Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 150 of 770
Found at i:44120844 original size:26 final size:25
Alignment explanation
Indices: 44120797--44120845 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
44120787 TTATAAATAT
* * *
44120797 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
44120822 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
44120846 TTTATATGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:44124410 original size:13 final size:13
Alignment explanation
Indices: 44124392--44124417 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44124382 TTTTGAGAAG
44124392 TGGGCTCATGTTC
1 TGGGCTCATGTTC
44124405 TGGGCTCATGTTC
1 TGGGCTCATGTTC
44124418 AGACATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.31, T:0.38
Consensus pattern (13 bp):
TGGGCTCATGTTC
Found at i:44126618 original size:8 final size:8
Alignment explanation
Indices: 44126605--44126657 Score: 56
Period size: 8 Copynumber: 6.8 Consensus size: 8
44126595 TCTATTTCAA
44126605 AAAAAAAG
1 AAAAAAAG
44126613 AAAAAAAAG
1 -AAAAAAAG
44126622 AAAAAAAG
1 AAAAAAAG
*
44126630 -AGAAAA-
1 AAAAAAAG
*
44126636 AAATAAAG
1 AAAAAAAG
*
44126644 AGAAAAAG
1 AAAAAAAG
44126652 AAAAAA
1 AAAAAA
44126658 TGGAGAGGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
7 9 0.25
8 19 0.53
9 8 0.22
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:44126638 original size:22 final size:21
Alignment explanation
Indices: 44126603--44126657 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
44126593 CTTCTATTTC
*
44126603 AAAAAA-AAAGAAAAAAAAGA
1 AAAAAAGAAAAAAAAAAAAGA
*
44126623 AAAAAAGAGAAAAAAATAAAGA
1 AAAAAAGA-AAAAAAAAAAAGA
*
44126645 GAAAAAGAAAAAA
1 AAAAAAGAAAAAA
44126658 TGGAGAGGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.20
21 6 0.20
22 18 0.60
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (21 bp):
AAAAAAGAAAAAAAAAAAAGA
Found at i:44127658 original size:43 final size:43
Alignment explanation
Indices: 44127623--44127707 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
44127613 AAGATTTCAG
44127623 CATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAA
1 CATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAA
** *
44127666 TTTGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGCA
1 CATGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGCA
44127708 GATCTAACCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (43 bp):
CATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAA
Found at i:44127910 original size:119 final size:119
Alignment explanation
Indices: 44127702--44128285 Score: 999
Period size: 119 Copynumber: 5.0 Consensus size: 119
44127692 CAGATCGAAG
44127702 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
44127767 TTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAAG
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
44127821 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
44127886 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
44127940 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
44128005 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
44128059 ATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
44128124 TT---------AAATCGAGGACATAGCA-ATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * *
44128168 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * *
44128233 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
44128286 CAGACTCAAG
Statistics
Matches: 442, Mismatches: 13, Indels: 20
0.93 0.03 0.04
Matches are distributed among these distances:
109 87 0.20
110 17 0.04
118 16 0.04
119 322 0.73
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:44128208 original size:109 final size:110
Alignment explanation
Indices: 44128016--44128231 Score: 389
Period size: 109 Copynumber: 2.0 Consensus size: 110
44128006 TACAAGGAAC
44128016 AAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACCTTCAGAT
1 AAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACCTTCAGAT
* *
44128081 GTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
66 GTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTT
*
44128126 AAATCGAGGACATAGCA-ATTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGAT
1 AAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACCTTCAGAT
*
44128190 GTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
66 GTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
44128232 CTTACAAGGA
Statistics
Matches: 102, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
109 85 0.83
110 17 0.17
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (110 bp):
AAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACCTTCAGAT
GTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTT
Found at i:44128314 original size:83 final size:83
Alignment explanation
Indices: 44128209--44128559 Score: 616
Period size: 83 Copynumber: 4.2 Consensus size: 83
44128199 GAAGCAGATC
44128209 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
44128274 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
44128292 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
44128357 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
44128375 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACT-TCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
44128439 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
44128457 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC
44128522 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
* *
44128541 CAA-ATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
44128560 ACAAATCGAA
Statistics
Matches: 259, Mismatches: 7, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
82 40 0.15
83 195 0.75
84 24 0.09
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:44128984 original size:35 final size:34
Alignment explanation
Indices: 44128927--44129072 Score: 215
Period size: 35 Copynumber: 4.2 Consensus size: 34
44128917 ATGGAAATAT
* *
44128927 AATCTTCA-ATGATATGTAATCTTAGATATGATAC
1 AATCTTAATATGAT-TGCAATCTTAGATATGATAC
44128961 AATCTTAAATATGATTGCAATCTTAGATATGATAC
1 AATCTT-AATATGATTGCAATCTTAGATATGATAC
44128996 AATCTT-ATATGATTGCAATCTTAGATATGATAC
1 AATCTTAATATGATTGCAATCTTAGATATGATAC
44129029 AATCTTAGATATGATTGCAATCTTAGATATGATATAC
1 AATCTTA-ATATGATTGCAATCTTAGATATG--ATAC
44129066 AATCTTA
1 AATCTTA
44129073 GAAGATATGA
Statistics
Matches: 104, Mismatches: 2, Indels: 9
0.90 0.02 0.08
Matches are distributed among these distances:
33 33 0.32
34 6 0.06
35 49 0.47
36 5 0.05
37 11 0.11
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (34 bp):
AATCTTAATATGATTGCAATCTTAGATATGATAC
Found at i:44129028 original size:68 final size:69
Alignment explanation
Indices: 44128922--44129081 Score: 234
Period size: 68 Copynumber: 2.3 Consensus size: 69
44128912 CTCATATGGA
* *
44128922 AATATAATCTTCAATGATATGTAATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAG
1 AATACAATCTT-AATGATATGCAATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAG
44128987 ATATG
65 ATATG
*
44128992 -ATACAATCTTATATGAT-TGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAG
1 AATACAATCTTA-ATGATATGCAATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAG
44129055 ATATG
65 ATATG
*
44129060 ATATACAATCTTAGAAGATATG
1 A-ATACAATCTTA-ATGATATG
44129082 ATTTTGTAAT
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
68 50 0.62
69 14 0.17
70 15 0.19
71 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (69 bp):
AATACAATCTTAATGATATGCAATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAGA
TATG
Found at i:44129598 original size:19 final size:18
Alignment explanation
Indices: 44129549--44129614 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
44129539 TTTCTAAACC
*
44129549 AATATATTTTATATTTTTA
1 AATATATTTTAT-TTTATA
*
44129568 TATA-ATTATTATTCTTATA
1 AATATATT-TTATT-TTATA
*
44129587 AATATATTTTATTATAT-
1 AATATATTTTATTTTATA
*
44129604 ATTATATTTTA
1 AATATATTTTA
44129615 AATTTATTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
17 10 0.26
18 7 0.18
19 19 0.49
20 3 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
AATATATTTTATTTTATA
Found at i:44129614 original size:17 final size:17
Alignment explanation
Indices: 44129550--44129614 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
44129540 TTCTAAACCA
*
44129550 ATATATTTTATATTT-TT
1 ATATATTATAT-TTTATT
* *
44129567 ATATAATTAT-TATTCTT
1 ATAT-ATTATATTTTATT
*
44129584 ATA-AATATATTTTATT
1 ATATATTATATTTTATT
44129600 ATATATTATATTTTA
1 ATATATTATATTTTA
44129615 AATTTATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
15 4 0.11
16 10 0.26
17 20 0.53
18 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATATTTTATT
Found at i:44131686 original size:16 final size:17
Alignment explanation
Indices: 44131640--44131726 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 17
44131630 TTATATTATA
*
44131640 TATTATAA-AATTATTT
1 TATTATAAGTATTATTT
44131656 TATTATAAGTATTATTT
1 TATTATAAGTATTATTT
*
44131673 TAATTAT-A-TATTATTAG
1 T-ATTATAAGTATTATT-T
*
44131690 TACTTATTATGTATTATTT
1 TA-TTA-TAAGTATTATTT
*
44131709 T-TCT-TAAATATTATTT
1 TAT-TATAAGTATTATTT
44131725 TA
1 TA
44131727 CATCTCTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
16 27 0.48
17 14 0.25
18 7 0.12
19 1 0.02
20 7 0.12
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGTATTATTT
Found at i:44131698 original size:54 final size:54
Alignment explanation
Indices: 44131597--44131699 Score: 120
Period size: 54 Copynumber: 1.9 Consensus size: 54
44131587 TATATATATA
** * * * *
44131597 TATTTTATTATTTGTTTTATTTTAATTTTACTTTTATATTATATATTATAAAAT
1 TATTTTATTATAAGTATTATTTTAATTATACTATTATAGTATATATTATAAAAT
44131651 TATTTTATTATAAGTATTATTTTAATTATA-TATTATTAGTACT-TATTAT
1 TATTTTATTATAAGTATTATTTTAATTATACTATTA-TAGTA-TATATTAT
44131700 GTATTATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
