Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 34 of 228
Found at i:10351049 original size:142 final size:140
Alignment explanation
Indices: 10350766--10351106 Score: 520
Period size: 142 Copynumber: 2.4 Consensus size: 140
10350756 AATTCTAAAT
*
10350766 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGG
10350831 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
66 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
10350896 AAGTGTATATA
131 AAGTG-ATATA
*
10350907 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATG
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATG
10350972 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
65 GCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
10351037 TGAAAGTGTATATA
128 TGAAAGTG-ATATA
*** * * * * * * * *
10351051 TGTGACGTGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAG
10351107 TCCCGAAGGG
Statistics
Matches: 184, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
141 4 0.02
142 82 0.45
143 41 0.22
144 57 0.31
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (140 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAGTGATATA
Found at i:10351284 original size:38 final size:37
Alignment explanation
Indices: 10351225--10351303 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 37
10351215 CTGAGCTCTA
* * *
10351225 AAGACCCGATGACTACGTGTGG-GAATTTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAG-A-TTATGTCCGGGT
*
10351263 AAGACCCGATAACTTCATGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
10351300 AAGA
1 AAGA
10351304 TTTCGTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 15 0.42
38 20 0.56
39 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:10369053 original size:21 final size:21
Alignment explanation
Indices: 10369007--10369055 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
10368997 TTATGAAAAC
* *
10369007 AAAAAAAAACTCTTTAAAATT
1 AAAAAAAAAATCTTAAAAATT
*
10369028 CAAAAAAAAATC-TAAAAATAT
1 AAAAAAAAAATCTTAAAAAT-T
10369049 AAAAAAA
1 AAAAAAA
10369056 TCCAAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAAAAAAATCTTAAAAATT
Found at i:10371159 original size:3 final size:3
Alignment explanation
Indices: 10371151--10371181 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
10371141 CCTCCTTCCC
10371151 CTT CTT CTT C-T CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
10371182 CATTTCCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:10371432 original size:9 final size:10
Alignment explanation
Indices: 10371401--10371445 Score: 58
Period size: 9 Copynumber: 4.6 Consensus size: 10
10371391 AATAAAATAG
10371401 TTGTATTATT
1 TTGTATTATT
10371411 TTGGTATTATT
1 TT-GTATTATT
*
10371422 TT-TATTTTT
1 TTGTATTATT
10371431 TTGTATTA-T
1 TTGTATTATT
10371440 TTGTAT
1 TTGTAT
10371446 AAAAAACTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 15 0.48
10 6 0.19
11 10 0.32
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (10 bp):
TTGTATTATT
Found at i:10371436 original size:19 final size:20
Alignment explanation
Indices: 10371404--10371441 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10371394 AAAATAGTTG
10371404 TATTATTTTGGTATTATTTT
1 TATTATTTTGGTATTATTTT
*
10371424 TATT-TTTTTGTATTATTT
1 TATTATTTTGGTATTATTT
10371442 GTATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (20 bp):
TATTATTTTGGTATTATTTT
Found at i:10371966 original size:9 final size:9
Alignment explanation
Indices: 10371926--10371992 Score: 64
Period size: 10 Copynumber: 7.0 Consensus size: 9
10371916 TTCATATTTT
10371926 TAAAAAAT-
1 TAAAAAATA
*
10371934 TAAAAAAAA
1 TAAAAAATA
10371943 TATAAAAATA
1 TA-AAAAATA
*
10371953 TTAAAAAATC
1 -TAAAAAATA
10371963 TAAAGAATATA
1 TAAA-AA-ATA
10371974 TAAAAAATA
1 TAAAAAATA
10371983 TAAAATAATA
1 TAAAA-AATA
10371993 ATTTTTGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
8 7 0.14
9 14 0.29
10 20 0.41
11 8 0.16
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (9 bp):
TAAAAAATA
Found at i:10371974 original size:29 final size:27
Alignment explanation
Indices: 10371925--10371987 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 27
10371915 ATTCATATTT
10371925 TTAAAAAATTAAAAAAAATATAAAAATA
1 TTAAAAAATTAAAAAAAATATAAAAA-A
* *
10371953 TTAAAAAATCTAAAGAATATATAAAAAA
1 TTAAAAAAT-TAAAAAAAATATAAAAAA
10371981 TATAAAA
1 T-TAAAA
10371988 TAATAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (27 bp):
TTAAAAAATTAAAAAAAATATAAAAAA
Found at i:10371977 original size:11 final size:10
Alignment explanation
Indices: 10371928--10371987 Score: 58
Period size: 9 Copynumber: 6.4 Consensus size: 10
10371918 CATATTTTTA
10371928 AAAAAT-TA-
1 AAAAATATAT
*
10371936 AAAAAAATAT
1 AAAAATATAT
10371946 AAAAATAT-T
1 AAAAATATAT
*
10371955 AAAAA-ATCT
1 AAAAATATAT
10371964 AAAGAATATAT
1 AAA-AATATAT
10371975 AAAAA-ATAT
1 AAAAATATAT
10371984 AAAA
1 AAAA
10371988 TAATAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
8 7 0.16
9 20 0.45
10 11 0.25
11 6 0.14
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (10 bp):
AAAAATATAT
Found at i:10372206 original size:18 final size:18
Alignment explanation
Indices: 10372183--10372220 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10372173 TAATTTAATT
*
10372183 TTAAAA-AATTAAATCAAA
1 TTAAAATAATAAAAT-AAA
10372201 TTAAAATAATAAAATAAA
1 TTAAAATAATAAAATAAA
10372219 TT
1 TT
10372221 TATCAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TTAAAATAATAAAATAAA
Found at i:10380702 original size:19 final size:19
Alignment explanation
Indices: 10380680--10380723 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10380670 TTGATTCATT
10380680 CTATTTAATTATGAATTCA
1 CTATTTAATTATGAATTCA
* * *
10380699 CTATTTATTTATTATTTCA
1 CTATTTAATTATGAATTCA
10380718 CTATTT
1 CTATTT
10380724 TCAATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (19 bp):
CTATTTAATTATGAATTCA
Found at i:10385956 original size:27 final size:27
Alignment explanation
Indices: 10385918--10385977 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
10385908 CCGAATATAA
*
10385918 TAAATATA-TTTTTTTTTTTTTTA-TTT
1 TAAA-ATACTTTTTTTATTTTTTATTTT
10385944 TAAAATACTTTTTTTATTTTTTATTTT
1 TAAAATACTTTTTTTATTTTTTATTTT
10385971 TAAAATA
1 TAAAATA
10385978 AAATTTTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 3 0.10
26 18 0.58
27 10 0.32
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (27 bp):
TAAAATACTTTTTTTATTTTTTATTTT
Found at i:10385984 original size:27 final size:27
Alignment explanation
Indices: 10385928--10385994 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 27
10385918 TAAATATATT
* ***
10385928 TTTTTTTTTTTTA-TTTTAAAATACTT
1 TTTTTATTTTTTATTTTTAAAATAAAA
10385954 TTTTTATTTTTTATTTTTAAAATAAAA
1 TTTTTATTTTTTATTTTTAAAATAAAA
*
10385981 -TTTTAGTTTTTATT
1 TTTTTATTTTTTATT
10385995 AAAAAATGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 25 0.71
27 10 0.29
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (27 bp):
TTTTTATTTTTTATTTTTAAAATAAAA
Found at i:10387148 original size:20 final size:20
Alignment explanation
Indices: 10387109--10387150 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
10387099 CTGTTAGAGT
*
10387109 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
10387129 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
10387149 TA
1 TA
10387151 CCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:10387179 original size:15 final size:15
Alignment explanation
Indices: 10387159--10387189 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10387149 TACCGTTGTA
10387159 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
10387174 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
10387189 A
1 A
10387190 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:10391873 original size:20 final size:20
Alignment explanation
Indices: 10391834--10391875 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
10391824 ATGTTAGAGT
*
10391834 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
10391854 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
10391874 TA
1 TA
10391876 CCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:10391904 original size:15 final size:15
Alignment explanation
Indices: 10391884--10391914 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10391874 TACCGTTGTA
10391884 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
10391899 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
10391914 A
1 A
10391915 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:10393747 original size:19 final size:19
Alignment explanation
Indices: 10393720--10393757 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10393710 TCACATGTAT
10393720 AAATACATGTACCAAATTA
1 AAATACATGTACCAAATTA
* *
10393739 AAATTCATGTATCAAATTA
1 AAATACATGTACCAAATTA
10393758 CACATTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (19 bp):
AAATACATGTACCAAATTA
Found at i:10401429 original size:169 final size:169
Alignment explanation
Indices: 10401149--10401489 Score: 529
