Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 55
Found at i:5081573 original size:32 final size:32
Alignment explanation
Indices: 5081535--5081595 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
5081525 TTTTAGTAAT
5081535 TATCTTAAAAAATCATTTCATACACTCAATAG
1 TATCTTAAAAAATCATTTCATACACTCAATAG
5081567 TATCTTAAAAAATCATTTCATACACTCAA
1 TATCTTAAAAAATCATTTCATACACTCAA
5081596 AAATCAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (32 bp):
TATCTTAAAAAATCATTTCATACACTCAATAG
Found at i:5082615 original size:26 final size:26
Alignment explanation
Indices: 5082580--5082645 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
5082570 GACCACTATA
*
5082580 TCCCGAAGGACTACATATCACATATG
1 TCCCGAAGGACCACATATCACATATG
*
5082606 TCCCGGAGGACCACATATCACATATG
1 TCCCGAAGGACCACATATCACATATG
5082632 TCCCGAAGGACCAC
1 TCCCGAAGGACCAC
5082646 TATGTCCCGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (26 bp):
TCCCGAAGGACCACATATCACATATG
Found at i:5086442 original size:2 final size:2
Alignment explanation
Indices: 5086435--5086463 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5086425 CAAATGCATG
5086435 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5086464 CTCATGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5087002 original size:18 final size:18
Alignment explanation
Indices: 5086979--5087019 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5086969 ACATATCATA
5086979 TATATCCCAAAAGACCAC
1 TATATCCCAAAAGACCAC
* *
5086997 TATATCCCGAAGGACCAC
1 TATATCCCAAAAGACCAC
5087015 -ATATC
1 TATATC
5087020 ACATATATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.39, C:0.32, G:0.10, T:0.20
Consensus pattern (18 bp):
TATATCCCAAAAGACCAC
Found at i:5087020 original size:44 final size:44
Alignment explanation
Indices: 5086957--5087061 Score: 174
Period size: 44 Copynumber: 2.4 Consensus size: 44
5086947 TAGAAATTTT
*
5086957 TCCCGAAGGACCACATATCATATATATCCCAAAAGACCACTATA
1 TCCCGAAGGACCACATATCACATATATCCCAAAAGACCACTATA
* *
5087001 TCCCGAAGGACCACATATCACATATATCCCGAAGGACCACTATA
1 TCCCGAAGGACCACATATCACATATATCCCAAAAGACCACTATA
*
5087045 TCCTGAAGGACCACATA
1 TCCCGAAGGACCACATA
5087062 GAACCCTTGA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.38, C:0.30, G:0.12, T:0.19
Consensus pattern (44 bp):
TCCCGAAGGACCACATATCACATATATCCCAAAAGACCACTATA
Found at i:5087046 original size:18 final size:18
Alignment explanation
Indices: 5087023--5087058 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5087013 ACATATCACA
5087023 TATATCCCGAAGGACCAC
1 TATATCCCGAAGGACCAC
*
5087041 TATATCCTGAAGGACCAC
1 TATATCCCGAAGGACCAC
5087059 ATAGAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (18 bp):
TATATCCCGAAGGACCAC
Found at i:5088923 original size:31 final size:31
Alignment explanation
Indices: 5088888--5088956 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
5088878 ATAATGCGTA
*
5088888 GTCACTTTTGTTTCATTTTAATTAAGATGTG
1 GTCACTTTTGTTTCATTTTAATTAAGATGCG
*
5088919 GTCACTTTTGTTTCGTTTTAATTAAGATGCG
1 GTCACTTTTGTTTCATTTTAATTAAGATGCG
5088950 GTCACTT
1 GTCACTT
5088957 ACCTTGAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.49
Consensus pattern (31 bp):
GTCACTTTTGTTTCATTTTAATTAAGATGCG
Found at i:5089645 original size:34 final size:34
Alignment explanation
Indices: 5089586--5089652 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
5089576 TTCTTGAGAT
*
5089586 TTGTTTTCTCCTTTTTATCAAGAGAAAA-TTGTCA
1 TTGTTTTCTCCTTTTGATC-AGAGAAAAGTTGTCA
5089620 TTGTTTTCTCCTTGTTAGATC-GAGAAAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAAAAGTTGT
5089653 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.46
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAAAAGTTGTCA
Found at i:5091951 original size:2 final size:2
Alignment explanation
Indices: 5091944--5091976 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5091934 CTTTTAAAAC
5091944 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5091977 CCCCCATCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5092164 original size:24 final size:24