53 4 0.10
54 36 0.88
55 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (54 bp):
TATTTTATTATAAGTATTATTTTAATTATACTATTATAGTATATATTATAAAAT
Found at i:44131963 original size:20 final size:20
Alignment explanation
Indices: 44131925--44131963 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44131915 TGTATCACAA
*
44131925 ATTATATTATTTATGTTTAT
1 ATTATATTATATATGTTTAT
44131945 ATTATATATATATAT-TTTA
1 ATTATAT-TATATATGTTTA
44131964 AAAATGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTATATTATATATGTTTAT
Found at i:44144708 original size:13 final size:13
Alignment explanation
Indices: 44144692--44144724 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44144682 TTTAATTAAA
*
44144692 TTAGTTAATTAGT
1 TTAGATAATTAGT
44144705 TTAGATAATTAGT
1 TTAGATAATTAGT
44144718 TTA-ATAA
1 TTAGATAA
44144725 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:44145699 original size:31 final size:31
Alignment explanation
Indices: 44145661--44145738 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
44145651 CTTGACGTAG
44145661 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
44145692 ACTGGGCCGAATCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
44145723 A-TTGGCTGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
44145739 ACTGTAAGCG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 12 0.28
31 31 0.72
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:44145986 original size:25 final size:25
Alignment explanation
Indices: 44145958--44146027 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
44145948 CTCTTTTAAT
*
44145958 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
44145983 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
44146008 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
44146028 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:44146898 original size:27 final size:27
Alignment explanation
Indices: 44146836--44146923 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
44146826 GGGCATATTC
44146836 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACCATACAGGGGTATTACA
* * *
44146863 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACA
* * **
44146890 GTCTTTTTACC-TATTAGGGGTATTTTA
1 GTCATTTTACCATA-CAGGGGTATTACA
44146917 GTCATTT
1 GTCATTT
44146924 CATCCTACAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
26 3 0.06
27 44 0.92
28 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:44146984 original size:27 final size:27
Alignment explanation
Indices: 44146954--44147060 Score: 83
Period size: 27 Copynumber: 3.9 Consensus size: 27
44146944 GTAAATCTAC
44146954 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
44146981 AAACTAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* ** *
44147007 AGAAAGTCAAGGGTATTTTTGAAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * *
44147037 AAATCAGGGGTATTTCGGTAATTT
1 AAACCAAGGGTATTTCAGTAATTT
44147061 CACAAACCAG
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
26 1 0.02
27 38 0.61
28 7 0.11
29 15 0.24
30 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:44147075 original size:27 final size:27
Alignment explanation
Indices: 44147041--44147113 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
44147031 TTTTGTAAAT
*
44147041 CAGGGGTATTTCGGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAATTTCACAAAC
* *
44147068 CAGTGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTCACAAAC
*
44147095 TAGGGGTATTTTGGTAATT
1 CAGGGGTATTTTGGTAATT
44147114 CTACCCTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTCACAAAC
Found at i:44147153 original size:27 final size:26
Alignment explanation
Indices: 44147038--44147153 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 26
44147028 AAATTTTGTA
44147038 AATCAGGGGTATTTCGGTAATTTCAC
1 AATCAGGGGTATTTCGGTAATTTCAC
* * * *
44147064 AAACCAGTGGTATTTTGGTAATTTTAC
1 -AATCAGGGGTATTTCGGTAATTTCAC
* * *
44147091 AAACTAGGGGTATTTTGGTAATTCTACCC
1 AATC-AGGGGTATTTCGGTAATT-T-CAC
* *
44147120 TAT-AGGGGTATTTCAGTAATTTCAC
1 AATCAGGGGTATTTCGGTAATTTCAC
44147145 AATCGAGGG
1 AATC-AGGG
44147154 TAAAACGGTA
Statistics
Matches: 70, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
25 4 0.06
26 4 0.06
27 59 0.84
28 1 0.01
29 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.35
Consensus pattern (26 bp):
AATCAGGGGTATTTCGGTAATTTCAC
Found at i:44147209 original size:27 final size:27
Alignment explanation
Indices: 44147145--44147209 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
44147135 GTAATTTCAC
* *
44147145 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
** *
44147172 AATAAAAGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
44147199 AATCGAGGGTA
1 AATCGAGGGTA
44147210 CTTTGGTAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.25
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:44159074 original size:22 final size:22
Alignment explanation
Indices: 44159049--44159100 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
44159039 TAGACTTGAT
44159049 GATGAATCCGGC-TTCTGAGATG
1 GATGAATCCGGCTTTC-GAGATG
*
44159071 GATGAATCTGGCTTTCGAGATG
1 GATGAATCCGGCTTTCGAGATG
*
44159093 GATTAATC
1 GATGAATC
44159101 AGCTTCCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (22 bp):
GATGAATCCGGCTTTCGAGATG
Found at i:44169801 original size:34 final size:34
Alignment explanation
Indices: 44169763--44169831 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
44169753 TTCTCTTTAC
*
44169763 TTAGCTCTTTGGCTTTCTTTGCACGGTCATCAAG
1 TTAGCTCTTCGGCTTTCTTTGCACGGTCATCAAG
44169797 TTAGCTCTTCGGCTTTCTTTGCACGGTCATCAAG
1 TTAGCTCTTCGGCTTTCTTTGCACGGTCATCAAG
44169831 T
1 T
44169832 GCTGCAAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (34 bp):
TTAGCTCTTCGGCTTTCTTTGCACGGTCATCAAG
Found at i:44172301 original size:33 final size:32
Alignment explanation
Indices: 44172174--44172399 Score: 231
Period size: 33 Copynumber: 6.9 Consensus size: 32
44172164 GGTGTACGTT
**
44172174 CCCTTTTCAA-TGGTATACACAAAGTGCAC-TA
1 CCCTTTTCAAGT-GTATACACAAAGTATACATA
* * * *
44172205 GTCATTTTCAAGTGTACACACAAAGTATACACA
1 -CCCTTTTCAAGTGTATACACAAAGTATACATA
* * *
44172238 CCCTTTTCAAGTTTATACACTAAGTGTACATA
1 CCCTTTTCAAGTGTATACACAAAGTATACATA
*
44172270 ACCTTTTCAAGTAGTATACACAAAGTATACATA
1 CCCTTTTCAAGT-GTATACACAAAGTATACATA
* *
44172303 GCCTTTTCAAATTGTATACACAAAGTATACATA
1 CCCTTTTC-AAGTGTATACACAAAGTATACATA
* * *
44172336 GCCTTTTTAAATTGTATACACAAAGTATACATA
1 -CCCTTTTCAAGTGTATACACAAAGTATACATA
*
44172369 GCCCTTTCCAAGTGGTATACACAAAGTATAC
1 -CCCTTTTCAAGT-GTATACACAAAGTATAC
44172400 CTTTCCTTTT
Statistics
Matches: 162, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
32 58 0.36
33 79 0.49
34 25 0.15
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (32 bp):
CCCTTTTCAAGTGTATACACAAAGTATACATA
Found at i:44179900 original size:4 final size:4
Alignment explanation
Indices: 44179881--44179933 Score: 54
Period size: 4 Copynumber: 12.5 Consensus size: 4
44179871 TGCCTTCCCA
*
44179881 AAAT AAAAT AAAAT AAAT AATT AAAT AGAA- AAGAT AAAT AAAT AAAT
1 AAAT -AAAT -AAAT AAAT AAAT AAAT A-AAT AA-AT AAAT AAAT AAAT
44179928 AAAT AA
1 AAAT AA
44179934 TGAAACCAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
3 1 0.02
4 29 0.67
5 13 0.30
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:44180527 original size:27 final size:27
Alignment explanation
Indices: 44180492--44180546 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
44180482 CTATTTCAAT
*
44180492 AATTTTAATGATTTTTT-ATTTTTAAAA
1 AATTATAAT-ATTTTTTAATTTTTAAAA
*
44180519 AATTATAATTTTTTTTGAATTTTTAAAA
1 AATTATAATATTTTTT-AATTTTTAAAA
44180547 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.25
27 8 0.33
28 10 0.42
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
AATTATAATATTTTTTAATTTTTAAAA
Found at i:44181475 original size:19 final size:20
Alignment explanation
Indices: 44181447--44181488 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
44181437 TATGTCAACA
* *
44181447 TTTAATTAAT-TTTTTAAAG
1 TTTAAATAATATTTTAAAAG
44181466 TTTAAATAATATTTTAAAAG
1 TTTAAATAATATTTTAAAAG
44181486 TTT
1 TTT
44181489 TTTTATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTAAATAATATTTTAAAAG
Found at i:44181821 original size:20 final size:18
Alignment explanation
Indices: 44181798--44181838 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
44181788 ATTTTATATA
44181798 TAATTCTAAAATTGATTTTT
1 TAATT-TAAAATT-ATTTTT
*
44181818 TAATTTATAATTATTTTT
1 TAATTTAAAATTATTTTT
44181836 TAA
1 TAA
44181839 AGTGGTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 6 0.30
20 5 0.25
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TAATTTAAAATTATTTTT
Found at i:44184537 original size:13 final size:12
Alignment explanation
Indices: 44184516--44184549 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
44184506 ACAATCGTAT
44184516 ATATTATATATA
1 ATATTATATATA
*
44184528 ATAGTTATATATT
1 ATA-TTATATATA
44184541 ATATTATAT
1 ATATTATAT
44184550 TATGTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
ATATTATATATA
Found at i:44184538 original size:20 final size:22
Alignment explanation
Indices: 44184513--44184558 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
44184503 TTTACAATCG
44184513 TATATATTATA-TATAATA-GT
1 TATATATTATATTATAATATGT
*
44184533 TATATATTATATTATATTATGT
1 TATATATTATATTATAATATGT
44184555 TATA
1 TATA
44184559 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.48
21 6 0.26
22 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
TATATATTATATTATAATATGT
Found at i:44186446 original size:2 final size:2
Alignment explanation
Indices: 44186393--44186429 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
44186383 CAAACACATG
* *
44186393 AC AC AC AC AC AC GC AC AC AC AC AC AC AC AC AT AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
44186430 TATATATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.46, G:0.03, T:0.03
