Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 152 of 240
Found at i:47863711 original size:5 final size:5
Alignment explanation
Indices: 47863701--47863745 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
47863691 AAAGATATTT
47863701 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
47863746 AAGAAAGGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:47864712 original size:25 final size:24
Alignment explanation
Indices: 47864684--47864791 Score: 91
Period size: 25 Copynumber: 4.6 Consensus size: 24
47864674 GTTTAGCGCC
*
47864684 CTCTCTGATTATTAGCACGTTGGTG
1 CTCTCTG-TTATTAGCACGTTAGTG
* * * *
47864709 CTCTCTGATTACTAGCATGTCACTG
1 CTCTCTG-TTATTAGCACGTTAGTG
*
47864734 CTCTCTG-T-TTAGCACATT-GTG
1 CTCTCTGTTATTAGCACGTTAGTG
*
47864755 CTCTCTG-T-TTAGCACTTTAGTG
1 CTCTCTGTTATTAGCACGTTAGTG
47864777 CTCTCTGTTCATTAG
1 CTCTCTGTT-ATTAG
47864792 TGCATAATAA
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
21 19 0.28
22 16 0.24
23 2 0.03
25 31 0.46
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.42
Consensus pattern (24 bp):
CTCTCTGTTATTAGCACGTTAGTG
Found at i:47864757 original size:21 final size:22
Alignment explanation
Indices: 47864732--47864785 Score: 92
Period size: 21 Copynumber: 2.5 Consensus size: 22
47864722 AGCATGTCAC
47864732 TGCTCTCTGTTTAGCACATT-G
1 TGCTCTCTGTTTAGCACATTAG
*
47864753 TGCTCTCTGTTTAGCACTTTAG
1 TGCTCTCTGTTTAGCACATTAG
47864775 TGCTCTCTGTT
1 TGCTCTCTGTT
47864786 CATTAGTGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (22 bp):
TGCTCTCTGTTTAGCACATTAG
Found at i:47872842 original size:21 final size:21
Alignment explanation
Indices: 47872818--47872862 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
47872808 ATTAATTTTC
* *
47872818 TATTAAATTTTTTTAAAAAAT
1 TATTAAATATTATTAAAAAAT
* *
47872839 TATTATATATTATTAAAATAT
1 TATTAAATATTATTAAAAAAT
47872860 TAT
1 TAT
47872863 AAAAATAGAA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTAAATATTATTAAAAAAT
Found at i:47872874 original size:18 final size:18
Alignment explanation
Indices: 47872853--47872904 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
47872843 ATATATTATT
47872853 AAAATATTATAAAAATA-G
1 AAAATA-TATAAAAATAGG
47872871 AAAA-ACTATAAAAATAGG
1 AAAATA-TATAAAAATAGG
*
47872889 AAAATATAAAAAAATA
1 AAAATATATAAAAATA
47872905 TAAGTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.37
18 18 0.60
19 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (18 bp):
AAAATATATAAAAATAGG
Found at i:47872882 original size:17 final size:16
Alignment explanation
Indices: 47872860--47872900 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
47872850 ATTAAAATAT
47872860 TATAAAAATAGAAAAA
1 TATAAAAATAGAAAAA
*
47872876 CTATAAAAATAGGAAAA
1 -TATAAAAATAGAAAAA
47872893 TATAAAAA
1 TATAAAAA
47872901 AATATAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (16 bp):
TATAAAAATAGAAAAA
Found at i:47872901 original size:17 final size:17
Alignment explanation
Indices: 47872853--47872901 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
47872843 ATATATTATT
47872853 AAAATATTATAAAAATAGA
1 AAAATA-TA-AAAAATAGA
*
47872872 AAAACTAT-AAAAATAGG
1 AAAA-TATAAAAAATAGA
47872889 AAAATATAAAAAA
1 AAAATATAAAAAA
47872902 ATATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 3 0.11
17 17 0.63
19 5 0.19
20 2 0.07
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (17 bp):
AAAATATAAAAAATAGA
Found at i:47872916 original size:18 final size:18
Alignment explanation
Indices: 47872895--47872944 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
47872885 TAGGAAAATA
47872895 TAAAAAAATA-TAAGTTAT
1 TAAAAAAATATTAAG-TAT
*
47872913 T-AAAAATTATTAAGTAT
1 TAAAAAAATATTAAGTAT
*
47872930 TATAAAAAATTTTAA
1 TA-AAAAAATATTAA
47872945 CAATTACTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 11 0.42
18 5 0.19
19 10 0.38
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
TAAAAAAATATTAAGTAT
Found at i:47872950 original size:19 final size:20
Alignment explanation
Indices: 47872909--47872950 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
47872899 AAAATATAAG
* **
47872909 TTATTAAAAATTATTAAGTA
1 TTATAAAAAATTATTAACAA
47872929 TTATAAAAAATT-TTAACAA
1 TTATAAAAAATTATTAACAA
47872948 TTA
1 TTA
47872951 CTACTCCTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TTATAAAAAATTATTAACAA
Found at i:47881956 original size:21 final size:21
Alignment explanation
Indices: 47881932--47881993 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 21
47881922 GACTCAAGAA
47881932 AATTTTGTCCTGATCAAAAAC
1 AATTTTGTCCTGATCAAAAAC
* * *
47881953 AA--TTG-ACTCAT-AAGAA-
1 AATTTTGTCCTGATCAAAAAC
47881969 AATTTTGTCCTGATCAAAAAC
1 AATTTTGTCCTGATCAAAAAC
47881990 AATT
1 AATT
47881994 GACTCAGGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 2 0.07
17 4 0.13
18 7 0.23
19 7 0.23
20 4 0.13
21 6 0.20
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (21 bp):
AATTTTGTCCTGATCAAAAAC
Found at i:47881973 original size:37 final size:36
Alignment explanation
Indices: 47881918--47881999 Score: 148
Period size: 37 Copynumber: 2.3 Consensus size: 36
47881908 TTCCTGCCAA
47881918 AATTGACTC-AAGAAAATTTTGTCCTGATCAAAAAC
1 AATTGACTCAAAGAAAATTTTGTCCTGATCAAAAAC
47881953 AATTGACTCATAAGAAAATTTTGTCCTGATCAAAAAC
1 AATTGACTCA-AAGAAAATTTTGTCCTGATCAAAAAC
47881990 AATTGACTCA
1 AATTGACTCA
47882000 GGAATTTCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
35 9 0.20
37 36 0.80
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (36 bp):
AATTGACTCAAAGAAAATTTTGTCCTGATCAAAAAC
Found at i:47884527 original size:67 final size:67
Alignment explanation
Indices: 47884419--47884553 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
47884409 TTTCCAATTT
* * *
47884419 AGAGAGCACACTCCCGCAAACTTCATTTCTTACAACTGGATTACCAGTCCAGGCTAAATCCCTTG
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCCCTG
47884484 CA
66 CA
* * *
47884486 AGAGAGCACACTCTCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCCCTG
47884551 CA
66 CA
47884553 A
1 A
47884554 TGACAATTAC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCAAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:47890292 original size:15 final size:16
Alignment explanation
Indices: 47890253--47890294 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47890243 AATTTTTAAA
47890253 ATATATATTT-ATATTT
1 ATATA-ATTTAATATTT
*
47890269 ATATTATTTAATATTT
1 ATATAATTTAATATTT
47890285 A-ATAATTTAA
1 ATATAATTTAA
47890295 CACATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATAATTTAATATTT
Found at i:47891109 original size:17 final size:17
Alignment explanation
Indices: 47891023--47891112 Score: 58
Period size: 17 Copynumber: 5.2 Consensus size: 17
47891013 TTTTATATTT
*
47891023 AAAATATAAAAGTTATA
1 AAAATATAAAAATTATA
47891040 AAAATTACATAAAAATTATTA
1 AAAA-T--ATAAAAATTA-TA
* *
47891061 AAAATA-GAAAA-TATT
1 AAAATATAAAAATTATA
* ** *
47891076 AAAGTGCAAAAAATATA
1 AAAATATAAAAATTATA
*
47891093 AAAATATAAAATTTATA
1 AAAATATAAAAATTATA
47891110 AAA
1 AAA
47891113 TTATTATAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
15 5 0.09
16 6 0.11
17 26 0.47
18 2 0.04
20 10 0.18
21 6 0.11
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (17 bp):
AAAATATAAAAATTATA
Found at i:47891181 original size:19 final size:20
Alignment explanation
Indices: 47891140--47891205 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
47891130 TATATATTAT
* * *
47891140 AAAAATAATTACAAACTACA
1 AAAAATTATTACAAAATAAA
47891160 AAAAATTATTA-AAAAT-AA
1 AAAAATTATTACAAAATAAA
* * *
47891178 AAAAATTTTATATAAAATAAT
1 AAAAATTAT-TACAAAATAAA
47891199 AAAAATT
1 AAAAATT
47891206 GTAAAAATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 9 0.24
19 6 0.16
20 15 0.39
21 8 0.21
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATTATTACAAAATAAA
Found at i:47894018 original size:17 final size:16
Alignment explanation
Indices: 47893996--47894037 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
47893986 AACTTGAGCC
*
47893996 TTTATTTATTAATTTAT
1 TTTATTTATTAA-TTAA
*
47894013 TTTATTAATTAATTAA
1 TTTATTTATTAATTAA
47894029 TTTATTTAT
1 TTTATTTAT
47894038 GAAATAGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATTTATTAATTAA
Found at i:47896638 original size:10 final size:10
Alignment explanation
Indices: 47896623--47896650 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
47896613 TTCGACCCCA
47896623 TTTCTTTTTT
1 TTTCTTTTTT
47896633 TTTCTTTTTT
1 TTTCTTTTTT
47896643 TTTCTTTT
1 TTTCTTTT
47896651 CTCCTCTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:47899526 original size:43 final size:42
Alignment explanation
Indices: 47899482--47899641 Score: 191
Period size: 43 Copynumber: 3.8 Consensus size: 42
47899472 CGATACGTGT
* *
47899482 TTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTTGTGT
1 TTTCATGTAAGACCACGTCTGGGACATTGGCATCGA-TTGTGA
*
47899525 TTTCATGTAAGACCATGTCTGGGACATTGGCATCGTATT-TGA
1 TTTCATGTAAGACCACGTCTGGGACATTGGCATCG-ATTGTGA
* * *
47899567 TTT-GTGTAAGACC-CTGTCTAGGACAGTGGCATCGATATGTGA
1 TTTCATGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TGTGA
* *
47899609 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTTCATGTAAGACCACGTCTGGGACATTGGCAT
47899642 TGTACGAGTC
Statistics
Matches: 99, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
40 2 0.02
41 27 0.27
42 10 0.10
43 58 0.59
44 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (42 bp):
TTTCATGTAAGACCACGTCTGGGACATTGGCATCGATTGTGA
Found at i:47899629 original size:84 final size:84
