Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 198 of 343
Found at i:65502828 original size:2 final size:2
Alignment explanation
Indices: 65502780--65502818 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
65502770 TCTAGTCCAA
* * *
65502780 CT CT CT CC CT CT CT CT CT CT CA CT CT CT CT CC CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
65502819 GTATTCTCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.56, G:0.00, T:0.41
Consensus pattern (2 bp):
CT
Found at i:65515487 original size:18 final size:18
Alignment explanation
Indices: 65515465--65515501 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
65515455 TTTCTTGGTA
65515465 TTTTTATATTGATTTTGAT
1 TTTTTAT-TTGATTTTGAT
*
65515484 TTTTTATTTTATTTTGAT
1 TTTTTATTTGATTTTGAT
65515502 AAAATAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (18 bp):
TTTTTATTTGATTTTGAT
Found at i:65523057 original size:40 final size:40
Alignment explanation
Indices: 65523000--65523079 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
65522990 AACACGAGGA
* *
65523000 ACACTTGAGGATTATTACGCAAACTCTTTGTGAGAAAAAT
1 ACACTTGAGGATAATTACACAAACTCTTTGTGAGAAAAAT
65523040 ACACTTGAGGATAATTACACAAACTCTTTGTGAGAAAAAT
1 ACACTTGAGGATAATTACACAAACTCTTTGTGAGAAAAAT
65523080 TTGTATGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (40 bp):
ACACTTGAGGATAATTACACAAACTCTTTGTGAGAAAAAT
Found at i:65526502 original size:5 final size:5
Alignment explanation
Indices: 65526492--65526524 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
65526482 AAATGAAATG
*
65526492 GAATT GGATT GAATT GAATT GAATT GAATT GAA
1 GAATT GAATT GAATT GAATT GAATT GAATT GAA
65526525 ATGTTTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (5 bp):
GAATT
Found at i:65526658 original size:12 final size:12
Alignment explanation
Indices: 65526641--65526671 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
65526631 ATGTAAATAT
65526641 GGATAAGTGTAG
1 GGATAAGTGTAG
65526653 GGATAAGTGTAG
1 GGATAAGTGTAG
65526665 GGTATAA
1 GG-ATAA
65526672 ACATGTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (12 bp):
GGATAAGTGTAG
Found at i:65529062 original size:31 final size:31
Alignment explanation
Indices: 65528998--65529071 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
65528988 GGATAATTTC
* * * *
65528998 TTAACCAGCCACATCCCAATAAGTCTCATAA
1 TTAACCAGCCACACCCCAATAAATCCCACAA
* *
65529029 TTAATCAGCCACACCCCACTAAATCCCACAA
1 TTAACCAGCCACACCCCAATAAATCCCACAA
*
65529060 TTAACCACCCAC
1 TTAACCAGCCAC
65529072 TAGATTCCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.38, C:0.39, G:0.04, T:0.19
Consensus pattern (31 bp):
TTAACCAGCCACACCCCAATAAATCCCACAA
Found at i:65529965 original size:152 final size:152
Alignment explanation
Indices: 65529689--65529993 Score: 576
Period size: 152 Copynumber: 2.0 Consensus size: 152
65529679 TGAAATATTT
*
65529689 AAGTACCACCAAACACTTAATTAATGCAGGGTATAATTTCAAATGTAGTTGTATTGCTGCCAAAT
1 AAGTACCACCAAACACTTAATCAATGCAGGGTATAATTTCAAATGTAGTTGTATTGCTGCCAAAT
65529754 ACGTCTCAATCCTCACAATGCTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAACT
66 ACGTCTCAATCCTCACAATGCTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAACT
65529819 TGCATCTGAATAAGGGAATGTC
131 TGCATCTGAATAAGGGAATGTC
*
65529841 AAGTACCACCAAACACTTAATCAATGTAGGGTATAA-TTCTAAATGTAGTTGTATTGCTGCCAAA
1 AAGTACCACCAAACACTTAATCAATGCAGGGTATAATTTC-AAATGTAGTTGTATTGCTGCCAAA
65529905 TACGTCTCAATCCTCACAATGCTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAAC
65 TACGTCTCAATCCTCACAATGCTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAAC
65529970 TTGCATCTGAATAAGGGAATGTC
130 TTGCATCTGAATAAGGGAATGTC
65529993 A
1 A
65529994 TGAACAGTCC
Statistics
Matches: 150, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
151 3 0.02
152 147 0.98
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (152 bp):
AAGTACCACCAAACACTTAATCAATGCAGGGTATAATTTCAAATGTAGTTGTATTGCTGCCAAAT
ACGTCTCAATCCTCACAATGCTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAACT
TGCATCTGAATAAGGGAATGTC
Found at i:65531673 original size:20 final size:20
Alignment explanation
Indices: 65531648--65531693 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
65531638 CATATCATAA
65531648 ATCATACCATA-TCGATTCAT
1 ATCATACCATATTCGA-TCAT
* *
65531668 ATCATATCATATTTGATCAT
1 ATCATACCATATTCGATCAT
65531688 ATCATA
1 ATCATA
65531694 TAAAGTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (20 bp):
ATCATACCATATTCGATCAT
Found at i:65532414 original size:32 final size:32
Alignment explanation
Indices: 65532378--65532438 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
65532368 CTACAGAGGT
*
65532378 TGCATGATTTCACACGGTCTACCCACACGGTC
1 TGCATGATTTCACACGGACTACCCACACGGTC
*
65532410 TGCATGGTTTCACACGGACTACCCACACG
1 TGCATGATTTCACACGGACTACCCACACG
65532439 ACCTACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (32 bp):
TGCATGATTTCACACGGACTACCCACACGGTC
Found at i:65540040 original size:46 final size:46
Alignment explanation
Indices: 65539919--65540045 Score: 150
Period size: 44 Copynumber: 2.8 Consensus size: 46
65539909 CAATATTCTG
* * * ** * *
65539919 CCAATGCCATATTTTTGACATGGACTTACATGAATTATTCCTGTCT
1 CCAATGCCATATTTATAATATGGACTTACATGGCTCAATCCTGTCT
*
65539965 CCAATGCC--ATCTATAATATGGACTTACATGGCTCAATCCTGTCT
1 CCAATGCCATATTTATAATATGGACTTACATGGCTCAATCCTGTCT
* *
65540009 CCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 CCAATGCCATATTTATAATATGGACTTACATGGCTCA
65540046 TTTCTGTTCT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 35 0.51
46 33 0.49
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (46 bp):
CCAATGCCATATTTATAATATGGACTTACATGGCTCAATCCTGTCT
Found at i:65543198 original size:40 final size:40
Alignment explanation
Indices: 65543153--65543239 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
65543143 GCCGTGTGGG
* * * * *
65543153 TGGCCGTGTGCTAAATACGATCGTGTGATCAACGAAGGTA
1 TGGCCGTGTACTAAACACGACCGTGTGATCAACAAAGGCA
* * *
65543193 TGGCCGTGTACTAGACACGACCTTGTGATCGACAAAGGCA
1 TGGCCGTGTACTAAACACGACCGTGTGATCAACAAAGGCA
65543233 TGGCCGT
1 TGGCCGT
65543240 ATGCAAGACA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (40 bp):
TGGCCGTGTACTAAACACGACCGTGTGATCAACAAAGGCA
Found at i:65543249 original size:40 final size:40
Alignment explanation
Indices: 65543176--65543254 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
65543166 AATACGATCG
* * * *
65543176 TGTGATCAACGAAGGTATGGCCGTGTACTAGACACGACCT
1 TGTGATCAACAAAGGCATGGCCGTATACAAGACACGACCT
* * *
65543216 TGTGATCGACAAAGGCATGGCCGTATGCAAGACATGACC
1 TGTGATCAACAAAGGCATGGCCGTATACAAGACACGACC
65543255 ATATAGTGGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (40 bp):
TGTGATCAACAAAGGCATGGCCGTATACAAGACACGACCT
Found at i:65544680 original size:19 final size:20
Alignment explanation
Indices: 65544642--65544701 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
65544632 ATTAACTAAT
65544642 TGAAGATTAATGTATAATTAA
1 TGAAGATTAA-GTATAATTAA
65544663 TGAAGATTAAGT-TAATTAA
1 TGAAGATTAAGTATAATTAA
* * *
65544682 TTAAGTTTAATTATAATTAA
1 TGAAGATTAAGTATAATTAA
65544702 AACTAGTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.46
20 9 0.26
21 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (20 bp):
TGAAGATTAAGTATAATTAA
Found at i:65546077 original size:18 final size:18
Alignment explanation
Indices: 65546056--65546095 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
65546046 GAAATATTTA
*
65546056 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
65546074 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
65546092 TTTT
1 TTTT
65546096 TAAATTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:65546392 original size:43 final size:42
Alignment explanation
Indices: 65546310--65546394 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 42
65546300 TTTTATCCTA
* * * * *
65546310 AAAAAAGAATTTAAAAGAGGAGAAGATAATCTTGGGTTGTTG
1 AAAAAAGAATTAAAAAGAAGAGAAGATAAACATGAGTTGTTG
65546352 AAAAAAGAAATTAAAAAGAAGAGAAGATAAACATGAGTTGTTG
1 AAAAAAG-AATTAAAAAGAAGAGAAGATAAACATGAGTTGTTG
65546395 GGTTTACCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 7 0.19
43 30 0.81
ACGTcount: A:0.52, C:0.02, G:0.24, T:0.22
Consensus pattern (42 bp):
AAAAAAGAATTAAAAAGAAGAGAAGATAAACATGAGTTGTTG
Found at i:65551548 original size:103 final size:103
Alignment explanation
Indices: 65551434--65551635 Score: 296
Period size: 103 Copynumber: 2.0 Consensus size: 103
65551424 TACCATCATG
* * * * * * *
65551434 ATAATATTAATTATAATTTAAAAGAAAAGATATTTTTGTAATTGCATAATTGAGTTGGTGACTTG
1 ATAATACTAATTATAATTTAAAAGAAAAGATATTTTTGTAATTACATAACTAAGTTAGTAACCTG
*
65551499 ATTAAGGGTGACACCAACTCAGTAAAGTACTTAAATAT
66 ATTAAGGATGACACCAACTCAGTAAAGTACTTAAATAT
* *
65551537 ATAATACTAATTATAATTTAAAAGAAGAGGTATTTTTGTAATTACATAACTAAGTTAGTAACCTG
1 ATAATACTAATTATAATTTAAAAGAAAAGATATTTTTGTAATTACATAACTAAGTTAGTAACCTG
* *
65551602 ATTAAGGATGACACCAATTTAGTAAAGTACTTAA
66 ATTAAGGATGACACCAACTCAGTAAAGTACTTAA
65551636 GTGTAAACTA
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 87 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.35
Consensus pattern (103 bp):
ATAATACTAATTATAATTTAAAAGAAAAGATATTTTTGTAATTACATAACTAAGTTAGTAACCTG
ATTAAGGATGACACCAACTCAGTAAAGTACTTAAATAT
Found at i:65559290 original size:24 final size:24
Alignment explanation
Indices: 65559245--65559291 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
65559235 TAATTTTACT
*
65559245 TTTAATCCATACTAATTTGTTTCC
1 TTTAATCCATACTAATTCGTTTCC
* *
65559269 TTTAATCCATCCTACTTCGTTTC
1 TTTAATCCATACTAATTCGTTTC
65559292 ATTCTTACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.04, T:0.49
Consensus pattern (24 bp):
TTTAATCCATACTAATTCGTTTCC