Alignment explanation
Indices: 5092137--5092243 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
5092127 AAACGGAGAT
*
5092137 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
5092161 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
5092185 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
5092209 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
5092233 ATCAGAAATCA
1 ATCAGAAATCA
5092244 GATAAAATAT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:5092243 original size:48 final size:48
Alignment explanation
Indices: 5092137--5092245 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
5092127 AAACGGAGAT
* * * *
5092137 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
5092185 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
5092233 ATCAGAAATCAGA
1 ATCAGAAATCAGA
5092246 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:5093393 original size:18 final size:18
Alignment explanation
Indices: 5093372--5093407 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5093362 CTTCCATCCG
*
5093372 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
5093390 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
5093408 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:5094730 original size:7 final size:7
Alignment explanation
Indices: 5094718--5094753 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
5094708 TGGTCAACGC
5094718 CGGTCAA
1 CGGTCAA
5094725 CGGTCAA
1 CGGTCAA
*
5094732 TGGGTCAA
1 -CGGTCAA
5094740 CGGTCAA
1 CGGTCAA
5094747 CGGTCAA
1 CGGTCAA
5094754 TGGGTCGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.28, C:0.25, G:0.31, T:0.17
Consensus pattern (7 bp):
CGGTCAA
Found at i:5094746 original size:22 final size:22
Alignment explanation
Indices: 5094718--5094759 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
5094708 TGGTCAACGC
5094718 CGGTCAACGGTCAATGGGTCAA
1 CGGTCAACGGTCAATGGGTCAA
5094740 CGGTCAACGGTCAATGGGTC
1 CGGTCAACGGTCAATGGGTC
5094760 GAGTCAACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.19
Consensus pattern (22 bp):
CGGTCAACGGTCAATGGGTCAA
Found at i:5094771 original size:13 final size:13
Alignment explanation
Indices: 5094772--5094808 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
5094762 GTCAACGGGT
5094772 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
5094785 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
5094798 CGGGTCGGGTC
1 CGGGTCGGGTC
5094809 GGGTTGTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.11, C:0.24, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:5094790 original size:31 final size:31
Alignment explanation
Indices: 5094748--5094812 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
5094738 AACGGTCAAC
*
5094748 GGTCAATGGGTCGAGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGAGTCAACGGGTCGGGTCG
*
5094779 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGAGTCAACGGGTCGGGTCG
5094810 GGT
1 GGT
5094813 TGTGACCGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.14, C:0.20, G:0.48, T:0.18
Consensus pattern (31 bp):
GGTCAACGGGTCGAGTCAACGGGTCGGGTCG
Found at i:5094812 original size:18 final size:18
Alignment explanation
Indices: 5094755--5094795 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
5094745 AACGGTCAAT
5094755 GGGTCGAGTCAACGGGTC
1 GGGTCGAGTCAACGGGTC
*
5094773 GGGTCGGGTCAACGGGTC
1 GGGTCGAGTCAACGGGTC
5094791 GGGTC
1 GGGTC
5094796 AACGGGTCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.22, G:0.49, T:0.17
Consensus pattern (18 bp):
GGGTCGAGTCAACGGGTC
Found at i:5096797 original size:24 final size:24
Alignment explanation
Indices: 5096770--5096878 Score: 110
Period size: 24 Copynumber: 4.5 Consensus size: 24
5096760 AAACGGAGAT
* *
5096770 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
5096794 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * * *
5096818 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAGAACAGAATTCAG
