33797001 TAAAATGATCGAAATACCC-CTGAAGGG
1 TAAAATGACCGAAATACCCTC-GAAGGG
* *
33797028 TAAAATAACCGAAATACCCTCGATGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
33797055 TAAAATGACTGAAATATCCC-CGAAGGG
1 TAAAATGACCGAAATA-CCCTCGAAGGG
33797082 TAAAATGAC
1 TAAAATGAC
33797091 TGTTATACCC
Statistics
Matches: 188, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
25 1 0.01
26 19 0.10
27 162 0.86
28 6 0.03
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:33797080 original size:81 final size:79
Alignment explanation
Indices: 33796840--33797089 Score: 308
Period size: 81 Copynumber: 3.1 Consensus size: 79
33796830 GTAATGGGCC
* * * ** *
33796840 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGGACTACCGACAAAGGGTAAAATGACTG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGACTG
33796905 AAATACCTCGAATGG
66 AAATACCTCGAA-GG
* *
33796920 TAAAATGA-CGAAAATACCCTCGAAGGGTAAAATGAA-CGAAATACCCTTGAAGGGTAAAATGAT
1 TAAAATGATCG-AAATACCCTCGAAGGGTAAAAT-AACCGAAATACCCTCGAAGGGTAAAATGAC
*
33796983 TGAAATACCTTTGAAGG
64 TGAAATACC-TCGAAGG
*
33797000 ATAAAATGATCGAAATACCC-CTGAAGGGTAAAATAACCGAAATACCCTCGATGGGTAAAATGAC
1 -TAAAATGATCGAAATACCCTC-GAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGAC
*
33797064 TGAAATATCCCCGAAGGG
64 TGAAATA-CCTCGAA-GG
33797082 TAAAATGA
1 TAAAATGA
33797090 CTGTTATACC
Statistics
Matches: 147, Mismatches: 14, Indels: 17
0.83 0.08 0.10
Matches are distributed among these distances:
79 2 0.01
80 64 0.44
81 75 0.51
82 6 0.04
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (79 bp):
TAAAATGATCGAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGACTG
AAATACCTCGAAGG
Found at i:33797299 original size:26 final size:26
Alignment explanation
Indices: 33797268--33797341 Score: 139
Period size: 26 Copynumber: 2.8 Consensus size: 26
33797258 CCACATATAT
33797268 TGTTACTGGCAGCTTTGTTGCGTTAC
1 TGTTACTGGCAGCTTTGTTGCGTTAC
33797294 TGTTACTGGCAGCTTTGTTGCGTTAC
1 TGTTACTGGCAGCTTTGTTGCGTTAC
*
33797320 TGTTACTGGCAGCTTTGCTGCG
1 TGTTACTGGCAGCTTTGTTGCG
33797342 ATATTGGTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.11, C:0.20, G:0.28, T:0.41
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGTTGCGTTAC
Found at i:33797515 original size:30 final size:30
Alignment explanation
Indices: 33797447--33797529 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
33797437 ACTGCATTGT
* *
33797447 ACTATTAGTGTATTGGGCTAAGG--CTCAT
1 ACTATTACTGTATTGGGCTAAGGCCCTCAC
* *
33797475 ACTGTTACTGTATTTGGCTAAGGCCCTCAC
1 ACTATTACTGTATTGGGCTAAGGCCCTCAC
*
33797505 ACTATTACTGTAATGGGCTAAGGCC
1 ACTATTACTGTATTGGGCTAAGGCC
33797530 TACACTGTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
28 20 0.43
30 26 0.57
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (30 bp):
ACTATTACTGTATTGGGCTAAGGCCCTCAC
Found at i:33803153 original size:25 final size:25
Alignment explanation
Indices: 33803124--33803173 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
33803114 GAAATTTTGG
33803124 ATCTTGAATATTCATTAATTCTGTT
1 ATCTTGAATATTCATTAATTCTGTT
*
33803149 ATCTTTAATATTCATTAATTCTGTT
1 ATCTTGAATATTCATTAATTCTGTT
33803174 TTCAAGGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.54
Consensus pattern (25 bp):
ATCTTGAATATTCATTAATTCTGTT
Found at i:33803376 original size:14 final size:14
Alignment explanation
Indices: 33803357--33803388 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
33803347 AGGTCATTTA
33803357 GCCCAACCAAACTG
1 GCCCAACCAAACTG
33803371 GCCCAACCAAACTG
1 GCCCAACCAAACTG
33803385 GCCC
1 GCCC
33803389 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:33808498 original size:14 final size:14
Alignment explanation
Indices: 33808479--33808510 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