Found at i:65559353 original size:18 final size:17
Alignment explanation
Indices: 65559330--65559368 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
65559320 TAATAGCCAC
*
65559330 ATTAGTAAATATATATAT
1 ATTAGTAAATA-ATATAG
*
65559348 ATTAGTTAATAATATAG
1 ATTAGTAAATAATATAG
65559365 ATTA
1 ATTA
65559369 TACAAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (17 bp):
ATTAGTAAATAATATAG
Found at i:65565100 original size:15 final size:15
Alignment explanation
Indices: 65565080--65565121 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
65565070 AACTATATAC
65565080 ATAATATATAAAAAT
1 ATAATATATAAAAAT
65565095 ATAATAT-T-AAAAT
1 ATAATATATAAAAAT
*
65565108 ATATATACATAAAA
1 ATA-ATATATAAAA
65565122 GGGTAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 8 0.35
14 4 0.17
15 8 0.35
16 3 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATATATAAAAAT
Found at i:65566981 original size:21 final size:21
Alignment explanation
Indices: 65566937--65566981 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
65566927 TTGATATGGG
* * **
65566937 TTGTAGTTTGGGTTTTAATTT
1 TTGTAATTTGGATTTTAAAAT
65566958 TTGTAATTTGGATTTTAAAAT
1 TTGTAATTTGGATTTTAAAAT
65566979 TTG
1 TTG
65566982 GACATTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (21 bp):
TTGTAATTTGGATTTTAAAAT
Found at i:65576499 original size:17 final size:17
Alignment explanation
Indices: 65576477--65576510 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
65576467 GGCTTAAGAT
65576477 AGTTCTTAAAGTCATTC
1 AGTTCTTAAAGTCATTC
65576494 AGTTCTTAAAGTCATTC
1 AGTTCTTAAAGTCATTC
65576511 CAAGCAGGGG
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:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
AGTTCTTAAAGTCATTC
Found at i:65578812 original size:7 final size:7
Alignment explanation
Indices: 65578800--65578837 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
65578790 CGTCAGTGGG
65578800 TGGCAAA
1 TGGCAAA
65578807 TGGCAAA
1 TGGCAAA
65578814 TGGCAAA
1 TGGCAAA
65578821 TGGCAAA
1 TGGCAAA
65578828 TGGCAAA
1 TGGCAAA
65578835 TGG
1 TGG
65578838 TATGAAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.39, C:0.13, G:0.32, T:0.16
Consensus pattern (7 bp):
TGGCAAA
Found at i:65579849 original size:16 final size:17
Alignment explanation
Indices: 65579824--65579896 Score: 57
Period size: 17 Copynumber: 4.5 Consensus size: 17
65579814 ATGTATTTGC
*
65579824 AAAATCTTT-AATATAT
1 AAAATATTTAAATATAT
65579840 AAAATATTTAAATATAT
1 AAAATATTTAAATATAT
* * *
65579857 CAAATGAATTAGAT-TA-
1 AAAAT-ATTTAAATATAT
65579873 AATAAT-TTTAAATATA-
1 AA-AATATTTAAATATAT
65579889 AAAATATT
1 AAAATATT
65579897 ATTTGTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
15 8 0.18
16 15 0.33
17 16 0.36
18 6 0.13
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
AAAATATTTAAATATAT
Found at i:65586880 original size:17 final size:17
Alignment explanation
Indices: 65586858--65586892 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
65586848 ATCTTTCTTC
65586858 TTAACAAACAGAACTGG
1 TTAACAAACAGAACTGG
65586875 TTAACAAACAGAACTGG
1 TTAACAAACAGAACTGG
65586892 T
1 T
65586893 GCTCCCCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (17 bp):
TTAACAAACAGAACTGG
Found at i:65589810 original size:14 final size:15
Alignment explanation
Indices: 65589781--65589813 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
65589771 CCGAAATTTA
*
65589781 AAAATAAAACAAAAG
1 AAAAGAAAACAAAAG
65589796 AAAAGAAAA-AAAAG
1 AAAAGAAAACAAAAG
65589810 AAAA
1 AAAA
65589814 AAACCTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (15 bp):
AAAAGAAAACAAAAG
Found at i:65597115 original size:4 final size:4
Alignment explanation
Indices: 65597106--65597136 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
65597096 TTTGAGCGTC
65597106 AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
65597137 CAAAAAACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:65599713 original size:62 final size:59
Alignment explanation
Indices: 65599624--65599741 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 59
65599614 AGATTTAATA
* *
65599624 TTAAATTAGATTTAATTTAGTATTTATCTTTTAGGTAAATATT-CTATGAATTTAATAAAAT
1 TTAAATTAAATTTAATCTAGTATTTATC-TTTA--TAAATATTACTATGAATTTAATAAAAT
* *
65599685 TTAATATTAAATTTAATCTATTATTTATCTTTATAAATATTACTATTAATTTAATAA
1 TTAA-ATTAAATTTAATCTAGTATTTATCTTTATAAATATTACTATGAATTTAATAA
65599742 TAAAGTGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 8 0.16
60 14 0.27
61 8 0.16
62 21 0.41
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (59 bp):
TTAAATTAAATTTAATCTAGTATTTATCTTTATAAATATTACTATGAATTTAATAAAAT
Found at i:65602540 original size:39 final size:38
Alignment explanation
Indices: 65602438--65602560 Score: 129
Period size: 39 Copynumber: 3.1 Consensus size: 38
65602428 CACACCAGAT
* * * *
65602438 AGAAGCTCATAAGAGATGATCCAACCAAAATACACCAAA
1 AGAAGCTCATAAGAGCTGATCC-ACCGAAACACGCCAAA
* *
65602477 ATGAAGCTCATAAGAGCTGGTCCACCTGAAACACGCCAAC
1 A-GAAGCTCATAAGAGCTGATCCACC-GAAACACGCCAAA
* *
65602517 AGAAGGTCATAAGAGCTGATCCACCCGAATCACGCCAAA
1 AGAAGCTCATAAGAGCTGATCCA-CCGAAACACGCCAAA
65602556 TAGAA
1 -AGAA
65602561 AGTATAACAC
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
39 35 0.50
40 35 0.50
ACGTcount: A:0.42, C:0.26, G:0.18, T:0.14
Consensus pattern (38 bp):
AGAAGCTCATAAGAGCTGATCCACCGAAACACGCCAAA
Found at i:65603220 original size:13 final size:14
Alignment explanation
Indices: 65603188--65603219 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
65603178 AAAATTCATC
65603188 AAAAATCACTTAAT
1 AAAAATCACTTAAT
*
65603202 AAAAATCACTTAAG
1 AAAAATCACTTAAT
65603216 AAAA
1 AAAA
65603220 TTCATCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.22
Consensus pattern (14 bp):
AAAAATCACTTAAT
Found at i:65604016 original size:12 final size:12
Alignment explanation
Indices: 65603999--65604023 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65603989 GACCTGTTAC
65603999 ATTTCCTTTTAG
1 ATTTCCTTTTAG
65604011 ATTTCCTTTTAG
1 ATTTCCTTTTAG
65604023 A
1 A
65604024 CTAAGGACGT
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:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (12 bp):
ATTTCCTTTTAG
Found at i:65613283 original size:37 final size:37
Alignment explanation
Indices: 65613205--65613341 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
65613195 GCTCAGACGA
* * *
65613205 AATCTCCACACGAAGTTATCGGGTCTTA-CCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
65613241 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
65613278 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
65613315 AATCTCCACACGTAGTCATCGGGTCTT
1 AATCTCCACACGTAGTCATCGGGTCTT
65613342 TAGAGCTCGG
Statistics
Matches: 97, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
36 26 0.27
37 71 0.73
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:65613547 original size:47 final size:47
Alignment explanation
Indices: 65613464--65613958 Score: 810
Period size: 47 Copynumber: 10.5 Consensus size: 47
65613454 TCGGGACTTC
* * * * * * * * *
65613464 TCACATTTATACACTTTCACATCCTTCACGTTGGCCACTCGGCCCTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
65613511 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
65613558 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
65613605 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
65613654 TCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
65613701 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* * *
65613748 TCACGTATATACGCTTTCACATTCATCACATCGGCGATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
65613795 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
65613842 TCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
65613889 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
65613936 TCACATATATACACTTTCACATT
1 TCACATATATACACTTTCACATT
65613959 TATTCAAATA
Statistics
Matches: 422, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 376 0.89
49 46 0.11
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:65618025 original size:40 final size:40
Alignment explanation
Indices: 65617993--65618163 Score: 279
Period size: 40 Copynumber: 4.3 Consensus size: 40
65617983 CCAGCATGAT
* * * * * * *
65617993 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65618033 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65618073 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65618113 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65618153 TGCTCTTCGGA
1 TGCTCTTCGGA
65618164 TTTAGCCCGG
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 124 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:65619509 original size:37 final size:37
Alignment explanation
Indices: 65619450--65619588 Score: 242
Period size: 37 Copynumber: 3.8 Consensus size: 37
65619440 AGCTCAGACG
* *
65619450 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
65619487 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65619524 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65619561 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
65619589 TAGAGCTCGG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:65619794 original size:47 final size:47
Alignment explanation
Indices: 65619707--65620222 Score: 654
Period size: 47 Copynumber: 10.6 Consensus size: 47
65619697 CCCTTCGGGA
* * * * * * *
65619707 CTTATCACATTTATACACTTTCACATCCTTCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65619754 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** **
65619801 CTTATCACATATATACACTTTCTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTC-AC--AT-T-CA---TCACA-TCGGC-CAT---TA----GGC