** * *
5096842 ATCAGATGTCAGAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAG
5096866 ATCAGAAATCAGA
1 ATCAGAAATCAGA
5096879 TAAAATATTC
Statistics
Matches: 65, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:5096876 original size:48 final size:48
Alignment explanation
Indices: 5096770--5096878 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
5096760 AAACGGAGAT
* * *
5096770 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAGAACAGAATCCAA
* * * * * * *
5096818 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAGAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAGAACAGAATCCAA
5096866 ATCAGAAATCAGA
1 ATCAGAAATCAGA
5096879 TAAAATATTC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAGAACAGAATCCAA
Found at i:5098026 original size:18 final size:18
Alignment explanation
Indices: 5098005--5098040 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5097995 CTTCCATCCG
*
5098005 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
5098023 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
5098041 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:5099821 original size:25 final size:25
Alignment explanation
Indices: 5099788--5099843 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
5099778 GAGTTATTAC
5099788 CGACGATACTTCCGACTGAAATTCA
1 CGACGATACTTCCGACTGAAATTCA
5099813 CGACGATACTTCCGACTGAAATTCA
1 CGACGATACTTCCGACTGAAATTCA
5099838 CGACGA
1 CGACGA
5099844 ACGGCGATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (25 bp):
CGACGATACTTCCGACTGAAATTCA
Found at i:5102223 original size:34 final size:34
Alignment explanation
Indices: 5102164--5102230 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
5102154 TTCTTGAGAG
*
5102164 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTCA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTGTCA
5102198 TTGTTTTCTCCTTGTTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
5102231 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.46
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTCA
Found at i:5104234 original size:18 final size:19
Alignment explanation
Indices: 5104199--5104243 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
5104189 TATGATTTTA
*
5104199 AAAATAAAAATTAGACTTT
1 AAAATAAAAATTAAACTTT
5104218 AAAATAAAAA-TAAACTTT
1 AAAATAAAAATTAAACTTT
*
5104236 ATAATAAA
1 AAAATAAA
5104244 TATCAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAATAAAAATTAAACTTT
Found at i:5106112 original size:11 final size:11
Alignment explanation
Indices: 5106096--5106129 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
5106086 TGTTAATAAA
*
5106096 ATAAAAAATAT
1 ATAAAATATAT
*
5106107 ATAAAATATCT
1 ATAAAATATAT
5106118 ATAAAATATAT
1 ATAAAATATAT
5106129 A
1 A
5106130 ATTTAATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAAAATATAT
Found at i:5107368 original size:6 final size:6
Alignment explanation
Indices: 5107357--5107381 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5107347 AGGAAGAGTT
5107357 GCAGAA GCAGAA GCAGAA GCAGAA G
1 GCAGAA GCAGAA GCAGAA GCAGAA G
5107382 AGATAAGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.36, T:0.00
Consensus pattern (6 bp):
GCAGAA
Found at i:5107949 original size:36 final size:36
Alignment explanation
Indices: 5107908--5107978 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
5107898 GTTCGGATCG
* * * *
5107908 GGTGAAGGGTATATATTTTTCGGGTCAGGTAGGGTC
1 GGTGAAGGATATAAAATTTTCAGGTCAGGTAGGGTC
* *
5107944 GGTGAAGGATGTAAAATTTTCAGGTCAGGTCGGGT
1 GGTGAAGGATATAAAATTTTCAGGTCAGGTAGGGT
5107979 TGGCCTAACC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.23, C:0.08, G:0.38, T:0.31
Consensus pattern (36 bp):
GGTGAAGGATATAAAATTTTCAGGTCAGGTAGGGTC
Found at i:5112390 original size:15 final size:14
Alignment explanation
Indices: 5112362--5112401 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
5112352 TTTAAAAAAT
**
5112362 AAAAATATCATTTA
1 AAAAATATTTTTTA
5112376 AAAAACTATTTTTTA
1 AAAAA-TATTTTTTA
5112391 AAAAATATTTT