Alignment explanation
Indices: 47899486--47899641 Score: 226
Period size: 84 Copynumber: 1.9 Consensus size: 84
47899476 ACGTGTTTTC
* * * * *
47899486 GTGTAAGACCACGTCTGGGACATTGGCATCGACTTGTGTTTTCATGTAAGACCATGTCTGGGACA
1 GTGTAAGACCACGTCTAGGACAGTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGACA
47899551 TTGGCATCGTATTTGATTT
66 TTGGCATCGTATTTGATTT
47899570 GTGTAAGACC-CTGTCTAGGACAGTGGCATCGA-TATGTGATTACATGTAAGACCACGTCTGGGA
1 GTGTAAGACCAC-GTCTAGGACAGTGGCATCGACT-TGTGATTACATGTAAGACCACGTCTGGGA
*
47899633 CGTTGGCAT
64 CATTGGCAT
47899642 TGTACGAGTC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
83 2 0.03
84 62 0.97
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (84 bp):
GTGTAAGACCACGTCTAGGACAGTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGACA
TTGGCATCGTATTTGATTT
Found at i:47899831 original size:16 final size:17
Alignment explanation
Indices: 47899802--47899833 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47899792 TGAATTGTTG
47899802 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
47899819 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
47899834 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:47906058 original size:17 final size:17
Alignment explanation
Indices: 47906027--47906068 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
47906017 ATATATAAAT
47906027 AATTAAA-TAAATTGGA
1 AATTAAATTAAATTGGA
*
47906043 AATTAAATTGAATTGGA
1 AATTAAATTAAATTGGA
47906060 AATTAAATT
1 AATTAAATT
47906069 CAAAATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
AATTAAATTAAATTGGA
Found at i:47906820 original size:58 final size:58
Alignment explanation
Indices: 47906758--47906871 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 58
47906748 TGCAATAGCT
*
47906758 ATTGATGCATGAATTTGGAAAGGAAATAAAATAATTCTTATTTAATCCAAATGAAACC
1 ATTGACGCATGAATTTGGAAAGGAAATAAAATAATTCTTATTTAATCCAAATGAAACC
*
47906816 ATTGACGCATGAATTTGGAAAGGAAATAAAGTAATTCTTATTTAATCCAAATGAAA
1 ATTGACGCATGAATTTGGAAAGGAAATAAAATAATTCTTATTTAATCCAAATGAAA
47906872 TCAAGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.31
Consensus pattern (58 bp):
ATTGACGCATGAATTTGGAAAGGAAATAAAATAATTCTTATTTAATCCAAATGAAACC
Found at i:47908610 original size:27 final size:28
Alignment explanation
Indices: 47908563--47908615 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
47908553 GTGAATACAA
*
47908563 ATAAATTTTGTTATTAAAAAA-AATTAT
1 ATAAATTTTATTATTAAAAAATAATTAT
* *
47908590 ATAAATTTTATTTTTATAAAATAATT
1 ATAAATTTTATTATTAAAAAATAATT
47908616 TAATAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
ATAAATTTTATTATTAAAAAATAATTAT
Found at i:47908621 original size:28 final size:26
Alignment explanation
Indices: 47908562--47908621 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
47908552 AGTGAATACA
*
47908562 AATAAATTTTGTTATTAAAAAAAATT
1 AATAAATTTTATTATTAAAAAAAATT
* *
47908588 ATATAAATTTTATTTTTATAAAATAATTT
1 A-ATAAATTTTATTATTA-AAAA-AAATT
47908617 AATAA
1 AATAA
47908622 TATATACAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.04
27 14 0.50
28 8 0.29
29 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
AATAAATTTTATTATTAAAAAAAATT
Found at i:47908671 original size:17 final size:16
Alignment explanation
Indices: 47908649--47908724 Score: 70
Period size: 17 Copynumber: 4.9 Consensus size: 16
47908639 TCATAAATAA
47908649 AATATAAATTATTGTTT
1 AATATAAATTATT-TTT
* *
47908666 AATATAAAGTAATTTT
1 AATATAAATTATTTTT
*
47908682 AA-ATAATTTAATTTTT
1 AATATAAATT-ATTTTT
*
47908698 AATATAAA-TAATTTT
1 AATATAAATTATTTTT
47908713 AA-AT-AATTATTT
1 AATATAAATTATTT
47908725 ATTATATTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
13 2 0.04
14 6 0.12
15 12 0.25
16 13 0.27
17 15 0.31
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
AATATAAATTATTTTT
Found at i:47908697 original size:16 final size:15
Alignment explanation
Indices: 47908675--47908720 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
47908665 TAATATAAAG
47908675 TAATTTTAAATAATT
1 TAATTTTAAATAATT
*
47908690 TAATTTTTAATATAA-A
1 TAA-TTTTAA-ATAATT
47908706 TAATTTTAAATAATT
1 TAATTTTAAATAATT
47908721 ATTTATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 4 0.15
15 9 0.35
16 9 0.35
17 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTTTAAATAATT
Found at i:47908774 original size:13 final size:13
Alignment explanation
Indices: 47908756--47908809 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
47908746 ATTATCCTTA
* *
47908756 ATAATAATTTATT
1 ATAATAAATAATT
47908769 ATAATAAATAATT
1 ATAATAAATAATT
47908782 AT-A-AAATAATT
1 ATAATAAATAATT
47908793 A-AATAAAATAATT
1 ATAAT-AAATAATT
47908806 ATAA
1 ATAA
47908810 AATATTCTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
11 10 0.29
12 1 0.03
13 22 0.63
14 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAATAAATAATT
Found at i:47908790 original size:11 final size:11
Alignment explanation
Indices: 47908774--47908813 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
47908764 TTATTATAAT
47908774 AAATAATTATA
1 AAATAATTATA
47908785 AAATAATTAAATA
1 AAATAATT--ATA
47908798 AAATAATTATA
1 AAATAATTATA
47908809 AAATA
1 AAATA
47908814 TTCTGAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 16 0.59
13 11 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATTATA
Found at i:47908801 original size:24 final size:24
Alignment explanation
Indices: 47908766--47908813 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
47908756 ATAATAATTT
47908766 ATTATAATAAATAATTATAAAATA
1 ATTATAATAAATAATTATAAAATA
47908790 ATTA-AATAAAATAATTATAAAATA
1 ATTATAAT-AAATAATTATAAAATA
47908814 TTCTGAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
ATTATAATAAATAATTATAAAATA
Found at i:47910161 original size:12 final size:12
Alignment explanation
Indices: 47910146--47910171 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47910136 ATTAATTAAT
47910146 TTACTATTATTA
1 TTACTATTATTA
47910158 TTACTATTATTA
1 TTACTATTATTA
47910170 TT
1 TT
47910172 TTCCTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
TTACTATTATTA
Found at i:47911632 original size:25 final size:24
Alignment explanation
Indices: 47911604--47911657 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
47911594 TTACAAAGAG
*
47911604 AAAGTCCTAATAGAATTCCTAATTT
1 AAAGTACTAATAGAATTCCTAA-TT
* * *
47911629 AAAGTATTTATAGAATTCGTAATT
1 AAAGTACTAATAGAATTCCTAATT
47911653 AAAGT
1 AAAGT
47911658 TTATAAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (24 bp):
AAAGTACTAATAGAATTCCTAATT
Found at i:47911667 original size:24 final size:25
Alignment explanation
Indices: 47911615--47911667 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
47911605 AAGTCCTAAT
*
47911615 AGAATTCCTAATTTAAAGTATTTAT
1 AGAATTCCTAATTTAAAGTATTTAA
*
47911640 AGAATTCGTAA-TTAAAGT-TTATAA
1 AGAATTCCTAATTTAAAGTATT-TAA
47911664 AGAA
1 AGAA
47911668 ATAAAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 2 0.08
24 13 0.52
25 10 0.40
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (25 bp):
AGAATTCCTAATTTAAAGTATTTAA
Found at i:47912236 original size:16 final size:16
Alignment explanation
Indices: 47912203--47912236 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47912193 GACTTTTGTT
* *
47912203 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
47912219 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
47912235 AA
1 AA
47912237 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:47915038 original size:21 final size:21
Alignment explanation
Indices: 47915012--47915052 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47915002 AGACGAGCAA
* *
47915012 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
47915033 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
47915053 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:47916991 original size:16 final size:16
Alignment explanation
Indices: 47916958--47916991 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47916948 GGAGATTGTT
* *
47916958 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
47916974 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
47916990 AA
1 AA
47916992 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:47930336 original size:16 final size:16
Alignment explanation
Indices: 47930315--47930354 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
47930305 CCTACTCCTT
47930315 CCCAATTTAAACCCAG
1 CCCAATTTAAACCCAG
*
47930331 CCCAATTTAAATCCAG
1 CCCAATTTAAACCCAG
47930347 CCCAATTT
1 CCCAATTT
47930355 TCTCTTAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.05, T:0.25
Consensus pattern (16 bp):
CCCAATTTAAACCCAG
Found at i:47931061 original size:17 final size:17
Alignment explanation
Indices: 47931003--47931061 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
47930993 TCAAAATAAT
47931003 TTTAAATAATTT-TAAAA
1 TTTAAA-AATTTATAAAA
* * *
47931020 TTTCAAAATTTATATAT
1 TTTAAAAATTTATAAAA
47931037 TTTAAAAATTTATAAAAA
1 TTTAAAAATTTAT-AAAA
47931055 TTTAAAA
1 TTTAAAA
47931062 GAATACATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 5 0.15
17 20 0.59
18 9 0.26
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTAAAAATTTATAAAA
Found at i:47937638 original size:60 final size:60
Alignment explanation
Indices: 47937524--47937638 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
47937514 TAATTCAATG
** * * *
47937524 ATCATTTTGTAATTTTTTGAAGTTAAATAATTAAAGTGTAAACTTTCTAGTAGTTCAGCA
1 ATCATTTTGTAATTTTTTGAAGTTAAATAACCAAAGTGTAAACTTACGAATAGTTCAGCA