33808469 AGGTCATTTA
33808479 GCCCAACCAAACTG
1 GCCCAACCAAACTG
33808493 GCCCAACCAAACTG
1 GCCCAACCAAACTG
33808507 GCCC
1 GCCC
33808511 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:33811372 original size:40 final size:40
Alignment explanation
Indices: 33811314--33811519 Score: 243
Period size: 40 Copynumber: 5.2 Consensus size: 40
33811304 ATACTATTTG
* * * * * *
33811314 ATTCAAGGTTACCAAAGTATAAACATGGGCATGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
33811354 ATTCAGGTGTACCGAAGTACAAACAGGGGCACATATGTAC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
*
33811394 ATTCAGGGGTACCGAAGTACATACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * * *
33811434 ATTCAGGGGTACCGAAGTA-AATACAAGGCCACATATGTGT
1 ATTCAGGGGTACCGAAGTACAA-ACAGGGGCACGTATGTGC
* * *
33811474 ATTCAGGGATACCAAAGTACAAATAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
33811514 ATTCAG
1 ATTCAG
33811520 ACAATAATTA
Statistics
Matches: 139, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 136 0.98
41 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (40 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
Found at i:33811393 original size:20 final size:20
Alignment explanation
Indices: 33811370--33811442 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
33811360 GTGTACCGAA
*
33811370 GTACAAACAGGGGCACATAT
1 GTACATACAGGGGCACATAT
* * ** *
33811390 GTACATTCAGGGGTACCGAA
1 GTACATACAGGGGCACATAT
*
33811410 GTACATACAGGGGCACGTAT
1 GTACATACAGGGGCACATAT
* *
33811430 GTGCATTCAGGGG
1 GTACATACAGGGG
33811443 TACCGAAGTA
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.19
Consensus pattern (20 bp):
GTACATACAGGGGCACATAT
Found at i:33811447 original size:80 final size:80
Alignment explanation
Indices: 33811314--33811519 Score: 270
Period size: 80 Copynumber: 2.6 Consensus size: 80
33811304 ATACTATTTG
* * * * * *
33811314 ATTCAAGGTTACCAAAGTATAAACATGGGCATGTATGTGCATTCAGGTGTACCGAAGTACAA-AC
1 ATTCAGGGATACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTA-AATAC
* *
33811378 AGGGGCACATATGTAC
65 AAGGCCACATATGTAC
* * *
33811394 ATTCAGGGGTACCGAAGTACATACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAAATACA
1 ATTCAGGGATACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAAATACA
**
33811459 AGGCCACATATGTGT
66 AGGCCACATATGTAC
*
33811474 ATTCAGGGATACCAAAGTACAAATAGGGGCACGTATGTGCATTCAG
1 ATTCAGGGATACCAAAGTACAAACAGGGGCACGTATGTGCATTCAG
33811520 ACAATAATTA
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
79 2 0.02
80 107 0.98
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (80 bp):
ATTCAGGGATACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAAATACA
AGGCCACATATGTAC
Found at i:33813526 original size:201 final size:201
Alignment explanation
Indices: 33813177--33813581 Score: 783
Period size: 201 Copynumber: 2.0 Consensus size: 201
33813167 CGTATAAGCT
*
33813177 TCAAACGGTGCCAGTTTAATACTGGATTGATAATTGTTATTACAAGTGAACTCAGCTAATGGCAG
1 TCAAACGGTGCCAGTTTAATACTGGATTGATAATTGTTATTACAAGCGAACTCAGCTAATGGCAG
33813242 ATATTATTCTCAGCTACCTTCAAACTCGAGTATACAACATCGTAGCATGTCTTCCAGAATCTGTA
66 ATATTATTCTCAGCTACCTTCAAACTCGAGTATACAACATCGTAGCATGTCTTCCAGAATCTGTA
*
33813307 TTACTTGTTCTGATTGCCCGTCCGTCTGAGGATGAAATGCTGTACTGAAATTGAGTTTAATGCCC
131 TTACTTGTTCTAATTGCCCGTCCGTCTGAGGATGAAATGCTGTACTGAAATTGAGTTTAATGCCC
33813372 AAAGTC
196 AAAGTC
33813378 TCAAACGGTGCCAGTTTAATACTGGATTGATAATTGTTATTACAAGCGAACTCAGCTAATGGCAG
1 TCAAACGGTGCCAGTTTAATACTGGATTGATAATTGTTATTACAAGCGAACTCAGCTAATGGCAG
*
33813443 ATATTATTCTCAGCTACCTTCAAACTCGAGTATACAATATCGTAGCATGTCTTCCAGAATCTGTA
66 ATATTATTCTCAGCTACCTTCAAACTCGAGTATACAACATCGTAGCATGTCTTCCAGAATCTGTA