1 AAAAATATTTT
5112402 AGTTGCCCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAATATTTTTTA
Found at i:5113610 original size:24 final size:23
Alignment explanation
Indices: 5113564--5113611 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
5113554 GTTTTTTTTT
* **
5113564 AAAAAATATAATAATAATGAATA
1 AAAAAATAAAATAATAAAAAATA
5113587 AAAAAATGAAAATAATAAAAAATA
1 AAAAAAT-AAAATAATAAAAAATA
5113611 A
1 A
5113612 TATAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (23 bp):
AAAAAATAAAATAATAAAAAATA
Found at i:5113814 original size:28 final size:28
Alignment explanation
Indices: 5113783--5113836 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
5113773 ATATTAGACT
* *
5113783 TATA-AATAA-AATATTAAAGAAATATA
1 TATATAATAATAATAATAAAAAAATATA
5113809 TATATAATAATAATAATAAAAAAATATA
1 TATATAATAATAATAATAAAAAAATATA
5113837 GTAAAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 5 0.21
28 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (28 bp):
TATATAATAATAATAATAAAAAAATATA
Found at i:5113899 original size:15 final size:15
Alignment explanation
Indices: 5113879--5113916 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
5113869 ATATATACAT
*
5113879 ATAATAATAACATGA
1 ATAATAATAAAATGA
*
5113894 ATAATAAAAAAATGA
1 ATAATAATAAAATGA
5113909 ATAA-AATA
1 ATAATAATA
5113917 TCCATATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (15 bp):
ATAATAATAAAATGA
Found at i:5114372 original size:34 final size:34
Alignment explanation
Indices: 5114329--5114397 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
5114319 GAATCCTAGC
5114329 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
5114363 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
5114397 A
1 A
5114398 TTAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:5115162 original size:98 final size:98
Alignment explanation
Indices: 5114993--5115251 Score: 304
Period size: 98 Copynumber: 2.6 Consensus size: 98
5114983 TGGAAACGGA
* * *
5114993 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
1 AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
* * *
5115058 ATATCCTTCGTTGTGAAGTTGAGATTGGCTCCG
66 ATATCCTCCGCTGTGAAGTTGAAATTGGCTCCG
** * * *
5115091 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCA
1 AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
5115156 ATATCCTCCGCTGTGAAGTTGAAATTGGC-CCTG
66 ATATCCTCCGCTGTGAAGTTGAAATTGGCTCC-G
* * * *
5115189 AAACTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
1 AAA-T-TG----T-TTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
5115252 ATAGGTAGCA
Statistics
Matches: 135, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
97 2 0.01
98 87 0.64
99 1 0.01
100 1 0.01
104 1 0.01
105 43 0.32
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.34
Consensus pattern (98 bp):
AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
ATATCCTCCGCTGTGAAGTTGAAATTGGCTCCG
Found at i:5115245 original size:105 final size:102
Alignment explanation
Indices: 5114993--5115385 Score: 325
Period size: 105 Copynumber: 3.8 Consensus size: 102
5114983 TGGAAACGGA
* *
5114993 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-CC
1 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACC
* * ** * ** ** **
5115057 A-ATATCCTTCGTTGT-GAAGTTGAG-ATTG-GCTCCG
65 AGATATCCTCCGTCGTGGAAAATCAGCCCTGAAATGGG
** * * * *
5115091 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGT-CC
1 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACC
* **
5115155 A-ATATCCTCCG-CTGTGAAGTTGAAATTGGCCCTGAAACTGGG
65 AGATATCCTCCGTC-GTG--G--AAAATCAGCCCTGAAA-TGGG
* * *
5115197 AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCATAGGTAGCA
1 AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACCA
** *
5115262 TGATATCCTCCGTCGTGGAAAATCAGCTTTGAAATTGG
66 -GATATCCTCCGTCGTGGAAAATCAGCCCTGAAATGGG
* * **
5115300 AAAGTTATTCGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTGG
1 AAA-TTGTT-GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTAC
*