*
65619865 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65619914 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65619961 CTTATCACGTATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65620008 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65620055 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65620102 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65620149 CTTATCACGTATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65620196 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
65620223 TATTCAAATA
Statistics
Matches: 418, Mismatches: 32, Indels: 38
0.86 0.07 0.08
Matches are distributed among these distances:
47 347 0.83
48 2 0.00
49 11 0.03
50 2 0.00
51 1 0.00
52 2 0.00
55 5 0.01
56 5 0.01
57 6 0.01
58 5 0.01
61 2 0.00
62 1 0.00
63 2 0.00
64 11 0.03
65 2 0.00
66 14 0.03
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65619829 original size:17 final size:16
Alignment explanation
Indices: 65619805--65619843 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 16
65619795 TTAGGCCTTA
65619805 TCACATATATACACTT
1 TCACATATATACACTT
65619821 TCTACATATATACACTT
1 TC-ACATATATACACTT
65619838 TCACAT
1 TCACAT
65619844 TCATCACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (16 bp):
TCACATATATACACTT
Found at i:65619832 original size:64 final size:64
Alignment explanation
Indices: 65619758--65619892 Score: 245
Period size: 64 Copynumber: 2.1 Consensus size: 64
65619748 CTCGGCCCTG
65619758 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTT
65619821 TCTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
1 TC-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACT
65619886 T
64 T
65619887 TCACAT
1 TCACAT
65619893 TCATCACATC
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
63 2 0.03
64 49 0.71
65 4 0.06
66 14 0.20
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (64 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTT
Found at i:65619874 original size:31 final size:31
Alignment explanation
Indices: 65619774--65619874 Score: 91
Period size: 31 Copynumber: 3.2 Consensus size: 31
65619764 ATATACACTT
65619774 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
* ** **
65619805 TCACATAT-ATACACTTTC-TACATATATACACTT-
1 TCACAT-TCAT-CAC-ATCGGCCAT-TAGGC-CTTA
65619838 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
65619869 TCACAT
1 TCACAT
65619875 ATATATACAC
Statistics
Matches: 52, Mismatches: 10, Indels: 16
0.67 0.13 0.21
Matches are distributed among these distances:
30 3 0.06
31 19 0.37
32 14 0.27
33 13 0.25
34 3 0.06
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (31 bp):
TCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:65619914 original size:113 final size:110
Alignment explanation
Indices: 65619706--65619939 Score: 333
Period size: 113 Copynumber: 2.1 Consensus size: 110
65619696 GCCCTTCGGG
* * * * * *
65619706 ACTTATCACATTTATACACTTTCACATCCTTCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 ACTT-TCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACA
65619771 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* * *
65619817 ACTTTCTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 ACTTTC-ACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATA
* *
65619882 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACGTATATAC
63 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
65619930 ACTTTCACAT
1 ACTTTCACAT
65619940 TCATCACATC
Statistics
Matches: 109, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
110 2 0.02
111 44 0.40
112 4 0.04
113 59 0.54
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (110 bp):
ACTTTCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:65620083 original size:141 final size:141
Alignment explanation
Indices: 65619824--65620222 Score: 726
Period size: 141 Copynumber: 2.8 Consensus size: 141
65619814 TACACTTTCT
65619824 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTC
65619889 ACATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCC
64 ACATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCC
65619954 ATTAGGCCTTATC
129 ATTAGGCCTTATC
* *
65619967 ACGTATATACACTTTCACATTCATCACATCGGCGATTAGGCCTTATCACATATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
65620032 ATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCAT
66 ATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCAT
65620097 TAGGCCTTATC
131 TAGGCCTTATC
* *
65620108 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
* *
65620173 ATTCATCACATCGACTATTAGGCCTTATCACATATATACACTTTCACATT
66 ATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCACATT
65620223 TATTCAAATA
Statistics
Matches: 249, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
141 202 0.81
143 47 0.19
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (141 bp):
ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
ATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCAT
TAGGCCTTATC
Found at i:65626109 original size:41 final size:41
Alignment explanation
Indices: 65626052--65626201 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
65626042 TTGGGGTTTA
65626052 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
65626093 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGACAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
65626134 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
65626174 AATTCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
65626202 TGAGTCAGCG
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 60 0.66
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:65629342 original size:54 final size:55
Alignment explanation
Indices: 65629259--65629369 Score: 197
Period size: 54 Copynumber: 2.0 Consensus size: 55
65629249 ATTGTATGGC
*
65629259 AGCCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGA
1 AGCCTTGTATTTGAAATTTGAAATCCAAACACAAACTACTTGATCTTATCCTTGA
*
65629314 AGCC-TGTATTTGAAATTTGAAATCCAAACACAAACTAGTTGATCTTATCCTTGA
1 AGCCTTGTATTTGAAATTTGAAATCCAAACACAAACTACTTGATCTTATCCTTGA
65629368 AG
1 AG
65629370 TTGATGCCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 50 0.93
55 4 0.07
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (55 bp):
AGCCTTGTATTTGAAATTTGAAATCCAAACACAAACTACTTGATCTTATCCTTGA
Found at i:65632620 original size:5 final size:6
Alignment explanation
Indices: 65632605--65632629 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
65632595 ATCCTTTCTC
65632605 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
65632630 CTATTAAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:65634890 original size:23 final size:23
Alignment explanation
Indices: 65634860--65634903 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
65634850 TTAAAGTGTA
65634860 AATATGAAAA-ATTTTAAGGGCT
1 AATATGAAAATATTTTAAGGGCT
65634882 AATAGTGAAAATATTTTAAGGG
1 AATA-TGAAAATATTTTAAGGG
65634904 TGGAAGGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 6 0.30
24 10 0.50
ACGTcount: A:0.45, C:0.02, G:0.20, T:0.32
Consensus pattern (23 bp):
AATATGAAAATATTTTAAGGGCT
Found at i:65642823 original size:43 final size:43
Alignment explanation
Indices: 65642762--65642871 Score: 177
Period size: 43 Copynumber: 2.6 Consensus size: 43
65642752 GTTGTCGAGG
* *
65642762 TGTGATTACATGTAAGACCATTTCTGGGACATTGGCATTGTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
65642805 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
65642848 TATGATT-CGTGTAAGACCCTGTCT
1 TGTGATTACGTGTAAGACCATGTCT
65642872 AGGATAGTGG
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 16 0.25
43 47 0.75
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:65642883 original size:42 final size:43
Alignment explanation
Indices: 65642764--65642884 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
65642754 TGTCGAGGTG
* * * * *
65642764 TGATTACATGTAAGACCATTTCTGGGACATTGGCATTGTATTG
1 TGATTACGTGTAAGACCATGTCTAGGACAGTGGCATTGTATTA
* *
65642807 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATTA
1 TGATTACGTGTAAGACCATGTCTAGGACAGTGGCATTGTATTA
* *
65642850 TGATT-CGTGTAAGACCCTGTCTAGGATAGTGGCAT
1 TGATTACGTGTAAGACCATGTCTAGGACAGTGGCAT
65642885 CAATATGTGA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 26 0.37
43 45 0.63
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTAGGACAGTGGCATTGTATTA
Found at i:65651072 original size:49 final size:49
Alignment explanation
Indices: 65650996--65651119 Score: 153
Period size: 49 Copynumber: 2.5 Consensus size: 49
65650986 GATGCCAACG
65650996 CCATGTCCCAGACATGGTCTTACACTGGCT-TCCATATAGCGAG-GTCGATA
1 CCATGTCCCAGACA-GGTCTTACACTGGCTCT-CATATAGC-AGTGTCGATA
* * * *
65651046 CCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGTCGATA
* *
65651095 CCATGTCCCAAACAGGTGTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
65651120 AACACACAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
48 2 0.03
49 49 0.75
50 14 0.22
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGTCGATA
Found at i:65651249 original size:46 final size:46
Alignment explanation
Indices: 65651140--65651353 Score: 139
Period size: 48 Copynumber: 4.6 Consensus size: 46
65651130 AAGCTGACGC
* * * *
65651140 CATGTCCCAGACAGGTCTTACACTAGCT-T-GTATATGGCAAGGCAGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCG--TCT--CAATGCCGATG
*
65651188 CATGTCCCAGGCATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
* * * ** * * *
65651234 CATGTCTCAGACATGTCTTACACTGGAT-TAAATATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT---CGTCTCAATGCCGATG
* * * * * * **