Consensus pattern (2 bp):
AC
Found at i:44191992 original size:27 final size:28
Alignment explanation
Indices: 44191955--44192094 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
44191945 AGCATGGCTG
* *
44191955 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
44191981 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
44192009 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
44192036 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
44192063 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
44192090 CCAGA
1 CCAGA
44192095 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:44193747 original size:26 final size:26
Alignment explanation
Indices: 44193711--44193820 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
44193701 CATGAAATTC
44193711 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
44193737 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
44193763 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
44193789 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
44193815 TTATCA
1 TTATCA
44193821 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:44197898 original size:14 final size:14
Alignment explanation
Indices: 44197879--44197915 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
44197869 CCCGGCCCGT
44197879 AAATAAATAAATAA-
1 AAATAAATAAA-AAC
44197893 AAATAAATAAAAAC
1 AAATAAATAAAAAC
44197907 AAA-AAATAA
1 AAATAAATAA
44197916 TAGTTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATAAATAAAAAC
Found at i:44199263 original size:15 final size:15
Alignment explanation
Indices: 44199243--44199294 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
44199233 TTTCTTTGTA
44199243 TATTAT-TTATTATAT
1 TATTATATTATTAT-T
44199258 TATTATA-TATTA-T
1 TATTATATTATTATT
*
44199271 TA-TATATTATTATA
1 TATTATATTATTATT
44199285 TATTATATTA
1 TATTATATTA
44199295 CCTACATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
12 4 0.12
13 8 0.25
14 2 0.06
15 18 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATATTATTATT
Found at i:44199268 original size:10 final size:10
Alignment explanation
Indices: 44199241--44199361 Score: 91
Period size: 10 Copynumber: 12.6 Consensus size: 10
44199231 TTTTTCTTTG
44199241 TATATTATTTA
1 TATATTA-TTA
44199252 TTATATTATTA
1 -TATATTATTA
44199263 TATATTATTA
1 TATATTATTA
44199273 TATATTATTA
1 TATATTATTA
44199283 TATATTA-TA
1 TATATTATTA
* *
44199292 T-TACCTA-CA
1 TATA-TTATTA
44199301 T-T-TTATTA
1 TATATTATTA
*
44199309 AATA-TA-TA
1 TATATTATTA
44199317 T-TATT-TTA
1 TATATTATTA
44199325 TATATTACTTA
1 TATATTA-TTA
*
44199336 TCATATTGTT-
1 T-ATATTATTA
44199346 TATATTATTA
1 TATATTATTA
44199356 TATATT
1 TATATT
44199362 TCGTTTATAA
Statistics
Matches: 90, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
7 4 0.04
8 9 0.10
9 22 0.24
10 34 0.38
11 9 0.10
12 12 0.13
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (10 bp):
TATATTATTA
Found at i:44199289 original size:35 final size:36
Alignment explanation
Indices: 44199243--44199361 Score: 127
Period size: 36 Copynumber: 3.3 Consensus size: 36
44199233 TTTCTTTGTA
*
44199243 TATTATTTATTATATTA-TTATATATTATTATATAT
1 TATTATATATTATATTACTTATATATTATTATATAT
* * * *
44199278 TATTATATATTATATTACCTACATTTTATTAAATAT
1 TATTATATATTATATTACTTATATATTATTATATAT
* *
44199314 ATATTAT-TTTATATATTACTTATCATATTGTT-TATAT
1 -TATTATATAT-TATATTACTTAT-ATATTATTATATAT
44199351 TATTATATATT
1 TATTATATATT
44199362 TCGTTTATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
35 16 0.24
36 23 0.34
37 22 0.33
38 6 0.09
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (36 bp):
TATTATATATTATATTACTTATATATTATTATATAT
Found at i:44199367 original size:21 final size:21
Alignment explanation
Indices: 44199325--44199370 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
44199315 TATTATTTTA
44199325 TATATTACTTATCATATTGTT
1 TATATTACTTATCATATTGTT
44199346 TATATTA-TTAT-ATATTTCGTT
1 TATATTACTTATCATA-TT-GTT
44199367 TATA
1 TATA
44199371 AATTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.13
20 6 0.26
21 14 0.61
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (21 bp):
TATATTACTTATCATATTGTT
Found at i:44211422 original size:44 final size:44
Alignment explanation
Indices: 44211371--44211912 Score: 715
Period size: 44 Copynumber: 12.3 Consensus size: 44
44211361 ATCACCGGTG
* * *
44211371 ACAGATTTGGTGTCTCTGTATTGTTAGAGAGCAGATCAAAGATA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
*
44211415 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
* * *
44211459 GCAGATTTGGCATCTCTCTATTGTCAGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
* * * *
44211503 ACAGATTTAGCGTCACTGTATTGTCAAAGAGTAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
* *
44211547 ACAGATTTGGCGTCTCTGTATTGTCAGAAAGTAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
* * *
44211591 GCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
* * *
44211635 GCAGATTTGGCGTCTCTGTATTATCAGAAAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
** * *
44211679 GTAGATTTGGCTTATCTGTATTGTCAGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
* * *
44211723 ACGGATTTGGCGTCTCTGTATTGTTAGAGAGTAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
** *
44211767 GTAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
*** * * *
44211811 TTGGATTTGGCGTCTCTGTATTGTTAGAGGGCAGATCAAAGATA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
* * * *
44211855 GCAGATTTGGCATCTCTGTATTGTCAGAGAGTAGATTCAAAGATA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGA-TCGAAGATA
*
44211900 ATAGATTTGGCGT
1 ACAGATTTGGCGT
44211913 TCTTGAGTTT
Statistics
Matches: 437, Mismatches: 60, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
44 418 0.96
45 19 0.04
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (44 bp):
ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
Found at i:44213556 original size:28 final size:28
Alignment explanation
Indices: 44213473--44213561 Score: 74
Period size: 28 Copynumber: 3.0 Consensus size: 28
44213463 TTTTTCTTTG
*
44213473 TATATTATTTATTATATTATTACATATTATTA
1 TATATTA-TT-TTATA-TATTACTTATTA-TA
* *
44213505 TATATTATATTACCTACATT--TTATTATA
1 TATATTATTTTA--TATATTACTTATTATA
*
44213533 TATATTATTTTATATATTACTTATCATA
1 TATATTATTTTATATATTACTTATTATA
44213561 T
1 T
44213562 TGTTTATATT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
26 5 0.11
28 21 0.45
29 5 0.11
30 3 0.06
31 4 0.09
32 9 0.19
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (28 bp):
TATATTATTTTATATATTACTTATTATA
Found at i:44213561 original size:14 final size:12
Alignment explanation
Indices: 44213473--44213577 Score: 62
Period size: 12 Copynumber: 8.8 Consensus size: 12
44213463 TTTTTCTTTG
44213473 TATATTATT-TA
1 TATATTATTATA
44213484 T-TA-TATTATTA
1 TATATTATTA-TA
*
44213495 CATATTATTATA
1 TATATTATTATA
44213507 TAT-TATATTACCTA
1 TATAT-TATTA--TA
* *
44213521 CATTTTATTATA
1 TATATTATTATA
*
44213533 TATATTATTTTA
1 TATATTATTATA
44213545 TATATTACTTATCA
1 TATATTA-TTAT-A
44213559 TAT-TGT-TTATA
1 TATAT-TATTATA
44213570 T-TATTATT
1 TATATTATT
44213578 GTAACACCCC
Statistics
Matches: 74, Mismatches: 7, Indels: 26
0.69 0.07 0.24
Matches are distributed among these distances:
9 4 0.05
10 4 0.05
11 9 0.12
12 33 0.45
13 9 0.12
14 14 0.19
15 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (12 bp):
TATATTATTATA
Found at i:44214962 original size:40 final size:40
Alignment explanation
Indices: 44214917--44215084 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
44214907 CGGAATATAA
44214917 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
44214957 CCGGATAGAATAACTCGCACGAATGCCTTCGAGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
44214997 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
44215037 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
44215077 CCGGATAT
1 CCGGATAT
44215085 TATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44224001 original size:24 final size:23
Alignment explanation
Indices: 44223949--44224007 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
44223939 AATTCCACGT
* *
44223949 GTATGTTAATATACATATATTTAT
1 GTATATTAA-ATACATATATTTAA
*
44223973 TTATATTAAATACATAATATTTAA
1 GTATATTAAATACAT-ATATTTAA
44223997 GTATATATAAA
1 GTATAT-TAAA
44224008 ATATTAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 6 0.21
24 19 0.66
25 4 0.14
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (23 bp):
GTATATTAAATACATATATTTAA
Found at i:44224025 original size:5 final size:5
Alignment explanation
Indices: 44224015--44224048 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
44224005 AAAATATTAA
44224015 TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
44224049 ATAGTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:44224158 original size:14 final size:14
Alignment explanation
Indices: 44224123--44224151 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44224113 AACGAAATAG
44224123 GAAAGAAAAAGAAA
1 GAAAGAAAAAGAAA
44224137 GAAAGAAAAAGAAA
1 GAAAGAAAAAGAAA
44224151 G
1 G
44224152 GGAGAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
GAAAGAAAAAGAAA
Found at i:44225291 original size:20 final size:21
Alignment explanation
Indices: 44225242--44225291 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
44225232 AAATTTTAGG
44225242 ATTTAT-TTTCATTTATCTTT
1 ATTTATCTTTCATTTATCTTT
* *
44225262 AATTACCTTT-ATTTAT-TTGT
1 ATTTATCTTTCATTTATCTT-T
44225282 ATTTATCTTT
1 ATTTATCTTT
44225292 TAGAATTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (21 bp):
ATTTATCTTTCATTTATCTTT
Found at i:44230554 original size:41 final size:41
Alignment explanation
Indices: 44230508--44230590 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
44230498 CGAAGATTTA
* * *
44230508 TAAATGGATTTTCAGAGATAGCTTTGCCGGTGACAAAGTTG
1 TAAATGGATTTTCAAAGATAGCTTTACCGATGACAAAGTTG