* * *
47937584 ATCATTTTGTAACTTTTTT-AAGTTGAGTGACCAAAGTGTAAACTTACGAATAGTT
1 ATCATTTTGTAA-TTTTTTGAAGTTAAATAACCAAAGTGTAAACTTACGAATAGTT
47937639 TAATGACCTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 40 0.87
61 6 0.13
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.42
Consensus pattern (60 bp):
ATCATTTTGTAATTTTTTGAAGTTAAATAACCAAAGTGTAAACTTACGAATAGTTCAGCA
Found at i:47947820 original size:27 final size:27
Alignment explanation
Indices: 47947780--47948001 Score: 329
Period size: 27 Copynumber: 8.2 Consensus size: 27
47947770 GTAATGAGCC
47947780 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
**
47947807 TAAAATGATTGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
47947834 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
47947861 TAAAATGACCGAAATACCCTCGAAGGT
1 TAAAATGACCGAAATACCCTCGAAGGG
** *
47947888 TAAAATGACTAAAATAGCCC-CAAAGGG
1 TAAAATGACCGAAATA-CCCTCGAAGGG
* * *
47947915 TAAAATGACCGAAATACCCTGGAATGA
1 TAAAATGACCGAAATACCCTCGAAGGG
47947942 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
47947969 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
47947996 TAAAAT
1 TAAAAT
47948002 TATCTGTAAC
Statistics
Matches: 174, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 3 0.02
27 168 0.97
28 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:47970536 original size:14 final size:14
Alignment explanation
Indices: 47970517--47970543 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47970507 TTAAAGATGA
47970517 TTAAAAACTAAGTG
1 TTAAAAACTAAGTG
47970531 TTAAAAACTAAGT
1 TTAAAAACTAAGT
47970544 AAAAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (14 bp):
TTAAAAACTAAGTG
Found at i:47985642 original size:16 final size:15
Alignment explanation
Indices: 47985617--47985650 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
47985607 AAAGTTGATA
*
47985617 ATAATTAATATATATT
1 ATAATAAATATA-ATT
47985633 ATAATAAATATAATT
1 ATAATAAATATAATT
47985648 ATA
1 ATA
47985651 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:47994120 original size:122 final size:122
Alignment explanation
Indices: 47993903--47994146 Score: 461
Period size: 122 Copynumber: 2.0 Consensus size: 122
47993893 ATCTCTGGCA
*
47993903 CTTATCACTATTAGTGTCTTTGCTAGAAGTGCTCATTATCAGGCATGTATCTTAGCTGCTTGTTT
1 CTTATCACTATTAGTGTCTTTGATAGAAGTGCTCATTATCAGGCATGTATCTTAGCTGCTTGTTT
47993968 ACCGATGTACATGTAAGATGCTTTAGTTAATGTATATGTTTCCTTACTGCAATGTAT
66 ACCGATGTACATGTAAGATGCTTTAGTTAATGTATATGTTTCCTTACTGCAATGTAT
47994025 CTTATCACTATTAGTGTCTTTGATAGAAGTGCTCATTATCAGGCATGTATCTTAGCTGCTTGTTT
1 CTTATCACTATTAGTGTCTTTGATAGAAGTGCTCATTATCAGGCATGTATCTTAGCTGCTTGTTT
* *
47994090 ACTGATGTACATGTAAGATGCTTTAGTTAATGTATGTGTTTCCTTACTGCAATGTAT
66 ACCGATGTACATGTAAGATGCTTTAGTTAATGTATATGTTTCCTTACTGCAATGTAT
47994147 TAATATCCTC
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 119 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (122 bp):
CTTATCACTATTAGTGTCTTTGATAGAAGTGCTCATTATCAGGCATGTATCTTAGCTGCTTGTTT
ACCGATGTACATGTAAGATGCTTTAGTTAATGTATATGTTTCCTTACTGCAATGTAT
Found at i:47997242 original size:24 final size:21
Alignment explanation
Indices: 47997200--47997243 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
47997190 TTAAGCTTAT
*
47997200 AAATAAAAAAAACCTTTAAGA
1 AAATAAAAAAAACCATTAAGA
47997221 AAATAAAATAAAAACCAATTAAG
1 AAAT-AAA-AAAAACC-ATTAAG
47997244 CCCCTGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 7 0.37
24 5 0.26
ACGTcount: A:0.68, C:0.09, G:0.05, T:0.18
Consensus pattern (21 bp):
AAATAAAAAAAACCATTAAGA
Found at i:47997435 original size:9 final size:9
Alignment explanation
Indices: 47997423--47997500 Score: 72
Period size: 9 Copynumber: 8.6 Consensus size: 9
47997413 AAAAGCATAA
47997423 AAAAATTAT
1 AAAAATTAT
47997432 AAAAA-TAT
1 AAAAATTAT
47997440 AAAAATTAAT
1 AAAAATT-AT
*
47997450 ATAAACTTAT
1 A-AAAATTAT
*
47997460 TAAAATTAT
1 AAAAATTAT
47997469 AAAAAAGTTAT
1 -AAAAA-TTAT
*
47997480 AAATATTAT
1 AAAAATTAT
47997489 -AAAA-TAT
1 AAAAATTAT
47997496 AAAAA
1 AAAAA
47997501 ATCTAATTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
7 3 0.05
8 15 0.26
9 17 0.30
10 13 0.23
11 9 0.16
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:47997511 original size:29 final size:28
Alignment explanation
Indices: 47997427--47997530 Score: 90
Period size: 29 Copynumber: 3.6 Consensus size: 28
47997417 GCATAAAAAA
47997427 ATTATAAAA-ATATAAAAATTAATATAAACTT
1 ATTATAAAATATA-AAAAATTAAT-TAAA--T
*
47997458 ATTA-AAATTATAAAAAAGTT-A-TAAAT
1 ATTATAAAATATAAAAAA-TTAATTAAAT
47997484 ATTATAAAATATAAAAAATCTAATTAAAT
1 ATTATAAAATATAAAAAAT-TAATTAAAT
* * *
47997513 CTAATAAATTATAAAAAA
1 ATTATAAAATATAAAAAA
47997531 AATATAAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
26 6 0.10
27 13 0.21
28 5 0.08
29 20 0.32
30 9 0.15
31 9 0.15
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (28 bp):
ATTATAAAATATAAAAAATTAATTAAAT
Found at i:47997538 original size:27 final size:26
Alignment explanation
Indices: 47997437--47997547 Score: 80
Period size: 29 Copynumber: 4.0 Consensus size: 26
47997427 ATTATAAAAA
* *
47997437 TATAAAAATTAATATAAACTTATTAAAAT
1 TATAAAAA-AAATATAAA-TTAAT-AAAT
** * *
47997466 TATAAAAAAGTTATAAATATTATAAAA
1 TATAAAAAAAATATAAAT-TAATAAAT
47997493 TATAAAAAATCTAAT-TAAATCTAATAAAT
1 TATAAAAAA---AATATAAAT-TAATAAAT
47997522 TATAAAAAAAATATAAAATTAATAAA
1 TATAAAAAAAATAT-AAATTAATAAA
47997548 ACTTAATTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
26 3 0.05
27 21 0.32
28 12 0.18
29 28 0.43
30 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (26 bp):
TATAAAAAAAATATAAATTAATAAAT
Found at i:47997553 original size:10 final size:9
Alignment explanation
Indices: 47997424--47997560 Score: 61
Period size: 10 Copynumber: 14.6 Consensus size: 9
47997414 AAAGCATAAA
47997424 AAAATT-AT
1 AAAATTAAT
*
47997432 AAAAAT-AT
1 AAAATTAAT
47997440 AAAAATTAAT
1 -AAAATTAAT
*
47997450 ATAAACTTATT
1 A-AAA-TTAAT
*
47997461 AAAATTATAA
1 AAAATTA-AT
47997471 AAAAGTT-AT
1 AAAA-TTAAT
47997480 AAATATT-AT
1 AAA-ATTAAT
47997489 AAAATATAA-
1 AAAAT-TAAT
47997498 AAAATCTAAT
1 AAAAT-TAAT
*
47997508 TAAATCTAAT
1 AAAAT-TAAT
* *
47997518 AAATTATAAA
1 AAAAT-TAAT
*
47997528 AAAAAT-AT
1 AAAATTAAT
47997536 AAAATTAAT
1 AAAATTAAT
47997545 AAAACTTAATT
1 AAAA-TTAA-T
47997556 AAAAT
1 AAAAT
47997561 ATTTAAAATA
Statistics
Matches: 100, Mismatches: 16, Indels: 24
0.71 0.11 0.17
Matches are distributed among these distances:
8 15 0.15
9 36 0.36
10 37 0.37
11 12 0.12
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAATTAAT
Found at i:47997608 original size:21 final size:21
Alignment explanation
Indices: 47997569--47997608 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47997559 ATATTTAAAA
*
47997569 TAAAAAAAATATTAGAATTCT
1 TAAAAAAAATAATAGAATTCT
47997590 TAAAAAATAATAATA-AATT
1 TAAAAAA-AATAATAGAATT
47997609 GTAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
TAAAAAAAATAATAGAATTCT
Found at i:47998345 original size:16 final size:15
Alignment explanation
Indices: 47998326--47998369 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
47998316 AAACAATTAG
*
47998326 TTAATTAATTAAAGTT
1 TTAATTAACT-AAGTT
47998342 TTAATTAACTAAGTT
1 TTAATTAACTAAGTT
*
47998357 TAAATTTAACTAA
1 TTAA-TTAACTAA
47998370 TTATATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (15 bp):
TTAATTAACTAAGTT
Found at i:47999340 original size:15 final size:15
Alignment explanation
Indices: 47999320--47999351 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47999310 TTACTTTAGA
47999320 TTTTTTTATTGAATG
1 TTTTTTTATTGAATG
*
47999335 TTTTTTTGTTGAATG
1 TTTTTTTATTGAATG
47999350 TT
1 TT
47999352 CTTTAAGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.69
Consensus pattern (15 bp):
TTTTTTTATTGAATG
Found at i:48002901 original size:61 final size:61
Alignment explanation
Indices: 48002777--48002902 Score: 191
Period size: 61 Copynumber: 2.1 Consensus size: 61
48002767 TCCATCTCAA
*
48002777 TTCGCAAGCTCTTTGTTTGCAACTCGCATGCAACCCTTGGAGACTATTCGTATTGCACCAG
1 TTCGCAAGCTCTTTGTTTGCAACTCGCATGCAACCCTTGGAGACTATTCGCATTGCACCAG
* * * *
48002838 TTCGCAAGCTCTTTGTTTGTACCTCGCATGCAACCCTTGGAGACTGTTCGCACTT-CACTAG
1 TTCGCAAGCTCTTTGTTTGCAACTCGCATGCAACCCTTGGAGACTATTCGCA-TTGCACCAG
48002899 TTCG
1 TTCG
48002903 TAGCTCTATC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 57 0.97
62 2 0.03
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.33
Consensus pattern (61 bp):
TTCGCAAGCTCTTTGTTTGCAACTCGCATGCAACCCTTGGAGACTATTCGCATTGCACCAG
Found at i:48011069 original size:19 final size:20
Alignment explanation
Indices: 48011045--48011096 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
48011035 AATACTGATA
*
48011045 TTAATAAT-AATTTATTAAT
1 TTAATAATAAATTGATTAAT
* *
48011064 TTAATATTAAATTGATTATT
1 TTAATAATAAATTGATTAAT
*
48011084 TTAATATTAAATT
1 TTAATAATAAATT
48011097 TAATTTAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTAATAATAAATTGATTAAT
Found at i:48011081 original size:20 final size:20
Alignment explanation
Indices: 48011053--48011096 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
48011043 TATTAATAAT
*
48011053 AATTTATTAATTTAATATTA
1 AATTGATTAATTTAATATTA
*
48011073 AATTGATTATTTTAATATTA
1 AATTGATTAATTTAATATTA
48011093 AATT
1 AATT
48011097 TAATTTAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
AATTGATTAATTTAATATTA
Found at i:48014283 original size:14 final size:14
Alignment explanation
Indices: 48014264--48014290 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48014254 ATTAGTACAG