65651282 CATGTCTCAGACATTTCTTGCGCTGGCTCTCGTAT-TGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-GCCGATG
65651328 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
65651354 TACACATATC
Statistics
Matches: 129, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
45 1 0.01
46 62 0.48
48 63 0.49
49 2 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
Found at i:65651256 original size:94 final size:94
Alignment explanation
Indices: 65651140--65651353 Score: 234
Period size: 94 Copynumber: 2.3 Consensus size: 94
65651130 AAGCTGACGC
* * ** * *
65651140 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATGGCAAGG-CAGATGCATGTCCCAGGCATGT
1 CATGTCCCAGACATGTCTTACACTAGATTAAATATCGCAAGGCCA-ATGCATGTCCCAGACATGT
*
65651204 CTTACACTAGCTCTCGTCTCAAT-GCCGATG
65 CTTACACTAGCTCTCGTAT-AATGGCCGATG
* * * * * *
65651234 CATGTCTCAGACATGTCTTACACTGGATTAAATATCTCGAGGCCAATGCATGTCTCAGACATTTC
1 CATGTCCCAGACATGTCTTACACTAGATTAAATATCGCAAGGCCAATGCATGTCCCAGACATGTC
* * * **
65651299 TTGCGCTGGCTCTCGTATTGTGGCCGATG
66 TTACACTAGCTCTCGTATAATGGCCGATG
65651328 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
65651354 TACACATATC
Statistics
Matches: 98, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
93 1 0.01
94 95 0.97
95 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGATTAAATATCGCAAGGCCAATGCATGTCCCAGACATGTC
TTACACTAGCTCTCGTATAATGGCCGATG
Found at i:65660299 original size:48 final size:47
Alignment explanation
Indices: 65660233--65660447 Score: 184
Period size: 48 Copynumber: 4.6 Consensus size: 47
65660223 AAGTTGACCC
* * *
65660233 CATGTCTCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCCGATG
** * * * ***
65660281 CATGTCTTAGACATGTCTTACACTAGCTCT-CATCTCAATATCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCCGATG
* * * * *
65660327 CATGTCCCAGACATGTCTTACATTGGCTTAAATATCTTGAAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCCGATG
* * *
65660375 CATGTCCCAGACATGTCTTACACTGGCTCTCATAT-T-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCGAGGCCGATG
* * *
65660421 GATGTCCTAGACATGTCTTGCACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
65660448 ATACATATCA
Statistics
Matches: 135, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
46 65 0.48
47 2 0.01
48 67 0.50
49 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCCGATG
Found at i:65660362 original size:94 final size:94
Alignment explanation
Indices: 65660139--65660407 Score: 242
Period size: 94 Copynumber: 2.9 Consensus size: 94
65660129 ATGTCGACGC
* ** * * * *
65660139 CATGTCCCAGACATGGTCTTACACTGGCTTTTATATAGCGAGGCTGATGCCATGTCCCAGACAGG
1 CATGTCCCAGACA-GGTCTTACACTAGCTTAAATATCGCGAAGCCGATG-CATGTCCCAGACATG
* * * **
65660204 TCTTACACT-G-ACACA-CGACAAGT-T-GACCC
64 TCTTACACTAGCTCTCATC-TCAA-TATCGA-TG
* ** * **
65660233 CATGTCTCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATGCATGTCTTAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAAGCCGATGCATGTCCCAGACATGTC
65660298 TTACACTAGCTCTCATCTCAATATCGATG
66 TTACACTAGCTCTCATCTCAATATCGATG
* * * **
65660327 CATGTCCCAGACATGTCTTACATTGGCTTAAATATCTTGAAGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAAGCCGATGCATGTCCCAGACATGTC
*
65660392 TTACACTGGCTCTCAT
66 TTACACTAGCTCTCAT
65660408 ATTGTGGCCG
Statistics
Matches: 145, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
92 21 0.14
93 33 0.23
94 88 0.61
95 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAAGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATCTCAATATCGATG
Found at i:65660420 original size:94 final size:94
Alignment explanation
Indices: 65660233--65660456 Score: 234
Period size: 94 Copynumber: 2.4 Consensus size: 94
65660223 AAGTTGACCC
* * ** * **
65660233 CATGTCTCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATGCATGTCTTAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAAGCCGATGCATGTCCCAGACATGTC
* *
65660298 TTACACTAGCTCTCATCTCAATATCGATG
66 TTACACTAGCTCTCATATCAATACCGATG
* * **
65660327 CATGTCCCAGACATGTCTTACATTGGCTTAAATATCTTGAAGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAAGCCGATGCATGTCCCAGACATGTC
* ** *
65660392 TTACACTGGCTCTCATAT-TGTGGCCGATG
66 TTACACTAGCTCTCATATCAAT-ACCGATG
* * * * *
65660421 GATGTCCTAGACATGTCTTGCACTAGCATACATATC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATC
65660457 ACCCAATGTC
Statistics
Matches: 105, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
93 1 0.01
94 104 0.99
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAAGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATATCAATACCGATG
Found at i:65660455 original size:46 final size:46
Alignment explanation
Indices: 65660273--65660455 Score: 147
Period size: 46 Copynumber: 3.9 Consensus size: 46
65660263 TATATCGCGA
** * * **
65660273 GGCCGATGCATGTCTTAGACATGTCTTACACTAGCTCTCATCTCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATAT-TGT
** * * * *
65660320 -ATCGATGCATGTCCCAGACATGTCTTACATTGGCTTAAATATCT-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATAT-TGT
* *
65660365 GAAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATTGT
1 G--GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATATTGT
* * *
65660413 GGCCGATGGATGTCCTAGACATGTCTTGCACTAGCAT-ACATAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC-TCACATAT
65660456 CACCCAATGT
Statistics
Matches: 109, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 68 0.62
47 2 0.02
48 38 0.35
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATATTGT
Found at i:65662647 original size:14 final size:14
Alignment explanation
Indices: 65662630--65662664 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
65662620 TTTAGATAAG
*
65662630 TTTTCAAGTTATGT
1 TTTTAAAGTTATGT
65662644 TTTTAAAGTTATG-
1 TTTTAAAGTTATGT
65662657 TTTTAAAG
1 TTTTAAAG
65662665 AAAAGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (14 bp):
TTTTAAAGTTATGT
Found at i:65664964 original size:40 final size:40
Alignment explanation
Indices: 65664908--65664990 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
65664898 ATCTCCATCT
*
65664908 CATTGCCTTGTATCTTAAACTATATAT-ATAACCCTATGGC
1 CATTGCCATGTATCTTAAACTATAT-TCATAACCCTATGGC
*
65664948 CATTGCCATGTTTCTTAAACTATATTCATAACCCTATGGC
1 CATTGCCATGTATCTTAAACTATATTCATAACCCTATGGC
65664988 CAT
1 CAT
65664991 GTGGAAAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (40 bp):
CATTGCCATGTATCTTAAACTATATTCATAACCCTATGGC
Found at i:65673103 original size:5 final size:5
Alignment explanation
Indices: 65673089--65673118 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
65673079 TTGTGTGTGT
65673089 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
65673119 CTCACTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:65679932 original size:10 final size:10
Alignment explanation
Indices: 65679915--65679962 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
65679905 AAATTCTAAC
65679915 AGATAAATACA
1 AGATAAATA-A
65679926 A-ATAAATAA
1 AGATAAATAA
*
65679935 AGATAATTAA
1 AGATAAATAA
65679945 AGATAAATGAA
1 AGATAAAT-AA
65679956 A-ATAAAT
1 AGATAAAT
65679963 CCTAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 2 0.06
10 27 0.82
11 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AGATAAATAA
Found at i:65681846 original size:55 final size:54
Alignment explanation
Indices: 65681759--65682013 Score: 240
Period size: 55 Copynumber: 4.8 Consensus size: 54
65681749 ATTAGGGTTT
*
65681759 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTATAAGGC
* * * **
65681814 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTTATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TATAAGGC
* * * * * * *
65681869 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGAC-ATTAGTGAGTTCATAAGGT
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTATAAGGC
* * *
65681922 AAGGATACCATGTAAGACCATGTCAAGACATGTCAA-TGGTAAGTTT-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTATAAGGC
* * *
65681971 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
65682014 GTACTCGTGT
Statistics
Matches: 166, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
49 39 0.23
52 6 0.04
53 41 0.25
54 7 0.04
55 69 0.42
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTATAAGGC
Found at i:65681965 original size:108 final size:110
Alignment explanation
Indices: 65681766--65681966 Score: 289
Period size: 108 Copynumber: 1.8 Consensus size: 110
65681756 TTTAAGGATA
* * * *
65681766 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTATAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGACAATTAGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
* *
65681831 CCATGTCAAGACATGGCATTTATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
65681876 CCATGTAAGACCATGCCAAGGCATGAC-ATTAGTGA-GTTCATAAGGTAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGACAATTAGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
* *
65681939 CCATGTCAAGACATGTCAATGGTAAGTT
66 CCATGTCAAGACATGGCAATGATAAGTT
65681967 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
108 48 0.60
109 6 0.08
110 26 0.32
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGACAATTAGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:65686308 original size:15 final size:14
Alignment explanation
Indices: 65686260--65686322 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
65686250 TTAATATCTA
65686260 AAAAT-AATAA-AT
1 AAAATAAATAAGAT
*
65686272 AAGAT-AATAAGAT
1 AAAATAAATAAGAT
65686285 AAAATAAATAAGA-
1 AAAATAAATAAGAT
*
65686298 ATAAATGAAATAAAATT
1 A-AAAT-AAATAAGA-T
65686315 AAAATAAA
1 AAAATAAA
65686323 AATTAGGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
12 9 0.21
13 7 0.17
14 11 0.26
15 10 0.24
16 4 0.10
17 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (14 bp):