44230549 TAAATGGATTTTCAAAGATAGCTTTACCGATGACAAAGTTG
1 TAAATGGATTTTCAAAGATAGCTTTACCGATGACAAAGTTG
44230590 T
1 T
44230591 TGCAAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (41 bp):
TAAATGGATTTTCAAAGATAGCTTTACCGATGACAAAGTTG
Found at i:44233701 original size:16 final size:17
Alignment explanation
Indices: 44233668--44233701 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44233658 ATATATGTGA
*
44233668 ATATTGATTTGTAATGG
1 ATATTGATTTGAAATGG
44233685 ATATTGA-TTGAAATGG
1 ATATTGATTTGAAATGG
44233701 A
1 A
44233702 AAATGTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (17 bp):
ATATTGATTTGAAATGG
Found at i:44237683 original size:26 final size:26
Alignment explanation
Indices: 44237647--44237756 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
44237637 ACATGAATTC
*
44237647 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
44237673 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
44237699 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
44237725 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
44237751 TTATCA
1 TTATCA
44237757 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:44238702 original size:3 final size:3
Alignment explanation
Indices: 44238694--44238880 Score: 74
Period size: 3 Copynumber: 62.3 Consensus size: 3
44238684 TAAAAATGAC
*
44238694 ATA ATA ATA TATA A-A ATA ATT ATA ATA TATA AT- ATA A-A AGT- ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA ATA
* * *
44238738 TATA ATA ATA ATA ATA ATTC GTGA AAA ATA ATA TATA ATAA ATA ATA
1 -ATA ATA ATA ATA ATA A-TA AT-A ATA ATA ATA -ATA AT-A ATA ATA
* *
44238785 AT- ATAA ATA AT- ATA ATT AT- ATA ATT AT- ATA ATA TATA AT- ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
** * * * *
44238827 A-A ATA AGG TTA AAA ATA A-A ACGA ATA ACA AT- ATA ATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA -ATA ATA
44238871 ATA ATA ATA A
1 ATA ATA ATA A
44238881 ATATATGTAG
Statistics
Matches: 139, Mismatches: 21, Indels: 48
0.67 0.10 0.23
Matches are distributed among these distances:
2 23 0.17
3 90 0.65
4 26 0.19
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:44238707 original size:21 final size:19
Alignment explanation
Indices: 44238681--44238798 Score: 77
Period size: 18 Copynumber: 6.2 Consensus size: 19
44238671 ATGTGTGATA
44238681 ATATAAAAATGACATAATAAT
1 ATATAAAAAT-A-ATAATAAT
*
44238702 ATAT-AAAATAATTATAAT
1 ATATAAAAATAATAATAAT
*
44238720 ATAT-AATATAA-AAGT-AT
1 ATATAAAAATAATAA-TAAT
*
44238737 ATATAATAATAATAATAAT
1 ATATAAAAATAATAATAAT
*
44238756 -TCGTGAAAAATAATATATAAT
1 AT-AT-AAAAATAATA-ATAAT
* *
44238777 AAATAATAAT-ATAAATAAT
1 ATATAAAAATAAT-AATAAT
44238796 ATA
1 ATA
44238799 ATTATATAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
17 7 0.09
18 25 0.32
19 15 0.19
20 20 0.26
21 10 0.13
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (19 bp):
ATATAAAAATAATAATAAT
Found at i:44238720 original size:18 final size:18
Alignment explanation
Indices: 44238678--44238832 Score: 88
Period size: 20 Copynumber: 8.2 Consensus size: 18
44238668 AAAATGTGTG
44238678 ATAATATA-AAAATGACATA
1 ATAATATATAAAAT-A-ATA
*
44238697 ATAATATATAAAATAATT
1 ATAATATATAAAATAATA
*
44238715 ATAATATATAATATAA-A
1 ATAATATATAAAATAATA
44238732 AGT-ATATATAATAATAATA
1 A-TAATATATAA-AATAATA
*
44238751 ATAAT-TCGTGAAAAATAATA
1 ATAATAT-AT--AAAATAATA
*
44238771 TATAATAAATAATAAT-ATAA
1 -ATAATATATAA-AATAAT-A
* *
44238791 ATAATATAATTATATAATTA
1 ATAATAT-ATAAAATAA-TA
*
44238811 TATAATATATAATATAA-A
1 -ATAATATATAAAATAATA
44238829 ATAA
1 ATAA
44238833 GGTTAAAAAT
Statistics
Matches: 109, Mismatches: 11, Indels: 34
0.71 0.07 0.22
Matches are distributed among these distances:
17 13 0.12
18 25 0.23
19 26 0.24
20 29 0.27
21 16 0.15
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATATATAAAATAATA
Found at i:44238745 original size:33 final size:33
Alignment explanation
Indices: 44238694--44238886 Score: 120
Period size: 33 Copynumber: 5.9 Consensus size: 33
44238684 TAAAAATGAC
* *
44238694 ATAATAATATATAAAATAATTATAATATATAAT-
1 ATAA-AATATATATAATAATAATAATATATAATA
** *
44238727 ATAAAAGTATATATAATAATAATAATA-ATTCGTG
1 ATAAAA-TATATATAATAATAATAATATA-TAATA
44238761 A-AAAATAATATATAATAAATAATAATATA-AATA
1 ATAAAAT-ATATATAAT-AATAATAATATATAATA
* *
44238794 ATATAAT-TATATAATTAT-ATAATATATAAT-
1 ATAAAATATATATAATAATAATAATATATAATA
* * *
44238824 ATAAAATA-AGGT-TAAAAATAA-AACGA-ATAACA
1 ATAAAATATA--TATAATAATAATAA-TATATAATA
*
44238856 ATATAATATATAATAATAATAATAAATATAT
1 ATAAAATATAT-ATAATAATAAT-AATATAT
44238887 GTAGGATTAA
Statistics
Matches: 123, Mismatches: 17, Indels: 38
0.69 0.10 0.21
Matches are distributed among these distances:
30 15 0.12
31 17 0.14
32 22 0.18
33 48 0.39
34 16 0.13
35 5 0.04
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (33 bp):
ATAAAATATATATAATAATAATAATATATAATA
Found at i:44238832 original size:17 final size:17
Alignment explanation
Indices: 44238696--44238832 Score: 87
Period size: 17 Copynumber: 8.3 Consensus size: 17
44238686 AAAATGACAT
*
44238696 AATAATATATAAAATAA
1 AATAATATATAATATAA
*
44238713 TTATAATATATAATATAA
1 -AATAATATATAATATAA
*
44238731 AAGT-ATATATAATA-AT
1 AA-TAATATATAATATAA
**
44238747 AATAATA-ATTCGTGA-AA
1 AATAATATA-TAAT-ATAA
44238764 AATAATATAT-A-AT-A
1 AATAATATATAATATAA
44238778 AATAATAATATAA-ATAA
1 AATAAT-ATATAATATAA
*
44238795 TATAATTATATAAT-T-A
1 AATAA-TATATAATATAA
*
44238811 TATAATATATAATATAA
1 AATAATATATAATATAA
44238828 AATAA
1 AATAA
44238833 GGTTAAAAAT
Statistics
Matches: 96, Mismatches: 10, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
14 8 0.08
15 14 0.15
16 18 0.19
17 38 0.40
18 18 0.19
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (17 bp):
AATAATATATAATATAA
Found at i:44251725 original size:40 final size:40
Alignment explanation
Indices: 44251590--44251733 Score: 135
Period size: 40 Copynumber: 3.6 Consensus size: 40
44251580 CGAATGGTAT
* ** * *
44251590 CCGGGCTAAGTCGCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAA-TTACTAAAA
* * * * *
44251631 CCGGGTTAAGTCCCTAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACTAAAA
* * * *
44251671 CTGGGTTAAATCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACTAAAA
* *
44251711 CCGGGCTATGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
44251734 CGAGCGAGTC
Statistics
Matches: 83, Mismatches: 20, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
40 58 0.70
41 25 0.30
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACTAAAA
Found at i:44262827 original size:49 final size:47
Alignment explanation
Indices: 44262749--44262929 Score: 150
Period size: 49 Copynumber: 3.7 Consensus size: 47
44262739 CTATTATGAG
* *
44262749 GTCACGTGTGTAGTACTAAGTGTAGGCTACTCCATGTACGAGATAACCA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACT-CATGTAC-AGATAACCA
* *
44262798 GTCGCATGTGTAGTACTAAGTGCAGGCTACT-ATGCGTACCCGATAACTTC-
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTCAT--GTA-CAGATAAC--CA
* * * ****
44262848 GATCACGTCTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACT-CATGTA-CAGATAACCA
44262898 GGTCACATGTGTAGTACTAAGTGCAGGCTACT
1 -GTCACATGTGTAGTACTAAGTGCAGGCTACT
44262930 ATGCGTACCA
Statistics
Matches: 106, Mismatches: 16, Indels: 19
0.75 0.11 0.13
Matches are distributed among these distances:
47 2 0.02
49 37 0.35
50 30 0.28
51 36 0.34
53 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (47 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTCATGTACAGATAACCA
Found at i:44262870 original size:51 final size:50
Alignment explanation
Indices: 44262806--44262939 Score: 169
Period size: 50 Copynumber: 2.7 Consensus size: 50
44262796 CAGTCGCATG
* * *
44262806 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTC
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT-ACTTAGATCACATC
* * * ** * *
44262857 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATACTTAGATCACATC
44262907 TGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCA
44262940 AATAGCCTTG
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
50 38 0.54
51 32 0.46
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATACTTAGATCACATC
Found at i:44262930 original size:101 final size:100
Alignment explanation
Indices: 44262750--44262938 Score: 272
Period size: 101 Copynumber: 1.9 Consensus size: 100
44262740 TATTATGAGG
* * * *
44262750 TCACGTGTGTAGTACTAAGTGTAGGCTACTCCATGTACGAGATAACCAGTCGCATGTGTAGTACT
1 TCACGTCTGTAGTACTAAGTGCAGGCTACTACATGTACGAGATAACCAGTCACATGTGTAGTACT
44262815 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
* ****
44262850 TCACGTCTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTTAGGTCACATGTGTAGTA
1 TCACGTCTGTAGTACTAAGTGCAGGCTACTACATGTA-CGAGATAACCA-GTCACATGTGTAGTA
44262914 CTAAGTGCAGGCTACTATGCGTACC
64 CTAAGTGCAGGCTACTATGCGTACC
44262939 AAATAGCCTT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 38 0.49
101 40 0.51
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (100 bp):
TCACGTCTGTAGTACTAAGTGCAGGCTACTACATGTACGAGATAACCAGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
Found at i:44268214 original size:49 final size:50
Alignment explanation
Indices: 44268158--44268389 Score: 279
Period size: 49 Copynumber: 4.7 Consensus size: 50
44268148 GGACAAAATG
* * *
44268158 GTACTAAGTGTAGGCTACTATGTGTACCGGATAATT-GATCGCATGTGTA
1 GTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGATCACATGTGTA
* * *
44268207 GTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACGTGTGTA
1 GTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTAGATCACATGTGTA
* * * ** *
44268258 GTGCTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTA
1 GTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGATCACATGTGTA
* * * *
44268308 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCATGTGTA
1 GTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGATCACATGTGTA
* *