48014264 TTTATTAGTTAAAA
1 TTTATTAGTTAAAA
48014278 TTTATTAGTTAAA
1 TTTATTAGTTAAA
48014291 GTCTCCCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTATTAGTTAAAA
Found at i:48015425 original size:49 final size:50
Alignment explanation
Indices: 48015369--48015555 Score: 207
Period size: 49 Copynumber: 3.6 Consensus size: 50
48015359 TCTTGTACTA
* * *
48015369 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATAGGTG
* * * *
48015419 CC-ATGCCATGTCCCAAACATGGTCTTACGA-GGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACTTCTCATATAGGTG
* *
48015468 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATAATCTCAATGATT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--T--A-GGTG
*
48015524 CCAATTCCATGTCCCAGACATGGTCTTACATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG
48015556 AGATCTCTTT
Statistics
Matches: 114, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
49 41 0.36
50 39 0.34
53 1 0.01
56 33 0.29
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATAGGTG
Found at i:48029339 original size:20 final size:20
Alignment explanation
Indices: 48029301--48029338 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48029291 TTAATTTCTG
**
48029301 TGTTTTGTTTTCTTATTTTA
1 TGTTTTGTTTAATTATTTTA
48029321 TGTTTTGTTTAATT-TTTT
1 TGTTTTGTTTAATTATTTT
48029339 TTCAAAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.76
Consensus pattern (20 bp):
TGTTTTGTTTAATTATTTTA
Found at i:48029967 original size:18 final size:18
Alignment explanation
Indices: 48029922--48029968 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
48029912 GTTAAAACAA
48029922 AGTGAGTGGAACAAAAGCAT
1 AGTGAGT-G-ACAAAAGCAT
*
48029942 AGTTAGTGACAAAAGCAT
1 AGTGAGTGACAAAAGCAT
*
48029960 TGTGAGTGA
1 AGTGAGTGA
48029969 AAGAGTGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.71
19 1 0.04
20 6 0.25
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.21
Consensus pattern (18 bp):
AGTGAGTGACAAAAGCAT
Found at i:48040429 original size:113 final size:113
Alignment explanation
Indices: 48040192--48040462 Score: 328
Period size: 113 Copynumber: 2.4 Consensus size: 113
48040182 GCGGTATTTT
* * * ** * * * * * * * *
48040192 TAGCGGCACTTTTTTAAAAATGCTGCTATAGGTTGACCATTAGCGATGCTTTTTGAAAAATGCTG
1 TAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCAACGCATTTTGAAAAACGCCG
* *
48040257 CAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGAGCTTCAGTGGCAT
66 CAAAAAAATTAAGCACAA--CCGTCGTTTTATGTTGAGCTTCAATGGCAG
* *
48040307 TAGCGGCGCTTTTTGAAAAACGTCACTATAGATCGAGCATTAGCAACGCATTTTGTAAAACGCCG
1 TAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCAACGCATTTTGAAAAACGCCG
*
48040372 CAAAAAAATTTAAGCACAA-CGTCGTTTTATGTTGAGCTTTAATGGCAG
66 CAAAAAAA-TTAAGCACAACCGTCGTTTTATGTTGAGCTTCAATGGCAG
* *
48040420 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCTTTAG
1 TAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGAGCATTAG
48040463 TGACTCTTTA
Statistics
Matches: 134, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
113 66 0.49
115 58 0.43
116 10 0.07
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (113 bp):
TAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCAACGCATTTTGAAAAACGCCG
CAAAAAAATTAAGCACAACCGTCGTTTTATGTTGAGCTTCAATGGCAG
Found at i:48040488 original size:113 final size:114
Alignment explanation
Indices: 48040192--48040496 Score: 319
Period size: 113 Copynumber: 2.7 Consensus size: 114
48040182 GCGGTATTTT
* * * ** * * * * * * *
48040192 TAGCGGCACTTTTTTAAAAATGCTGCTATAGGTTGACCATTAGCGATGCTTTTTGAAAAATGCTG
1 TAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCAACGCATTTTCAAAAATGCTG
* *
48040257 CAAAAAAA-TTAAGCACAACGCCGTCGTTTTATGTTGAGCTTCAGTGGCAT
66 CAAAAAAATTTAAGCACAA--CCGTCGTTTTATGTTGAGCTTCAATGGCAG
* ** * *
48040307 TAGCGGCGCTTTTTGAAAAACGTCACTATAGATCGAGCATTAGCAACGCATTTTGTAAAACGCCG
1 TAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCAACGCATTTTCAAAAATGCTG
*
48040372 CAAAAAAATTTAAGCACAA-CGTCGTTTTATGTTGAGCTTTAATGGCAG
66 CAAAAAAATTTAAGCACAACCGTCGTTTTATGTTGAGCTTCAATGGCAG
* * ** * *
48040420 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCTTTAGTGACTC-TTTATCAAAAATGTT
1 TAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCAACGCATTT-TCAAAAATGCT
48040484 GCAAAAAACATTT
65 GCAAAAAA-ATTT
48040497 TTTCTGTCTA
Statistics
Matches: 158, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
112 3 0.02
113 83 0.53
114 4 0.03
115 58 0.37
116 10 0.06
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (114 bp):
TAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCAACGCATTTTCAAAAATGCTG
CAAAAAAATTTAAGCACAACCGTCGTTTTATGTTGAGCTTCAATGGCAG
Found at i:48040837 original size:14 final size:14
Alignment explanation
Indices: 48040788--48040840 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
48040778 TTAATTATCA
* *
48040788 TTATAGTTTAAGGT
1 TTATGGTTTAGGGT
*
48040802 TTATGATTTAGGGT
1 TTATGGTTTAGGGT
*
48040816 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
*
48040830 TTAAGGTTTAG
1 TTATGGTTTAG
48040841 AAGTTACTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:48041214 original size:13 final size:13
Alignment explanation
Indices: 48041196--48041220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48041186 CATTTTATAT
48041196 ATTTAAATATTAG
1 ATTTAAATATTAG
48041209 ATTTAAATATTA
1 ATTTAAATATTA
48041221 TTTATCATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
ATTTAAATATTAG
Found at i:48041325 original size:43 final size:43
Alignment explanation
Indices: 48041262--48041502 Score: 340
Period size: 43 Copynumber: 5.6 Consensus size: 43
48041252 AATATTTTTT
* * *
48041262 TAAAGGTCATTTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGTGCCGC
* *
48041305 TAAAGGTCATGTTCTATAGCGGTGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGTGCCGC
* *
48041348 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAATGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGTGCCGC
* * * *
48041391 TAAATGTCTTATTCTATAGCGGCGCTTG-GGGAAAAGTGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGTGCCGC
* * * *
48041433 TAAAAGTCATGTTCTATAGCAGCATTTGTGGAAAAAGTGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGTGCCGC
48041476 TAAAGGTCATGTTCTATAGCGGCGTTT
1 TAAAGGTCATGTTCTATAGCGGCGTTT
48041503 TTATATATAA
Statistics
Matches: 176, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 35 0.20
43 141 0.80
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGTGCCGC
Found at i:48041474 original size:85 final size:86
Alignment explanation
Indices: 48041262--48041499 Score: 327
Period size: 85 Copynumber: 2.8 Consensus size: 86
48041252 AATATTTTTT
* * * *
48041262 TAAAGGTCATTTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAGCGG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGG
* *
48041327 TGTTTGTGGGAAAAGCGCCGC
66 CGCTTGTGGGAAAAGCGCCGC
* * * *
48041348 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAA-TGCCGCTAAATGTCTTATTCTATAGCG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGT-GGAAAAAGTGCCGCTAAAGGTCATGTTCTATAGCG
*
48041412 GCGCTTG-GGGAAAAGTGCCGC
65 GCGCTTGTGGGAAAAGCGCCGC
* * *
48041433 TAAAAGTCATGTTCTATAGCAGCATTTGTGGAAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGG
48041498 CG
66 CG
48041500 TTTTTATATA
Statistics
Matches: 132, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
84 7 0.05
85 65 0.49
86 54 0.41
87 6 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (86 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGG
CGCTTGTGGGAAAAGCGCCGC
Found at i:48042725 original size:154 final size:154
Alignment explanation
Indices: 48042444--48042906 Score: 763
Period size: 154 Copynumber: 3.0 Consensus size: 154
48042434 TGGTTTTGAC
* * * * *
48042444 ATTAACCAGAAGTGTTCAATCAAAAAATTCTCTAAACTATTATGCGCATAAATAGCAAACTTTTA
1 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTTTA
* *
48042509 CAAAAAATTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATTAATATTAGAAAAATGA
66 CAAAAAATTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGA
*
48042574 ATTGTCTTAGTTGCATGATCCGAA
131 ATTGTCTTAGTTGCATGATCTGAA
*
48042598 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTTCA
1 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTTTA
**
48042663 CAAAAGTTTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGA
66 CAAAAAATTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGA
*
48042728 ATTATCTTAGTTGCATGATCTG--
131 ATTGTCTTAGTTGCATGATCTGAA
48042750 A-TAA-CAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTTTA
1 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTTTA
* *
48042813 CAAAAAAATTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAGTGA
66 CAAAAAATTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGA
*
48042878 ATTGTCTTAATTGCATGATCTGAA
131 ATTGTCTTAGTTGCATGATCTGAA
48042902 ATTAA
1 ATTAA
48042907 TTATTTAAAC
Statistics
Matches: 287, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
150 139 0.48
151 3 0.01
152 2 0.01
153 3 0.01
154 140 0.49
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (154 bp):
ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTTTA
CAAAAAATTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGA
ATTGTCTTAGTTGCATGATCTGAA
Found at i:48042816 original size:150 final size:152
Alignment explanation
Indices: 48042444--48042900 Score: 747
Period size: 150 Copynumber: 3.0 Consensus size: 152
48042434 TGGTTTTGAC
* * * * *
48042444 ATTAACCAGAAGTGTTCAATCAAAAAATTCTCTAAACTATTATGCGCATAAATAGCAAACTTTTA