5115365 CACGATATCCTCCATCGTGGA
64 CA-GATATCCTCCGTCGTGGA
5115386 GTTGAAATCG
Statistics
Matches: 237, Mismatches: 43, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
98 68 0.29
101 1 0.00
103 9 0.04
104 17 0.07
105 117 0.49
106 11 0.05
108 13 0.05
109 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (102 bp):
AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACCA
GATATCCTCCGTCGTGGAAAATCAGCCCTGAAATGGG
Found at i:5117975 original size:19 final size:19
Alignment explanation
Indices: 5117951--5117994 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
5117941 CTTGGATGAG
5117951 TGTTCTAACCTTCTTCAAC
1 TGTTCTAACCTTCTTCAAC
* *
5117970 TGTTCTAACCTTCTTTAAG
1 TGTTCTAACCTTCTTCAAC
5117989 TGTTCT
1 TGTTCT
5117995 TTTGTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (19 bp):
TGTTCTAACCTTCTTCAAC
Found at i:5118393 original size:38 final size:38
Alignment explanation
Indices: 5118351--5118959 Score: 623
Period size: 38 Copynumber: 15.7 Consensus size: 38
5118341 CCTAGAACCT
*
5118351 TCAATCTTTGTTATTCTTGACTTCTTCGTGAAGA-AGAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGA-AG
* *
5118389 TCAATCTTTCATTGTCATTCTTGACTTCCTCATGAAGAGAAG
1 TCAATC--T--TTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * *
5118431 TTAATCTTTGTTATTCTTGACTTCCTCATGAAGATAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * *
5118469 TCAATATTTTTTATTCTTGACTTCCTCGTGAAGAGAAA
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * * *
5118507 TAAATCTTCGTTATTCTTGACTTCATCGTGGAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
5118545 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
** *
5118583 TCAATCTTTGTTCCTCTTGACTTCCTCGTGAAGAGAAT
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
*
5118621 TCGATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
** * * * * * *
5118659 TCAAAATCTGTTAATT-TCGACTTCTTTGTGAAAATAA-
1 TCAATCTTTGTT-ATTCTTGACTTCCTCGTGAAGAGAAG
* ** *
5118696 TAATATCTTTGTTATTCCCGGC-TCACTCGTGAAGAGAAG
1 TCA-ATCTTTGTTATTCTTGACTTC-CTCGTGAAGAGAAG
* *
5118735 TCAATCTTTCAATGTTATTCTCGACTTCCTCGTGAAGAAAAG
1 TCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAG
* *
5118777 TCAATCTTTGTTATTCTTAACTTCTTCGTGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * * * *
5118815 TCAATCTTTGTTACTCTTGACTTCTTCATGAAGAAAAA
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * * *
5118853 TCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGGAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * *
5118891 TTAATCTTTCAATGTTATTCTCGACTTCATCGTGAAGAGAAG
1 TCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAG
* *
5118933 TCAATATATGTTATTCTTGACTTCCTC
1 TCAATCTTTGTTATTCTTGACTTCCTC
5118960 CTATATAGAA
Statistics
Matches: 469, Mismatches: 83, Indels: 38
0.79 0.14 0.06
Matches are distributed among these distances:
37 7 0.01
38 356 0.76
39 9 0.02
40 2 0.00
41 3 0.01
42 89 0.19
43 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (38 bp):
TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
Found at i:5118972 original size:156 final size:152
Alignment explanation
Indices: 5118351--5118959 Score: 655
Period size: 156 Copynumber: 3.9 Consensus size: 152
5118341 CCTAGAACCT
* * * * *
5118351 TCAATCTTTGTTATTCTTGACTTCTTCGTGAAGAAGAGTCAATCTTTCATTGTCATTCTTGACTT
1 TCAATCTTTGTTATTCTTGACTTCTTCGTGAAGAAAAATCAATC--T--TTGTTATTCCTGACTC
* * * * * *
5118416 CCTCATGAAGAGAAGTTAATCTTTGTTATTCTTGACTTCCTCATGAAGATAAGTCAATATTTTTT
62 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTTGTT
*
5118481 ATTCTTGACTTCCTCGTGAAGAGAAA
127 ATTCTTGACTTCCTCGTGAAGAGAAG
* * * * * * * *
5118507 TAAATCTTCGTTATTCTTGACTTCATCGTGGAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTC
1 TCAATCTTTGTTATTCTTGACTTCTTCGTGAAGAAAAATCAATCTTTGTTATTCCTGACTCCCTC
** * * * *
5118572 GTGAAGAGAAGTCAATCTTTGTTCCTCTTGACTTCCTCGTGAAGAGAATTCGATCTTTGTTATTC
66 GTGAAGAGAAGTCAATCTTTGTTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTTGTTATTC
5118637 TTGACTTCCTCGTGAAGAGAAG
131 TTGACTTCCTCGTGAAGAGAAG