44268357 GCACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTACTAAGTGCAGGCTACTATGTGTACCAGATA
44268390 GCCTTGTCTA
Statistics
Matches: 157, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 72 0.46
50 46 0.29
51 39 0.25
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
GTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGATCACATGTGTA
Found at i:44271904 original size:23 final size:22
Alignment explanation
Indices: 44271878--44271951 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 22
44271868 CTTTGTGGTG
44271878 TATTCTGTGTTGCCTATGTGACA
1 TATTCTGTGTTGCCTATGTG-CA
*** *
44271901 TATTCTGTAAAGCCTTTGTGGCA
1 TATTCTGTGTTGCCTATGT-GCA
**
44271924 TATTCCATGTTGCCTATGTGCA
1 TATTCTGTGTTGCCTATGTGCA
44271946 TATTCT
1 TATTCT
44271952 ATAAAGCCTT
Statistics
Matches: 39, Mismatches: 11, Indels: 3
0.74 0.21 0.06
Matches are distributed among these distances:
22 8 0.21
23 30 0.77
24 1 0.03
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (22 bp):
TATTCTGTGTTGCCTATGTGCA
Found at i:44271963 original size:45 final size:46
Alignment explanation
Indices: 44271857--44271978 Score: 174
Period size: 46 Copynumber: 2.7 Consensus size: 46
44271847 ACACATAATG
* ** **
44271857 TTCTGTAAAGTCTTTGTGGTGTATTCTGTGTTGCCTATGTGACATA
1 TTCTGTAAAGCCTTTGTGGCATATTCCATGTTGCCTATGTGACATA
44271903 TTCTGTAAAGCCTTTGTGGCATATTCCATGTTGCCTATGTG-CATA
1 TTCTGTAAAGCCTTTGTGGCATATTCCATGTTGCCTATGTGACATA
* *
44271948 TTCTATAAAGCCTTTGTGGCATATTTCATGT
1 TTCTGTAAAGCCTTTGTGGCATATTCCATGT
44271979 AACTTTTGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
45 33 0.48
46 36 0.52
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (46 bp):
TTCTGTAAAGCCTTTGTGGCATATTCCATGTTGCCTATGTGACATA
Found at i:44273308 original size:24 final size:24
Alignment explanation
Indices: 44273244--44273317 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
44273234 CATGTATTGA
* *
44273244 CATTCAAATCAGCACACATAGTGT
1 CATTCAAATCCGCACACATAGTGC
* * *
44273268 CATTCAATTTCGGACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
*
44273292 CATTCAAATCCGCACACTTAGTGC
1 CATTCAAATCCGCACACATAGTGC
44273316 CA
1 CA
44273318 ATGTTGACCC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:44276953 original size:29 final size:29
Alignment explanation
Indices: 44276893--44276956 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
44276883 GGCTACCCCA
*
44276893 TGTGCCCTAAAAATGGCCACACATGCTCG
1 TGTGCCCTAAAAATGGCCACACACGCTCG
44276922 TGTGCCCTAAAAATGGCCACACACGC-CAG
1 TGTGCCCTAAAAATGGCCACACACGCTC-G
44276951 TGTGCC
1 TGTGCC
44276957 AGGCCATGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.27, C:0.33, G:0.22, T:0.19
Consensus pattern (29 bp):
TGTGCCCTAAAAATGGCCACACACGCTCG
Found at i:44278677 original size:50 final size:50
Alignment explanation
Indices: 44278554--44278741 Score: 204
Period size: 50 Copynumber: 3.8 Consensus size: 50
44278544 CACATAGTAA
* * * * *
44278554 GATGCCAACGCCATATCCCTA-ATATGGTCTTACTTGGGATCAC---AGCTC
1 GATGCCAATGCCATGTCCC-AGACATGGTCTTACATGGGATCTCTTAAG-TC
* * * *
44278602 GATGACAATGCCATGACCCGGACATGATCTTACATGGGATCTCTTAAGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTAAGTC
* * * *
44278652 GATGCCAATGTCATGTCCCAAACATGGTCTTACATAGGATCTCTTATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTAAGTC
*
44278702 GATGCCAGTGCCATGTCCCAGACATGGTCTTACATGGGAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
44278742 TTCATATCAA
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
48 33 0.29
50 80 0.70
51 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTAAGTC
Found at i:44280846 original size:29 final size:29
Alignment explanation
Indices: 44280777--44280857 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
44280767 CACATCCGTA
* *
44280777 TGATAATTCGTGTACGACACACGACCATG
1 TGATAGTTCGTGTGCGACACACGACCATG
* **
44280806 TCATAGGCCGTGTGCGACACACGACCATG
1 TGATAGTTCGTGTGCGACACACGACCATG
*
44280835 TGATAGTTCGTGTGTGACACACG
1 TGATAGTTCGTGTGCGACACACG
44280858 GTCTAGGCCA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (29 bp):
TGATAGTTCGTGTGCGACACACGACCATG
Found at i:44287528 original size:14 final size:14
Alignment explanation
Indices: 44287509--44287541 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
44287499 CCTAATGTCG
44287509 TCAATCTTAGGGTT
1 TCAATCTTAGGGTT
44287523 TCAATCTTAGGGTT
1 TCAATCTTAGGGTT
44287537 T-AATC
1 TCAATC
44287542 ACACATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (14 bp):
TCAATCTTAGGGTT
Found at i:44288811 original size:25 final size:25
Alignment explanation
Indices: 44288777--44288824 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
44288767 AAACCCAAAA
44288777 TCCAAAATT-AAATCCAGAAACATAG
1 TCCAAAATTAAAATCCA-AAACATAG
44288802 TCCAAAATTAAAATCCAAAACAT
1 TCCAAAATTAAAATCCAAAACAT
44288825 TTTTATACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.54, C:0.21, G:0.04, T:0.21
Consensus pattern (25 bp):
TCCAAAATTAAAATCCAAAACATAG
Found at i:44291191 original size:29 final size:28
Alignment explanation
Indices: 44291159--44291261 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
44291149 GTGACGAGAT
* *
44291159 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
44291188 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
44291217 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
44291246 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44291262 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:44294362 original size:27 final size:25
Alignment explanation
Indices: 44294304--44294363 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
44294294 CATAAAAGCT
* * *
44294304 TTTCTTTCATATTTCGCTATAGGCT
1 TTTCTTTCATATTTCGCCAAAGGCG
44294329 TTTCTTTCATATTTCGCCACAAAGGCG
1 TTTCTTTCATATTTCG-C-CAAAGGCG
44294356 TTTCTTTC
1 TTTCTTTC
44294364 CTGACATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 16 0.53
26 1 0.03
27 13 0.43
ACGTcount: A:0.17, C:0.23, G:0.12, T:0.48
Consensus pattern (25 bp):
TTTCTTTCATATTTCGCCAAAGGCG
Found at i:44296038 original size:4 final size:4
Alignment explanation
Indices: 44296031--44296082 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
44296021 TTTTCCTTTT
* * * *
44296031 TTTA TTTA TAT- TTTA TTTA TTAA TTAA TTTA TTTA TCTA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
44296077 TTTA TT
1 TTTA TT
44296083 ATTACTATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 5 0.12
4 35 0.88
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:44296077 original size:27 final size:27
Alignment explanation
Indices: 44296031--44296083 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
44296021 TTTTCCTTTT
44296031 TTTATTTATATTTTATTTATTAATTAA
1 TTTATTTATATTTTATTTATTAATTAA
* *
44296058 TTTATTTATCTATTTA-TTATTTATTA
1 TTTATTTATAT-TTTATTTATTAATTA
44296084 TTACTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTATTTATATTTTATTTATTAATTAA
Found at i:44296093 original size:16 final size:15
Alignment explanation
Indices: 44296043--44296094 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
44296033 TATTTATATT
44296043 TTATTTATTAATTA-A
1 TTATTTATT-ATTATA
44296058 TTTATTTATCTATT-TA
1 -TTATTTAT-TATTATA
44296074 TTATTTATTATTACTA
1 TTATTTATTATTA-TA
44296090 TTATT
1 TTATT
44296095 GACATTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.12
15 8 0.25
16 19 0.59
17 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATTTATTATTATA
Found at i:44296701 original size:2 final size:2
Alignment explanation
Indices: 44296694--44296721 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44296684 GTAATGCATG
44296694 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44296722 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44296726 original size:2 final size:2
Alignment explanation
Indices: 44296721--44296745 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44296711 TATATATATA
44296721 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
44296746 CACAATCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:44297027 original size:13 final size:12
Alignment explanation
Indices: 44296838--44297018 Score: 67
Period size: 12 Copynumber: 15.5 Consensus size: 12
44296828 ATTAATATTA
44296838 TTTTATGTATAT
1 TTTTATGTATAT
* *
44296850 CTTTATATATAT
1 TTTTATGTATAT
44296862 TTTT-T-TATAT
1 TTTTATGTATAT
* * *
44296872 ATTTATGCATAAC
1 TTTTATGTAT-AT
*
44296885 TCTT-TGTATAT
1 TTTTATGTATAT
*
44296896 TCTTATGTAT-T
1 TTTTATGTATAT
44296907 ATTTTAT-TATAT
1 -TTTTATGTATAT
*
44296919 TGTTTCT-T-TAT
1 T-TTTATGTATAT
* * *
44296930 TGTCATAG-GTAT
1 TTTTAT-GTATAT
*
44296942 TTTTATGTACAT
1 TTTTATGTATAT
*
44296954 TTTTATGGATAT
1 TTTTATGTATAT
**
44296966 AATT-TGTATAT
1 TTTTATGTATAT
* *
44296977 TTTCACT-TATAA
1 TTTTA-TGTATAT
* * *
44296989 ATTTGTATATAT
1 TTTTATGTATAT
44297001 TTTTATGTATAT
1 TTTTATGTATAT
44297013 TTTTAT
1 TTTTAT
44297019 TCGTAATTTA
Statistics
Matches: 120, Mismatches: 35, Indels: 28
0.66 0.19 0.15
Matches are distributed among these distances:
10 10 0.08
11 25 0.21
12 81 0.68
13 4 0.03
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.60
Consensus pattern (12 bp):
TTTTATGTATAT
Found at i:44302450 original size:32 final size:31
Alignment explanation
Indices: 44302394--44302454 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
44302384 AGCATTTACT
44302394 AAACATTGGAAATTAGATAACACTAGTTTAAA
1 AAACATTGGAAATTAGATAACACTA-TTTAAA
* **
44302426 AAACCTTGGAAATTAGATGTCACTATTTA
1 AAACATTGGAAATTAGATAACACTATTTA
44302455 CAAATGCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (31 bp):
AAACATTGGAAATTAGATAACACTATTTAAA
Found at i:44306458 original size:24 final size:23
Alignment explanation
Indices: 44306431--44306478 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
44306421 CCCAACAGTC
44306431 AAATTACAAATTCGACCAATGGTA
1 AAATTA-AAATTCGACCAATGGTA
* * *
44306455 AAATTATAATTTGCCCAATGGTA
1 AAATTAAAATTCGACCAATGGTA
44306478 A
1 A