Period size: 169 Copynumber: 2.0 Consensus size: 169
10401139 GGCCTCCCCA
* * *
10401149 AATTCAACGCTACAGATTAAAGTATATCAACAACTAATATTAAAAGCTATCTACAAATCAAACCT
1 AATTCAACGCTACAGATTAAAGTACATCAACAACTAAAATTAAAAGCTATCAACAAATCAAACCT
*
10401214 CTAATATTACAAAATCATATATTTTAAGATTACAAGTAAAATCTAAGATTGCATATCTTCAAAGA
66 CTAATATTACAAAATCATATATTCTAAGATTACAAGTAAAATCTAAGATTGCATATCTTCAAAGA
* *
10401279 TTACGTTCCATAATTGTCACGCTTTGTAGATGGGCCTTC
131 TTACGTTCCATAATTATCACGCTTTGTAGATGAGCCTTC
* * ** *
10401318 AATTCAATGCTACAGATTAAAGTCCATCAACGGCTAAAATTAAAAGCTATCAACAAATCAAATCT
1 AATTCAACGCTACAGATTAAAGTACATCAACAACTAAAATTAAAAGCTATCAACAAATCAAACCT
* * * * *
10401383 CTAATATTACAAAATCTTATCTTCTAAGGTTACAAGTAATATCTAAGATTGCATATCTTCGAAGA
66 CTAATATTACAAAATCATATATTCTAAGATTACAAGTAAAATCTAAGATTGCATATCTTCAAAGA
*
10401448 TTACGTTCCATAATTATCATGCTTTGTAGATGAGCCTTC
131 TTACGTTCCATAATTATCACGCTTTGTAGATGAGCCTTC
10401487 AAT
1 AAT
10401490 CTCTCCAAGC
Statistics
Matches: 155, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
169 155 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (169 bp):
AATTCAACGCTACAGATTAAAGTACATCAACAACTAAAATTAAAAGCTATCAACAAATCAAACCT
CTAATATTACAAAATCATATATTCTAAGATTACAAGTAAAATCTAAGATTGCATATCTTCAAAGA
TTACGTTCCATAATTATCACGCTTTGTAGATGAGCCTTC
Found at i:10402931 original size:13 final size:13
Alignment explanation
Indices: 10402913--10402937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10402903 TCCCTCCCAT
10402913 TCCTCTCTCTCTC
1 TCCTCTCTCTCTC
10402926 TCCTCTCTCTCT
1 TCCTCTCTCTCT
10402938 GTGCTTTTAC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (13 bp):
TCCTCTCTCTCTC
Found at i:10409920 original size:7 final size:7
Alignment explanation
Indices: 10409908--10409938 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
10409898 GTTGTTGCTA
10409908 ATTTGGG
1 ATTTGGG
10409915 ATTTGGG
1 ATTTGGG
10409922 ATTTGGG
1 ATTTGGG
10409929 ATTTGGG
1 ATTTGGG
10409936 ATT
1 ATT
10409939 GGTTTGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (7 bp):
ATTTGGG
Found at i:10412011 original size:11 final size:11
Alignment explanation
Indices: 10411997--10412036 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
10411987 TTTGTTTTCT
10411997 TTATTTGTTTA
1 TTATTTGTTTA
*
10412008 TTATTTGTTTTT
1 TTATTTG-TTTA
10412020 TTATTTGTTTA
1 TTATTTGTTTA
10412031 TTATTT
1 TTATTT
10412037 ATTTTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (11 bp):
TTATTTGTTTA
Found at i:10412025 original size:12 final size:12
Alignment explanation
Indices: 10411987--10412029 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
10411977 AAATCTACTT
10411987 TTTGTTTTCTTTA
1 TTTGTTTT-TTTA
*
10412000 TTTG-TTTATTA
1 TTTGTTTTTTTA
10412011 TTTGTTTTTTTA
1 TTTGTTTTTTTA
10412023 TTTGTTT
1 TTTGTTT
10412030 ATTATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 7 0.26
12 16 0.59
13 4 0.15
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.79
Consensus pattern (12 bp):
TTTGTTTTTTTA
Found at i:10412026 original size:23 final size:24
Alignment explanation
Indices: 10411987--10412041 Score: 94
Period size: 23 Copynumber: 2.3 Consensus size: 24
10411977 AAATCTACTT
10411987 TTTGTTTTCTTTATTTGTTTATTA
1 TTTGTTTTCTTTATTTGTTTATTA
10412011 TTTGTTTT-TTTATTTGTTTATTA
1 TTTGTTTTCTTTATTTGTTTATTA
*
10412034 TTTATTTT
1 TTTGTTTT
10412042 ATAATATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 22 0.73
24 8 0.27
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTGTTTTCTTTATTTGTTTATTA
Found at i:10412117 original size:14 final size:15
Alignment explanation
Indices: 10412098--10412136 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
10412088 CCACCTGTAC
10412098 TTTTTTTAAATTT-A
1 TTTTTTTAAATTTAA
*
10412112 TTTTTTTATATTTAA
1 TTTTTTTAAATTTAA
*
10412127 ATTTTTTAAA
1 TTTTTTTAAA
10412137 AAAATAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTTAAATTTAA
Found at i:10412725 original size:53 final size:52
Alignment explanation
Indices: 10412651--10412754 Score: 120
Period size: 53 Copynumber: 2.0 Consensus size: 52
10412641 TATTTTTCAA
* * ** * *
10412651 TTTGTAAGATAGAATGATGTCAGTTTTGAACAAAATTGTTTAATTATATTTTG
1 TTTGTAAGACACAATGATGTCAGACTTGAAAAAAATCGTTTAATTAT-TTTTG
*
10412704 TTTGTAAGACACAAT-ATTGTCAGACTTGAAAAAAATCGTTTATTTATTTTT
1 TTTGTAAGACACAATGA-TGTCAGACTTGAAAAAAATCGTTTAATTATTTTT
10412755 AGTATTGAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
52 5 0.12
53 38 0.88
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (52 bp):
TTTGTAAGACACAATGATGTCAGACTTGAAAAAAATCGTTTAATTATTTTTG
Found at i:10413401 original size:67 final size:68
Alignment explanation
Indices: 10413255--10413402 Score: 271
Period size: 68 Copynumber: 2.2 Consensus size: 68
10413245 TCCATTCAAA
10413255 TATTTTGTATTTTGTAGAAGAGAATGAAGAAAGGAGAAAAAAAAACTTGTAAGGTATATAATAGT
1 TATTTTGTATTTTGTAGAAGAGAATGAAGAAAGGAGAAAAAAAAACTTGTAAGGTATATAATAGT
10413320 CTG
66 CTG
10413323 TATTTTGTATTTTGTAGAAGAGAATGAAGAAAGGAGAAAAAAAAACTTGTAAGGTATAT-ATAGT
1 TATTTTGTATTTTGTAGAAGAGAATGAAGAAAGGAGAAAAAAAAACTTGTAAGGTATATAATAGT
*
10413387 TTG
66 CTG
*
10413390 TATTTTATATTTT
1 TATTTTGTATTTT
10413403 ATAGTTATTG
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
67 19 0.24
68 59 0.76
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.36
Consensus pattern (68 bp):
TATTTTGTATTTTGTAGAAGAGAATGAAGAAAGGAGAAAAAAAAACTTGTAAGGTATATAATAGT
CTG
Found at i:10414671 original size:36 final size:34
Alignment explanation
Indices: 10414629--10414709 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 34
10414619 AGGTGTATGT
10414629 TATTATAAA-ATTTATAGTTAAAAATATATATTATAA
1 TATTATAAATATTTA-A-TTAAAAATATATATTAT-A
**
10414665 TATTATAATATATTTAATTAAGTATATATATTATA
1 TATTATAA-ATATTTAATTAAAAATATATATTATA
10414700 TATTATAAAT
1 TATTATAAAT
10414710 GAATGAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
34 2 0.05
35 9 0.22
36 23 0.56
37 2 0.05
38 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (34 bp):
TATTATAAATATTTAATTAAAAATATATATTATA
Found at i:10415503 original size:24 final size:26
Alignment explanation
Indices: 10415449--10415503 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
10415439 GTGTTTTGCA
* *
10415449 ATTGAAATGAATTGATTTTGTATGTG
1 ATTGAAATGAATTGAATTTATATGTG
*
10415475 A-TGAAAT-TATTGAATTTATAT-TG
1 ATTGAAATGAATTGAATTTATATGTG
10415498 ATTGAA
1 ATTGAA
10415504 TTGGTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 3 0.12
24 15 0.60
25 6 0.24
26 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (26 bp):
ATTGAAATGAATTGAATTTATATGTG
Found at i:10418709 original size:25 final size:25
Alignment explanation
Indices: 10418624--10418783 Score: 167
Period size: 25 Copynumber: 6.6 Consensus size: 25
10418614 TTGTTATGCA
10418624 CTAATGAA-CAGAGAGCACTGAA-GTG
1 CTAAT-AATCAGAGAGCACT-AATGTG
10418649 CT-AT-A-CAGAGAGCAC-AGATGTG
1 CTAATAATCAGAGAGCACTA-ATGTG
*
10418671 CT-A-AA-CAGAGAGCACTGATGTG
1 CTAATAATCAGAGAGCACTAATGTG
* * *
10418693 CTAGTAATCAGAGAGCATTAACGTG
1 CTAATAATCAGAGAGCACTAATGTG
10418718 CTAATAATCAGAGAGCACTAATGTG
1 CTAATAATCAGAGAGCACTAATGTG
* *
10418743 CTAATAATCAGAGAGCACCAACGTG
1 CTAATAATCAGAGAGCACTAATGTG
*
10418768 CTAATATTCAGAGAGC
1 CTAATAATCAGAGAGC
10418784 GTGCTAAAGT
Statistics
Matches: 117, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 35 0.30
24 4 0.03
25 76 0.65
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTAATGTG
Found at i:10419735 original size:5 final size:5
Alignment explanation
Indices: 10419725--10419753 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10419715 TTATTTCTTT
10419725 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
10419754 TAACTTAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:10422440 original size:3 final size:3
Alignment explanation
Indices: 10422434--10422463 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10422424 ACCACCACTG
10422434 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
10422464 CTCTCTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:10428381 original size:3 final size:3
Alignment explanation
Indices: 10428373--10428399 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10428363 GTTAAAACAA
10428373 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
10428400 CTTAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10429139 original size:9 final size:9
Alignment explanation
Indices: 10429117--10429153 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
10429107 ATTTTTATTT
10429117 TTAAAAATA
1 TTAAAAATA
*
10429126 TTTAAAATTA
1 -TTAAAAATA
10429136 TTAAAAATA
1 TTAAAAATA
10429145 TTAAAAATA
1 TTAAAAATA
10429154 CATATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TTAAAAATA
Found at i:10429335 original size:15 final size:15
Alignment explanation
Indices: 10429245--10429374 Score: 54
Period size: 15 Copynumber: 8.5 Consensus size: 15
10429235 ATTTCAATTT
*
10429245 TATTTTAACAATAAA
1 TATTTTAATAATAAA
10429260 T-TTTTAA-AATAAGA
1 TATTTTAATAATAA-A
10429274 -ATTTTAAATAATACTAA
1 TATTTT-AATAATA--AA