** * * * * * * * *
5118659 TCAAAATCTGTTAATT-TCGACTTCTTTGTGAA-AATAATAATATCTTTGTTATTCCCGGCTCAC
1 TCAATCTTTGTT-ATTCTTGACTTCTTCGTGAAGAAAAATCA-ATCTTTGTTATTCCTGACTCCC
* *
5118722 TCGTGAAGAGAAGTCAATCTTTCAATGTTATTCTCGACTTCCTCGTGAAGAAAAGTCAATCTTTG
64 TCGTGAAGAGAAGTCAATC-TT---TGTTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTTG
* *
5118787 TTATTCTTAACTTCTTCGTGAAGAGAAG
125 TTATTCTTGACTTCCTCGTGAAGAGAAG
* *
5118815 TCAATCTTTGTTACTCTTGACTTCTTCATGAAGAAAAATCAATCTTTGTTATTCCTGACTCCCTC
1 TCAATCTTTGTTATTCTTGACTTCTTCGTGAAGAAAAATCAATCTTTGTTATTCCTGACTCCCTC
* * * * *
5118880 GCGAAGAGGAGTTAATCTTTCAATGTTATTCTCGACTTCATCGTGAAGAGAAGTCAATATATGTT
66 GTGAAGAGAAGTCAATC-TT---TGTTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTTGTT
5118945 ATTCTTGACTTCCTC
127 ATTCTTGACTTCCTC
5118960 CTATATAGAA
Statistics
Matches: 380, Mismatches: 65, Indels: 16
0.82 0.14 0.03
Matches are distributed among these distances:
151 4 0.01
152 150 0.39
153 5 0.01
154 1 0.00
155 2 0.01
156 212 0.56
157 6 0.02
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (152 bp):
TCAATCTTTGTTATTCTTGACTTCTTCGTGAAGAAAAATCAATCTTTGTTATTCCTGACTCCCTC
GTGAAGAGAAGTCAATCTTTGTTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTTGTTATTC
TTGACTTCCTCGTGAAGAGAAG
Found at i:5120129 original size:17 final size:18
Alignment explanation
Indices: 5120103--5120140 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5120093 CTTTAATTGC
5120103 TTTTACTTA-TTTAATCAT
1 TTTTACTTATTTTAAT-AT
5120121 TTTTA-TTATTTTAATAT
1 TTTTACTTATTTTAATAT
5120138 TTT
1 TTT
5120141 CTTACCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTACTTATTTTAATAT
Found at i:5128352 original size:18 final size:17
Alignment explanation
Indices: 5128312--5128359 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
5128302 CTTATTTTTA
*
5128312 ATTTAATTACTTTTACTT
1 ATTTAA-TATTTTTACTT
5128330 ATTTAATCATTTTTA-TT
1 ATTTAAT-ATTTTTACTT
5128347 ATTTTAATATTTT
1 A-TTTAATATTTT
5128360 CTTATCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTAATATTTTTACTT
Found at i:5128581 original size:38 final size:38
Alignment explanation
Indices: 5128539--5128841 Score: 340
Period size: 38 Copynumber: 8.0 Consensus size: 38
5128529 AGTTGTCATC
* * *
5128539 GATCTTTGTTATTCTTAACTTCCCCGTGAAGAGAATTT
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
* * *
5128577 GATCTTTGTTATTCTTGACTTCCTCATTAAGGGAAGTT
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
*
5128615 GATCTTTGTTATTCTTGATTTCCTCGTGAAGAGAAGTT
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
* * *
5128653 GATATTTTTTATTATTGACTTCCTCGTGAAGAGAAGTT
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
* * *
5128691 AATCTTT-TTCATTCTTGACTGCCTCGTGAAGAGAAGTCA
1 GATCTTTGTT-ATTCTTGACTTCCTCGTGAAGAGAAGT-T
* * * * *
5128730 AAT-TTTATTATTCTTTATTTTCTCGTGAAGAGAAGTT
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
* * * *
5128767 GATATTTGTTATTCTTGAATTCCTCGTGAAGAGAGGTA
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
* * * *
5128805 AAACTTTGTTATTCCTGACTTTCTCGTGAAGAGAAGT
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGT
5128842 CAATCTCTCA
Statistics
Matches: 223, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
37 4 0.02
38 214 0.96
39 5 0.02
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (38 bp):
GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
Found at i:5129446 original size:45 final size:45
Alignment explanation
Indices: 5128820--5129517 Score: 499
Period size: 45 Copynumber: 15.7 Consensus size: 45
5128810 TTGTTATTCC
* * * * *
5128820 TGACTTTCTCGTGAAGAGAAGTCAATCTCTCAGTGTTGT-TTTCCT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTT-CT
* * * * * * * *
5128865 TGACTTTCTCGTGAAGATGAGTCCATCTTTCAATATTTTCATTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTCT
* * *
5128910 TGACTTTCTCGTGAAGAGTAGTCAATATTTCAGTATTGT-CTTCCT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTT-CT
* * * * *
5128955 TGAATTTCTCATGAAGAGGAGTCCATCTTTTAGTGTTTTCCTTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTCT
** *
5129000 TGACTTTCTCACGAAGATGAGTCAA-ACTTTTAGTGTTGTCC-TCAT
1 TGACTTTCTCGTGAAGAGGAGTCAATA-TTTTAGTGTTGTCCTTC-T
* * * * * * *
5129045 TGACTTTATCGCGAAGAGGATTCAATCTTTCAGTATTGT-CTTCCC
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTT-CT
* * * *
5129090 TGAATTTGTCGTGAAGAGGAGTCAATCTTTTAGTGTTATCCTTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTCT
* * * * * * **
5129135 TGAATTTATCGCGAAGAGGAGTCAATCTTTTGGTATTGTTTTTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTCT
5129180 TGACTTTCTCGTGAAGAGGAGTCAATATTTT-G-G-TG---TTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTCT
** * * * ** *
5129219 TGACTTTCTCACGAATAGGAGCCAATCTTTCGGTATTGT-CTTCAT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTC-T
* * **
5129264 TGACTTTCTCGTGAAGTGGAGTCAATCTTTTAGTGTTACCCTTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTCT
** * * * *
5129309 TGACACTCTTGGGAAGAGGAGTCAATATTTTGGTGGTGTCCTTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTCT
* * * *
5129354 T-ACTTTCTCGTGAAGAGGAGTCAAT-CTTTCGATATTGT-TTTCCT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAG-TGTTGTCCTT-CT
* * * *
5129398 TGACTTTCTCATTAAGAGGAGTCAATATTTTGGTGTTGTCCTTAT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTCT
* * * * * * *
5129443 TGACTTTCTCGCGATGAGAAATTAATAGTTTAGTGTTGTCCTTTT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTCT
*** *
5129488 TGACTTTCTCACAAAGAAGAGTCAATATTT
1 TGACTTTCTCGTGAAGAGGAGTCAATATTT
5129518 CAGTAGTATA
Statistics
Matches: 514, Mismatches: 118, Indels: 42
0.76 0.18 0.06
Matches are distributed among these distances:
39 29 0.06
40 1 0.00
42 4 0.01
43 6 0.01
44 36 0.07
45 419 0.82
46 19 0.04
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (45 bp):
TGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTCT
Found at i:5129446 original size:134 final size:129
Alignment explanation
Indices: 5129147--5129446 Score: 348
Period size: 134 Copynumber: 2.3 Consensus size: 129
5129137 AATTTATCGC
* ** ** *
5129147 GAAGAGGAGTCAATCTTTTGGTATTGTTTTTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTG
1 GAAGAGGAGTCAATCTTTTGGTGTTGTCCTTCTTGACACTCTCGGGAAGAGGAGTCAATATTTTG
* * *
5129212 GTGTTCTTGACTTTCTCACGAATAGGAGCCAATCTTTCGGTATTGTCTTCATTGACTTTCTCGT
66 GTGTTCTTGACTTTCTCACGAAGAGGAGCCAATCTTTCGATATTGTCTTCATTGACTTTCTCAT
* * ** *
5129276 GAAGTGGAGTCAATCTTTTAGTGTTACCCTTCTTGACACTCTTGGGAAGAGGAGTCAATATTTTG
1 GAAGAGGAGTCAATCTTTTGGTGTTGTCCTTCTTGACACTCTCGGGAAGAGGAGTCAATATTTTG
* ** * * *
5129341 GTGGTGTCCTTCTTACTTTCTCGTGAAGAGGAGTCAATCTTTCGATATTGTTTTCCTTGACTTTC
66 GT-GT-T-C-T-TGACTTTCTCACGAAGAGGAGCCAATCTTTCGATATTGTCTTCATTGACTTTC
5129406 TCAT
126 TCAT
* * *
5129410 TAAGAGGAGTCAATATTTTGGTGTTGTCCTTATTGAC
1 GAAGAGGAGTCAATCTTTTGGTGTTGTCCTTCTTGAC
5129447 TTTCTCGCGA
Statistics
Matches: 139, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
129 56 0.40
130 2 0.01
131 1 0.01
132 1 0.01
133 1 0.01
134 78 0.56
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (129 bp):
GAAGAGGAGTCAATCTTTTGGTGTTGTCCTTCTTGACACTCTCGGGAAGAGGAGTCAATATTTTG
GTGTTCTTGACTTTCTCACGAAGAGGAGCCAATCTTTCGATATTGTCTTCATTGACTTTCTCAT
Found at i:5130079 original size:135 final size:133
Alignment explanation
Indices: 5129758--5130079 Score: 360
Period size: 134 Copynumber: 2.4 Consensus size: 133
5129748 ACAAGATAAA
* * *
5129758 CAAATCGATTCTAATTCAATCGTCCTTGAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTG
1 CAAATCAATTCT-ATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATTTTCTCGAGTCTG
* * * * * * **
5129823 ATCTCCCTTAAAGTGTAGTAGAGCATATTCTTCTTATTACAGATTTGGTCTTTCTGAAGAGCAGT
65 ATCTCCCTTAAAGAGTAGTAGAGCAAATTATTCTTATTACAAATTTGGTCTTCCTGAAGAGAAAC
*
5129888 GAAG
130 GAAC
* * ** * * *
5129892 CAAATCAATTCCGATTCAGTCTTCTCTT-AAGAGCAGCAAATTGGATCGAAATTTTCTCGAGTTT
1 CAAATCAATT-CTATTCAATCTTC-CTTGAAGAGCAGTGAAGTGGATCAAAATTTTCTCGAGTCT
* * * *
5129956 GATCT-CCTCTAAAGAGTTGTGGAGCAAATTATTCTTCTTTCAAAATTTGGTCTTCCTGAAGAGA
64 GATCTCCCT-TAAAGAGTAGTAGAGCAAATTATTCTTATTAC-AAATTTGGTCTTCCTGAAGAGA