1 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTTTA
* *
48042509 CAAAAAATTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATTAATATTAGAAAAATGA
66 CAAAAAATTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGA
*
48042574 ATTGTCTTAGTTGCATGATCCG
131 ATTGTCTTAGTTGCATGATCTG
48042596 AAATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTT
1 --ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTT
* **
48042661 CACAAAAGTTTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAAT
64 TACAAAAAATTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAAT
*
48042726 GAATTATCTTAGTTGCATGATCTG
129 GAATTGTCTTAGTTGCATGATCTG
48042750 A-TAA-CAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTTTA
1 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTTTA
* *
48042813 CAAAAAAATTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAGTGA
66 CAAAAAATTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGA
*
48042878 ATTGTCTTAATTGCATGATCTG
131 ATTGTCTTAGTTGCATGATCTG
48042900 A
1 A
48042901 AATTAATTAT
Statistics
Matches: 284, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
150 140 0.49
151 3 0.01
152 1 0.00
154 140 0.49
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (152 bp):
ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTTTA
CAAAAAATTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGA
ATTGTCTTAGTTGCATGATCTG
Found at i:48045584 original size:12 final size:12
Alignment explanation
Indices: 48045567--48045593 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48045557 TAAAAAAATA
48045567 AATAATAATAAC
1 AATAATAATAAC
48045579 AATAATAATAAC
1 AATAATAATAAC
48045591 AAT
1 AAT
48045594 CATACCTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:48049663 original size:17 final size:17
Alignment explanation
Indices: 48049641--48049673 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48049631 ATAAAAACTC
48049641 AATAAATAA-ATTTATTT
1 AATAAA-AAGATTTATTT
48049658 AATAAAAAGATTTATT
1 AATAAAAAGATTTATT
48049674 AGACTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AATAAAAAGATTTATTT
Found at i:48050259 original size:14 final size:14
Alignment explanation
Indices: 48050240--48050267 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48050230 ATATTGTTGG
48050240 AAAATCAAATACTA
1 AAAATCAAATACTA
48050254 AAAATCAAATACTA
1 AAAATCAAATACTA
48050268 TTTGTTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATCAAATACTA
Found at i:48050901 original size:14 final size:14
Alignment explanation
Indices: 48050882--48050916 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
48050872 AACTTTGATG
48050882 ATTTTAATTTCACC
1 ATTTTAATTTCACC
*
48050896 ATTTTAATTTCATC
1 ATTTTAATTTCACC
48050910 ATTTTAA
1 ATTTTAA
48050917 AGACAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTTTAATTTCACC
Found at i:48057023 original size:344 final size:344
Alignment explanation
Indices: 48056007--48057378 Score: 2698
Period size: 344 Copynumber: 4.0 Consensus size: 344
48055997 TGTTTGACAT
*
48056007 AATTTGAAATGGGATGTATTAAGGGTAGATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
1 AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
48056072 AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
66 AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
48056137 ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
131 ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
48056202 GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
196 GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
*
48056267 AATACTTGTGAAATTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
261 AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
48056332 TAATTAGCAGAACGTGTCA
326 TAATTAGCAGAACGTGTCA
48056351 AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
1 AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
48056416 AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATG-T-TAT--
66 AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
48056477 ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
131 ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
48056542 GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
196 GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
48056607 AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
261 AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
48056672 TAATTAGCAGAACGTGTCA
326 TAATTAGCAGAACGTGTCA
48056691 AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
1 AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
48056756 AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
66 AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
48056821 ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
131 ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
48056886 GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
196 GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
48056951 AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
261 AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
48057016 TAATTAGCAGAACGTGTCA
326 TAATTAGCAGAACGTGTCA
48057035 AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
1 AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
48057100 AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
66 AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
48057165 ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
131 ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
48057230 GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
196 GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
48057295 AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
261 AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
48057360 TAATTAGCAGAACGTGTCA
326 TAATTAGCAGAACGTGTCA
48057379 GGCGGATTAT
Statistics
Matches: 1022, Mismatches: 2, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
340 335 0.33
341 1 0.00
342 6 0.01
343 1 0.00
344 679 0.66
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (344 bp):
AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
TAATTAGCAGAACGTGTCA
Found at i:48062836 original size:20 final size:20
Alignment explanation
Indices: 48062808--48062852 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
48062798 TTTAAGCAAT
*
48062808 TTAGATCCCTAAATCAAATA
1 TTAGTTCCCTAAATCAAATA
48062828 TTAGTTCCCTAAATCAAATA
1 TTAGTTCCCTAAATCAAATA
48062848 TTAGT
1 TTAGT
48062853 GAACCAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (20 bp):
TTAGTTCCCTAAATCAAATA
Found at i:48062861 original size:20 final size:20
Alignment explanation
Indices: 48062815--48062867 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
48062805 AATTTAGATC
**
48062815 CCTAAATCAAATATTAGTTC
1 CCTAAATCAAATATTAGTAA
48062835 CCTAAATCAAATATTAGTGAA
1 CCTAAATCAAATATTAGT-AA
48062856 CC-AAATCGAAAT
1 CCTAAATC-AAAT
48062868 CAATCAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 23 0.79
21 6 0.21
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (20 bp):
CCTAAATCAAATATTAGTAA
Found at i:48076865 original size:45 final size:45
Alignment explanation
Indices: 48076677--48076869 Score: 183
Period size: 45 Copynumber: 4.3 Consensus size: 45
48076667 ATATAATGGG
* * * * * *
48076677 CTCACACATGCGGATTCACAGAAAAAGATTCATAGACATGGCAGA
1 CTCATACATGTGGATTCATAGAAAATGATTCATATATATGGCAGA
* * * *
48076722 -TCCATACATGTGAACTCATAGAAAATTATTCATATATATAGCAGA
1 CT-CATACATGTGGATTCATAGAAAATGATTCATATATATGGCAGA
* * *** * *
48076767 TTCATATATGCAAATTCATAGAAAATGATTCACATATATGG-TGAA
1 CTCATACATGTGGATTCATAGAAAATGATTCATATATATGGCAG-A
*
48076812 CTCATACATGTGGATTCATAGAAAATGATTCATATATATGGCGGA
1 CTCATACATGTGGATTCATAGAAAATGATTCATATATATGGCAGA
*
48076857 CTCGTACATGTGG
1 CTCATACATGTGG
48076870 GCTCAGAGAA
Statistics
Matches: 118, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
44 2 0.02
45 114 0.97
46 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.28
Consensus pattern (45 bp):
CTCATACATGTGGATTCATAGAAAATGATTCATATATATGGCAGA
Found at i:48076889 original size:45 final size:45
Alignment explanation
Indices: 48076724--48076889 Score: 120
Period size: 45 Copynumber: 3.7 Consensus size: 45
48076714 ATGGCAGATC
* * * * *
48076724 CATACATGTGAACTCATAGAAAATTATTCATATATATAGC-AGATT
1 CATACATGTGGACTCAGAGAAAATAATTCATATATATGGCGA-ACT
* *** * * * * *
48076769 CATATATGCAAATTCATAGAAAATGATTCACATATATGGTGAACT
1 CATACATGTGGACTCAGAGAAAATAATTCATATATATGGCGAACT
* * * *
48076814 CATACATGTGGATTCATAGAAAATGATTCATATATATGGCGGACT
1 CATACATGTGGACTCAGAGAAAATAATTCATATATATGGCGAACT
* *
48076859 CGTACATGTGGGCTCAGAGAAAA-AACTTCAT
1 CATACATGTGGACTCAGAGAAAATAA-TTCAT
48076890 GGATATAATA
Statistics
Matches: 98, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
44 1 0.01
45 96 0.98
46 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (45 bp):
CATACATGTGGACTCAGAGAAAATAATTCATATATATGGCGAACT
Found at i:48077340 original size:14 final size:13
Alignment explanation
Indices: 48077317--48077346 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
48077307 ATATTTATTA
48077317 AACTAATTAAATT
1 AACTAATTAAATT
48077330 AACTAACTTAAATT
1 AACTAA-TTAAATT
48077344 AAC
1 AAC
48077347 CCAATGGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
AACTAATTAAATT
Found at i:48091101 original size:18 final size:19
Alignment explanation
Indices: 48091078--48091116 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
48091068 TTATTATTTA
*