* * * *
10429291 CATATTATTGA-AAA
1 TATTTTAATAATAAA
* * *
10429305 TA-TTCAATATTCAA
1 TATTTTAATAATAAA
10429319 TATTTTAATAATAAA
1 TATTTTAATAATAAA
*
10429334 TATTTATTACAATTATAAA
1 TA-TT-TT--AATAATAAA
*
10429353 TATATTAATAATAAA
1 TATTTTAATAATAAA
*
10429368 TGTTTTA
1 TATTTTA
10429375 TAGTATAAAG
Statistics
Matches: 84, Mismatches: 18, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
13 8 0.10
14 18 0.21
15 27 0.32
16 7 0.08
17 8 0.10
18 6 0.07
19 10 0.12
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (15 bp):
TATTTTAATAATAAA
Found at i:10429769 original size:32 final size:34
Alignment explanation
Indices: 10429731--10429803 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 34
10429721 CAACTTTTAT
*
10429731 AAAATATTTTTA-A-GAAATCTACCAAACAACAG
1 AAAATATTTTTACACGAAATCAACCAAACAACAG
* * *
10429763 AAAATA-TTTTACACGGATTCAACCAAACACCAG
1 AAAATATTTTTACACGAAATCAACCAAACAACAG
10429796 AAAATATT
1 AAAATATT
10429804 AACTTTTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 5 0.15
32 7 0.21
33 21 0.62
34 1 0.03
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.25
Consensus pattern (34 bp):
AAAATATTTTTACACGAAATCAACCAAACAACAG
Found at i:10429839 original size:14 final size:14
Alignment explanation
Indices: 10429820--10429859 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
10429810 TTCAAAAAAG
10429820 TAAATCATTTTCCA
1 TAAATCATTTTCCA
*
10429834 TAAATCATTTTCCG
1 TAAATCATTTTCCA
*
10429848 TAAGTCATTTTC
1 TAAATCATTTTC
10429860 AATGAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (14 bp):
TAAATCATTTTCCA
Found at i:10431755 original size:36 final size:37
Alignment explanation
Indices: 10431715--10431795 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 37
10431705 AGGATTGAAC
* *
10431715 TGTAGAACAAG-AAAAA-TT-GCTTTTGAGGAATTAAAT
1 TGTAGAA-AAGTAAAAATTTGGATTTT-AGGAACTAAAT
*
10431751 TGTAGAATAGTAAAAATTTGGATTTTAGGAACTAAAT
1 TGTAGAAAAGTAAAAATTTGGATTTTAGGAACTAAAT
10431788 TGTA-AAAA
1 TGTAGAAAA
10431796 TATATAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
35 2 0.05
36 15 0.39
37 16 0.42
38 5 0.13
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.32
Consensus pattern (37 bp):
TGTAGAAAAGTAAAAATTTGGATTTTAGGAACTAAAT
Found at i:10433190 original size:78 final size:78
Alignment explanation
Indices: 10433070--10433226 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
10433060 ATTATAATAC
10433070 TTTAAATACTAATCCCAAAAATTTTCATTTTAACATTACTATCTTTACCCGAACGTATAAGTAAA
1 TTTAAATACTAATCCCAAAAATTTTCATTTTAACATTACTATCTTTACCCGAACGTATAAGTAAA
10433135 TAGTTTATAAATT
66 TAGTTTATAAATT
10433148 TTTAAATACTAATCCCAAAAATTTTCATTTTAACATTACTATCTTTACCCGAACGTATAAGTAAA
1 TTTAAATACTAATCCCAAAAATTTTCATTTTAACATTACTATCTTTACCCGAACGTATAAGTAAA
10433213 TAGTTTATAAATT
66 TAGTTTATAAATT
10433226 T
1 T
10433227 CAAATTTACT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.40
Consensus pattern (78 bp):
TTTAAATACTAATCCCAAAAATTTTCATTTTAACATTACTATCTTTACCCGAACGTATAAGTAAA
TAGTTTATAAATT
Found at i:10434549 original size:41 final size:41
Alignment explanation
Indices: 10434491--10434608 Score: 200
Period size: 41 Copynumber: 2.9 Consensus size: 41
10434481 TGATTCAATA
* *
10434491 CACCGGCATTAAACCTGCTAGACGTAAGGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
* *
10434532 CATCGGCGTTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
10434573 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAA
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAA
10434609 ATCTCATATA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
Found at i:10437767 original size:40 final size:39
Alignment explanation
Indices: 10437646--10437777 Score: 110
Period size: 40 Copynumber: 3.4 Consensus size: 39
10437636 GACTTCGAGT
* * *
10437646 CGATGAGACATTGGGTGTCAATTTACTACTTC-AGATTAATT
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGA-ATT-ATC
* * ** *
10437687 CGATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGAATTATC
*
10437724 CGATGAGACACTGGGTGTCAACTTATTACTCCGAATTATC
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGAATTATC
10437764 CGATGATG-CACTGG
1 CGATGA-GACACTGG
10437778 TTGCCAAACT
Statistics
Matches: 72, Mismatches: 14, Indels: 11
0.74 0.14 0.11
Matches are distributed among these distances:
37 20 0.28
38 8 0.11
39 2 0.03
40 23 0.32
41 19 0.26
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGAATTATC
Found at i:10442052 original size:24 final size:25
Alignment explanation
Indices: 10442024--10442078 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
10442014 GTCATTAGGG
* * *
10442024 TTACCGATTC-CAACTCTTATTAGC
1 TTACCGATACTCAACTCGTATAAGC
10442048 TTACCGATACTCAACTCGTATAAGC
1 TTACCGATACTCAACTCGTATAAGC
10442073 TTACCG
1 TTACCG
10442079 TTATTCAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (25 bp):
TTACCGATACTCAACTCGTATAAGC
Found at i:10442121 original size:24 final size:25
Alignment explanation
Indices: 10442045--10442121 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
10442035 AACTCTTATT
* * * *
10442045 AGCTTACCGATACTCAACTCGTATA
1 AGCTTACCGTTATTCAGCTCGTATG
* *
10442070 AGCTTACCGTTATTCAGCTCGGAGG
1 AGCTTACCGTTATTCAGCTCGTATG
*
10442095 AGCTTAGCGTT-TATC-GCTCGTATG
1 AGCTTACCGTTAT-TCAGCTCGTATG
10442119 AGC
1 AGC
10442122 ATACATGTAC
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
24 11 0.26
25 31 0.74
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (25 bp):
AGCTTACCGTTATTCAGCTCGTATG
Found at i:10447546 original size:6 final size:6
Alignment explanation
Indices: 10447531--10447564 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10447521 GTTTCATCAA
* *
10447531 CCAAAC CCAAAT CCAAAC CCAAAC CCAAAT CCAA
1 CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAA
10447565 GATTTTGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.44, G:0.00, T:0.06
Consensus pattern (6 bp):
CCAAAC
Found at i:10448357 original size:8 final size:8
Alignment explanation
Indices: 10448344--10448370 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
10448334 CTTTTAGGGT
10448344 ATATAATA
1 ATATAATA
10448352 ATATAATA
1 ATATAATA
10448360 ATATAATA
1 ATATAATA
10448368 ATA
1 ATA
10448371 GCTTTTGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATAATA
Found at i:10449390 original size:19 final size:19
Alignment explanation
Indices: 10449366--10449403 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10449356 TTGATGCAAG
10449366 GCTTTTCTGGTAAAATTTT
1 GCTTTTCTGGTAAAATTTT
10449385 GCTTTTCTGGTAAAATTTT
1 GCTTTTCTGGTAAAATTTT
10449404 TCTCAGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (19 bp):
GCTTTTCTGGTAAAATTTT
Found at i:10453409 original size:24 final size:24
Alignment explanation
Indices: 10453365--10453417 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
10453355 TTTCTAAAAG
**
10453365 ATTTAGTATTTATGTGTATAATAT
1 ATTTAGTATTTATGTACATAATAT
10453389 ATTTAGTATTTAT-TAACATAATAT
1 ATTTAGTATTTATGT-ACATAATAT
10453413 ATTTA
1 ATTTA
10453418 ACTTTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.53
Consensus pattern (24 bp):
ATTTAGTATTTATGTACATAATAT
Found at i:10456056 original size:38 final size:37
Alignment explanation
Indices: 10456014--10456097 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 37
10456004 TGATAAATAT
*
10456014 AAATGATATAATAT-AATTTAAATTTGAAATTTCAACAA
1 AAATGATATAATATAAATTGAAA-TTGAAATTTCAA-AA
*
10456052 AAATGATATAATATAAATTGAAATTGAAATTTTAAAA
1 AAATGATATAATATAAATTGAAATTGAAATTTCAAAA
10456089 AAATTGATA
1 AAA-TGATA
10456098 ATACATAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
37 5 0.12
38 30 0.71
39 7 0.17
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (37 bp):
AAATGATATAATATAAATTGAAATTGAAATTTCAAAA
Found at i:10458127 original size:18 final size:18
Alignment explanation
Indices: 10458104--10458155 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
10458094 GAAACTCTAT
10458104 ATCCTTCAGGGATTTTAA
1 ATCCTTCAGGGATTTTAA
10458122 ATCCTTCAGGGATTTTAA
1 ATCCTTCAGGGATTTTAA
* *
10458140 ATTCTTCAAGGATTTT
1 ATCCTTCAGGGATTTT
10458156 CATATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (18 bp):
ATCCTTCAGGGATTTTAA
Found at i:10458727 original size:20 final size:20
Alignment explanation
Indices: 10458699--10458739 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
10458689 AAATCTCCTT
*
10458699 TTGGGTTTTTTGATTAGTTA
1 TTGGATTTTTTGATTAGTTA
10458719 TTGGATTTTTTGATTAGTTA
1 TTGGATTTTTTGATTAGTTA
10458739 T
1 T
10458740 ATCTTTAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.22, T:0.61
Consensus pattern (20 bp):
TTGGATTTTTTGATTAGTTA
Found at i:10461928 original size:29 final size:32
Alignment explanation
Indices: 10461876--10461942 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 32
10461866 TTGGCCTGAA
10461876 TATATTATGTTATAAAAATTAATTATAT-TAAT
1 TATA-TATGTTATAAAAATTAATTATATATAAT
* *
10461908 TATATATGTTA-AATAA-TAATTATATATATT
1 TATATATGTTATAAAAATTAATTATATATAAT
10461938 TATAT
1 TATAT
10461943 TAAATCACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 9 0.28