33813508 TTACTTGTTCTAATTGCCCGTCCGTCTGAGGATGAAATGCTGTACTGAAATTGAGTTTAATGCCC
131 TTACTTGTTCTAATTGCCCGTCCGTCTGAGGATGAAATGCTGTACTGAAATTGAGTTTAATGCCC
33813573 AAAGTC
196 AAAGTC
33813579 TCA
1 TCA
33813582 TGAAGTTTAC
Statistics
Matches: 201, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
201 201 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (201 bp):
TCAAACGGTGCCAGTTTAATACTGGATTGATAATTGTTATTACAAGCGAACTCAGCTAATGGCAG
ATATTATTCTCAGCTACCTTCAAACTCGAGTATACAACATCGTAGCATGTCTTCCAGAATCTGTA
TTACTTGTTCTAATTGCCCGTCCGTCTGAGGATGAAATGCTGTACTGAAATTGAGTTTAATGCCC
AAAGTC
Found at i:33814771 original size:40 final size:40
Alignment explanation
Indices: 33814714--33814792 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
33814704 ATACTATTTG
* *
33814714 ATTCAGGGTTACCAAAGTATAAATAGGGGCACGTATGTGC
1 ATTCAGGGTTACCAAAGTACAAACAGGGGCACGTATGTGC
*
33814754 ATTCAAGGG-TACTAAAGTACAAACAGGGGCACGTATGTG
1 ATTC-AGGGTTACCAAAGTACAAACAGGGGCACGTATGTG
33814793 AATTTAGACA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 31 0.89
41 4 0.11
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (40 bp):
ATTCAGGGTTACCAAAGTACAAACAGGGGCACGTATGTGC
Found at i:33816999 original size:27 final size:27
Alignment explanation
Indices: 33816962--33817460 Score: 534
Period size: 27 Copynumber: 18.5 Consensus size: 27
33816952 ACCGAGACAT
* * * *
33816962 CGAAATACCCCAATAAGATAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGAC
*
33816989 CGAAA-ACCCCCGTAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* * *
33817015 CGAAATACCCCGATAGGGTAAATTAAC
1 CGAAATACCCCCATAGGGTAAAATGAC
*
33817042 CGAAATACCCCCATAGGGTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGAC
* *
33817069 TGAAATACACCCATAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* *
33817096 CGAAATACCCTCATAAGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* * *
33817123 CGAAATA-CCCCGTAGTGTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGAC
* * *
33817149 CAAAATACACCCATAGGGTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGAC
* * * *
33817176 TGAAATACCCTCATAAGGTAAAATAAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* * *
33817203 CAAAATACCCCCATAAGGTAAAATGGC
1 CGAAATACCCCCATAGGGTAAAATGAC
*
33817230 CGAAATACCCCTATAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* * *
33817257 CAAAATACCCCTATAGGGTAAAATAAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* * *
33817284 TGAAATACCCCTATAGGGTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGAC
* * * * *
33817311 CGAATTACCCTCGTAAGGTAAAATAAC
1 CGAAATACCCCCATAGGGTAAAATGAC
**
33817338 TAAAATACCCCCATAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* * *
33817365 CGAAATATCGCCATAGGTTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* *
33817392 CAAAATACCCTCATAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* *
33817419 CAAAATACCCCTATAGGGGTAAAATGAC
1 CGAAATACCCCCATA-GGGTAAAATGAC
**
33817447 TAAAATACCCCCAT
1 CGAAATACCCCCAT
33817461 TGTACTATTA
Statistics
Matches: 389, Mismatches: 80, Indels: 5
0.82 0.17 0.01
Matches are distributed among these distances:
26 41 0.11
27 324 0.83
28 24 0.06
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
CGAAATACCCCCATAGGGTAAAATGAC
Found at i:33819809 original size:27 final size:27
Alignment explanation
Indices: 33819462--33819809 Score: 322
Period size: 27 Copynumber: 12.9 Consensus size: 27
33819452 CGAGACATCA
** **
33819462 AAATACCCCGGTAGGGTAAAATGATTG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
33819489 AAATACCCCCGTAAGATAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* **
33819516 AAATACCCCC-TAGGGTAAATTGGTCG
1 AAATACCCCCATAGGGTAAAATGACCG
** * *
33819542 AAATACCCCCATAGGGTAAAAACATCA
1 AAATACCCCCATAGGGTAAAATGACCG