AAAATAAATAAGAT
Found at i:65698096 original size:20 final size:19
Alignment explanation
Indices: 65698051--65698099 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
65698041 AATTTATCTG
* *
65698051 TATTAATAGTTTTATGTAT
1 TATTAACAGTTTTATATAT
*
65698070 TAGTTAACAGTTTTGATATTT
1 TA-TTAACAGTTTT-ATATAT
65698091 TATTAACAG
1 TATTAACAG
65698100 ATATTTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 17 0.68
21 6 0.24
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (19 bp):
TATTAACAGTTTTATATAT
Found at i:65706371 original size:26 final size:26
Alignment explanation
Indices: 65706326--65706499 Score: 199
Period size: 26 Copynumber: 6.8 Consensus size: 26
65706316 TTTCAGCTTC
* *
65706326 AAATTATTTTATGTATTATTTATTTT
1 AAATTGTTTTATATATTATTTATTTT
* *
65706352 AAACTGTTTTATATACTATTTATTTT
1 AAATTGTTTTATATATTATTTATTTT
** *
65706378 AAATCATTTTATATACTATTTATTTT
1 AAATTGTTTTATATATTATTTATTTT
* * *
65706404 AAATTGTCTTATATGTTATTTATTTC
1 AAATTGTTTTATATATTATTTATTTT
*
65706430 AAATTGATTTATATATTATTTATTTT
1 AAATTGTTTTATATATTATTTATTTT
65706456 AAATTGTTTTATATA-T-TTTATTTT
1 AAATTGTTTTATATATTATTTATTTT
** * *
65706480 ATTTTATTTTAAATATTATT
1 AAATTGTTTTATATATTATT
65706500 CAATTGGTAA
Statistics
Matches: 124, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
24 19 0.15
25 2 0.02
26 103 0.83
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (26 bp):
AAATTGTTTTATATATTATTTATTTT
Found at i:65711093 original size:26 final size:27
Alignment explanation
Indices: 65711064--65711116 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
65711054 TAATTTTTCA
65711064 TATT-TTATAAATACTTTAATTA-CTTT
1 TATTATTA-AAATACTTTAATTATCTTT
*
65711090 TATTATTAAAATATTTTAATTATCTTT
1 TATTATTAAAATACTTTAATTATCTTT
65711117 AAAATAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (27 bp):
TATTATTAAAATACTTTAATTATCTTT
Found at i:65715475 original size:43 final size:43
Alignment explanation
Indices: 65715426--65715512 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
65715416 ATCATAAAAT
* *
65715426 TATTTTAATATTATTTTAAGTGTTTACAGTATCATAATATGTA
1 TATTTTAATATTATTTTAAGTGTTTACAGCATCAGAATATGTA
*
65715469 TATTTTAATATTATTTTAAGTGTTTACAGCATGAGAATATGTA
1 TATTTTAATATTATTTTAAGTGTTTACAGCATCAGAATATGTA
65715512 T
1 T
65715513 GTGTGAAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.49
Consensus pattern (43 bp):
TATTTTAATATTATTTTAAGTGTTTACAGCATCAGAATATGTA
Found at i:65716574 original size:40 final size:39
Alignment explanation
Indices: 65716530--65716715 Score: 169
Period size: 40 Copynumber: 4.6 Consensus size: 39
65716520 TGACAAATCA
* * *
65716530 ACTATAAGTGGCACTTAGTGTGTGATTCAACATAGTTTCG
1 ACTATAA-TGGCACTTAGTGTGCGATTCGACATAGCTTCG
* * *
65716570 ACTATATGTGGCACTTAGTGTGCAATTTGACATAGCTTC-
1 ACTATA-ATGGCACTTAGTGTGCGATTCGACATAGCTTCG
* *
65716609 AGCTATATATGGAACTTAGTGTGCAAGA-TCGAGATAGCTTCG
1 A-CTATA-ATGGCACTTAGTGTGC--GATTCGACATAGCTTCG
* * *
65716651 ACTATATATGGCACTTAGTGTGCGATTTGAGATAGATTCG
1 ACTATA-ATGGCACTTAGTGTGCGATTCGACATAGCTTCG
* *
65716691 GCTATGTATGGCACTTAGTGTGCGA
1 ACTAT-AATGGCACTTAGTGTGCGA
65716716 GATATCGAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 14
0.80 0.10 0.09
Matches are distributed among these distances:
39 3 0.02
40 86 0.70
41 32 0.26
42 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (39 bp):
ACTATAATGGCACTTAGTGTGCGATTCGACATAGCTTCG
Found at i:65716663 original size:81 final size:81
Alignment explanation
Indices: 65716561--65716718 Score: 235
Period size: 81 Copynumber: 2.0 Consensus size: 81
65716551 GTGATTCAAC
* * *
65716561 ATAGTTTCGACTATATGTGGCACTTAGTGTGCAATTTGACATAGCTTCAGCTATATATGGAACTT
1 ATAGCTTCGACTATATATGGCACTTAGTGTGCAATTTGACATAGATTCAGCTATATATGGAACTT
65716626 AGTGTGCAAGATCGAG
66 AGTGTGCAAGATCGAG
* * * * *
65716642 ATAGCTTCGACTATATATGGCACTTAGTGTGCGATTTGAGATAGATTCGGCTATGTATGGCACTT
1 ATAGCTTCGACTATATATGGCACTTAGTGTGCAATTTGACATAGATTCAGCTATATATGGAACTT
*
65716707 AGTGTGCGAGAT
66 AGTGTGCAAGAT
65716719 ATCGAGCACT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (81 bp):
ATAGCTTCGACTATATATGGCACTTAGTGTGCAATTTGACATAGATTCAGCTATATATGGAACTT
AGTGTGCAAGATCGAG
Found at i:65718451 original size:17 final size:20
Alignment explanation
Indices: 65718415--65718455 Score: 61
Period size: 17 Copynumber: 2.2 Consensus size: 20
65718405 AATGAGCAGA
65718415 GAAAGAAAGAAGGAAAAAGG
1 GAAAGAAAGAAGGAAAAAGG
65718435 GAAAGAAA-AA-G-AAAAGG
1 GAAAGAAAGAAGGAAAAAGG
65718452 GAAA
1 GAAA
65718456 ATTAGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.48
18 1 0.05
19 2 0.10
20 8 0.38
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (20 bp):
GAAAGAAAGAAGGAAAAAGG
Found at i:65721993 original size:20 final size:20
Alignment explanation
Indices: 65721968--65722035 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
65721958 CTTGTACTTG
*
65721968 TTTGCACTTTGGTGCCTCTA
1 TTTGCACTTCGGTGCCTCTA
* *
65721988 TTTGCA-TTCCAGTGCCTCTT
1 TTTGCACTT-CGGTGCCTCTA
* * *
65722008 TTTACACTTCGGTGTCTCTG
1 TTTGCACTTCGGTGCCTCTA
65722028 TTTGCACT
1 TTTGCACT
65722036 CTGGTACGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.05
20 34 0.89
21 2 0.05
ACGTcount: A:0.10, C:0.26, G:0.18, T:0.46
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTA
Found at i:65724369 original size:46 final size:47
Alignment explanation
Indices: 65724232--65724497 Score: 196
Period size: 46 Copynumber: 5.7 Consensus size: 47
65724222 GGGGTAAGGT
* * * *
65724232 GCCGATGACATGTCCTAGACATGGTCTTACACTGGCCCATATCTC-AA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGG-CTACATCTCGTA
** * *
65724279 TTCGATGCCATGTTCC-AGACATGGTCTTACGCTGACTATCATCTCGTA
1 GCCGATGCCATG-TCCTAGACATGGTCTTACACTGGCTA-CATCTCGTA
65724327 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCG-A
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGC-TACATCTCGTA
* *
65724372 GGCCGATG-CATGTCCTAGACAT-GTCTTACACTAGC-AC-TCGTCTTGA
1 -GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTACATC-TCGT-A
* * * * * *
65724418 TGCCGATGCCATGTCCCAAACATGGTTTTACACTGGCTCTCATAAT-GTG
1 -GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT-ACAT-CTCGTA
* *
65724467 GCTGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACT
65724498 AGCCCACAAT
Statistics
Matches: 178, Mismatches: 26, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
43 2 0.01
44 4 0.02
45 1 0.01
46 73 0.41
47 68 0.38
48 26 0.15
50 2 0.01
51 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTACATCTCGTA
Found at i:65724492 original size:140 final size:141
Alignment explanation
Indices: 65724232--65724497 Score: 333
Period size: 140 Copynumber: 1.9 Consensus size: 141
65724222 GGGGTAAGGT
* * * * *
65724232 GCCGATGACATGTCCTAGACATGGTCTTACACTGGCCCATATCTCAATTCGATGCCATGTTCCAG
1 GCCGATGACATGTCCTAGACATGGTCTTACACTAGCACATATCTCAATCCGATGCCATGTCCCAA
* * *
65724297 ACATGGTCTTACGCTGACTATCATCTCGTAGCCGATGCATGTCCTAGACATGTCTTACACTGGCT
66 ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
65724362 TACATCTCGAG
131 TACATCTCGAG
* **
65724373 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCAC-TCGTCTTGATGCCGATGCCATGTCCC
1 GCCGATGACATGTCCTAGACATGGTCTTACACTAGCACAT-ATCTCAAT-CCGATGCCATGTCCC
* * * * *
65724435 AAACATGGTTTTACACTGGCTCTCATAAT-GTGGCTGATGCATGTCCCAGACATGTCTTACACT
64 AAACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
65724498 AGCCCACAAT
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
138 1 0.01
139 18 0.17
140 79 0.75
141 8 0.08
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (141 bp):
GCCGATGACATGTCCTAGACATGGTCTTACACTAGCACATATCTCAATCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
TACATCTCGAG
Found at i:65735460 original size:44 final size:44
Alignment explanation
Indices: 65735391--65735697 Score: 141
Period size: 44 Copynumber: 6.7 Consensus size: 44
65735381 CATGGCGAAT
* *
65735391 CTTATCTCCCTGAAGTT-TCAATGGAGCAGATTAAAGCCACAAAC
1 CTTATCTCCCTAAAGTTGT-AGTGGAGCAGATTAAAGCCACAAAC
* * ** * *
65735435 CTTATCTCCCTAAAGTTGTAGTGGAGCATATTGAAGATAGCGAAT
1 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCA-CAAAC
* * * * * * * *
65735480 CTCATTTCCTTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGAC
1 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCACAA-AC
** * * * * *
65735525 ACAAATCCTATGCCTTTAGAGTTGTAGTGG-GTCAGATTAAATCTACCATGGCGAAT
1 -CTTAT-C--T-CC-CTAAAGTTGTAGTGGAG-CAGATTAAA---GCCA---CAAAC
* * * * * * * *
65735581 CTTATCTCCCTTAAGTTGCAGTAGAGCAGATTGAATCCGCTAAT
1 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCACAAAC
* *
65735625 CTTATCTCCCTAAAGTTGTAGTGGAGCAAATTAAAACCACAAAC
1 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCACAAAC
* *
65735669 CTTATCTCCTTAAAGTTGTAATGGAGCAG
1 CTTATCTCCCTAAAGTTGTAGTGGAGCAG
65735698 GTTGAAGTTA
Statistics
Matches: 192, Mismatches: 54, Indels: 34
0.69 0.19 0.12
Matches are distributed among these distances:
44 98 0.51
45 35 0.18
46 3 0.02
47 2 0.01
49 1 0.01
50 20 0.10
51 23 0.12
52 1 0.01
54 3 0.02
55 3 0.02
56 1 0.01
57 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCACAAAC
Found at i:65737202 original size:4 final size:4
Alignment explanation
Indices: 65737187--65737216 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
65737177 AATTATTTAA
65737187 TATT TCATT TATT TATT TATT TATT TATT T
1 TATT T-ATT TATT TATT TATT TATT TATT T
65737217 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:65737228 original size:55 final size:54
Alignment explanation
Indices: 65737168--65737276 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 54
65737158 TTTTTATATG
* *
65737168 TTTTAA-AAAAATTAT-TTAATATTTCATTTATTTATTTATTTATTTATTTTCAATT