48091078 ATTTGAA-TAATTGTTTCT
1 ATTTGAAGTAAATGTTTCT
48091096 ATTTGAAGTTAAATGTTTCT
1 ATTTGAAG-TAAATGTTTCT
48091116 A
1 A
48091117 ATTGTACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (19 bp):
ATTTGAAGTAAATGTTTCT
Found at i:48094312 original size:31 final size:31
Alignment explanation
Indices: 48094276--48094334 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
48094266 AAGGTAGATA
48094276 AAAAATTAAAAATAAAAATATTTAATTAACT
1 AAAAATTAAAAATAAAAATATTTAATTAACT
*
48094307 AAAAATTCAAAATAAAAATATTTAATTA
1 AAAAATTAAAAATAAAAATATTTAATTA
48094335 TGTACAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (31 bp):
AAAAATTAAAAATAAAAATATTTAATTAACT
Found at i:48094705 original size:14 final size:13
Alignment explanation
Indices: 48094682--48094716 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
48094672 ATATTTATTA
48094682 AACTAATTAAATT
1 AACTAATTAAATT
48094695 AACTAACTTAAATT
1 AACTAA-TTAAATT
48094709 AACCTAAT
1 AA-CTAAT
48094717 GGAATTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 10 0.50
15 4 0.20
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (13 bp):
AACTAATTAAATT
Found at i:48110452 original size:22 final size:22
Alignment explanation
Indices: 48110427--48110469 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
48110417 CATCAATGTG
48110427 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
48110449 TAGGAATATTTTGTAGATATT
1 TAGGAATATTCTGTAAATATT
48110470 CTTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:48114189 original size:22 final size:22
Alignment explanation
Indices: 48114161--48114203 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
48114151 AGGGGGAGTG
48114161 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
48114183 TAGGAATATTTTGTAGATATT
1 TAGGAATATTCTGTAAATATT
48114204 CTTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:48121462 original size:18 final size:18
Alignment explanation
Indices: 48121439--48121492 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
48121429 TTCTAAGAAG
48121439 CACTTTTGGGACAAAAAC
1 CACTTTTGGGACAAAAAC
*
48121457 CACTTTTGGGATAAAAAC
1 CACTTTTGGGACAAAAAC
*
48121475 CACTTTTGAGACAAAAAC
1 CACTTTTGGGACAAAAAC
48121493 ATTCCTAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (18 bp):
CACTTTTGGGACAAAAAC
Found at i:48124105 original size:53 final size:51
Alignment explanation
Indices: 48124077--48124181 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 51
48124067 GACTTGAAGT
*
48124077 GATTGTTTTTAAAGATCTTAAATTTGTTTTAAATGGTTGTTTTGTAGCATAA
1 GATTGTTTTTAAAGATCTTAAATTTGTTTTAAAT-GATGTTTTGTAGCATAA
*
48124129 GATTGTTTTTAAAGATCTTAAATTTGTTTTAAATGGTTGTTTTGTAGCATAA
1 GATTGTTTTTAAAGATCTTAAATTTGTTTTAAAT-GATGTTTTGTAGCATAA
48124181 G
1 G
48124182 TGTTTTATGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.50
Consensus pattern (51 bp):
GATTGTTTTTAAAGATCTTAAATTTGTTTTAAATGATGTTTTGTAGCATAA
Found at i:48129603 original size:23 final size:23
Alignment explanation
Indices: 48129563--48129909 Score: 469
Period size: 23 Copynumber: 15.0 Consensus size: 23
48129553 TGGATAGCTC
* * *
48129563 TTATACATCAAATCGGACATCAT
1 TTATACACCAAATTGGACAGCAT
* *
48129586 TTATACACCCAATTGGACAGTAT
1 TTATACACCAAATTGGACAGCAT
* * *
48129609 ATATATACCAAATTGGACAACAT
1 TTATACACCAAATTGGACAGCAT
48129632 TTATACACCAAATTGGACAGCATT
1 TTATACACCAAATTGGACAGCA-T
* *
48129656 TTATACATCAAATTGAACAGCAT
1 TTATACACCAAATTGGACAGCAT
*
48129679 ATATACACCAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
* *
48129702 TTATACACCAAATTGGGCAACAT
1 TTATACACCAAATTGGACAGCAT
* * *
48129725 ATATATACCAAATTGGACAACAT
1 TTATACACCAAATTGGACAGCAT
48129748 TTATACACCAAAATTGGACAGCAT
1 TTATACACC-AAATTGGACAGCAT
48129772 TTATACACCAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
*
48129795 ATATACACCAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
*
48129818 TTATACACCAAATTGGACAACAT
1 TTATACACCAAATTGGACAGCAT
**
48129841 TTATACACCAAATTGGGTAGCAT
1 TTATACACCAAATTGGACAGCAT
* * *
48129864 ATATATACCAAATTGGACAACAT
1 TTATACACCAAATTGGACAGCAT
48129887 TTATACACCAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
48129910 ATATCCACTA
Statistics
Matches: 281, Mismatches: 41, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
23 238 0.85
24 43 0.15
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (23 bp):
TTATACACCAAATTGGACAGCAT
Found at i:48129775 original size:116 final size:115
Alignment explanation
Indices: 48129564--48129913 Score: 529
Period size: 116 Copynumber: 3.0 Consensus size: 115
48129554 GGATAGCTCT
* * * * **
48129564 TATACATCAAATCGGACATCATTTATACACCCAATTGGACAGTATATATATACCAAATTGGACAA
1 TATACACCAAATTGGACAGCATTTATACACCAAATTGGACAACATATATATACCAAATTGGACAA
* *
48129629 CATTTATACACCAAATTGGACAGCATTTTATACATCAAATTGAACAGCATA
66 CATTTATACACCAAATTGGACAGCA-TTTATACACCAAATTGGACAGCATA
*
48129680 TATACACCAAATTGGACAGCATTTATACACCAAATTGGGCAACATATATATACCAAATTGGACAA
1 TATACACCAAATTGGACAGCATTTATACACCAAATTGGACAACATATATATACCAAATTGGACAA
48129745 CATTTATACACCAAAATTGGACAGCATTTATACACCAAATTGGACAGCATA
66 CATTTATACACC-AAATTGGACAGCATTTATACACCAAATTGGACAGCATA
* * ** *
48129796 TATACACCAAATTGGACAGCATTTATACACCAAATTGGACAACATTTATACACCAAATTGGGTAG
1 TATACACCAAATTGGACAGCATTTATACACCAAATTGGACAACATATATATACCAAATTGGACAA
* * *
48129861 CATATATATACCAAATTGGACAACATTTATACACCAAATTGGACAGCATA
66 CATTTATACACCAAATTGGACAGCATTTATACACCAAATTGGACAGCATA
48129911 TAT
1 TAT
48129914 CCACTAATTC
Statistics
Matches: 215, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
115 40 0.19
116 162 0.75
117 13 0.06
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (115 bp):
TATACACCAAATTGGACAGCATTTATACACCAAATTGGACAACATATATATACCAAATTGGACAA
CATTTATACACCAAATTGGACAGCATTTATACACCAAATTGGACAGCATA
Found at i:48138346 original size:23 final size:23
Alignment explanation
Indices: 48138307--48138670 Score: 399
Period size: 23 Copynumber: 15.6 Consensus size: 23
48138297 TGGACAACTA
* * *
48138307 TTATACATC-AATCGGACAGTAT
1 TTATACACCAAATTGGACAGCAT
* *
48138329 TTATACACCCAATTGGACAGTAT
1 TTATACACCAAATTGGACAGCAT
* *
48138352 ACATATATACCAAATTGGACAGCATT
1 --TTATACACCAAATTGGACAGCA-T
* *
48138378 TTATACACCAAATTGAACAACAT
1 TTATACACCAAATTGGACAGCAT
*
48138401 ATATATATACCAAATTGGACAGCATT
1 -T-TATACACCAAATTGGACAGCA-T
*
48138427 TTATACACCAAATTGGGCAGCAT
1 TTATACACCAAATTGGACAGCAT
* * *
48138450 ATATACACCAAATTAGACAGTAT
1 TTATACACCAAATTGGACAGCAT
*
48138473 TTATACACCAAATTGGGCAGCAT
1 TTATACACCAAATTGGACAGCAT
* * *
48138496 ATATATACCAAATTGGACAACAT
1 TTATACACCAAATTGGACAGCAT
48138519 TTATACACCAAAATTGGACAGCAT
1 TTATACACC-AAATTGGACAGCAT
48138543 TTATACACCAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
* *
48138566 ATATACACCAAATTGGACAGGAT
1 TTATACACCAAATTGGACAGCAT
*
48138589 TTATACACC-AATTGGGCAGCAT
1 TTATACACCAAATTGGACAGCAT
* * * *
48138611 ATATATACCAAATTAGACAACAT
1 TTATACACCAAATTGGACAGCAT
*
48138634 TTGTACACCAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
* *
48138657 ATATACACTAAATT
1 TTATACACCAAATT
48138671 CACTTGAATC
Statistics
Matches: 285, Mismatches: 48, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
22 26 0.09
23 160 0.56
24 60 0.21
25 37 0.13
26 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (23 bp):
TTATACACCAAATTGGACAGCAT
Found at i:48138495 original size:70 final size:69
Alignment explanation
Indices: 48138307--48138670 Score: 399
Period size: 70 Copynumber: 5.2 Consensus size: 69
48138297 TGGACAACTA
* * * * *
48138307 TTATACATC-AATCGGACAGTATTTATACACCCAATTGGACAGTATACATATATACCAAATTGGA
1 TTATACACCAAATTGGACAGTATTTATACACCAAATTGGACAGCAT--ATATACACCAAATTGGA
48138371 CAGCATT
64 CAGCA-T
* * * * *
48138378 TTATACACCAAATTGAACAACATATATATATACCAAATTGGACAGCATTTTATACACCAAATTGG
1 TTATACACCAAATTGGAC-A-GTATTTATACACCAAATTGGACAGCA-TATATACACCAAATTGG
*
48138443 GCAGCAT
63 ACAGCAT
* * * *
48138450 ATATACACCAAATTAGACAGTATTTATACACCAAATTGGGCAGCATATATATACCAAATTGGACA
1 TTATACACCAAATTGGACAGTATTTATACACCAAATTGGACAGCATATATACACCAAATTGGACA
*
48138515 ACAT
66 GCAT
*
48138519 TTATACACCAAAATTGGACAGCATTTATACACCAAATTGGACAGCATATATACACCAAATTGGAC
1 TTATACACC-AAATTGGACAGTATTTATACACCAAATTGGACAGCATATATACACCAAATTGGAC
*
48138584 AGGAT
65 AGCAT
* * * * * * * *
48138589 TTATACACC-AATTGGGCAGCATATATATACCAAATTAGACAACATTTGTACACCAAATTGGACA
1 TTATACACCAAATTGGACAGTATTTATACACCAAATTGGACAGCATATATACACCAAATTGGACA
48138653 GCAT
66 GCAT
* *
48138657 ATATACACTAAATT
1 TTATACACCAAATT
48138671 CACTTGAATC
Statistics
Matches: 248, Mismatches: 39, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
68 58 0.23
69 32 0.13
70 85 0.34
71 9 0.04
72 22 0.09
73 20 0.08
74 21 0.08
75 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (69 bp):
TTATACACCAAATTGGACAGTATTTATACACCAAATTGGACAGCATATATACACCAAATTGGACA
GCAT
Found at i:48145551 original size:60 final size:60
Alignment explanation
Indices: 48145458--48145578 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
48145448 TCTGGCGACG
48145458 GATACGGATTAAGGGTGTTATATAAATAGTCCTTGTACTCTTTTCAATCTACTCTGAAGT
1 GATACGGATTAAGGGTGTTATATAAATAGTCCTTGTACTCTTTTCAATCTACTCTGAAGT
48145518 GATACGGATTAAGGGTGTTATATAAATAGTCCTTGTACTCTTTTCAATCTACTCTGAAGT
1 GATACGGATTAAGGGTGTTATATAAATAGTCCTTGTACTCTTTTCAATCTACTCTGAAGT
48145578 G
1 G
48145579 TCCTTTCTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (60 bp):
GATACGGATTAAGGGTGTTATATAAATAGTCCTTGTACTCTTTTCAATCTACTCTGAAGT
Found at i:48147652 original size:9 final size:9
Alignment explanation
Indices: 48147617--48147680 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