30 12 0.38
31 7 0.22
32 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
TATATATGTTATAAAAATTAATTATATATAAT
Found at i:10462033 original size:7 final size:7
Alignment explanation
Indices: 10462021--10462045 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10462011 AACCCAAGCC
10462021 AAAATAT
1 AAAATAT
10462028 AAAATAT
1 AAAATAT
10462035 AAAATAT
1 AAAATAT
10462042 AAAA
1 AAAA
10462046 ATTATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:10463940 original size:31 final size:31
Alignment explanation
Indices: 10463902--10463960 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
10463892 TAAACTGTAT
10463902 GCATTAGGGGATAGT-TCCAGTTATGCATTCA
1 GCATTAGGGGATAGTAT-CAGTTATGCATTCA
10463933 GCATTAGGGGATAGTATCAGTTATGCAT
1 GCATTAGGGGATAGTATCAGTTATGCAT
10463961 CTAGGTTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (31 bp):
GCATTAGGGGATAGTATCAGTTATGCATTCA
Found at i:10468614 original size:61 final size:64
Alignment explanation
Indices: 10468508--10468629 Score: 144
Period size: 62 Copynumber: 2.0 Consensus size: 64
10468498 GGAAGCTACC
** * *
10468508 TAAAAATTTCAAAAAACTTTAAGAGAAAAAT-AAAATTTTCTAAAAATTTTGGGG-GGCCTAAT
1 TAAAAATTTCAAAAAACTTTAAGAGAAAAATAAAAATTCCCAAAAAATTTAGGGGTGGCCTAAT
* * *
10468570 TAAAATTTTCTAAAAA-TTTGAAG-GAAAAGTAAAAATTCCCAAAAAATTTAGGGGTGGCCT
1 TAAAAATTTCAAAAAACTTT-AAGAGAAAAATAAAAATTCCCAAAAAATTTAGGGGTGGCCT
10468630 TAAGCCACCA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
61 9 0.18
62 36 0.72
63 5 0.10
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.30
Consensus pattern (64 bp):
TAAAAATTTCAAAAAACTTTAAGAGAAAAATAAAAATTCCCAAAAAATTTAGGGGTGGCCTAAT
Found at i:10476683 original size:7 final size:7
Alignment explanation
Indices: 10476662--10476698 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
10476652 CTACTCGACT
10476662 TCACAGC
1 TCACAGC
10476669 TC-CAGC
1 TCACAGC
10476675 TCACAGC
1 TCACAGC
10476682 TCACAGC
1 TCACAGC
*
10476689 TCACATC
1 TCACAGC
10476696 TCA
1 TCA
10476699 TTTGAGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.27, C:0.43, G:0.11, T:0.19
Consensus pattern (7 bp):
TCACAGC
Found at i:10489995 original size:15 final size:16
Alignment explanation
Indices: 10489967--10489996 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10489957 TATTTTAGTC
10489967 ATTATTTGTGAAATTA
1 ATTATTTGTGAAATTA
10489983 ATTATTT-TGAAATT
1 ATTATTTGTGAAATT
10489997 TGGTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (16 bp):
ATTATTTGTGAAATTA
Found at i:10491725 original size:25 final size:25
Alignment explanation
Indices: 10491697--10491750 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
10491687 ATACAGGTAA
*
10491697 AACAACTCGCATGATAATATGACAT
1 AACAACTCACATGATAATATGACAT
*
10491722 AACAACTCACCTGATAATATGACAT
1 AACAACTCACATGATAATATGACAT
10491747 AACA
1 AACA
10491751 CATAACACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.22
Consensus pattern (25 bp):
AACAACTCACATGATAATATGACAT
Found at i:10491941 original size:25 final size:23
Alignment explanation
Indices: 10491896--10491941 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
10491886 TGTAGCATGA
10491896 GTGCTCACACTCTCTAAACACAC
1 GTGCTCACACTCTCTAAACACAC
10491919 GTGCTCACACTCTCTAAACACAC
1 GTGCTCACACTCTCTAAACACAC
10491942 CATGCTGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.39, G:0.09, T:0.22
Consensus pattern (23 bp):
GTGCTCACACTCTCTAAACACAC
Found at i:10492227 original size:17 final size:17
Alignment explanation
Indices: 10492205--10492246 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
10492195 TAACCTTATA
* *
10492205 GGTTCGTATGTAACATG
1 GGTTCGCATATAACATG
10492222 GGTTCGCATATAACATG
1 GGTTCGCATATAACATG
10492239 GGTTCGCA
1 GGTTCGCA
10492247 AAAACATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (17 bp):
GGTTCGCATATAACATG
Found at i:10492294 original size:17 final size:17
Alignment explanation
Indices: 10492274--10492306 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10492264 GCATAATATA
10492274 TAGGTTCACACATGGTG
1 TAGGTTCACACATGGTG
*
10492291 TAGGTTCGCACATGGT
1 TAGGTTCACACATGGT
10492307 TAAGGGCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (17 bp):
TAGGTTCACACATGGTG
Found at i:10492372 original size:23 final size:23
Alignment explanation
Indices: 10492346--10492397 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
10492336 TACATATATC
*
10492346 ATAACAGGGTTCACACATGTTGT
1 ATAACAGGGTTCACACATGTAGT
* * *
10492369 ATAATAGGTTTTACACATGTAGT
1 ATAACAGGGTTCACACATGTAGT
10492392 ATAACA
1 ATAACA
10492398 CAGTTAACAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACAGGGTTCACACATGTAGT
Found at i:10493431 original size:18 final size:15
Alignment explanation
Indices: 10493395--10493425 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
10493385 CCCATTCTTC
10493395 CTCTTTTTCAATTAA
1 CTCTTTTTCAATTAA
10493410 CTCTATTTTCAATTAA
1 CTCT-TTTTCAATTAA
10493426 AACTCTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.29, C:0.19, G:0.00, T:0.52
Consensus pattern (15 bp):
CTCTTTTTCAATTAA
Found at i:10497676 original size:18 final size:17
Alignment explanation
Indices: 10497644--10497677 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10497634 AAATTCACAT
*
10497644 ATCATCATTCTCAATTC
1 ATCATCATTCACAATTC
10497661 ATCATCAATTCACAATT
1 ATCATC-ATTCACAATT
10497678 TTCTCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (17 bp):
ATCATCATTCACAATTC
Found at i:10501236 original size:7 final size:7
Alignment explanation
Indices: 10501224--10501309 Score: 92
Period size: 6 Copynumber: 12.3 Consensus size: 7
10501214 AAAAAAAGGG
10501224 TGAAAAA
1 TGAAAAA
10501231 TGAAAAAAA
1 TG--AAAAA
10501240 TG-AAAA
1 TGAAAAA
10501246 TGAAAAA
1 TGAAAAA
10501253 TGAAAAAA
1 TG-AAAAA
10501261 TG-AAAA
1 TGAAAAA
10501267 TGAAAAAA
1 TG-AAAAA
10501275 TG-AAAA
1 TGAAAAA
10501281 TGAAAAA
1 TGAAAAA
10501288 TG-AAAA
1 TGAAAAA
10501294 TGAAAAA
1 TGAAAAA
10501301 -GTAAAAA
1 TG-AAAAA
10501308 TG
1 TG
10501310 GAGAGGCTAA
Statistics
Matches: 69, Mismatches: 0, Indels: 19
0.78 0.00 0.22
Matches are distributed among these distances:
6 25 0.36
7 23 0.33
8 14 0.20
9 7 0.10
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
TGAAAAA
Found at i:10501239 original size:22 final size:21
Alignment explanation
Indices: 10501224--10501300 Score: 95
Period size: 22 Copynumber: 3.7 Consensus size: 21
10501214 AAAAAAAGGG
10501224 TGAAAAATGAAAAAAATGAAAA
1 TGAAAAATGAAAAAAA-GAAAA
*
10501246 TGAAAAATGAAAAAATGAAAA
1 TGAAAAATGAAAAAAAGAAAA
**
10501267 TGAAAAAATGAAAATGA-AAAA
1 TG-AAAAATGAAAAAAAGAAAA
10501288 TG-AAAATGAAAAA
1 TGAAAAATGAAAAA
10501301 GTAAAAATGG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.20
21 13 0.27
22 26 0.53
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (21 bp):
TGAAAAATGAAAAAAAGAAAA
Found at i:10501259 original size:14 final size:13
Alignment explanation
Indices: 10501236--10501300 Score: 96
Period size: 13 Copynumber: 4.8 Consensus size: 13
10501226 AAAAATGAAA
10501236 AAAATG-AAAATG
1 AAAATGAAAAATG
10501248 AAAAATGAAAAAATG
1 -AAAATG-AAAAATG
10501263 AAAATGAAAAAATG
1 AAAATG-AAAAATG
10501277 AAAATGAAAAATG
1 AAAATGAAAAATG
10501290 AAAATGAAAAA
1 AAAATGAAAAA
10501301 GTAAAAATGG
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
13 24 0.48
14 20 0.40
15 6 0.12
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:10501266 original size:27 final size:26
Alignment explanation
Indices: 10501236--10501309 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 26
10501226 AAAAATGAAA
10501236 AAAATGAAAATGAAAAATGAAAAAATG
1 AAAATGAAAATGAAAAATG-AAAAATG
10501263 AAAATGAAAAAATG-AAAATGAAAAATG
1 AAAATG--AAAATGAAAAATGAAAAATG
*
10501290 AAAATGAAAAAGTAAAAATG
1 AAAATGAAAATG-AAAAATG
10501310 GAGAGGCTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 5 0.12
27 25 0.60
28 6 0.14
29 6 0.14
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (26 bp):
AAAATGAAAATGAAAAATGAAAAATG
Found at i:10501306 original size:13 final size:14
Alignment explanation
Indices: 10501242--10501300 Score: 102
Period size: 14 Copynumber: 4.2 Consensus size: 14
10501232 GAAAAAAATG
10501242 AAAATGAAAAATGAA
1 AAAATG-AAAATGAA
10501257 AAAATGAAAATGAA
1 AAAATGAAAATGAA
10501271 AAAATGAAAATG-A
1 AAAATGAAAATGAA
10501284 AAAATGAAAATGAA
1 AAAATGAAAATGAA
10501298 AAA
1 AAA
10501301 GTAAAAATGG
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.30
14 24 0.56
15 6 0.14
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAATGAAAATGAA
Found at i:10501307 original size:14 final size:14
Alignment explanation
Indices: 10501242--10501309 Score: 84
Period size: 14 Copynumber: 4.9 Consensus size: 14
10501232 GAAAAAAATG
10501242 AAAATGAAAAATGAA
1 AAAAT-AAAAATGAA
*
10501257 AAAATGAAAATGAA
1 AAAATAAAAATGAA
*
10501271 AAAATGAAAATG-A
1 AAAATAAAAATGAA
*
10501284 AAAATGAAAATGAA
1 AAAATAAAAATGAA
*
10501298 AAAGTAAAAATG
1 AAAATAAAAATG
10501310 GAGAGGCTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
13 13 0.27