44306479 CTTTTTTCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (23 bp):
AAATTAAAATTCGACCAATGGTA
Found at i:44306568 original size:61 final size:61
Alignment explanation
Indices: 44306473--44306595 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
44306463 ATTTGCCCAA
*
44306473 TGGTAACTTTTTTCCTTATATAAGTCTAAGTCATTTTCCACTCTTTTCACTCAAATCTAAT
1 TGGTAACTTTTTTCCTTATATAAGCCTAAGTCATTTTCCACTCTTTTCACTCAAATCTAAT
* *
44306534 TGGTAACTTTTTTTCTTATATGAGCCTAAGTCATTTTCCACTCTTTTCACTCAAATCTAAT
1 TGGTAACTTTTTTCCTTATATAAGCCTAAGTCATTTTCCACTCTTTTCACTCAAATCTAAT
44306595 T
1 T
44306596 CTCTTCATTC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.46
Consensus pattern (61 bp):
TGGTAACTTTTTTCCTTATATAAGCCTAAGTCATTTTCCACTCTTTTCACTCAAATCTAAT
Found at i:44308699 original size:43 final size:43
Alignment explanation
Indices: 44308601--44308699 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
44308591 GAGAGAAAAT
* * *
44308601 ACGTCCAACTGAACGTATTTTCTGTTGACATGTCAAGGAAAGC
1 ACGTCCAACTGGACGTATTTTCTGCTAACATGTCAAGGAAAGC
* * *
44308644 ACGCCCAGCTGGAC-TCATTTTCTGCTAACATGT-TAGGTAAAGC
1 ACGTCCAACTGGACGT-ATTTTCTGCTAACATGTCAAGG-AAAGC
*
44308687 GCGTCCAACTGGA
1 ACGTCCAACTGGA
44308700 TGCGTTTTCC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
42 4 0.09
43 41 0.91
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (43 bp):
ACGTCCAACTGGACGTATTTTCTGCTAACATGTCAAGGAAAGC
Found at i:44311206 original size:48 final size:48
Alignment explanation
Indices: 44310985--44311213 Score: 162
Period size: 48 Copynumber: 4.8 Consensus size: 48
44310975 GGGTTGATGA
* * * * * * *
44310985 GATCCCGTATAAGACCATATCTAGGAAATGGTATCGGCATTGATATGT
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* * * *
44311033 GATCCCATGTAAGACCATGTTTGGGACATGTCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* * * * * * *
44311081 GAACATCATGTAAAACCATAGCT-GGATTATCGGC-TTCG-AT--ATGTGT
1 GATC-CCATGTAAGACCATATCTGGGA-CAT-GGCATTGGCATCGATATGT
* * * * *
44311127 GATCCCATGTGAGAGCGTGTCTGGGACATGGCATTGGCATCGATAAGT
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* * *
44311175 GGTCCCATGTAAGACCATATCTGGGATATGGCAATGGCA
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
44311214 CCCTACTATG
Statistics
Matches: 132, Mismatches: 41, Indels: 16
0.70 0.22 0.08
Matches are distributed among these distances:
44 3 0.02
45 16 0.12
46 12 0.09
48 81 0.61
49 18 0.14
50 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
Found at i:44313505 original size:37 final size:37
Alignment explanation
Indices: 44313455--44313582 Score: 229
Period size: 37 Copynumber: 3.4 Consensus size: 37
44313445 TTATTACGAA
*
44313455 GTCTTACCCGGACATAATCTCCACACATAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
44313492 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
44313529 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
44313566 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
44313583 TTTCCAAGTT
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
37 83 0.94
38 5 0.06
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:44313680 original size:48 final size:48
Alignment explanation
Indices: 44313622--44313725 Score: 183
Period size: 48 Copynumber: 2.2 Consensus size: 48
44313612 TGTTACAACA
44313622 TTCACATTAGCCATTCGGCTTTACCACAC-ATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCAC-CTATACATATCACACATATAT
*
44313670 TTCACATTAGCCATTCGGCTTTACCACCTATACATATCACTCATATAT
1 TTCACATTAGCCATTCGGCTTTACCACCTATACATATCACACATATAT
44313718 TTCACATT
1 TTCACATT
44313726 CATCACATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
47 1 0.02
48 53 0.98
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACCTATACATATCACACATATAT
Found at i:44313773 original size:49 final size:49
Alignment explanation
Indices: 44313717--44314003 Score: 497
Period size: 49 Copynumber: 5.9 Consensus size: 49
44313707 CACTCATATA
44313717 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
* *
44313766 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
*
44313813 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
*
44313862 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
*
44313911 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
* *
44313960 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
44314004 CATCTCATAC
Statistics
Matches: 228, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 45 0.20
49 183 0.80
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
Found at i:44313818 original size:96 final size:96
Alignment explanation
Indices: 44313717--44314005 Score: 506
Period size: 96 Copynumber: 3.0 Consensus size: 96
44313707 CACTCATATA
*
44313717 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
44313782 TCGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACAC
*
44313813 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
44313878 TTGGCCATTAGGCCTTATCACATATATATACAC
66 TTGGCCATTAGGCCTTATCAC--ATATATACAC
*
44313911 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
44313976 TTGGCCATTAGGCCGTATCACATATATACA
66 TTGGCCATTAGGCCTTATCACATATATACA
44314006 TCTCATACAT
Statistics
Matches: 184, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
96 92 0.50
98 92 0.50
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (96 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATACAC
Found at i:44320390 original size:46 final size:45
Alignment explanation
Indices: 44320307--44320523 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 45
44320297 GGTAAGGTGT
* * *
44320307 CGATGCCATGTCTCAGACATGGTTTTACACTGACTATCATCTCATAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCA-AGC
*
44320355 CGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTC-AAGC
* * *
44320401 CGGTGCATGTCCCAAACATATCTTACACT-AGC-ACTCATCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTCAA-GC
* * * * ***
44320447 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCAAGC
*
44320495 CGACGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
44320524 AGCTTACATA
Statistics
Matches: 140, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
45 3 0.02
46 71 0.51
47 41 0.29
48 24 0.17
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCAAGC
Found at i:44321035 original size:21 final size:21
Alignment explanation
Indices: 44320996--44321036 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44320986 CGGCTATGCT
** *
44320996 CCTTTAAAATGGTCTAATTTC
1 CCTTTAAAATCCTCCAATTTC
44321017 CCTTTAAAATCCTCCAATTT
1 CCTTTAAAATCCTCCAATTT
44321037 TGATTCTCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (21 bp):
CCTTTAAAATCCTCCAATTTC
Found at i:44326859 original size:55 final size:55
Alignment explanation
Indices: 44326793--44326906 Score: 210
Period size: 55 Copynumber: 2.1 Consensus size: 55
44326783 AAGACTACTT
*
44326793 CATGCAATAAAATTAGCTACAATAGACAACATTTCGTTTGTGCATTTTACTCATC
1 CATGCAATAAAATCAGCTACAATAGACAACATTTCGTTTGTGCATTTTACTCATC
*
44326848 CATGTAATAAAATCAGCTACAATAGACAACATTTCGTTTGTGCATTTTACTCATC
1 CATGCAATAAAATCAGCTACAATAGACAACATTTCGTTTGTGCATTTTACTCATC
44326903 CATG
1 CATG
44326907 AACATAACAC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (55 bp):
CATGCAATAAAATCAGCTACAATAGACAACATTTCGTTTGTGCATTTTACTCATC
Found at i:44327531 original size:46 final size:46
Alignment explanation
Indices: 44327464--44327626 Score: 163
Period size: 46 Copynumber: 3.5 Consensus size: 46
44327454 GTGTCGATGC
*
44327464 CATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCATA-GTCGACG
1 CATGTCCCAGACAT-GTCTTACACTGACTTA-CATCTCA-AGGCCGACG
* * *
44327511 CATGTCCTAGATATGTCTTACACTGACTTACATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACTTACATCTCAAGGCCGACG
* * * * *
44327557 CATGTCCCAGACATCTCTTACATTAGCAC-T-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACT-G-ACTTACATCTCAAGGCCGACG
*
44327603 CATGTCCCAGACATATCTTACACT
1 CATGTCCCAGACATGTCTTACACT
44327627 AGCTCATACA
Statistics
Matches: 100, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
45 1 0.01
46 81 0.81
47 16 0.16
48 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTTACATCTCAAGGCCGACG
Found at i:44331545 original size:16 final size:16
Alignment explanation
Indices: 44331524--44331562 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
44331514 TACACTTAAG
44331524 ATGTACATTGTCCTCA
1 ATGTACATTGTCCTCA
44331540 ATGTACATTGTCCTCA
1 ATGTACATTGTCCTCA
44331556 ATGTACA
1 ATGTACA
44331563 AAGATAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (16 bp):
ATGTACATTGTCCTCA
Found at i:44340387 original size:13 final size:13
Alignment explanation
Indices: 44340371--44340403 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44340361 TTCAATTAAA
*
44340371 TTAGTTAATTAGT
1 TTAGATAATTAGT
44340384 TTAGATAATTAGT
1 TTAGATAATTAGT
44340397 TTA-ATAA
1 TTAGATAA
44340404 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:44345645 original size:30 final size:30
Alignment explanation
Indices: 44345611--44345671 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44345601 TTCTCGAGCC
44345611 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
44345641 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
44345671 T
1 T
44345672 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:44353576 original size:48 final size:49
Alignment explanation
Indices: 44353492--44353714 Score: 180
Period size: 48 Copynumber: 4.7 Consensus size: 49
44353482 GGGTTGATGA
* * * * *
44353492 GATCCCGTATAAGACCATA-TCTGGGATATGGTATCGGCATCGGTATGT
1 GATCCCATGTAAGACCATAGTCTGGGACATGGCATCGGCATCGATATGT
* * *
44353540 GATCTCATGTAAGACCA-AGTCTGGGACATGGCATCGGCATCGGTATGA
1 GATCCCATGTAAGACCATAGTCTGGGACATGGCATCGGCATCGATATGT
* * *
44353588 G-TACACCGTGTAAGACCATAGT-TGGG-C-T---ATCAGCTTCGATATGTGT
1 GAT-C-CCATGTAAGACCATAGTCTGGGACATGGCATCGGCATCGATA--TGT
* * * *
44353634 GATCCTATGTAAGAGCAT-GTCTGGGACATGGCATTGGCATCGATAAGT
1 GATCCCATGTAAGACCATAGTCTGGGACATGGCATCGGCATCGATATGT