48147607 TTGAAAAGTC
48147617 AATAATATT
1 AATAATATT
* *
48147626 AATTATTTT
1 AATAATATT
*
48147635 AATTA-ATT
1 AATAATATT
48147643 AATAATATT
1 AATAATATT
*
48147652 AAAAAATATT
1 -AATAATATT
48147662 AA-AATAATT
1 AATAAT-ATT
*
48147671 AATAACATT
1 AATAATATT
48147680 A
1 A
48147681 TAAAAATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 9 0.20
9 26 0.58
10 10 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AATAATATT
Found at i:48147719 original size:30 final size:29
Alignment explanation
Indices: 48147683--48147739 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
48147673 TAACATTATA
48147683 AAAATATAA-ATATCAAATTATATTAAAATT
1 AAAATATAAGA-AT-AAATTATATTAAAATT
*
48147713 AAAATATAAGAATTAATTATATTAAAA
1 AAAATATAAGAATAAATTATATTAAAA
48147740 AAATCAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 13 0.52
30 11 0.44
31 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATATAAGAATAAATTATATTAAAATT
Found at i:48147731 original size:24 final size:24
Alignment explanation
Indices: 48147681--48147739 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
48147671 AATAACATTA
* *
48147681 TAAAAATATAAATATCAAATTATAT
1 TAAAATTA-AAATATAAAATTATAT
48147706 TAAAATTAAAATATAAGAATTA-AT
1 TAAAATTAAAATATAA-AATTATAT
*
48147730 T-ATATTAAAA
1 TAAAATTAAAA
48147740 AAATCAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 8 0.27
24 10 0.33
25 12 0.40
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAATTAAAATATAAAATTATAT
Found at i:48150582 original size:16 final size:16
Alignment explanation
Indices: 48150558--48150631 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
48150548 GGTAATTTGT
*
48150558 TATGTGAACCTCCATG
1 TATGCGAACCTCCATG
* *
48150574 TATGCGAACCCCCATA
1 TATGCGAACCTCCATG
* *
48150590 TATGTGAACCAT-TATG
1 TATGCGAACC-TCCATG
* *
48150606 TATGCGAATCTCCTTG
1 TATGCGAACCTCCATG
*
48150622 TATGCTAACC
1 TATGCGAACC
48150632 CTTAGGTATG
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
15 1 0.02
16 42 0.98
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (16 bp):
TATGCGAACCTCCATG
Found at i:48150632 original size:48 final size:48
Alignment explanation
Indices: 48150558--48150663 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
48150548 GGTAATTTGT
* *
48150558 TATGTGAACCTCCATGTATGCGAACCCCCATATATGTGAACCATTATG
1 TATGCGAACCTCCATGTATGCGAACCCCCAGATATGTGAACCATTATG
* * * ** * *
48150606 TATGCGAATCTCCTTGTATGCTAACCCTTAGGTATGTGAACCCTTATG
1 TATGCGAACCTCCATGTATGCGAACCCCCAGATATGTGAACCATTATG
*
48150654 AATGCGAACC
1 TATGCGAACC
48150664 CTAGGTGAAC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (48 bp):
TATGCGAACCTCCATGTATGCGAACCCCCAGATATGTGAACCATTATG
Found at i:48150891 original size:76 final size:75
Alignment explanation
Indices: 48150753--48150999 Score: 365
Period size: 76 Copynumber: 3.3 Consensus size: 75
48150743 TATAAGTGAA
* *
48150753 TATGCGAACCCTACATATTATGCGAACCCATATACAAACTCTTATATGATTTAATATGCGATCTC
1 TATGCGAACCCTACATATTATGCGAACCCATATGCAAAC-CTTATATGATTTAGTATGCGATCTC
48150818 TTACCATATAT
65 TTACCATATAT
** * * *
48150829 TATTTGAATCCTACATATTATGTGAACCCATATGCAAACCATTATATGATTTAGTATACGATCTC
1 TATGCGAACCCTACATATTATGCGAACCCATATGCAAACC-TTATATGATTTAGTATGCGATCTC
48150894 TTA-C-TATA-
65 TTACCATATAT
*
48150902 TATGCGAACCCTACATATTATGCGAACCCATATGCAAACCTTATATGATTTAGTATGTGATCTCT
1 TATGCGAACCCTACATATTATGCGAACCCATATGCAAACCTTATATGATTTAGTATGCGATCTCT
*
48150967 TACTATATAT
66 TACCATATAT
*
48150977 TATGCGAACCCTATATATTATGC
1 TATGCGAACCCTACATATTATGC
48151000 AGACCCTATA
Statistics
Matches: 152, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
72 25 0.16
73 36 0.24
74 8 0.05
75 24 0.16
76 59 0.39
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (75 bp):
TATGCGAACCCTACATATTATGCGAACCCATATGCAAACCTTATATGATTTAGTATGCGATCTCT
TACCATATAT
Found at i:48150992 original size:18 final size:18
Alignment explanation
Indices: 48150969--48151028 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
48150959 TGATCTCTTA
48150969 CTATATATTATGCGAACC
1 CTATATATTATGCGAACC
48150987 CTATATATTATGC-AGACC
1 CTATATATTATGCGA-ACC
* *
48151005 CTATATTTTATGTGAACC
1 CTATATATTATGCGAACC
48151023 CTATAT
1 CTATAT
48151029 GAATTAGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.03
18 36 0.95
19 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (18 bp):
CTATATATTATGCGAACC
Found at i:48159684 original size:15 final size:15
Alignment explanation
Indices: 48159664--48159695 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
48159654 TATACAAGCA
48159664 AAATATCAAAGACAT
1 AAATATCAAAGACAT
48159679 AAATATCAAAGACAT
1 AAATATCAAAGACAT
48159694 AA
1 AA
48159696 TAGTGAAATG
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:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (15 bp):
AAATATCAAAGACAT
Found at i:48164937 original size:12 final size:12
Alignment explanation
Indices: 48164920--48164944 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48164910 TTTAAGTTGA
48164920 TTTATTTAATTT
1 TTTATTTAATTT
48164932 TTTATTTAATTT
1 TTTATTTAATTT
48164944 T
1 T
48164945 ATTTTAACTC
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTAATTT
Found at i:48171199 original size:15 final size:15
Alignment explanation
Indices: 48171165--48171207 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
48171155 TCTTATTTTG
* *
48171165 AAGAAAAAAAGAAAA
1 AAGAAAAAAATATAA
48171180 AAGAAAAAAATATAA
1 AAGAAAAAAATATAA
* *
48171195 GAGAAAATAATAT
1 AAGAAAAAAATAT
48171208 TTTATCTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAGAAAAAAATATAA
Found at i:48171781 original size:28 final size:27
Alignment explanation
Indices: 48171741--48171793 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
48171731 TACAAAATAG
48171741 TCACCCAACTATT-AGTAATTTTTTTTGA
1 TCACCCAACTATTCA--AATTTTTTTTGA
*
48171769 TCACCCAATTATTCAAATTTTTTTT
1 TCACCCAACTATTCAAATTTTTTTT
48171794 AGCCACCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 12 0.52
29 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (27 bp):
TCACCCAACTATTCAAATTTTTTTTGA
Found at i:48172159 original size:19 final size:19
Alignment explanation
Indices: 48172135--48172188 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
48172125 CTTGAAAAAG
*
48172135 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAA
48172154 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAA
48172173 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
48172189 AGATAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:48172214 original size:22 final size:22
Alignment explanation
Indices: 48172135--48172211 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 22
48172125 CTTGAAAAAG
*
48172135 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAA
48172154 GATATGCAATCTT---AGATAA
1 GATATGCAATCTTAGAAGATAA
48172173 GATATGCAATCTTAGAAGATAA
1 GATATGCAATCTTAGAAGATAA
* *
48172195 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
48172212 GATTTAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 31 0.61
22 8 0.16
23 12 0.24
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAA
Found at i:48173082 original size:24 final size:24
Alignment explanation
Indices: 48173051--48173300 Score: 148
Period size: 24 Copynumber: 10.7 Consensus size: 24
48173041 GTGTATTGTA
*
48173051 TATTATTATTTTAGATTTATCATG
1 TATTATTATTTTAAATTTATCATG
* *
48173075 TTTTATTATTTGT-AATTTATCA-A
1 TATTATTATTT-TAAATTTATCATG
*
48173098 TATTATTATTTTAAATTCAT--TG
1 TATTATTATTTTAAATTTATCATG
**
48173120 TTAACATTATTTTAAATTTATCATG
1 -TATTATTATTTTAAATTTATCATG
*
48173145 TA-TATCTATTTCAAATTTATCAT-
1 TATTAT-TATTTTAAATTTATCATG
* * *
48173168 TAATA-T-TTTTAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
* ** *
48173190 TACTATTATTTTGGATTTATCACG
1 TATTATTATTTTAAATTTATCATG
* *
48173214 TATGATTATTCTAGAA-TTATCAT-
1 TATTATTATTTTA-AATTTATCATG
* * *
48173237 CA-AAAT-TTTTAAATTTTAT-ATG
1 TATTATTATTTTAAA-TTTATCATG
* * *
48173259 TATTATTATTTCAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
*
48173283 TATTATTTATTGTAAATT
1 TATTA-TTATTTTAAATT
48173301 ATCCAATTCA
Statistics
Matches: 171, Mismatches: 36, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
20 2 0.01
21 19 0.11
22 13 0.08
23 46 0.27
24 77 0.45
25 14 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (24 bp):
TATTATTATTTTAAATTTATCATG
Found at i:48173131 original size:70 final size:69
Alignment explanation
Indices: 48173049--48173216 Score: 180
Period size: 70 Copynumber: 2.4 Consensus size: 69
48173039 AAGTGTATTG
* * ** *
48173049 TATATTATTATTTTAGATTTATCATGTTTTAT-TATTTGTAATTTATCAATATTATTATTTTAAA
1 TATACTATTATTTTAGATTTATCATG-TATATCTATTTCAAATTTATCAATAATA-T-TTTTAAA
*
48173113 TTCATTG
63 TTCATTA
* *
48173120 T-TAAC-ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCATTAATATTTTTAAATT
1 TAT-ACTATTATTTTAGATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTAAATT
*
48173183 TATTA
65 CATTA
* *
48173188 TATACTATTATTTTGGATTTATCACGTAT
1 TATACTATTATTTTAGATTTATCATGTAT
48173217 GATTATTCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
68 15 0.19
69 26 0.32
70 38 0.47
71 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (69 bp):
TATACTATTATTTTAGATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTAAATTC
ATTA
Found at i:48173234 original size:69 final size:68
Alignment explanation
Indices: 48173010--48173291 Score: 206
Period size: 69 Copynumber: 4.1 Consensus size: 68
48173000 TTATACTTAT
* * * * * *
48173010 TATTA-TTA-AATTAATCATTAATATTATCTAAGTGTATTGTATATTATTATTTTAGATTTATCA