14 31 0.63
15 5 0.10
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (14 bp):
AAAATAAAAATGAA
Found at i:10501307 original size:21 final size:21
Alignment explanation
Indices: 10501224--10501309 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 21
10501214 AAAAAAAGGG
10501224 TGAAAAATGAAAAAAATG-AAAA
1 TGAAAAATG--AAAAATGAAAAA
10501246 TGAAAAATGAAAAAATG-AAAA
1 TGAAAAATG-AAAAATGAAAAA
10501267 TGAAAAAATG-AAAATGAAAAA
1 TG-AAAAATGAAAAATGAAAAA
10501288 TG-AAAATGAAAAA-GTAAAAA
1 TGAAAAATGAAAAATG-AAAAA
10501308 TG
1 TG
10501310 GAGAGGCTAA
Statistics
Matches: 60, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.12
20 17 0.28
21 20 0.33
22 16 0.27
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (21 bp):
TGAAAAATGAAAAATGAAAAA
Found at i:10502737 original size:87 final size:87
Alignment explanation
Indices: 10502548--10503197 Score: 951
Period size: 87 Copynumber: 7.5 Consensus size: 87
10502538 AGATCAGTGA
* *
10502548 AGATCGAAAACAAAACCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGA-AGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * *
10502612 CTTCCTGCATTAACAGCAAAGT
66 CTTCCTGCATTGACAGCGAAGC
* * * * *
10502634 AGATCAAAAACAAAGCCTTGCCTCTATCGGTCGCAGTGGACCTGGTTAAAGATAGCAGATTTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
10502699 CTTCTTGCATTAACAGCGAAGC
66 CTTCCTGCATTGACAGCGAAGC
* *
10502721 AGATCGAAAACCAAGCCTTCCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
10502786 CTTCCTGCATTGACAGCAAAGC
66 CTTCCTGCATTGACAGCGAAGC
* * * *
10502808 AGATCGAAAACAAAGCCTTGCCTCCATCGTTTGCAGTGGAGCTTGTTAAAGATAACAGATCTTTC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
10502873 CTTCCTGCATTGATAGCGAAGT
66 CTTCCTGCATTGACAGCGAAGC
* *
10502895 AGATCAAAAACCAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * * *
10502960 CTTCCTCCATTGAGAGTGAGGC
66 CTTCCTGCATTGACAGCGAAGC
10502982 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
10503047 CTTCCTGCATTGACAGCGAAGC
66 CTTCCTGCATTGACAGCGAAGC
* * * * *
10503069 ACATAGAAGACCCAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
1 AGATCGAA-AACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
*
10503134 CCTTCCTGCATTGACAGCGAAAC
65 CCTTCCTGCATTGACAGCGAAGC
* ** *
10503157 AGATCCAAAATGAAGCCTTGCCTCCATCGGTTGTAGTGGAG
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAG
10503198 TAGATTGAAT
Statistics
Matches: 502, Mismatches: 60, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
86 46 0.09
87 376 0.75
88 80 0.16
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTGACAGCGAAGC
Found at i:10519171 original size:20 final size:20
Alignment explanation
Indices: 10519069--10519230 Score: 55
Period size: 20 Copynumber: 8.1 Consensus size: 20
10519059 ACTTCGGTAT
*
10519069 CCCTGAATGCACATACGTGC
1 CCCTGAATGCACTTACGTGC
* * ** *
10519089 CCCT-ATTTGTACTTTTGTAC
1 CCCTGA-ATGCACTTACGTGC
*
10519109 CCCTG-ATCGCACTTACATGC
1 CCCTGAAT-GCACTTACGTGC
* ** * *
10519129 CCTTGTTTGTACTT-CAGTTC
1 CCCTGAATGCACTTAC-GTGC
10519149 CCCTGAATGCACTTACGTGC
1 CCCTGAATGCACTTACGTGC
* * ** *
10519169 CCCT-ATTTGTACTTTGGTAC
1 CCCTGA-ATGCACTTACGTGC
** *
10519189 CGTTGAATGCACTT-CGGTAC
1 CCCTGAATGCACTTAC-GTGC
*
10519209 CCCTGAATGCACTTTCGTGC
1 CCCTGAATGCACTTACGTGC
10519229 CC
1 CC
10519231 TTATTTATAC
Statistics
Matches: 97, Mismatches: 35, Indels: 20
0.64 0.23 0.13
Matches are distributed among these distances:
19 4 0.04
20 89 0.92
21 4 0.04
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (20 bp):
CCCTGAATGCACTTACGTGC
Found at i:10519212 original size:40 final size:40
Alignment explanation
Indices: 10519036--10519202 Score: 201
Period size: 40 Copynumber: 4.2 Consensus size: 40
10519026 TATTGATGAT
* *
10519036 TGCACTTATGTGCCCCTATTTGTACTTCGGTATCCCTGAA
1 TGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTGAA
* **
10519076 TGCACATACGTGCCCCTATTTGTACTTTTGTACCCCTG-A
1 TGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTGAA
* * * * *
10519115 TCGCACTTACATGCCCTTGTTTGTACTTCAGTTCCCCTGAA
1 T-GCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTGAA
* **
10519156 TGCACTTACGTGCCCCTATTTGTACTTTGGTACCGTTGAA
1 TGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTGAA
10519196 TGCACTT
1 TGCACTT
10519203 CGGTACCCCT
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (40 bp):
TGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTGAA
Found at i:10535432 original size:23 final size:23
Alignment explanation
Indices: 10535392--10535439 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
10535382 ATATATATTT
*
10535392 ATATATTTTTATAATTAAATTAA
1 ATATATTTTTATAATTAAATCAA
*
10535415 ATATA-TTTTATTATTTAAATCAA
1 ATATATTTTTA-TAATTAAATCAA
10535438 AT
1 AT
10535440 TTAGACCGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATATTTTTATAATTAAATCAA
Found at i:10535697 original size:37 final size:36
Alignment explanation
Indices: 10535632--10535703 Score: 99
Period size: 37 Copynumber: 2.0 Consensus size: 36
10535622 TTGGTTTTCA
* *
10535632 AACAAGACATTGATAGAATATATAAAAATATAATAG
1 AACAAGACATAGATAGAATATAGAAAAATATAATAG
* *
10535668 AACAAGACAATAGATAGAATATAGGAAAATGTAATA
1 AACAAGAC-ATAGATAGAATATAGAAAAATATAATA
10535704 AAACCTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 8 0.26
37 23 0.74
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (36 bp):
AACAAGACATAGATAGAATATAGAAAAATATAATAG
Found at i:10538008 original size:8 final size:8
Alignment explanation
Indices: 10537995--10538019 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10537985 ACGGATGTCG
10537995 AAAGCACA
1 AAAGCACA
10538003 AAAGCACA
1 AAAGCACA
10538011 AAAGCACA
1 AAAGCACA
10538019 A
1 A
10538020 GCAATCTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.24, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAGCACA
Found at i:10540840 original size:35 final size:35
Alignment explanation
Indices: 10540794--10540866 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
10540784 ATTATCTATT
* * * *
10540794 GGTCCTTCGAGGTGACATTGTGTAATCAATATATA
1 GGTCATTCGAGGCGACACTATGTAATCAATATATA
* *
10540829 GGTCATTCGAGGCGATACTATGTAATCGATATATA
1 GGTCATTCGAGGCGACACTATGTAATCAATATATA
10540864 GGT
1 GGT
10540867 TCTACGAAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.33
Consensus pattern (35 bp):
GGTCATTCGAGGCGACACTATGTAATCAATATATA
Found at i:10546655 original size:50 final size:50
Alignment explanation
Indices: 10546539--10546781 Score: 378
Period size: 50 Copynumber: 4.8 Consensus size: 50
10546529 GATAAGGACA
* ** *
10546539 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
10546590 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
10546640 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
10546690 TGCCAACGCCATGTCCCAGACATGGACTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
10546740 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
10546782 TTACCCAAAT
Statistics
Matches: 176, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 142 0.81
51 34 0.19
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:10551871 original size:16 final size:18
Alignment explanation
Indices: 10551844--10551876 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10551834 ATAAATTAAT
10551844 TTAAATTAA-TTTCTCAA
1 TTAAATTAATTTTCTCAA
10551861 TTAAA-TAATTTTCTCA
1 TTAAATTAATTTTCTCA
10551877 GCCTGATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAATTAATTTTCTCAA
Found at i:10556435 original size:17 final size:17
Alignment explanation
Indices: 10556409--10556441 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10556399 TCTCAGATTT
10556409 TGATAACCATATCTTTC
1 TGATAACCATATCTTTC
*
10556426 TGATACCCATATCTTT
1 TGATAACCATATCTTT
10556442 GACTTTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATAACCATATCTTTC
Found at i:10561038 original size:11 final size:11
Alignment explanation
Indices: 10561024--10561061 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
10561014 TTTATCTTTT
*
10561024 CTTTTTTGTGA
1 CTTTTATGTGA
10561035 CTTTTATGTGA
1 CTTTTATGTGA
10561046 CTTTTATGTGA
1 CTTTTATGTGA
10561057 CTTTT
1 CTTTT
10561062 TCGTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.13, C:0.11, G:0.16, T:0.61
Consensus pattern (11 bp):
CTTTTATGTGA
Found at i:10566478 original size:16 final size:16
Alignment explanation
Indices: 10566448--10566480 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10566438 AATTTTTATT
*
10566448 TTTATTTTATTTTTGG
1 TTTATTTAATTTTTGG
10566464 TTTATTTAATTTTTGG
1 TTTATTTAATTTTTGG
10566480 T
1 T
10566481 ACATGACTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (16 bp):
TTTATTTAATTTTTGG
Found at i:10569622 original size:85 final size:85
Alignment explanation
Indices: 10569453--10569731 Score: 344
Period size: 86 Copynumber: 3.2 Consensus size: 85
10569443 ACAGATGAAT
* * * *
10569453 AGTGGCAATTTAATCTGCAAACAGTATGGTTCAATCATGAACCGAGTGACAATTTGTTTAATCTG
1 AGTGGCAA--TAA-CTGCAAATAGTGTGGTTCAATCACGAACCAAGTGAC-ATTTGTTTAATCTG
*
10569518 GAAATATGTTGTGCACTCACAACA
62 CAAATATGTTGTGCACTCACAACA