* *
44353682 GGTCCCATGTAAGACCATA-TCTGGGATATGGCA
1 GATCCCATGTAAGACCATAGTCTGGGACATGGCA
44353715 ATGACACCCT
Statistics
Matches: 138, Mismatches: 23, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 5 0.04
47 5 0.04
48 73 0.53
49 15 0.11
50 13 0.09
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (49 bp):
GATCCCATGTAAGACCATAGTCTGGGACATGGCATCGGCATCGATATGT
Found at i:44355573 original size:40 final size:40
Alignment explanation
Indices: 44355528--44355657 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
44355518 CGGAATACAA
44355528 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
44355568 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
44355608 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
44355648 CCGGATATAA
1 CCGGATATAA
44355658 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:44355672 original size:40 final size:40
Alignment explanation
Indices: 44355528--44355691 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
44355518 CGGAATACAA
* **
44355528 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
44355568 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
44355608 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
44355648 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
44355688 CCGG
1 CCGG
44355692 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:44359897 original size:191 final size:191
Alignment explanation
Indices: 44359569--44359957 Score: 762
Period size: 191 Copynumber: 2.0 Consensus size: 191
44359559 AATTTGGCTG
44359569 AAAT-GAGATTTGAATAAAAAGGGCTAAATTGCATGTTTTGGGCTTAGGGACTAAATTGTATAAA
1 AAATCGAGATTTGAATAAAAAGGGCTAAATTGCATGTTTTGGGCTTAGGGACTAAATTGTATAAA
*
44359633 ATTAAAATGTTGGGGGTAATTTTGTAAAAATGTCAAAAAGGAATTAATTGCATAAAATGAATTAA
66 ATTAAAATGTTGGGGGTAATTTTGTAAAAATGTCAAAAAGAAATTAATTGCATAAAATGAATTAA
44359698 TTTTTTTTGTTAGAATTAGTGAATTGAATGAAATTATAATTTTAGATCAAGAACGAGTGGA
131 TTTTTTTTGTTAGAATTAGTGAATTGAATGAAATTATAATTTTAGATCAAGAACGAGTGGA
44359759 AAATCGAGATTTGAATAAAAAGGGCTAAATTGCATGTTTTGGGCTTAGGGACTAAATTGTATAAA
1 AAATCGAGATTTGAATAAAAAGGGCTAAATTGCATGTTTTGGGCTTAGGGACTAAATTGTATAAA
44359824 ATTAAAATGTTGGGGGTAATTTTGTAAAAATGTCAAAAAGAAATTAATTGCATAAAATGAATTAA
66 ATTAAAATGTTGGGGGTAATTTTGTAAAAATGTCAAAAAGAAATTAATTGCATAAAATGAATTAA
44359889 TTTTTTTTGTTAGAATTAGTGAATTGAATGAAATTATAATTTTAGATCAAGAACGAGTGGA
131 TTTTTTTTGTTAGAATTAGTGAATTGAATGAAATTATAATTTTAGATCAAGAACGAGTGGA
44359950 AAATCGAG
1 AAATCGAG
44359958 CAAAGGAGAA
Statistics
Matches: 197, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
190 4 0.02
191 193 0.98
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (191 bp):
AAATCGAGATTTGAATAAAAAGGGCTAAATTGCATGTTTTGGGCTTAGGGACTAAATTGTATAAA
ATTAAAATGTTGGGGGTAATTTTGTAAAAATGTCAAAAAGAAATTAATTGCATAAAATGAATTAA
TTTTTTTTGTTAGAATTAGTGAATTGAATGAAATTATAATTTTAGATCAAGAACGAGTGGA
Found at i:44366644 original size:48 final size:48
Alignment explanation
Indices: 44366522--44367093 Score: 459
Period size: 48 Copynumber: 11.8 Consensus size: 48
44366512 GTAAAATGTA
* * * * *
44366522 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGATGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGC-C-CACATATCGATGCC
* * * * *
44366572 GATGCCAAGTTTCAAACATCGTCTTACACTAGCCCACATGTCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGATGCC
* * * * * * *
44366620 AATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGC-C-CACATATCGATGCC
* * * * * * *
44366670 AATGCTATGTCCCAAACATGGTCTTACACTATCACTCATATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGATGCC
* * * *
44366718 GATGCCATGTTCCAAACATGGTCTTAAACTGGCTCACATATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGATGCC
* * * ** *
44366766 GATGCCATGTTCTAAATATGGTCTTACACTGGTTCACATATCGATGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGATGCC
** * * *
44366814 GATGCCATGTTTTAAACATGGTCTTACACTAGCTCTCATATATTG-TGGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGC-C-CACATATCGAT-GCC
** * * * * * * * *
44366864 G-TTACATG-TCCAGATATGGTCTTACAATATCTCTCATATCAATGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGATGCC
* **** * *
44366910 GATGCCATGTTCCAAACATGGTCATACACTAGTTTTCATATCAATGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGATGCC
* * *
44366958 GATGCCATGTTCTAAACATGGTCTTACACT-GACTCACATATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAG-CCCACATATCGATGCC
* * *
44367006 GATGCCATGTTCCAAACATTGTCTTACACTGGCTCACATATCGATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGATGCC
* * *
44367054 GATGCCATGTTTCAAACATGGTATTACACTAGCTCACATA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATA
44367094 ACCCTAGTAT
Statistics
Matches: 425, Mismatches: 87, Indels: 22
0.80 0.16 0.04
Matches are distributed among these distances:
46 9 0.02
47 7 0.02
48 321 0.76
49 9 0.02
50 79 0.19
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGATGCC
Found at i:44366694 original size:98 final size:98
Alignment explanation
Indices: 44366523--44366743 Score: 264
Period size: 98 Copynumber: 2.3 Consensus size: 98
44366513 TAAAATGTAG
** * * **
44366523 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGATGTCGATGCCAAGTTTCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGTCAATGCCAAGTCCCAAA
* * *
44366588 CATCGTCTTACACTAGCCCACATGTCGAGGCCA
66 CATCGTCTTACACTAGCACACATATCAAGGCCA
* *
44366621 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGG-CTAATGCTATGTCCCAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGTC-AATGCCAAGTCCCAA
* * * * *
44366685 ACATGGTCTTACACTATCACTCATATCAATGCCG
65 ACATCGTCTTACACTAGCACACATATCAAGGCCA
* *
44366719 ATGCCATGTTCCAAACATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
44366744 AACTGGCTCA
Statistics
Matches: 104, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
97 1 0.01
98 103 0.99
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (98 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGTCAATGCCAAGTCCCAAA
CATCGTCTTACACTAGCACACATATCAAGGCCA
Found at i:44380081 original size:38 final size:38
Alignment explanation
Indices: 44380020--44380120 Score: 139
Period size: 38 Copynumber: 2.6 Consensus size: 38
44380010 ATTTGATGTG
*
44380020 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
44380060 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* *
44380098 TATCCCGGATAAATCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
44380121 CTAGTGTTGG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 43 0.77
39 5 0.09
40 8 0.14
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.25
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:44380132 original size:38 final size:38
Alignment explanation
Indices: 44380036--44380136 Score: 139
Period size: 38 Copynumber: 2.7 Consensus size: 38
44380026 GGCTTAAAGA
** * *
44380036 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCCGGATAAAT
44380074 CCCGCAGGCTTCGTGCTGGTATTATATCCCGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCCGGATAAAT
* * *
44380112 CCCGCAGGCCTAGTGTTGGTATTAT
1 CCCGCAGGCTTCGTGCTGGTATTAT
44380137 GTTCGAGCCT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCCGGATAAAT
Found at i:44380260 original size:43 final size:43
Alignment explanation
Indices: 44380138--44380247 Score: 211
Period size: 43 Copynumber: 2.6 Consensus size: 43
44380128 TGGTATTATG
*
44380138 TTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTA
1 TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTA
44380181 TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTA
1 TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTA
44380224 TTCGGGCCTTCGTGCCTAGCAGGC
1 TTCGGGCCTTCGTGCCTAGCAGGC
44380248 GTAATGCCGG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.10, C:0.27, G:0.34, T:0.29
Consensus pattern (43 bp):
TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTA
Found at i:44383532 original size:40 final size:40
Alignment explanation
Indices: 44383427--44383673 Score: 394
Period size: 40 Copynumber: 6.2 Consensus size: 40
44383417 CGGATTGATA
* *
44383427 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
44383467 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
44383506 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44383546 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44383586 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44383626 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
44383666 CC-GGCTAA
1 CCGGGCTAA
44383674 ACTCCGAAGG
Statistics
Matches: 198, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
39 43 0.22
40 155 0.78
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44391930 original size:39 final size:40
Alignment explanation
Indices: 44391639--44391920 Score: 457
Period size: 40 Copynumber: 7.1 Consensus size: 40
44391629 TGATACCCAT
* *
44391639 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGG
44391679 GCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
44391718 GCTAAGTCCC-AAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
44391757 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
44391797 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
44391837 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
44391877 GCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
44391916 GCTAA
1 GCTAA
44391921 ACTCCGAAGG
Statistics
Matches: 232, Mismatches: 6, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
39 82 0.35
40 150 0.65
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:44394353 original size:32 final size:32
Alignment explanation
Indices: 44394312--44394373 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
44394302 GCTTCAAAAC
* *
44394312 TTAGTTTAAAGTTTCGTTTAAAGTTTCCAACG
1 TTAGTTTAAAGTTTCATTGAAAGTTTCCAACG
44394344 TTAGTTTAAAGTTTCATTGAAAGTTTCCAA
1 TTAGTTTAAAGTTTCATTGAAAGTTTCCAA
44394374 TGTTTTAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.44