1 TTTTAATAAAAATTATATT-AGATTT-ATTTATTTATTTACTTA-TTATTTTCAATT
* * *
65737223 TTTTAATCAAACTTATATTAGATTTATTTATTTATTTACTTATTATTTTTAATT
1 TTTTAATAAAAATTATATTAGATTTATTTATTTATTTACTTATTATTTTCAATT
65737277 GGCTTGTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
54 11 0.23
55 22 0.47
56 12 0.26
57 2 0.04
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (54 bp):
TTTTAATAAAAATTATATTAGATTTATTTATTTATTTACTTATTATTTTCAATT
Found at i:65737379 original size:3 final size:3
Alignment explanation
Indices: 65737371--65737407 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
65737361 TTTTATATCG
65737371 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
65737408 CATCATCATC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:65739776 original size:29 final size:30
Alignment explanation
Indices: 65739716--65739777 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
65739706 TGATTCATCC
65739716 ATGGAAAATAAAATAAAGAAAAGGATGAAA
1 ATGGAAAATAAAATAAAGAAAAGGATGAAA
* * *
65739746 ATGGAAAGTGAAAT-AATAAAA-GATGATAA
1 ATGGAAAATAAAATAAAGAAAAGGATGA-AA
65739775 ATG
1 ATG
65739778 ATTAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.18
29 11 0.39
30 12 0.43
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (30 bp):
ATGGAAAATAAAATAAAGAAAAGGATGAAA
Found at i:65740938 original size:23 final size:23
Alignment explanation
Indices: 65740911--65740955 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
65740901 CTTGATACAT
*
65740911 GGCTCTTTGTGAGCTTTCTGATA
1 GGCTCTTCGTGAGCTTTCTGATA
*
65740934 GGCTCTTCGTGAGTTTTCTGAT
1 GGCTCTTCGTGAGCTTTCTGAT
65740956 TAAAAGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.18, G:0.27, T:0.44
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTTCTGATA
Found at i:65745007 original size:29 final size:29
Alignment explanation
Indices: 65744974--65745033 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
65744964 TTTAATTCAC
*
65744974 AATTTAACCCCTCAATTTACATTTTT-CTA
1 AATTTAACCCCT-AATATACATTTTTACTA
* *
65745003 AATTTAATCCCTAATATGCATTTTTACTA
1 AATTTAACCCCTAATATACATTTTTACTA
65745032 AA
1 AA
65745034 AATCACTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (29 bp):
AATTTAACCCCTAATATACATTTTTACTA
Found at i:65748241 original size:50 final size:51
Alignment explanation
Indices: 65748178--65748304 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 51
65748168 TTAGGTAACG
* * * * *
65748178 TGTGTAGTACTAAGTGCAGGCTCCTACATGTACCAGAT-GGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATAGCTTAGATCACA
** * *
65748228 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATAGCTTAGATCACA
* *
65748279 TGTGTGGTACTAAGTGCAGGCCACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
65748305 TGTGTAAAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 33 0.51
51 32 0.49
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATAGCTTAGATCACA
Found at i:65748299 original size:51 final size:51
Alignment explanation
Indices: 65748226--65748341 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
65748216 GGTTAGGTCG
* * ***
65748226 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTCGATCA
* * *
65748277 CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTCGATCA
*
65748328 CAGGTGTGGTACTA
1 CATGTGTGGTACTA
65748342 TGTAAAGGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (51 bp):
CATGTGTGGTACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTCGATCA
Found at i:65748351 original size:51 final size:51
Alignment explanation
Indices: 65748263--65748406 Score: 141
Period size: 51 Copynumber: 2.8 Consensus size: 51
65748253 ATGCGTACCC
* * * * *
65748263 GATAGCTTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAA-AA
1 GATAGCTTTGGTCACAGGTGTGGTACTATGTGAAGGCCACTATGTG-AAGAA
* *
65748314 GATAGCTTTGGTCACAGGTGTGGTACTATGTAAAGGCCACTTTGTGAAGAA
1 GATAGCTTTGGTCACAGGTGTGGTACTATGTGAAGGCCACTATGTGAAGAA
* * * *
65748365 GGTAG-TTTTGACTACAAGG-GTGGTACTATGTGTAGGCCACTA
1 GATAGCTTTGGTC-AC-AGGTGTGGTACTATGTGAAGGCCACTA
65748407 GGCATCCGTT
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
50 7 0.09
51 67 0.87
52 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (51 bp):
GATAGCTTTGGTCACAGGTGTGGTACTATGTGAAGGCCACTATGTGAAGAA
Found at i:65753218 original size:22 final size:22
Alignment explanation
Indices: 65753193--65753234 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
65753183 TAAAAAATAC
*
65753193 TAATACTTAAATAGTAGTAACA
1 TAATACTGAAATAGTAGTAACA
* *
65753215 TAATAGTGAAATTGTAGTAA
1 TAATACTGAAATAGTAGTAA
65753235 AATAGGGAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (22 bp):
TAATACTGAAATAGTAGTAACA
Found at i:65771274 original size:21 final size:21
Alignment explanation
Indices: 65771249--65771292 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
65771239 TCATGGAGAA
65771249 ATTCTAAATTTTATGAATTAC
1 ATTCTAAATTTTATGAATTAC
*
65771270 ATTCTGAATTTTATGAATTAC
1 ATTCTAAATTTTATGAATTAC
65771291 AT
1 AT
65771293 GGGCTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (21 bp):
ATTCTAAATTTTATGAATTAC
Found at i:65771954 original size:64 final size:64
Alignment explanation
Indices: 65771850--65771971 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
65771840 ATCCCAATCT
* * * * *
65771850 GTATTGATCCTACATGTGTTGCGGACATATCGCAGCTCTTTGTGAGCGTCTTGTTATATGATTG
1 GTATTGATCCTACATGTATTGCGGACATACCACAGCTCTTTATGAGCGTCTTGATATATGATTG
* * *
65771914 GTATTGATCCTGCATGTATTGCGGATATACCACAGTTCTTTATGAGCGTCTTGATATA
1 GTATTGATCCTACATGTATTGCGGACATACCACAGCTCTTTATGAGCGTCTTGATATA
65771972 GGCTCCTTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (64 bp):
GTATTGATCCTACATGTATTGCGGACATACCACAGCTCTTTATGAGCGTCTTGATATATGATTG
Found at i:65772082 original size:24 final size:24
Alignment explanation
Indices: 65772055--65772107 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
65772045 TGGATCTTTA
65772055 GAGCTACCT-ATTATTGGCTCGCAT
1 GAGCTACCTGATTA-TGGCTCGCAT
* **
65772079 GAGCTTCCTGATTATGGCTCTTAT
1 GAGCTACCTGATTATGGCTCGCAT
65772103 GAGCT
1 GAGCT
65772108 TCCCGTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (24 bp):
GAGCTACCTGATTATGGCTCGCAT
Found at i:65773647 original size:50 final size:49
Alignment explanation
Indices: 65773471--65773709 Score: 307
Period size: 49 Copynumber: 4.8 Consensus size: 49
65773461 GTAGTCAAAG
* * * * * *
65773471 TTATTTGGTACACATAGTAGCCTGCACATGGTACTACACATGCGACCAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
*
65773520 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
*
65773569 TTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
** * *
65773619 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAG
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAA
* * * *
65773670 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
65773710 TGCGACCTCA
Statistics
Matches: 166, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 87 0.52
50 43 0.26
51 35 0.21
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:65773653 original size:99 final size:100
Alignment explanation
Indices: 65773471--65773716 Score: 325
Period size: 99 Copynumber: 2.5 Consensus size: 100
65773461 GTAGTCAAAG
* * * * ** *
65773471 TTATTTGGTACACATAGTAGCCTGCACATGGTACTACACATGCGACCAATTATCCGGTACACGTA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTA
65773536 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAA
66 GTAGCCTGCACTTAGTACTACACACGTGATCACAA
* * * *
65773569 TTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACGT
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGT
*
65773634 AGTAGCCTGCACTTAGTACTACACACGTGATCACAG
65 AGTAGCCTGCACTTAGTACTACACACGTGATCACAA
* * * *
65773670 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
65773717 TCACAATAGA
Statistics
Matches: 126, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 40 0.32
99 43 0.34
100 1 0.01
101 42 0.33
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (100 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTA
GTAGCCTGCACTTAGTACTACACACGTGATCACAA
Found at i:65783410 original size:13 final size:13
Alignment explanation
Indices: 65783394--65783439 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
65783384 CGTTTTAAAT
65783394 TTTTTATTTAATA
1 TTTTTATTTAATA
*
65783407 TTTTTAATTAATA
1 TTTTTATTTAATA
* *
65783420 TTATT-TTCAA-A
1 TTTTTATTTAATA
65783431 TTTTTATTT
1 TTTTTATTT
65783440 TAATTTATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 16 0.62
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTATTTAATA
Found at i:65787911 original size:15 final size:15
Alignment explanation
Indices: 65787891--65787922 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
65787881 TTTAAAATAC
65787891 TTTTTTATTTTACTT
1 TTTTTTATTTTACTT
65787906 TTTTTTATTTTACTT
1 TTTTTTATTTTACTT
65787921 TT
1 TT
65787923 ACTTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTATTTTACTT
Found at i:65790467 original size:19 final size:21
Alignment explanation
Indices: 65790428--65790469 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
65790418 AAATTTTTTA
65790428 TATTTTTATATTAACTACTTT
1 TATTTTTATATTAACTACTTT
*
65790449 TATTTTT-TA-TAATTACTTT
1 TATTTTTATATTAACTACTTT
65790468 TA
1 TA
65790470 GAAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 2 0.10
21 7 0.35
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTTATATTAACTACTTT
Found at i:65791145 original size:88 final size:88
Alignment explanation
Indices: 65790973--65791158 Score: 220
Period size: 88 Copynumber: 2.1 Consensus size: 88
65790963 TTTTTAAAAA
* *
65790973 AATTAAGCTCC-TACCTTTTTTTACACTTAATTAGGCACTTAAACTTTTAAAATGCATCAAAAAG
1 AATTAAGC-CCTTACCTTTTTTTACACTTAATTAGACACTTAAACTTTCAAAATGCATCAAAAAG