* * **
33819569 AAATATCCCCATTGGGTAAAATGACTA
1 AAATACCCCCATAGGGTAAAATGACCG
* *
33819596 AAATACCCTCGTAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * * *
33819623 AAATACCCTCATTGGGTAGAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* *
33819650 AAATACCCTCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
** * * *
33819677 AAATACCCCTGTATGGTAGAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* **
33819704 AAATA-CCCCATTAGGGTAAAATTACTA
1 AAATACCCCCA-TAGGGTAAAATGACCG
*
33819731 AAATACCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
33819758 AAATGCCCCCGTAGGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
33819785 AAATACCCCCATAAGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
33819810 TGGTATACCC
Statistics
Matches: 260, Mismatches: 58, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
26 24 0.09
27 231 0.89
28 5 0.02
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:33819820 original size:81 final size:81
Alignment explanation
Indices: 33819462--33819810 Score: 375
Period size: 81 Copynumber: 4.3 Consensus size: 81
33819452 CGAGACATCA
** * * * * * *
33819462 AAATACCCCGGTAGGGTAAAATGATTGAAATACCCCCGTAAGATAAAATGACCGAAATACCCCC-
1 AAATACCCCCATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCG
**
33819526 TAGGGTA-AATTGGTCG
66 TAGGGTAGAA-TGACCG
* * * *
33819542 AAATACCCCCATAGGGTAAAA--ACATCAAAATATCCCCATTGGGTAAAATGACTAAAATACCCT
1 AAATACCCCCATAGGGTAAAATGAC-T-AAAATACCCCCATAGGGTAAAATGACCAAAATACCCC
*
33819605 CGTAGGGTAAAATGACCG
64 CGTAGGGTAGAATGACCG
* * * * * * * *
33819623 AAATACCCTCATTGGGTAGAATGACCAAAATACCCTCATAGGGTAAAATGATCGAAATACCCCTG
1 AAATACCCCCATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCG
* *
33819688 TATGGTAGAATGACTG
66 TAGGGTAGAATGACCG
* *
33819704 AAATA-CCCCATTAGGGTAAAATTACTAAAATACCCCCATAGGGTAAAATGACCAAAATGCCCCC
1 AAATACCCCCA-TAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACCAAAATACCCCC
33819768 GTAGGGTAGAATGACCG
65 GTAGGGTAGAATGACCG
*
33819785 AAATACCCCCATAAGGTAAAATGACT
1 AAATACCCCCATAGGGTAAAATGACT
33819811 GGTATACCCC
Statistics
Matches: 218, Mismatches: 43, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
78 1 0.00
79 1 0.00
80 52 0.24
81 155 0.71
82 7 0.03
83 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (81 bp):
AAATACCCCCATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCG
TAGGGTAGAATGACCG
Found at i:33820054 original size:26 final size:26
Alignment explanation
Indices: 33820001--33820057 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
33819991 TTTGACACAT
* *
33820001 ATATTGTTACTGGCAGCTTCACTGCG
1 ATATTATTACTGGCAGCTTCACTACG
**
33820027 ATATTATTACTGGCAGCTTTGCTACG
1 ATATTATTACTGGCAGCTTCACTACG
33820053 ATATT
1 ATATT
33820058 GGTGTGTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (26 bp):
ATATTATTACTGGCAGCTTCACTACG
Found at i:33820213 original size:28 final size:28
Alignment explanation
Indices: 33820169--33820275 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
33820159 CTGGTCACTA
* * *
33820169 TATTGGGCTAAGACCCACATTGTTATTG
1 TATTGGGCTAAGGCCCACACTGTTACTG
33820197 TATTGGGCTAAGGCCCACACTGTTACTG
1 TATTGGGCTAAGGCCCACACTGTTACTG
*
33820225 TATTGGGCTAAGGCCCACACTGTTACTA
1 TATTGGGCTAAGGCCCACACTGTTACTG
* * *
33820253 TATCGAGCTAAGGCACACACTGT
1 TATTGGGCTAAGGCCCACACTGT
33820276 ACTATTACTG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 72 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (28 bp):
TATTGGGCTAAGGCCCACACTGTTACTG
Found at i:33822053 original size:29 final size:27
Alignment explanation
Indices: 33822035--33822104 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
33822025 ATATTAAGTC
33822035 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