1 TATTATTTAGAATTTATCATTAATATT-TTTAAATTTATTATATACTATTATTTTAGATTTATCA
*
48173073 TGTTT
65 TG-TA
* * * * *
48173078 TATTATTT-GTAATTTATCAATATTATTATTTTAAATTCATTGT-TAAC-ATTATTTTAAATTTA
1 TATTATTTAG-AATTTATCATTAATA-T-TTTTAAATTTATTATAT-ACTATTATTTTAGATTTA
48173140 TCATGTA
62 TCATGTA
*
48173147 TATCTATTTCA-AATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTGGATTTATC
1 TAT-TATTT-AGAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATC
*
48173211 ACGTA
64 ATGTA
* * * * * *
48173216 TGATTATTCTAGAA-TTATCATCAAAATTTTTAAATTT-TATATGTATTATTATTTCAAATTTAT
1 T-ATTATT-TAGAATTTATCATTAATATTTTTAAATTTAT-TATATACTATTATTTTAGATTTAT
*
48173279 --TATA
63 CATGTA
48173283 TATTATTTA
1 TATTATTTA
48173292 TTGTAAATTA
Statistics
Matches: 173, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
65 2 0.01
66 6 0.03
67 3 0.02
68 21 0.12
69 73 0.42
70 55 0.32
71 12 0.07
72 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (68 bp):
TATTATTTAGAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATCAT
GTA
Found at i:48173376 original size:23 final size:23
Alignment explanation
Indices: 48173349--48173393 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
48173339 AATTGTACAT
*
48173349 TCATATATATTATTTGTTTTAAC
1 TCATATATATTATTTATTTTAAC
*
48173372 TCATATATATTGTTTATTTTAA
1 TCATATATATTATTTATTTTAA
48173394 AATTTTGAAC
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:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TCATATATATTATTTATTTTAAC
Found at i:48186498 original size:17 final size:17
Alignment explanation
Indices: 48186429--48186508 Score: 60
Period size: 16 Copynumber: 4.9 Consensus size: 17
48186419 CGAGAACTTC
48186429 AAAAGAAAAGA-AAATA
1 AAAAGAAAAGAGAAATA
** *
48186445 AAAA-TCAAGAGAAAGA
1 AAAAGAAAAGAGAAATA
** * *
48186461 AAAA-ATGAGAGAGA-G
1 AAAAGAAAAGAGAAATA
48186476 AAAAGAAAAGAGAAATA
1 AAAAGAAAAGAGAAATA
*
48186493 AAAAGAGAAGAGAAAT
1 AAAAGAAAAGAGAAAT
48186509 GAGATTGTTG
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
15 8 0.17
16 25 0.52
17 15 0.31
ACGTcount: A:0.71, C:0.01, G:0.21, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAGAGAAATA
Found at i:48186509 original size:42 final size:42
Alignment explanation
Indices: 48186432--48186512 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
48186422 GAACTTCAAA
* * *
48186432 AGAAAAGAAAATAAAAATCAAGAGAAAGAAAAAATGAGAGAG
1 AGAAAAGAAAAGAAAAATAAAAAGAAAGAAAAAATGAGAGAG
* *
48186474 AGAAAAGAAAAGAGAAATAAAAAGAGAAG-AGAAATGAGA
1 AGAAAAGAAAAGAAAAATAAAAAGA-AAGAAAAAATGAGA
48186513 TTGTTGTAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 30 0.91
43 3 0.09
ACGTcount: A:0.69, C:0.01, G:0.23, T:0.06
Consensus pattern (42 bp):
AGAAAAGAAAAGAAAAATAAAAAGAAAGAAAAAATGAGAGAG
Found at i:48193315 original size:13 final size:13
Alignment explanation
Indices: 48193297--48193321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48193287 TAATGGTATA
48193297 TTGAATCCATGAC
1 TTGAATCCATGAC
48193310 TTGAATCCATGA
1 TTGAATCCATGA
48193322 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:48193900 original size:27 final size:26
Alignment explanation
Indices: 48193869--48194046 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
48193859 TAAATTGTAC
48193869 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
48193896 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
48193922 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
48193950 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
48193978 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
48194005 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
48194032 AGCACTGAGGGTGCG
1 AGCACTAAGTGTGCG
48194047 GACTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:48193985 original size:82 final size:81
Alignment explanation
Indices: 48193870--48194025 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
48193860 AAATTGTACA
* *
48193870 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
48193934 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
48193951 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
48194016 TGCGAGTTGA
65 TGCGAATTGA
48194026 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48201581 original size:13 final size:13
Alignment explanation
Indices: 48201563--48201587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48201553 TAATGGTATA
48201563 TTGAATCCATGAC
1 TTGAATCCATGAC
48201576 TTGAATCCATGA
1 TTGAATCCATGA
48201588 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:48202168 original size:27 final size:26
Alignment explanation
Indices: 48202137--48202314 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
48202127 TAAATTGTAC
48202137 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
48202164 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
48202190 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
48202218 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
48202246 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
48202273 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
48202300 AGCACTGAGGGTGCG
1 AGCACTAAGTGTGCG
48202315 GACTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:48202253 original size:82 final size:81
Alignment explanation
Indices: 48202138--48202293 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
48202128 AAATTGTACA
* *
48202138 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
48202202 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
48202219 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
48202284 TGCGAGTTGA
65 TGCGAATTGA
48202294 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48207255 original size:24 final size:26
Alignment explanation
Indices: 48207218--48207267 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
48207208 TTTGGGACTC
*
48207218 TTTGGACTGTTTGTTTTAATTTTTGT
1 TTTGGACTGTTTGTTTTAACTTTTGT
*
48207244 TTTGGA-TG-TTGTTTTGACTTTTGT
1 TTTGGACTGTTTGTTTTAACTTTTGT
48207268 ACTGCAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
25 2 0.09
26 6 0.27
ACGTcount: A:0.10, C:0.04, G:0.22, T:0.64
Consensus pattern (26 bp):
TTTGGACTGTTTGTTTTAACTTTTGT
Found at i:48228963 original size:12 final size:13
Alignment explanation
Indices: 48228946--48228974 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
48228936 CTCATACATG
48228946 AATAAATAAA-GC
1 AATAAATAAATGC
48228958 AATAAATAAATGC
1 AATAAATAAATGC
48228971 AATA
1 AATA
48228975 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:48232977 original size:20 final size:20
Alignment explanation
Indices: 48232952--48232992 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
48232942 AGCAAAGATT
48232952 GGTCATCCAAATTGGATGAA
1 GGTCATCCAAATTGGATGAA
48232972 GGTCATCCAAATTGGATGAA
1 GGTCATCCAAATTGGATGAA
48232992 G
1 G
48232993 CTTTATGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (20 bp):
GGTCATCCAAATTGGATGAA
Found at i:48252957 original size:21 final size:21
Alignment explanation
Indices: 48252931--48252987 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
48252921 AGTTACAGAA
*
48252931 TTCTACCGATAGAA-TTGGGAG
1 TTCTACCGATACAACTTGGG-G
*
48252952 TTCTACCGATACAACTTTGGG
1 TTCTACCGATACAACTTGGGG
48252973 TTCTACCGATACAAC
1 TTCTACCGATACAAC
48252988 CCAGACTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 29 0.88
22 4 0.12
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (21 bp):
TTCTACCGATACAACTTGGGG
Found at i:48256435 original size:79 final size:82
Alignment explanation
Indices: 48256324--48256508 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
48256314 GCTACTCGTT
* * *
48256324 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
48256387 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
48256404 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
48256467 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
48256484 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48256509 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:48256508 original size:40 final size:40
Alignment explanation
Indices: 48256305--48256508 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
48256295 CGGAATTTAA
** *
48256305 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
48256345 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
48256385 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48256424 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
48256464 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48256504 CCGGA
1 CCGGA
48256509 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48279336 original size:19 final size:17
Alignment explanation
Indices: 48279301--48279336 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
48279291 ATTTTTCTTC
48279301 CAAAAATACTTTTCAAA
1 CAAAAATACTTTTCAAA
48279318 CAAAAAGTACTTCTTCAAA
1 CAAAAA-TACTT-TTCAAA
48279337 GCAATGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (17 bp):
CAAAAATACTTTTCAAA
Found at i:48280904 original size:35 final size:35
Alignment explanation
Indices: 48280858--48280928 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
48280848 ACACTGTACC
*
48280858 AAATATAAATTAAAAAATTAATTAGTATAAATTTT
1 AAATATAAATTAAAAAAATAATTAGTATAAATTTT
48280893 AAATATAAATTAAAAAAATAATTAGTATAAATTTT
1 AAATATAAATTAAAAAAATAATTAGTATAAATTTT
48280928 A
1 A
48280929 TTTGTAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (35 bp):
AAATATAAATTAAAAAAATAATTAGTATAAATTTT
Done.