* ** *
65791037 GCCCTTAAACTTCTTCAAAAAAAGT
65 CCCCCCAAACTTCTTC-AAAAAAGC
*
65791062 AATTAAGCCCTTA-CTTTTTTTCCACTTAATT-GACAACTTAAACTTTCAAAATGCAT-AAAAA-
1 AATTAAGCCCTTACCTTTTTTTACACTTAATTAGAC-ACTTAAACTTTCAAAATGCATCAAAAAG
* *
65791123 CCACCCCAAATTTTTTCAAAAAAGC
65 CC-CCCCAAACTTCTTCAAAAAAGC
65791148 AATTAAGCCCT
1 AATTAAGCCCT
65791159 ACTCTTATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
86 19 0.22
87 17 0.20
88 39 0.46
89 10 0.12
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (88 bp):
AATTAAGCCCTTACCTTTTTTTACACTTAATTAGACACTTAAACTTTCAAAATGCATCAAAAAGC
CCCCCAAACTTCTTCAAAAAAGC
Found at i:65792285 original size:24 final size:26
Alignment explanation
Indices: 65792240--65792288 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
65792230 AATAAAAAAT
*
65792240 TTTAAAAATATAAAAAATCAAATATA
1 TTTAAAAACATAAAAAATCAAATATA
65792266 TTTAAAAACAT-AAAAA-CAAATAT
1 TTTAAAAACATAAAAAATCAAATAT
65792289 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 5 0.23
26 10 0.45
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (26 bp):
TTTAAAAACATAAAAAATCAAATATA
Found at i:65793014 original size:16 final size:16
Alignment explanation
Indices: 65792993--65793040 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
65792983 TTTTAAAGAA
*
65792993 AATATATTCATAAAAT
1 AATATATACATAAAAT
*
65793009 AATATA-ACAT-CAAT
1 AATATATACATAAAAT
*
65793023 AATATATACATAGAAT
1 AATATATACATAAAAT
65793039 AA
1 AA
65793041 GAAAATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 9 0.33
15 7 0.26
16 11 0.41
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (16 bp):
AATATATACATAAAAT
Found at i:65794327 original size:16 final size:16
Alignment explanation
Indices: 65794306--65794338 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
65794296 GAGACTAAGG
65794306 TTTTCTGTTT-TTTTGT
1 TTTTCT-TTTGTTTTGT
65794322 TTTTCTTTTGTTTTGT
1 TTTTCTTTTGTTTTGT
65794338 T
1 T
65794339 GGGCTTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTGTTTTGT
Found at i:65794773 original size:28 final size:26
Alignment explanation
Indices: 65794742--65794809 Score: 82
Period size: 28 Copynumber: 2.5 Consensus size: 26
65794732 TTTATAATTT
65794742 TTTTATATATTTTATGATTTTTATAAAA
1 TTTTATATATTTTAT-ATTTTTAT-AAA
* * *
65794770 TTTTACAATTTTTTATATTTTTATGAA
1 TTTTA-TATATTTTATATTTTTATAAA
65794797 TTTTATATATTTT
1 TTTTATATATTTT
65794810 TTTATAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 6 0.18
27 7 0.21
28 13 0.38
29 8 0.24
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (26 bp):
TTTTATATATTTTATATTTTTATAAA
Found at i:65794831 original size:20 final size:19
Alignment explanation
Indices: 65794731--65794833 Score: 100
Period size: 20 Copynumber: 5.3 Consensus size: 19
65794721 TTTATAAAAA
*
65794731 TTTTATAATTTTTTTATAT
1 TTTTATAATTTTTATATAT
* * *
65794750 ATTTTATGATTTTTATAAAA
1 -TTTTATAATTTTTATATAT
*
65794770 TTTTACAATTTTT-TATAT
1 TTTTATAATTTTTATATAT
*
65794788 TTTTATGAATTTTATATATTT
1 TTTTAT-AATTTT-TATATAT
*
65794809 TTTTATAATTTTTAATAAAT
1 TTTTATAATTTTT-ATATAT
65794829 TTTTA
1 TTTTA
65794834 ATGTTTAATT
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
18 8 0.12
19 18 0.27
20 31 0.46
21 10 0.15
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTATATAT
Found at i:65794851 original size:8 final size:9
Alignment explanation
Indices: 65794731--65794833 Score: 73
Period size: 9 Copynumber: 10.6 Consensus size: 9
65794721 TTTATAAAAA
65794731 TTTTATAAT
1 TTTTATAAT
*
65794740 TTTTTTATAT
1 TTTTATA-AT
*
65794750 ATTTTATGAT
1 -TTTTATAAT
*
65794760 TTTTATAAAA
1 TTTTAT-AAT
*
65794770 TTTTACAAT
1 TTTTATAAT
65794779 TTTT-TATAT
1 TTTTATA-AT
65794788 TTTTATGAAT
1 TTTTAT-AAT
*
65794798 TTTATATATTT
1 TTT-TATA-AT
65794809 TTTTATAAT
1 TTTTATAAT
65794818 TTTTAATAAAT
1 TTTT-AT-AAT
65794829 TTTTA
1 TTTTA
65794834 ATGTTTAATT
Statistics
Matches: 74, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
8 1 0.01
9 29 0.39
10 24 0.32
11 20 0.27
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:65795093 original size:92 final size:87
Alignment explanation
Indices: 65794926--65795145 Score: 266
Period size: 92 Copynumber: 2.5 Consensus size: 87
65794916 ATAAAAGCAA
* * * * *
65794926 AGGCTTAACTGCTTTTTTTT-AAATAAATTTGAGGGTCTTTTTTATGCATTTTGAAAGTTCAAGT
1 AGGCTTAATTGCTTTTTTTTGAAA-AAGTTTGAGGG-CTTTTTGATGCATTTTGAAAATCCAAGT
*
65794990 ACCCAATTGAGTGCAAAAAAAAAAAATAG
64 ACCCAAATGAGTG----AAAAAAAAA-AG
* * *
65795019 AGGCTTAATTGCTTTTTTTTGAAAATGTTTGAGGGCCTTTTGATGTATTTTGAAAATCCAAGTAC
1 AGGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCTTTTTGATGCATTTTGAAAATCCAAGTAC
*
65795084 CCAAATGAGTGAAAAAAATAAG
66 CCAAATGAGTGAAAAAAAAAAG
65795106 -GGCTTAATTGC-TTTTTTTGAAAAAGTTTGAGGGCTTTTTG
1 AGGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCTTTTTG
65795146 CACCCTTAAG
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
85 27 0.24
86 11 0.10
87 2 0.02
88 8 0.07
92 35 0.31
93 28 0.25
94 3 0.03
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (87 bp):
AGGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCTTTTTGATGCATTTTGAAAATCCAAGTAC
CCAAATGAGTGAAAAAAAAAAG
Found at i:65802732 original size:41 final size:42
Alignment explanation
Indices: 65802640--65802829 Score: 196
Period size: 41 Copynumber: 4.6 Consensus size: 42
65802630 ATACTTGATA
* * * * * *
65802640 TCTCGCACACTAAGTGCCAAAGCATAGCCAAACCTATTATAA
1 TCTCGCACACTAAGTGCCAAATCATAGCCGAAGCTATCACAG
* **
65802682 TCTCACACACTAAGTGCC-TTTCATAGCCGAAGCTATCACAG
1 TCTCGCACACTAAGTGCCAAATCATAGCCGAAGCTATCACAG
* *
65802723 TCTCGCACACTAAGTGCC-ATTCATAGCCGAAGCTATCTCAG
1 TCTCGCACACTAAGTGCCAAATCATAGCCGAAGCTATCACAG
* *
65802764 TCTAGCACACTAAGTGCCATAT-ATAGCCGAAGCTATTC-C-G
1 TCTCGCACACTAAGTGCCAAATCATAGCCGAAGCTA-TCACAG
65802804 AT-TCGCACACTAAGTGCCAAA-CATAG
1 -TCTCGCACACTAAGTGCCAAATCATAG
65802830 TCGATTTGTC
Statistics
Matches: 127, Mismatches: 17, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
40 22 0.17
41 85 0.67
42 20 0.16
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.23
Consensus pattern (42 bp):
TCTCGCACACTAAGTGCCAAATCATAGCCGAAGCTATCACAG
Found at i:65806867 original size:24 final size:24
Alignment explanation
Indices: 65806840--65806886 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
65806830 TGTATGTGTG
65806840 TGAACATAATGGGTGGTTTAATTA
1 TGAACATAATGGGTGGTTTAATTA
65806864 TGAACATAATGGGTGGTTTAATT
1 TGAACATAATGGGTGGTTTAATT
65806887 GTTATGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (24 bp):
TGAACATAATGGGTGGTTTAATTA
Found at i:65808470 original size:32 final size:32
Alignment explanation
Indices: 65808434--65808498 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
65808424 TGTATGCATT
*
65808434 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
65808466 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
65808498 T
1 T
65808499 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGAATGATGGGCA
Found at i:65810008 original size:26 final size:26
Alignment explanation
Indices: 65809979--65810031 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
65809969 TTTACAGTTT
65809979 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
65810005 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
65810031 T
1 T
65810032 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:65811519 original size:10 final size:10
Alignment explanation
Indices: 65811479--65811524 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
65811469 AAAAAGGAAT
*
65811479 GAGCTGAAAC
1 GAGCTAAAAC
65811489 GAGCTAAAATC
1 GAGCTAAAA-C
* *
65811500 AAGCTCAAAC
1 GAGCTAAAAC
65811510 GAGCTAAAAC
1 GAGCTAAAAC
65811520 GAGCT
1 GAGCT
65811525 CAAGTGAGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (10 bp):
GAGCTAAAAC
Found at i:65811534 original size:20 final size:21
Alignment explanation
Indices: 65811480--65811527 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
65811470 AAAAGGAATG
*
65811480 AGCTGAAACGAGCTAAAATCA
1 AGCTCAAACGAGCTAAAATCA
*
65811501 AGCTCAAACGAGCTAAAA-CG
1 AGCTCAAACGAGCTAAAATCA
65811521 AGCTCAA
1 AGCTCAA
65811528 GTGAGCTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (21 bp):
AGCTCAAACGAGCTAAAATCA
Found at i:65811863 original size:19 final size:20
Alignment explanation
Indices: 65811841--65811882 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
65811831 TTCAAAATTG
*
65811841 AAAATTAAAAAAA-AATTTA
1 AAAAATAAAAAAATAATTTA
*
65811860 AAAAATAAAAAAATTATTTA
1 AAAAATAAAAAAATAATTTA
65811880 AAA
1 AAA
65811883 GCTATTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATAAAAAAATAATTTA
Found at i:65811870 original size:20 final size:20
Alignment explanation
Indices: 65811841--65811882 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
65811831 TTCAAAATTG
*
65811841 AAAATTAAAAAAAAATTTAA
1 AAAATAAAAAAAAAATTTAA
**
65811861 AAAATAAAAAAATTATTTAA
1 AAAATAAAAAAAAAATTTAA
65811881 AA
1 AA
65811883 GCTATTTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATAAAAAAAAAATTTAA
Found at i:65812549 original size:20 final size:20
Alignment explanation
Indices: 65812505--65812542 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65812495 CCACGAATTG
*
65812505 TTTTATTGATAAGATTATAA
1 TTTTATTGATAAAATTATAA
*
65812525 TTTTATTTATAAAATTAT
1 TTTTATTGATAAAATTAT
65812543 TTTTTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTATTGATAAAATTATAA
Found at i:65816652 original size:23 final size:23
Alignment explanation
Indices: 65816626--65816670 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
65816616 AAAAATTAAG
65816626 TAAAACATTAAAACATTCCAATA
1 TAAAACATTAAAACATTCCAATA
* *
65816649 TAAAACATTAAGACATTGCAAT