33822062 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
33822090 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
33822105 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:33822098 original size:28 final size:28
Alignment explanation
Indices: 33822035--33822132 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
33822025 ATATTAAGTC
*
33822035 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
33822062 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33822090 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33822119 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33822133 CAAGATCAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33830075 original size:29 final size:27
Alignment explanation
Indices: 33830057--33830126 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
33830047 ATATTAAGTC
33830057 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
33830084 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
33830112 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
33830127 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:33830120 original size:28 final size:28
Alignment explanation
Indices: 33830057--33830154 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
33830047 ATATTAAGTC
*
33830057 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
33830084 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33830112 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33830141 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33830155 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33833965 original size:27 final size:27
Alignment explanation
Indices: 33833927--33834020 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 27
33833917 TCTTGTCAGT
*
33833927 ACATAAAATAGTCATGATGGAGC-TTCC
1 ACATAAAATAGTCATGATAGA-CTTTCC
*
33833954 ACATAAAATAGTCTTGATAGACTTTCC
1 ACATAAAATAGTCATGATAGACTTTCC
* * * *
33833981 ACA-AAAGATAGTCCTGAAAAACTTCCC
1 ACATAAA-ATAGTCATGATAGACTTTCC
* *
33834008 GCATAATATAGTC
1 ACATAAAATAGTC
33834021 CTTGTAGACT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.07
27 50 0.89
28 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (27 bp):
ACATAAAATAGTCATGATAGACTTTCC
Found at i:33843646 original size:28 final size:29
Alignment explanation
Indices: 33843502--33843646 Score: 180
Period size: 28 Copynumber: 5.2 Consensus size: 29
33843492 CAGTGATAGT
*
33843502 ACAGTGTGGGCCTTAG-CCCAATACAATA
1 ACAGTGTGGGCCTTAGTCCCAATACAGTA
33843530 ACAGTGTGGGCCTTAG-CCCAATACAGTA
1 ACAGTGTGGGCCTTAGTCCCAATACAGTA
*
33843558 ACAGTGTGGGCGTTAGAT--CAATACAG-A
1 ACAGTGTGGGCCTTAG-TCCCAATACAGTA
33843585 ATCAGTGTGGGCCTTA-TCCCAATACAG-A
1 A-CAGTGTGGGCCTTAGTCCCAATACAGTA
*
33843613 ATCAGTGTGGGCCTTAGTCCAAAT-CAGTA
1 A-CAGTGTGGGCCTTAGTCCCAATACAGTA
33843642 ACAGT
1 ACAGT
33843647 ACAATGCAAT
Statistics
Matches: 106, Mismatches: 4, Indels: 14
0.85 0.03 0.11
Matches are distributed among these distances:
26 1 0.01
27 2 0.02
28 95 0.90
29 8 0.08
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.23
Consensus pattern (29 bp):
ACAGTGTGGGCCTTAGTCCCAATACAGTA
Found at i:33844103 original size:27 final size:26
Alignment explanation
Indices: 33844010--33844104 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 26
33844000 GGGATAATAA
33844010 TCATTTTATCCTATGGGGGTATTTTGG
1 TCATTTTAT-CTATGGGGGTATTTTGG
* *
33844037 TCATTTTATCTTATAGGGGTATTTCGG
1 TCATTTTATC-TATGGGGGTATTTTGG
*
33844064 TCATTTTACTCTATGGGGGTATTTTAG
1 TCATTTTA-TCTATGGGGGTATTTTGG
33844091 TCATTTTCATCTAT
1 TCATTTT-ATCTAT
33844105 TAGAGGTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 1 0.02
27 56 0.93
28 3 0.05