* * * *
10569542 AGTGGCAATAACTGTAAATA-TGTGGTTCAATCACGAACCAAGTGGCAGTTTGTTTAATTTGCTA
1 AGTGGCAATAACTGCAAATAGTGTGGTTCAATCACGAACCAAGTGACA-TTTGTTTAATCTGCAA
10569606 ATATGTTGTGCACTCACAACA
65 ATATGTTGTGCACTCACAACA
* * * * *
10569627 AGTGGCAGTAACTACAAATAGTTTGGTTCAATCACGAACGAAGTGACTATTTTTTTAATCTGCAA
1 AGTGGCAATAACTGCAAATAGTGTGGTTCAATCACGAACCAAGTGAC-ATTTGTTTAATCTGCAA
* *
10569692 ATATGTTGTGTACCCACAACA
65 ATATGTTGTGCACTCACAACA
*
10569713 AGTGGCAATAACTGGAAAT
1 AGTGGCAATAACTGCAAAT
10569732 GAACGATGGT
Statistics
Matches: 164, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
84 1 0.01
85 73 0.45
86 78 0.48
87 4 0.02
89 8 0.05
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (85 bp):
AGTGGCAATAACTGCAAATAGTGTGGTTCAATCACGAACCAAGTGACATTTGTTTAATCTGCAAA
TATGTTGTGCACTCACAACA
Found at i:10569710 original size:86 final size:85
Alignment explanation
Indices: 10569470--10569725 Score: 327
Period size: 85 Copynumber: 3.0 Consensus size: 85
10569460 ATTTAATCTG
* * *
10569470 CAAACAGTATGGTTCAATCATGAACCG-AGTGACAATTTGTTTAATCTGGAAATATGTTGTGCAC
1 CAAATAGTATGGTTCAATCACGAA-CGAAGTGAC-ATTTGTTTAATCTGCAAATATGTTGTGCAC
*
10569534 TCACAACAAGTGGCAATAACTG
64 TCACAACAAGTGGCAATAACTA
* * * * * *
10569556 TAAATA-TGTGGTTCAATCACGAACCAAGTGGCAGTTTGTTTAATTTGCTAATATGTTGTGCACT
1 CAAATAGTATGGTTCAATCACGAACGAAGTGACA-TTTGTTTAATCTGCAAATATGTTGTGCACT
*
10569620 CACAACAAGTGGCAGTAACTA
65 CACAACAAGTGGCAATAACTA
* * * *
10569641 CAAATAGTTTGGTTCAATCACGAACGAAGTGACTATTTTTTTAATCTGCAAATATGTTGTGTACC
1 CAAATAGTATGGTTCAATCACGAACGAAGTGAC-ATTTGTTTAATCTGCAAATATGTTGTGCACT
10569706 CACAACAAGTGGCAATAACT
65 CACAACAAGTGGCAATAACT
10569726 GGAAATGAAC
Statistics
Matches: 145, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
84 2 0.01
85 71 0.49
86 71 0.49
87 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (85 bp):
CAAATAGTATGGTTCAATCACGAACGAAGTGACATTTGTTTAATCTGCAAATATGTTGTGCACTC
ACAACAAGTGGCAATAACTA
Found at i:10571919 original size:44 final size:43
Alignment explanation
Indices: 10571837--10571963 Score: 127
Period size: 44 Copynumber: 2.9 Consensus size: 43
10571827 AGGATTCCGT
*
10571837 TATGTG-TTATCATGTAAGACCACGTCTGGGACGTTGGCATCGAC
1 TATGTGATTA-CATGTAAGACCACGTCTAGGACGTTGGCATCG-C
* *
10571881 T-TGTGACTTACGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGT
1 TATGTGA-TTACATGTAAGACCAC-GTCTAGGAC-GTTGGCATCGC
* * *
10571924 TATGTGATTACATGTAAGACCACGTTTGGGACATTGGCAT
1 TATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
10571964 TGTACAAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
43 32 0.46
44 33 0.48
45 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
TATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCATCGC
Found at i:10571956 original size:43 final size:43
Alignment explanation
Indices: 10571834--10571963 Score: 142
Period size: 43 Copynumber: 3.0 Consensus size: 43
10571824 CATAGGATTC
10571834 CGTTATGTG-TTATCATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGTTATGTGATTA-CATGTAAGACCACGTCTGGGACAG-TGGCAT
* * *
10571877 CGACT-TGTGACTTACGTGTAAGACC-CTGTCTAGGACAGTGGCAT
1 CG-TTATGTGA-TTACATGTAAGACCAC-GTCTGGGACAGTGGCAT
* *
10571921 CGTTATGTGATTACATGTAAGACCACGTTTGGGACATTGGCAT
1 CGTTATGTGATTACATGTAAGACCACGTCTGGGACAGTGGCAT
10571964 TGTACAAAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
43 35 0.49
44 33 0.46
45 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTTATGTGATTACATGTAAGACCACGTCTGGGACAGTGGCAT
Found at i:10575861 original size:12 final size:11
Alignment explanation
Indices: 10575834--10575871 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
10575824 GAAAATAGTC
10575834 AAAATTAATA-
1 AAAATTAATAT
10575844 AAAATTAACTAT
1 AAAATTAA-TAT
10575856 AAAATTAAT-T
1 AAAATTAATAT
10575866 AAAATT
1 AAAATT
10575872 CATCATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:10581240 original size:10 final size:10
Alignment explanation
Indices: 10581225--10581250 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10581215 CCTAATTATC
10581225 GAGTATGTTT
1 GAGTATGTTT
10581235 GAGTATGTTT
1 GAGTATGTTT
10581245 GAGTAT
1 GAGTAT
10581251 TGAAGTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (10 bp):
GAGTATGTTT
Found at i:10584236 original size:33 final size:34
Alignment explanation
Indices: 10584194--10584309 Score: 107
Period size: 33 Copynumber: 3.4 Consensus size: 34
10584184 TCAGCTAGAT
10584194 ATTTATCCAACTCAGATGTTTTATCCTCACCACC
1 ATTTATCCAACTCAGATGTTTTATCCTCACCACC
* * * * *
10584228 ATTT-TCCAACTCACGCT-TTTTAT-ATAAAGCTTGA-T
1 ATTTATCCAACTCA-GATGTTTTATCCT-CA-C--CACC
10584263 ATTTATCCAACTCAGATGTTTTATCCTCACCACC
1 ATTTATCCAACTCAGATGTTTTATCCTCACCACC
10584297 ATTT-TCCAACTCA
1 ATTTATCCAACTCA
10584310 CACTTTTTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 19
0.68 0.11 0.21
Matches are distributed among these distances:
32 1 0.02
33 26 0.41
34 11 0.17
35 7 0.11
36 17 0.27
37 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.38
Consensus pattern (34 bp):
ATTTATCCAACTCAGATGTTTTATCCTCACCACC
Found at i:10584302 original size:69 final size:69
Alignment explanation
Indices: 10584186--10584329 Score: 261
Period size: 69 Copynumber: 2.1 Consensus size: 69
10584176 CATTAGCCTC
* *
10584186 AGCTAGATATTTATCCAACTCAGATGTTTTATCCTCACCACCATTTTCCAACTCACGCTTTTTAT
1 AGCTTGATATTTATCCAACTCAGATGTTTTATCCTCACCACCATTTTCCAACTCACACTTTTTAT
*
10584251 ATAA
66 ACAA
10584255 AGCTTGATATTTATCCAACTCAGATGTTTTATCCTCACCACCATTTTCCAACTCACACTTTTTAT
1 AGCTTGATATTTATCCAACTCAGATGTTTTATCCTCACCACCATTTTCCAACTCACACTTTTTAT
10584320 ACAA
66 ACAA
10584324 AGCTTG
1 AGCTTG
10584330 CATTCACCTT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (69 bp):
AGCTTGATATTTATCCAACTCAGATGTTTTATCCTCACCACCATTTTCCAACTCACACTTTTTAT
ACAA
Found at i:10584560 original size:13 final size:13
Alignment explanation
Indices: 10584542--10584566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10584532 CTAGGATCTA
10584542 AAACATAAGCAAC
1 AAACATAAGCAAC
10584555 AAACATAAGCAA
1 AAACATAAGCAA
10584567 ATTCATCTTA
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:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (13 bp):
AAACATAAGCAAC
Found at i:10586911 original size:30 final size:31
Alignment explanation
Indices: 10586877--10586941 Score: 98
Period size: 30 Copynumber: 2.1 Consensus size: 31
10586867 CTTTAAGAGA
*
10586877 TTAAAAATCACTC-CTCTT-GAGTTTTTAAAT
1 TTAAAAATCACTCACTCTTAAAGTTTTT-AAT
10586907 TTAAAAATCACTCACTCTTAAAGTTTTTAAT
1 TTAAAAATCACTCACTCTTAAAGTTTTTAAT
10586938 TTAA
1 TTAA
10586942 GATTTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 13 0.41
31 12 0.38
32 7 0.22
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.43
Consensus pattern (31 bp):
TTAAAAATCACTCACTCTTAAAGTTTTTAAT
Found at i:10588145 original size:20 final size:20
Alignment explanation
Indices: 10588101--10588139 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10588091 TGTGTTACTG
10588101 TTTTAGTTTTAGACTTTTAC
1 TTTTAGTTTTAGACTTTTAC
*
10588121 TTTTAGTTTTAGATTTTTA
1 TTTTAGTTTTAGACTTTTA
10588140 TGTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (20 bp):
TTTTAGTTTTAGACTTTTAC
Found at i:10588191 original size:5 final size:5
Alignment explanation
Indices: 10588174--10588204 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
10588164 ACTTTTATGA
*
10588174 TTGGG TTGAG TTGGG TTGGG TTGGG TTGGG T
1 TTGGG TTGGG TTGGG TTGGG TTGGG TTGGG T
10588205 ACTTGGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.55, T:0.42
Consensus pattern (5 bp):
TTGGG
Found at i:10589542 original size:17 final size:17
Alignment explanation
Indices: 10589520--10589556 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
10589510 GCACGAGCAC
10589520 TCATGTTTGACGTACTA
1 TCATGTTTGACGTACTA
*
10589537 TCATGTTTGATGTACTA
1 TCATGTTTGACGTACTA
10589554 TCA
1 TCA
10589557 CTCCAGTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (17 bp):
TCATGTTTGACGTACTA
Found at i:10594507 original size:20 final size:21
Alignment explanation
Indices: 10594482--10594521 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
10594472 ATGTCCAAGT
10594482 TCAAGTGAAAA-TGAA-ATAGA
1 TCAAGT-AAAACTGAAGATAGA
10594502 TCAAGTAAAACTGAAGATAG
1 TCAAGTAAAACTGAAGATAG
10594522 GCTTAGTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (21 bp):
TCAAGTAAAACTGAAGATAGA
Found at i:10595631 original size:21 final size:22
Alignment explanation
Indices: 10595607--10595649 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10595597 TTACATGTAA
* *
10595607 TTATTTAG-TAAATTATATTGT
1 TTATGTAGTTAAATAATATTGT
10595628 TTATGTAGTTAAATAATATTGT
1 TTATGTAGTTAAATAATATTGT
10595650 ACTTCGTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TTATGTAGTTAAATAATATTGT
Found at i:10598893 original size:37 final size:37
Alignment explanation
Indices: 10598838--10598924 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
10598828 TCCAAGTGTG
*
10598838 TTTATCT-T-TTTTAATCTAGGTGGAAGTAATTTAAA
1 TTTATCTATGTTTAAATCTAGGTGGAAGTAATTTAAA
10598873 TTTATCTATGTTTAAATCTAGGTGGAAGTAATTTAAA