1 TAAAACATTAAAACATTCCAAT
65816671 CCAAAAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (23 bp):
TAAAACATTAAAACATTCCAATA
Found at i:65816676 original size:23 final size:23
Alignment explanation
Indices: 65816627--65816676 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
65816617 AAAATTAAGT
*
65816627 AAAACATTAAAACATTCCAATAT
1 AAAACATTAAAACATTCCAATAC
* * *
65816650 AAAACATTAAGACATTGCAATCC
1 AAAACATTAAAACATTCCAATAC
65816673 AAAA
1 AAAA
65816677 GTAACCATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.56, C:0.18, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAACATTAAAACATTCCAATAC
Found at i:65818433 original size:26 final size:26
Alignment explanation
Indices: 65818404--65818454 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
65818394 ATATACCCAT
* *
65818404 GAACTGCTTA-ATACCCCAATGAACAG
1 GAACTG-TTATATAACCCAACGAACAG
65818430 GAACTGTTATATAACCCAACGAACA
1 GAACTGTTATATAACCCAACGAACA
65818455 TTGCTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (26 bp):
GAACTGTTATATAACCCAACGAACAG
Found at i:65824377 original size:20 final size:21
Alignment explanation
Indices: 65824348--65824392 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
65824338 ACATAAAAAT
*
65824348 ATATTTTTTTGGTAAATTACA
1 ATATTTTTTTAGTAAATTACA
65824369 ATATTTTTTTAGTAAATTACA
1 ATATTTTTTTAGTAAATTACA
65824390 ATA
1 ATA
65824393 ATAAGGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (21 bp):
ATATTTTTTTAGTAAATTACA
Found at i:65826653 original size:37 final size:38
Alignment explanation
Indices: 65826573--65826653 Score: 91
Period size: 37 Copynumber: 2.2 Consensus size: 38
65826563 TTTATTTTAA
65826573 TATAA-TATATATTTCATATATTTTTATCAATTAGTTT
1 TATAACTATATATTTCATATATTTTTATCAATTAGTTT
* *
65826610 CA-AACTATATATTTTAT-TATTTATTAT-ATATTA-TTT
1 TATAACTATATATTTCATATATTT-TTATCA-ATTAGTTT
65826646 TATAACTA
1 TATAACTA
65826654 ACATTTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
36 12 0.32
37 25 0.68
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (38 bp):
TATAACTATATATTTCATATATTTTTATCAATTAGTTT
Found at i:65829605 original size:393 final size:385
Alignment explanation
Indices: 65828858--65829631 Score: 945
Period size: 393 Copynumber: 2.0 Consensus size: 385
65828848 GTTGAATTAC
** * * *
65828858 AATTAAAATATTAATTTTGTACTTTATAAAATTTTTAATGATATTTTTAAAAAATTAAAATGATT
1 AATTAAAATATTAATTTTACACTTTATAAAATTTTTAATGATAGTTTTAAAAAATCAAAAAGATT
65828923 ATAAAAATATATATAATTTTTTTCTAAAATTATAAAAAAATTAATTTTTAAAAAATAATTCTATG
66 ATAAAAATATATATAATTTTTTTCTAAAATTATAAAAAAATTAATTTTTAAAAAATAATTCTATG
* *
65828988 TATTTTAAATAAAAATAAAAATAAGGTATAATGCCAAAAATAGCCCTTAACATTTGCTTGATCAA
131 TATTTTAAATAAAAATAAAAATAAGGCATAATACCAAAAATAGCCCTTAACATTTGCTTGATCAA
* * ** * * * *
65829053 TCACTTTGGTCTTTATTCTTTTTATTTTTGAAGCCCTTTAACTCTGATGGTTTCGTTTTTGATCA
196 TCACTTTGGCCTTTATTC--TTTATTTCTGAAGAACTTTAACACTGATAGTTTCATTTTTGATAA
* *
65829118 AATTGATCATTTCTTGATAGAATTGACGATGTGACCATTAGTTGACTAACAGTCAACGGCATGCA
259 AATTGATCATTTCTTGACAGAATTGACGATGTGACCATTAGTTGACTAACAGTCAACAGCATGCA
* * * * * *
65829183 CCGATGTGGCACTTTACATGTGTATAATTGTTGACATGGTGCTATTTTGTCTTATATGTTAT
324 CCAATGTGGAACTCTACATGTATATAATTGCTGACATGGTGCTATTTTATCTTATATGTTAT
*
65829245 AATTAAAATATTAATTTTACACTTT-TCAAAATTTTTAATGATAGTTTTAAAAAATCAAAAAGTT
1 AATTAAAATATTAATTTTACACTTTAT-AAAATTTTTAATGATAGTTTTAAAAAATCAAAAAGAT
*
65829309 TATAAAAATATATATAATTTGTTTTCTAAAATTAT-AAAATA-TAA-TTTTAAAAATATAATTCT
65 TATAAAAATATATATAATTT-TTTTCTAAAATTATAAAAAAATTAATTTTTAAAAA-ATAATTCT
* *
65829371 ATGTATTTTAAAAAAATAAAAATACATAAAATTTAAAAGGCATAATACCAAAAGTAGCCCTTTA-
128 ATGTATTTT----AAATAAAAAT--A-AAAA--T--AAGGCATAATACCAAAAATAGCCCTTAAC
** *
65829435 ATGTTTTTCTGATCAATCACTTTGGCCTTTATTC-TT-TTTCT-AAGAACTTTAACACTTATAGT
182 AT-TTGCT-TGATCAATCACTTTGGCCTTTATTCTTTATTTCTGAAGAACTTTAACACTGATAGT
* * * *
65829497 TTCATTTTTGATAAAATTGATCAATTTC-TGACGGAATTGACGATGTGTCCGTTAGTTGACTAAT
245 TTCATTTTTGATAAAATTGATC-ATTTCTTGACAGAATTGACGATGTGACCATTAGTTGACTAAC
* **** * *
65829561 AGTCTACAGCATGTGTTAATGTGGAACTCTACATGTATATAATTGCTGACGTGGTGTTATTTTAT
309 AGTCAACAGCATGCACCAATGTGGAACTCTACATGTATATAATTGCTGACATGGTGCTATTTTAT
65829626 CTTATA
374 CTTATA
65829632 CGTCATATCA
Statistics
Matches: 329, Mismatches: 41, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
385 9 0.03
386 21 0.06
387 81 0.25
388 14 0.04
390 10 0.03
392 1 0.00
393 128 0.39
394 9 0.03
395 3 0.01
396 2 0.01
397 27 0.08
398 24 0.07
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (385 bp):
AATTAAAATATTAATTTTACACTTTATAAAATTTTTAATGATAGTTTTAAAAAATCAAAAAGATT
ATAAAAATATATATAATTTTTTTCTAAAATTATAAAAAAATTAATTTTTAAAAAATAATTCTATG
TATTTTAAATAAAAATAAAAATAAGGCATAATACCAAAAATAGCCCTTAACATTTGCTTGATCAA
TCACTTTGGCCTTTATTCTTTATTTCTGAAGAACTTTAACACTGATAGTTTCATTTTTGATAAAA
TTGATCATTTCTTGACAGAATTGACGATGTGACCATTAGTTGACTAACAGTCAACAGCATGCACC
AATGTGGAACTCTACATGTATATAATTGCTGACATGGTGCTATTTTATCTTATATGTTAT
Found at i:65838290 original size:71 final size:71
Alignment explanation
Indices: 65838174--65838309 Score: 164
Period size: 71 Copynumber: 1.9 Consensus size: 71
65838164 AAATGATTTA
* * * * *
65838174 ACACATATTTTTCAGTTTTACCGACCAGCGCATGGCTCATTTATTGTCGGCTATATCGACTAGTG
1 ACACATATTTGTCAGTTTTACCGACCAGCGCAAGGCACATTTATTGTCGGCTATACCGACCAGTG
65838239 ATGGGC
66 ATGGGC
* * * * * * *
65838245 ACACATATTTGTCCGTTTTATCGACTAGTGTAAGGCACATTTATTGTTGGTTATACCGACCAGTG
1 ACACATATTTGTCAGTTTTACCGACCAGCGCAAGGCACATTTATTGTCGGCTATACCGACCAGTG
65838310 CAGGATGCAT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
71 53 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (71 bp):
ACACATATTTGTCAGTTTTACCGACCAGCGCAAGGCACATTTATTGTCGGCTATACCGACCAGTG
ATGGGC
Found at i:65838393 original size:95 final size:95
Alignment explanation
Indices: 65838225--65838401 Score: 223
Period size: 95 Copynumber: 1.9 Consensus size: 95
65838215 TATTGTCGGC
* * * ***
65838225 TATATCGACTAGTGATGGGCACACATATTTGTCCGTTTTATCGACTAGTGTAAGGCACATTTATT
1 TATACCGACTAGTGATGGGCACACATATTTGTCCGTTCTACCGACTAGCACAAGGCACATTTATT
*
65838290 GTTGGTTATACCGACCAGTGCAGGATGCAT
66 GTCGGTTATACCGACCAGTGCAGGATGCAT
* * *
65838320 TATACCGACTAGTGCTGGGCACACATATTTGT-CGATTCTACCGA-TCAGCACATGGCGCATTTA
1 TATACCGACTAGTGATGGGCACACATATTTGTCCG-TTCTACCGACT-AGCACAAGGCACATTTA
*
65838383 TTGTCGGTTATACTGACCA
64 TTGTCGGTTATACCGACCA
65838402 ATTTTAGGCA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
94 3 0.04
95 66 0.96
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (95 bp):
TATACCGACTAGTGATGGGCACACATATTTGTCCGTTCTACCGACTAGCACAAGGCACATTTATT
GTCGGTTATACCGACCAGTGCAGGATGCAT
Found at i:65845211 original size:18 final size:18
Alignment explanation
Indices: 65845183--65845226 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
65845173 AGTGAAATTT
65845183 ATATGAAAATCCCT-GAAGG
1 ATAT-AAAAT-CCTAGAAGG
*
65845202 ATTTAAAATCCTAGAAGG
1 ATATAAAATCCTAGAAGG
65845220 ATATAAA
1 ATATAAA
65845227 GTTTCTCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 3 0.14
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (18 bp):
ATATAAAATCCTAGAAGG
Found at i:65848627 original size:64 final size:64
Alignment explanation
Indices: 65848417--65848627 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
65848407 CTGGGCCAGA
* *
65848417 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAATAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
65848481 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
65848543 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
65848554 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
65848618 GCCCATTTCA
1 GCCCATTTCA
65848628 AAATACATGC
Statistics
Matches: 102, Mismatches: 28, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.25
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 10 0.10
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:65848629 original size:137 final size:137
Alignment explanation
Indices: 65848383--65848669 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
65848373 TATTGGGCCT
**
65848383 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
65848448 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65848513 CATATGC
131 CATATGC
65848520 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
65848585 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65848650 CATATGC
131 CATATGC
65848657 AAGCCCATTTGGG
1 AAGCCCATTTGGG
65848670 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:65848946 original size:26 final size:26
Alignment explanation
Indices: 65848917--65848969 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
65848907 TCAAACATGC
65848917 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
65848943 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
65848969 A
1 A
65848970 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:65850494 original size:26 final size:26
Alignment explanation
Indices: 65850458--65850541 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
65850448 CATGAAATTC
65850458 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
65850484 TTATCATGAAACATTTATCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
65850510 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
65850536 TTATCA
1 TTATCA
65850542 ATTTGTAACA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:65860139 original size:18 final size:18
Alignment explanation
Indices: 65860105--65860139 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65860095 CTCAAAACAA
*
65860105 TAAAAATAAATTCTAATT
1 TAAAAATAAATACTAATT
*
65860123 TAAAAATAAATAGTAAT
1 TAAAAATAAATACTAAT
65860140 AATATTGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
TAAAAATAAATACTAATT
Done.