ACGTcount: A:0.18, C:0.13, G:0.20, T:0.49
Consensus pattern (26 bp):
TCATTTTATCTATGGGGGTATTTTGG
Found at i:33847926 original size:26 final size:25
Alignment explanation
Indices: 33847894--33847959 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
33847884 CTATAAACAC
* *
33847894 TTCATATAACCATTCATATATTTAT
1 TTCATATAACCATTCATATAGTAAT
*
33847919 TTCTATATAAACATTTCATATAGTAAT
1 TTC-ATATAACCA-TTCATATAGTAAT
*
33847946 TTCATAAAACCATT
1 TTCATATAACCATT
33847960 TATCACATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 5 0.15
26 15 0.44
27 14 0.41
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.44
Consensus pattern (25 bp):
TTCATATAACCATTCATATAGTAAT
Found at i:33851790 original size:26 final size:26
Alignment explanation
Indices: 33851761--33851959 Score: 191
Period size: 26 Copynumber: 7.7 Consensus size: 26
33851751 TATATTCCCC
* *
33851761 GGCTCAATGTCTGCTAAATAAACACT
1 GGCTCAAAGCCTGCTAAATAAACACT
* *
33851787 GGCTCAAAGCCTGCTAAGTAAACAAT
1 GGCTCAAAGCCTGCTAAATAAACACT
* *
33851813 GGCTCAAAGCCAGCTAAATAATCACT
1 GGCTCAAAGCCTGCTAAATAAACACT
**
33851839 GATTCAAAGCCTGCTAAATAAACACT
1 GGCTCAAAGCCTGCTAAATAAACACT
* * * * * * *
33851865 AGCTCATAGACTACTAAGTAATCACC
1 GGCTCAAAGCCTGCTAAATAAACACT
* *
33851891 GGCTCAAAACCTACTAAATAAACACT
1 GGCTCAAAGCCTGCTAAATAAACACT
* * * *
33851917 GACTCAAGGCCTACTAAATGAACACT
1 GGCTCAAAGCCTGCTAAATAAACACT
* *
33851943 CGCTCAAGGCCTGCTAA
1 GGCTCAAAGCCTGCTAA
33851960 TCAGGTACAT
Statistics
Matches: 138, Mismatches: 35, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 138 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (26 bp):
GGCTCAAAGCCTGCTAAATAAACACT
Found at i:33851908 original size:78 final size:78
Alignment explanation
Indices: 33851771--33851949 Score: 216
Period size: 78 Copynumber: 2.3 Consensus size: 78
33851761 GGCTCAATGT
* * * * * *
33851771 CTGCTAAATAAACACTGGCTCAAAGCCTGCTAAGTAAACAATGGCTCAAAGCCAGCTAAATAATC
1 CTGCTAAATAAACACTAGCTCAAAGACTACTAAGTAAACAACGGCTCAAAACCAGCTAAATAAAC
*
33851836 ACTGATTCAAAGC
66 ACTGACTCAAAGC
* * *
33851849 CTGCTAAATAAACACTAGCTCATAGACTACTAAGTAATCACCGGCTCAAAACCTA-CTAAATAAA
1 CTGCTAAATAAACACTAGCTCAAAGACTACTAAGTAAACAACGGCTCAAAACC-AGCTAAATAAA
*
33851913 CACTGACTCAAGGC
65 CACTGACTCAAAGC
* * *
33851927 CTACTAAATGAACACTCGCTCAA
1 CTGCTAAATAAACACTAGCTCAA
33851950 GGCCTGCTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 84 0.99
79 1 0.01
ACGTcount: A:0.40, C:0.26, G:0.13, T:0.21
Consensus pattern (78 bp):
CTGCTAAATAAACACTAGCTCAAAGACTACTAAGTAAACAACGGCTCAAAACCAGCTAAATAAAC
ACTGACTCAAAGC
Found at i:33858751 original size:42 final size:43
Alignment explanation
Indices: 33858699--33858805 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
33858689 AGGGTAAATC
* * * *
33858699 CAACAGCCCAAGTTTATCTTCTCCT-TTTTTAATTTTTTTTTT
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
*
33858741 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTGC
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTT-T
* *
33858785 CAA-TACTCAAGATTATCTTCT
1 CAACAACCCAAGATTATCTTCT
33858806 TTCTAATTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
42 23 0.41
43 30 0.54
44 3 0.05
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.47
Consensus pattern (43 bp):
CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:33858796 original size:43 final size:42
Alignment explanation
Indices: 33858698--33858805 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
33858688 TAGGGTAAAT
* * * *
33858698 CCAACAGCCCAAGTTTATCTTCTCCTTTTTTAATTTTTTTTT
1 CCAACAACCCAAGATTATCTTCTCCTTTTTTAATTCTTTTTG
*
33858740 TCAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTG
1 CCAACAACCCAAGATTATCTTCTCCT-TTTTT-AATTCTTTTTG
* *
33858784 CCAA-TACTCAAGATTATCTTCT