Consensus pattern (32 bp):
TTAGTTTAAAGTTTCATTGAAAGTTTCCAACG
Found at i:44398578 original size:24 final size:20
Alignment explanation
Indices: 44398549--44398600 Score: 52
Period size: 24 Copynumber: 2.5 Consensus size: 20
44398539 ATTTATGAAA
44398549 ATAAATATTAGATTAAATATAAT
1 ATAAATATT--ATTAAA-ATAAT
*
44398572 ATTAAATCTTATTAAAATAAT
1 A-TAAATATTATTAAAATAAT
44398593 A-AAATATT
1 ATAAATATT
44398601 TATCTACAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 6 0.23
21 6 0.23
22 6 0.23
23 1 0.04
24 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
ATAAATATTATTAAAATAAT
Found at i:44405292 original size:31 final size:31
Alignment explanation
Indices: 44405209--44405294 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
44405199 TCAATCTCAG
* *
44405209 CATAT-ACTGGGCCAAAGCCTTCACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
44405239 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
44405270 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
44405295 TGTAACGATA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:44405545 original size:26 final size:26
Alignment explanation
Indices: 44405512--44405579 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
44405502 CTCTTTTAAT
44405512 AACTAGGGCAAAACCCCATTTCGATA
1 AACTAGGGCAAAACCCCATTTCGATA
* * *
44405538 AACTAGGGCAAAAGCCCGTTTCGGTA
1 AACTAGGGCAAAACCCCATTTCGATA
* *
44405564 AGCTAGGGCATAACCC
1 AACTAGGGCAAAACCC
44405580 TTTTGCGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (26 bp):
AACTAGGGCAAAACCCCATTTCGATA
Found at i:44405661 original size:11 final size:11
Alignment explanation
Indices: 44405630--44405677 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
44405620 AAATGAATGC
44405630 ATCATGTGCAT
1 ATCATGTGCAT
*
44405641 ATCA--TACAT
1 ATCATGTGCAT
44405650 ATCATGTGCAT
1 ATCATGTGCAT
*
44405661 ATCATGT-CAA
1 ATCATGTGCAT
44405671 ATCATGT
1 ATCATGT
44405678 ATATCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:44410881 original size:47 final size:47
Alignment explanation
Indices: 44410830--44410960 Score: 167
Period size: 46 Copynumber: 2.8 Consensus size: 47
44410820 GAATTATGAG
*
44410830 GCATCCAAACTTGTTGAGTTGTGTTCCGAGTTCACTTATAGATG-CAA
1 GCATCCAAACTCGTTGAGTTGTGTTCCGAGTTCA-TTATAGATGTCAA
* * *
44410877 GCATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGTGAA
1 GCATCCAAACTCGTTGAGTTGTGTTCCGAGTTCATTATAGATGTCAA
* * * *
44410924 -CACCCAAGCTCATTGAGTTGCGTTCCGAGTTCATTAT
1 GCATCCAAACTCGTTGAGTTGTGTTCCGAGTTCATTAT
44410961 GGGTGAAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
46 40 0.54
47 34 0.46
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (47 bp):
GCATCCAAACTCGTTGAGTTGTGTTCCGAGTTCATTATAGATGTCAA
Found at i:44424449 original size:44 final size:44
Alignment explanation
Indices: 44424400--44424494 Score: 183
Period size: 44 Copynumber: 2.2 Consensus size: 44
44424390 TACACGGCCA
44424400 AGCACACGCCCATGGCAAGAGGCCGTGTCCTCCACACGGTTGAG
1 AGCACACGCCCATGGCAAGAGGCCGTGTCCTCCACACGGTTGAG
44424444 AGCACACGCCCATGGCAAGAGGCCGTGTCCTCCACACGGTTGAG
1 AGCACACGCCCATGGCAAGAGGCCGTGTCCTCCACACGGTTGAG
44424488 A-CACACG
1 AGCACACG
44424495 GTCATGTCTC
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 6 0.12
44 45 0.88
ACGTcount: A:0.24, C:0.35, G:0.28, T:0.13
Consensus pattern (44 bp):
AGCACACGCCCATGGCAAGAGGCCGTGTCCTCCACACGGTTGAG
Found at i:44426677 original size:29 final size:29
Alignment explanation
Indices: 44426620--44426751 Score: 115
Period size: 29 Copynumber: 4.6 Consensus size: 29
44426610 AATTTAAGCC
* **
44426620 CGCACACACAGTGCCATA-CCTTCCGAGCT
1 CGCACACATAGTGCCATATTTTTCC-AGCT
** *
44426649 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATTTTTCCAGCT
* *
44426678 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACATAGTGCCATATTTTTCCAGC-T
* * * *
44426708 -GCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATTTTTCCAGCT
*
44426736 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
44426752 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
29 80 0.94
30 5 0.06
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACATAGTGCCATATTTTTCCAGCT
Found at i:44434752 original size:29 final size:29
Alignment explanation
Indices: 44434695--44434826 Score: 115
Period size: 29 Copynumber: 4.6 Consensus size: 29
44434685 AATTTAAGCC
* **
44434695 CGCACACACAGTGCCATA-CCTTCCGAGCT
1 CGCACACATAGTGCCATATTTTTCC-AGCT
** *
44434724 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATTTTTCCAGCT
* *
44434753 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACATAGTGCCATATTTTTCCAGC-T
* * * *
44434783 -GCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATTTTTCCAGCT
*
44434811 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
44434827 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
29 80 0.94
30 5 0.06
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACATAGTGCCATATTTTTCCAGCT
Found at i:44442563 original size:18 final size:18
Alignment explanation
Indices: 44442530--44442641 Score: 107
Period size: 18 Copynumber: 6.2 Consensus size: 18
44442520 AGTTTCATTT
* *
44442530 AGTAACATTCAATTATTC
1 AGTAACAATCAGTTATTC
* *
44442548 AGTAGCAATTAGTTATTC
1 AGTAACAATCAGTTATTC
* **
44442566 AGTAACAATCATTTGCTC
1 AGTAACAATCAGTTATTC
* *
44442584 AGTAGCAATTAGTTATTC
1 AGTAACAATCAGTTATTC
* * *
44442602 GGTAACGATCAATTATTC
1 AGTAACAATCAGTTATTC
*
44442620 AGTAACAGTCAGTTATTC
1 AGTAACAATCAGTTATTC
44442638 AGTA
1 AGTA
44442642 CTTTTATTTA
Statistics
Matches: 71, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 71 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (18 bp):
AGTAACAATCAGTTATTC
Found at i:44442586 original size:36 final size:36
Alignment explanation
Indices: 44442530--44442641 Score: 134
Period size: 36 Copynumber: 3.1 Consensus size: 36
44442520 AGTTTCATTT
* *
44442530 AGTAACATTCAATTATTCAGTAGCAATTAGTTATTC
1 AGTAACAATCAATTACTCAGTAGCAATTAGTTATTC
* *
44442566 AGTAACAATCATTTGCTCAGTAGCAATTAGTTATTC
1 AGTAACAATCAATTACTCAGTAGCAATTAGTTATTC
* * * * * *
44442602 GGTAACGATCAATTATTCAGTAACAGTCAGTTATTC
1 AGTAACAATCAATTACTCAGTAGCAATTAGTTATTC
44442638 AGTA
1 AGTA
44442642 CTTTTATTTA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 63 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (36 bp):
AGTAACAATCAATTACTCAGTAGCAATTAGTTATTC
Found at i:44444182 original size:49 final size:50
Alignment explanation
Indices: 44444112--44444337 Score: 248
Period size: 49 Copynumber: 4.6 Consensus size: 50
44444102 TGAGGTCATG
*
44444112 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTAGGTCACA
* * *
44444161 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-ATAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCGAATAA-TT-AGGTCACA
* * **
44444212 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTTAGGTCAC-
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGA-ATAATTAGGTCACA
* * * * **
44444261 TGTGTAGTACTAAGTTCAGGCTACTACGTGTACTGGATAATT-GGTCGGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTAGGTCACA
44444310 TGTGTAGTACTAAGTGCAGGCTACTATG
1 TGTGTAGTACTAAGTGCAGGCTACTATG
44444338 CATACCAGAT
Statistics
Matches: 148, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
48 4 0.03
49 97 0.66
50 12 0.08
51 35 0.24
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTAGGTCACA
Found at i:44444284 original size:100 final size:97
Alignment explanation
Indices: 44444111--44444335 Score: 265
Period size: 100 Copynumber: 2.3 Consensus size: 97
44444101 GTGAGGTCAT
* * *
44444111 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGAATAATTGGTCACATGTGTAGTACTAAGT
*
44444176 GCAGGCTACTATGCGTACCCGATAACTTCAATCAC
66 GCAGGCTACTACGCGTACCCGATAA-TT-AATC-C
**
44444211 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG-ATGGTTAGGTCAC-TGTGTAGTACTAA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGAATAATT-GGTCACATGTGTAGTACTAA
* * ** ** *
44444274 GTTCAGGCTACTACGTGTACTGGATAATTGGTCG
64 GTGCAGGCTACTACGCGTACCCGATAATTAATCC
44444308 GATGTGTAGTACTAAGTGCAGGCTACTA
1 G-TGTGTAGTACTAAGTGCAGGCTACTA
44444336 TGCATACCAG
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
97 1 0.01
98 28 0.26
99 2 0.02
100 71 0.65
101 7 0.06
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (97 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGAATAATTGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGCGTACCCGATAATTAATCC
Found at i:44446749 original size:13 final size:12
Alignment explanation
Indices: 44446727--44446761 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
44446717 CAAAATTCCC
44446727 TTTCTTCTTTCT
1 TTTCTTCTTTCT
44446739 TTTCTTTCTTTCT
1 TTTC-TTCTTTCT
*
44446752 TTCCTTCTTT
1 TTTCTTCTTT
44446762 TCTTCTCTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTCTTCTTTCT
Found at i:44446808 original size:12 final size:11
Alignment explanation
Indices: 44446726--44446809 Score: 51
Period size: 12 Copynumber: 6.8 Consensus size: 11
44446716 TCAAAATTCC
*
44446726 CTTTCTTCTTT
1 CTTTCTTTTTT
44446737 CTTTTCTTTCTTT
1 C-TTTCTTT-TTT
44446750 CTTTCCTTCTTTT
1 CTTT-CTT-TTTT
*
44446763 CTTCTCTGTTTT
1 CTT-TCTTTTTT
*
44446775 CGTTTCATATTTT
1 C-TTTC-TTTTTT
*
44446788 GTTTCCTTTTTT
1 CTTT-CTTTTTT
44446800 CATTTCTTTT
1 C-TTTCTTTT
44446810 GTTTCTTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
11 1 0.02
12 29 0.50
13 26 0.45
14 2 0.03
ACGTcount: A:0.04, C:0.23, G:0.04, T:0.70
Consensus pattern (11 bp):
CTTTCTTTTTT
Found at i:44447251 original size:16 final size:17
Alignment explanation
Indices: 44447230--44447273 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
44447220 ATCTATTTCA
*
44447230 TAATATAATATCAA-TT
1 TAATATAATATCAACAT
44447246 TAATATAA-AT-AACAT
1 TAATATAATATCAACAT
44447261 TAATA-AATATCAA
1 TAATATAATATCAA
44447274 ATATAAGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 4 0.17
15 10 0.42
16 10 0.42
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATATAATATCAACAT
Done.