1 TTTATCTATGTTTAAATCTAGGTGGAAGTAATTTAAA
10598910 TTTATCTATGTTTAA
1 TTTATCTATGTTTAA
10598925 CTTATTAAAC
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
35 7 0.14
36 1 0.02
37 41 0.84
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (37 bp):
TTTATCTATGTTTAAATCTAGGTGGAAGTAATTTAAA
Found at i:10600265 original size:49 final size:49
Alignment explanation
Indices: 10600203--10600298 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
10600193 TGCTAATATG
* * *
10600203 TTGTGGATGAACCACTGCTCGTTGCAGATAAACTGTCGACTAAAATACA
1 TTGTGGATAAACCACTGCTCATTGCAGATAAACTGCCGACTAAAATACA
* * *
10600252 TTGTGGTTAAACCACTGGTCATTGCAGATAAACTGCCGACTGAAATA
1 TTGTGGATAAACCACTGCTCATTGCAGATAAACTGCCGACTAAAATA
10600299 TTTATGGATG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (49 bp):
TTGTGGATAAACCACTGCTCATTGCAGATAAACTGCCGACTAAAATACA
Found at i:10600419 original size:33 final size:33
Alignment explanation
Indices: 10600380--10600471 Score: 139
Period size: 33 Copynumber: 2.8 Consensus size: 33
10600370 GCAATACAAC
10600380 ATAACATGCTTATAATAAATCAATACAGTAGTA
1 ATAACATGCTTATAATAAATCAATACAGTAGTA
* *
10600413 ATAACATGCTTATAATAAGTCGATACAGTAGTA
1 ATAACATGCTTATAATAAATCAATACAGTAGTA
* *
10600446 ATTATCATGCTTATAATAGATCAATA
1 A-TAACATGCTTATAATAAATCAATA
10600472 TGGTAGCAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 32 0.62
34 20 0.38
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.33
Consensus pattern (33 bp):
ATAACATGCTTATAATAAATCAATACAGTAGTA
Found at i:10604361 original size:33 final size:32
Alignment explanation
Indices: 10604324--10604501 Score: 124
Period size: 33 Copynumber: 5.3 Consensus size: 32
10604314 ATGCAACATG
* *
10604324 ACATGCTTATAACATATCAATACGGTAGTAATA
1 ACATGCTTATAACA-ATCAATACAGTAGCAATA
* * *
10604357 ACATGCTTATAATAAGTCAATATAGTAGGAATTA
1 ACATGCTTATAACAA-TCAATACAGTAGCAA-TA
* * * * *
10604391 TCATGCCTATAATAGATCAATA-GGGAGCAATAA
1 ACATGCTTATAACA-ATCAATACAGTAGCAAT-A
* *
10604424 ACATGCTTATAACAAGTCGATAAAGTAGCAATTA
1 ACATGCTTATAACAA-TCAATACAGTAGCAA-TA
* *
10604458 ACATGCATTATAACATATCATTACAGTAGTAATAA
1 ACATGC-TTATAACA-ATCAATACAGTAGCAAT-A
*
10604493 ACTTGCTTA
1 ACATGCTTA
10604502 ACATGCATTT
Statistics
Matches: 115, Mismatches: 20, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
32 3 0.03
33 47 0.41
34 37 0.32
35 27 0.23
36 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (32 bp):
ACATGCTTATAACAATCAATACAGTAGCAATA
Found at i:10604504 original size:67 final size:68
Alignment explanation
Indices: 10604324--10604501 Score: 216
Period size: 67 Copynumber: 2.6 Consensus size: 68
10604314 ATGCAACATG
* * *
10604324 ACATGCTTATAACATATCAATACGGTAGTAAT-AACATGCTTATAATAAGTCAATATAGTAGGAA
1 ACATGCTTATAACATATCAATACGGTAGTAATAAACATGCTTATAACAAGTCAATAAAGTAGCAA
10604388 TTA
66 TTA
* * * * * * *
10604391 TCATGCCTATAATAGATCAATA-GGGAGCAATAAACATGCTTATAACAAGTCGATAAAGTAGCAA
1 ACATGCTTATAACATATCAATACGGTAGTAATAAACATGCTTATAACAAGTCAATAAAGTAGCAA
10604455 TTA
66 TTA
* * *
10604458 ACATGCATTATAACATATCATTACAGTAGTAATAAACTTGCTTA
1 ACATGC-TTATAACATATCAATACGGTAGTAATAAACATGCTTA
10604502 ACATGCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
66 7 0.08
67 54 0.61
68 12 0.13
69 16 0.18
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (68 bp):
ACATGCTTATAACATATCAATACGGTAGTAATAAACATGCTTATAACAAGTCAATAAAGTAGCAA
TTA
Found at i:10611158 original size:2 final size:2
Alignment explanation
Indices: 10611151--10611184 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10611141 TTTCCTAAAT
10611151 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
10611185 TACATACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:10611189 original size:4 final size:4
Alignment explanation
Indices: 10611182--10611218 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
10611172 ACACACACAC
10611182 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
10611219 TTTGTAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:10616469 original size:98 final size:98
Alignment explanation
Indices: 10616295--10616491 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
10616285 GTACAATAAA
*
10616295 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
10616360 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
10616393 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
10616458 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
10616491 A
1 A
10616492 TTATTTTTTA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:10617810 original size:19 final size:19
Alignment explanation
Indices: 10617786--10617879 Score: 125
Period size: 19 Copynumber: 4.8 Consensus size: 19
10617776 AATCATATAT
10617786 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
10617805 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
10617824 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
10617845 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10617864 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
10617880 CTCAAAAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
19 47 0.75
21 16 0.25
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10617860 original size:40 final size:39
Alignment explanation
Indices: 10617779--10617878 Score: 125
Period size: 40 Copynumber: 2.6 Consensus size: 39
10617769 ATTACAAAAT
10617779 CATAT-ATTCTAAGATTGC--ATATCATATCTAAGATTA
1 CATATCATTCTAAGATTGCATATATCATATCTAAGATTA
* ** *
10617815 TATATCATCTCTAAGATTGCATATATCATATCTTGGATTG
1 CATATCAT-TCTAAGATTGCATATATCATATCTAAGATTA
10617855 CATATCATATCTAAGATTGCATAT
1 CATATCAT-TCTAAGATTGCATAT
10617879 CCTCAAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
36 4 0.07
37 2 0.04
38 11 0.20
40 37 0.69
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (39 bp):
CATATCATTCTAAGATTGCATATATCATATCTAAGATTA
Found at i:10618198 original size:44 final size:43
Alignment explanation
Indices: 10618093--10618861 Score: 415
Period size: 44 Copynumber: 17.7 Consensus size: 43
10618083 CTTCAATCTA
*
10618093 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CTTCTT-AGTCTG
*
10618138 C-CTCACTGCAATTTCA-GGAGGATAAGACTTGCTTCCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTT-CTTAGTCTG
* * * *
10618182 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAGTCTG
* ** * * *
10618223 CT-CTCTGCAACTTCAAAGAGATAAGATCTGTGATT-TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTCTTAGTCTG
* * * *
10618266 CTCTACTGCAACTTCAGGGAGATAGGATTATCGGC-T-TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTCTTAGTCTG
* * *
10618310 CTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CTTCTT-AGTCTG
* *
10618355 C-CTCACTGTAACTTTA-GGAGGATAAGACTTGCTTACTTAGTCTTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTT-CTTAGTC-TG
* * * * *
10618400 -TCCACCGCAACTTCAGGGAGATAAGACTAGATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAGTCTG
* * * ** * *
10618440 CT-CTCTGTAACTTCAGAGAGATAAGATCTGTAATT-TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTCTTAGTCTG
* * *
10618483 CTCCACTGCAACTTTAGGGAGATAGGA-TTGTCGGTT-TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-C--TTCTTAGTCTG
* * *
10618527 CTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CTTCTT-AGTCTG
**
10618572 C-CTCACTATAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTT-CTTAGTC-TG
* * * * *
10618617 -TCCACCGCAACTTCAGGGAGATAAGACTAGATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAGTCTG
* * * * ** *
10618657 C-ACTCTGTAACTTCAGAGAGATAAGATCTGTAATT-TTA-TTTCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTCTTAGTCT-G
* * ** *
10618700 CTCCACTACAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CTTC-TTAGTCTG
* * *
10618744 CTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CTTCTT-AGTCTG
* * **
10618789 C-CTCACTGTAACTTTA-AAAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTT-CTTAGTCTG
*
10618833 CTCCACTACAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
10618862 AGATGCGATC
Statistics
Matches: 557, Mismatches: 110, Indels: 115
0.71 0.14 0.15
Matches are distributed among these distances:
40 65 0.12
41 20 0.04
42 18 0.03
43 20 0.04
44 286 0.51
45 148 0.27
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAGTCTG
Found at i:10618426 original size:217 final size:217
Alignment explanation
Indices: 10618087--10618962 Score: 1418
Period size: 217 Copynumber: 4.0 Consensus size: 217
10618077 TTAGTTCTTC
* * * *
10618087 AATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGCAA-TT
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
* *
10618151 TCAGGAGGATAAGACTTGCTTCCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATG
66 T-AGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCGCAACTTCAGGGAGATAAGACTAGATG
* *
10618216 CGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCAACTTC
130 CGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTC
*
10618281 AGGGAGATAGGATTATCGGCTTT
195 AGGGAGATAGGATTGTCGGCTTT
* *
10618304 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