1 CCAACAACCCAAGATTATCTTCT
33858806 TTCTAATTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 23 0.41
43 21 0.38
44 12 0.21
ACGTcount: A:0.24, C:0.25, G:0.05, T:0.46
Consensus pattern (42 bp):
CCAACAACCCAAGATTATCTTCTCCTTTTTTAATTCTTTTTG
Found at i:33866042 original size:39 final size:40
Alignment explanation
Indices: 33865885--33866109 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
33865875 GCTCCTCGTT
* **
33865885 CAAATGCCTTCGGGACATGGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
33865925 CAAATGCCTCCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33865965 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
33866005 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
33866044 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
33866085 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33866110 CATCATTCAA
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 115 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33866069 original size:119 final size:120
Alignment explanation
Indices: 33865887--33866109 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
33865877 TCCTCGTTCA
* *
33865887 AATGCCTTCGGGACATGGCCCGGTTATAGTAACTCGCACAAATGCCTCCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTCCGGGACTTAACCCGGAT
* *
33865952 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
33866007 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTCCGGGA-CTTAACCCGG
* * *
33866069 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
33866110 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTCCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:33874082 original size:119 final size:120
Alignment explanation
Indices: 33873900--33874122 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
33873890 TCCTCGTTCA
* *
33873900 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTCCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTCCGGAACTTAACCCGGAT
* *
33873965 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
33874020 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GAATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTCCGGAA-CTTAACCCGG
* * *
33874082 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
33874123 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 65 0.74
120 20 0.23
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTCCGGAACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:33874122 original size:40 final size:40
Alignment explanation
Indices: 33873898--33874122 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
33873888 GCTCCTCGTT
* *
33873898 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
33873938 CAAATGCCTCCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
33873978 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
33874018 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
33874057 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
33874098 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33874123 CATCATTCAA
Statistics
Matches: 160, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 31 0.19
40 117 0.73
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:33879392 original size:20 final size:19
Alignment explanation
Indices: 33879352--33879398 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
33879342 CTATAAATAC
*
33879352 TATTTTTTTATTTTTTGTT
1 TATTTTTTTATTTTCTGTT
33879371 TATTTATTTTATTTTACT-TT
1 TATTT-TTTTATTTT-CTGTT
33879391 TATTTTTT
1 TATTTTTT
33879399 GTTCAAGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 16 0.64
21 1 0.04
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (19 bp):
TATTTTTTTATTTTCTGTT
Done.