10618369 TAGGAGGATAAGACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACTAGATG
66 TAGGAGGATAAGACTTGCTTACTTAGTC-TGCTCCACCGCAACTTCAGGGAGATAAGACTAGATG
* * *
10618433 CGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTT
130 CGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTC
*
10618498 AGGGAGATAGGATTGTCGGTTTT
195 AGGGAGATAGGATTGTCGGCTTT
*
10618521 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTATAACTT
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
*
10618586 CAGGAGGATAAGACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACTAGATG
66 TAGGAGGATAAGACTTGCTTACTTAGTC-TGCTCCACCGCAACTTCAGGGAGATAAGACTAGATG
* * * * * *
10618650 CGATCTGCACTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTATTTCGCTCCACTACAACTTC
130 CGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTC
10618715 AGGGAGATAGGATTGTCGGCTTT
195 AGGGAGATAGGATTGTCGGCTTT
10618738 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
** **
10618803 TAAAAGGATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGC
66 TAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCGCAACTTCAGGGAGATAAGACTAGATGC
* *
10618868 GATCTGCTCTCTGCAACTTCAAAGGGATAAGATCTG-AGATTTTAATCCACTCCACTGCAACTTC
131 GATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTA-ATTTTAATCCGCTCCACTGCAACTTC
*
10618932 AGGGAGATAGGATTGTCGACTTT
195 AGGGAGATAGGATTGTCGGCTTT
10618955 AATCTGCT
1 AATCTGCT
10618963 TCCCACTATC
Statistics
Matches: 617, Mismatches: 38, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
216 3 0.00
217 609 0.99
218 5 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
TAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCGCAACTTCAGGGAGATAAGACTAGATGC
GATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCA
GGGAGATAGGATTGTCGGCTTT
Found at i:10619112 original size:132 final size:132
Alignment explanation
Indices: 10618955--10619961 Score: 1686
Period size: 132 Copynumber: 7.7 Consensus size: 132
10618945 TGTCGACTTT
* *
10618955 AATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
* * * * *
10619020 GGGAGATAAGATCTACAATCTTCAACCTACTTCGCTGCTGCTCAAGGAAACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
10619085 TA
131 TA
* * *
10619087 AATCTGCTTCCCGCTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCTACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
10619152 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
10619217 TA
131 TA
** *
10619219 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCTACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
*
10619284 GGGAGATAAGATCTACAATTTTCAACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
10619349 TA
131 TA
*
10619351 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTTGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
*
10619416 GGGAGATAAGATCTACAATTTTCAATCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
10619481 TA
131 TA
* * *
10619483 AATCTGCTTTCCACTATCTTGGAAATATAAGATTCGTCGTCTTCGATCTACTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
10619548 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
10619613 TA
131 TA
* **
10619615 AATTTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
* * *
10619680 GGGAGATAAGATCTACAATTTTCAATCTTCTCCACTGCTGCTCAAGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
10619745 TA
131 TA
10619747 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCG-CTGTCTTCGATCTGCTCCACTACT-CTT
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTC-GTCTTCGATCTGCTCCACTACTGCTT
* * *
10619810 AGGGAGATAAGATCTAAAATCTTCAACCTTCT-C-C-GCTACT--GGGAGACAAGGCTTGGTGGC
65 AGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
10619870 TTA
130 TTA
* *
10619873 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGTTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
10619938 GGGAGATAAGATCTACAATTTTCA
66 GGGAGATAAGATCTACAATTTTCA
10619962 CTGATCTGTT
Statistics
Matches: 829, Mismatches: 43, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
126 80 0.10
127 26 0.03
128 5 0.01
129 1 0.00
130 1 0.00
131 33 0.04
132 683 0.82
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
TA
Found at i:10621182 original size:5 final size:6
Alignment explanation
Indices: 10621160--10621204 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
10621150 TTGGCCTCTC
* *
10621160 CTTTTA CTTTTT CTTTTT CTTTTTT CCTTTTT CCTTTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT C-TTTTT -CTTTTT CTTTTT CTTTTT C
10621205 CTCTTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 23 0.68
7 10 0.29
8 1 0.03
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:10621189 original size:20 final size:19
Alignment explanation
Indices: 10621161--10621216 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
10621151 TGGCCTCTCC
*
10621161 TTTTACTTTTTCTTTTTCTT
1 TTTTCCTTTTTCTTTTTC-T
*
10621181 TTTTCCTTTTTCCTTTTCT
1 TTTTCCTTTTTCTTTTTCT
*
10621200 TTTTCCTCTTT-TTTTTC
1 TTTTCCTTTTTCTTTTTC
10621217 AAATATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 5 0.16
19 11 0.34
20 16 0.50
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTCCTTTTTCTTTTTCT
Found at i:10621205 original size:12 final size:12
Alignment explanation
Indices: 10621168--10621216 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
10621158 TCCTTTTACT
*
10621168 TTTTCTTTTTCTT
1 TTTTCTTTTTC-C
10621181 TTTTCCTTTTTCC
1 TTTT-CTTTTTCC
10621194 TTTTCTTTTTCC
1 TTTTCTTTTTCC
10621206 TCTTT-TTTTTC
1 T-TTTCTTTTTC
10621217 AAATATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 15 0.45
13 11 0.33
14 7 0.21
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCTTTTTCC
Found at i:10625456 original size:98 final size:98
Alignment explanation
Indices: 10625282--10625478 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
10625272 GTACAATAAA
*
10625282 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
10625347 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
10625380 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
10625445 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
10625478 A
1 A
10625479 TTATTTTTTA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:10626805 original size:19 final size:19
Alignment explanation
Indices: 10626781--10626893 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
10626771 AATCATATAT
*
10626781 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
** *
10626800 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
*
10626819 TGTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10626838 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
10626859 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10626878 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
10626894 CTCAAAAATT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 62 0.78
21 17 0.22
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10626868 original size:40 final size:40
Alignment explanation
Indices: 10626781--10626892 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 40
10626771 AATCATATAT
* *
10626781 TCTAAGATTGCATATCACATCTAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
*
10626819 TGTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
10626859 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
10626893 CCTCAAAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 26 0.39
40 40 0.61
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:10633949 original size:5 final size:5
Alignment explanation
Indices: 10633937--10633965 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
10633927 CCCCCCCCCC
10633937 AAAA- AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
10633966 CAAACCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:10639073 original size:20 final size:20
Alignment explanation
Indices: 10639032--10639073 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10639022 TAAAAATATA
*
10639032 TTTTTAAATTTTTAATGATT
1 TTTTTAAATTTTTAATAATT
*
10639052 TTTTTTAATTTTTAA-AATT
1 TTTTTAAATTTTTAATAATT
10639071 TTT
1 TTT
10639074 AAAAATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTAAATTTTTAATAATT
Found at i:10658898 original size:20 final size:20
Alignment explanation
Indices: 10658858--10658898 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10658848 ATGATGATAT
*
10658858 TAAAATGATAGATAAATAAA
1 TAAAATGATAAATAAATAAA
10658878 TAAAATGATAAAATAAA-AAA
1 TAAAATGAT-AAATAAATAAA
10658898 T
1 T
10658899 TTCTATGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (20 bp):
TAAAATGATAAATAAATAAA
Found at i:10659252 original size:15 final size:17
Alignment explanation
Indices: 10659216--10659254 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
10659206 ATAAATAAAC
*
10659216 AAATAAATAAATGACTA
1 AAATAAATAAATGACGA
10659233 AAATAAA-AAATG-CGA
1 AAATAAATAAATGACGA
10659248 AAATAAA
1 AAATAAA
10659255 CAGGGACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.69, C:0.05, G:0.08, T:0.18
Consensus pattern (17 bp):
AAATAAATAAATGACGA
Done.