5130020 AACGAAC
127 AACGAAC
*
5130027 CAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATT
1 CAAATCA-ATTCTATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATT
5130080 CCCTTGAAGA
Statistics
Matches: 152, Mismatches: 30, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
133 3 0.02
134 81 0.53
135 66 0.43
136 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (133 bp):
CAAATCAATTCTATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATTTTCTCGAGTCTGA
TCTCCCTTAAAGAGTAGTAGAGCAAATTATTCTTATTACAAATTTGGTCTTCCTGAAGAGAAACG
AAC
Found at i:5130364 original size:341 final size:341
Alignment explanation
Indices: 5129741--5130427 Score: 1284
Period size: 341 Copynumber: 2.0 Consensus size: 341
5129731 ATCCGATCTT
5129741 CTTGAAGACAAGATAAACAAATCGATTCTAATTCAATCGTCCTTGAAGAGCAGTGAAGTGGATCA
1 CTTGAAGACAAGATAAACAAATCGATTCTAATTCAATCGTCCTTGAAGAGCAGTGAAGTGGATCA
* * *
5129806 AAGTTTTCTCGAGTCTGATCTCCCTTAAAGTGTAGTAGAGCATATTCTTCTTATTACAGATTTGG
66 AAGTTTTCTCAAGTCTGATATCCCTTAAAGTGTAGTAGAGCATATTCTTCTAATTACAGATTTGG
*
5129871 TCTTTCTGAAGAGCAGTGAAGCAAATCAATTCCGATTCAGTCTTCTCTTAAGAGCAGCAAATTGG
131 TCTTTCTGAAGAGCAGTGAAGCAAATCAATTCCGATTCAGTCTTCTCTTAAGAGCAGCAAAGTGG
* *
5129936 ATCGAAATTTTCTCGAGTTTGATCTCCTCTAAAGAGTTGTGGAGCAAATTATTCTTCTTTCAAAA
196 ATCAAAATTTTCTCGAGTTTGATCTACTCTAAAGAGTTGTGGAGCAAATTATTCTTCTTTCAAAA
5130001 TTTGGTCTTCCTGAAGAGAAACGAACCAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGA
261 TTTGGTCTTCCTGAAGAGAAACGAACCAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGA
5130066 AGTGGATCAAAATTCC
326 AGTGGATCAAAATTCC
*
5130082 CTTGAAGACAAGATAAACAAATCGATTCTAATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCA
1 CTTGAAGACAAGATAAACAAATCGATTCTAATTCAATCGTCCTTGAAGAGCAGTGAAGTGGATCA
* *
5130147 CAGTTTTCTCAAGTCTGATATCCCTTAAAGTGTAGTAGAGCATATTCTTCTAATTACATATTTGG
66 AAGTTTTCTCAAGTCTGATATCCCTTAAAGTGTAGTAGAGCATATTCTTCTAATTACAGATTTGG
5130212 TCTTTCTGAAGAGCAGTGAAGCAAATCAATTCCGATTCAGTCTTCTCTTAAGAGCAGCAAAGTGG
131 TCTTTCTGAAGAGCAGTGAAGCAAATCAATTCCGATTCAGTCTTCTCTTAAGAGCAGCAAAGTGG
5130277 ATCAAAATTTTCTCGAGTTTGATCTACTCTAAAGAGTTGTGGAGCAAATTATTCTTCTTTCAAAA
196 ATCAAAATTTTCTCGAGTTTGATCTACTCTAAAGAGTTGTGGAGCAAATTATTCTTCTTTCAAAA
*
5130342 TTTGGTCTTCCTGAAGAGAAACGAAGCAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGA
261 TTTGGTCTTCCTGAAGAGAAACGAACCAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGA
5130407 AGTGGATCAAAATTCC
326 AGTGGATCAAAATTCC
5130423 CTTGA
1 CTTGA
5130428 GCCTGGCCCC
Statistics
Matches: 336, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
341 336 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (341 bp):
CTTGAAGACAAGATAAACAAATCGATTCTAATTCAATCGTCCTTGAAGAGCAGTGAAGTGGATCA
AAGTTTTCTCAAGTCTGATATCCCTTAAAGTGTAGTAGAGCATATTCTTCTAATTACAGATTTGG
TCTTTCTGAAGAGCAGTGAAGCAAATCAATTCCGATTCAGTCTTCTCTTAAGAGCAGCAAAGTGG
ATCAAAATTTTCTCGAGTTTGATCTACTCTAAAGAGTTGTGGAGCAAATTATTCTTCTTTCAAAA
TTTGGTCTTCCTGAAGAGAAACGAACCAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGA
AGTGGATCAAAATTCC
Found at i:5130549 original size:133 final size:133
Alignment explanation
Indices: 5130305--5130549 Score: 309
Period size: 133 Copynumber: 1.8 Consensus size: 133
5130295 TTGATCTACT
* *
5130305 CTAAAGAGTTGTGGAGCAAATTATTCTTCTTTCAAAATTTGGTCTTCCTGAAGAGAAACGAAGCA
1 CTAAAGAGTAGTGGAGCAAATTATTCTTCCTTCAAAATTTGGTCTTCCTGAAGAGAAACGAAGCA
* *
5130370 AATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATTCCCTTGAGCCTGGC
66 AATCAC-TTCTATTCAATCTTCCTTGAAGAACAGTGAAGTGAATCAAAATTCCCTTGAGCCTGGC
5130435 CCCC
130 CCCC
* * * * * * *
5130439 CTAAAGAGTAGTGGAGCAGATTCTTCTTCCTTC-AGATTTGGTCTTCTTGAATAGCAATGAAGCA
1 CTAAAGAGTAGTGGAGCAAATTATTCTTCCTTCAAAATTTGGTCTTCCTGAAGAGAAACGAAGCA
*
5130503 AATTGA-TTCTGATTCAATCTTACC-TGAAGAACAGTGGAA-TGAATCAA
66 AA-TCACTTCT-ATTCAATCTT-CCTTGAAGAACAGT-GAAGTGAATCAA
5130550 TGTCTCTTGA
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
132 4 0.04
133 55 0.58
134 36 0.38
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (133 bp):
CTAAAGAGTAGTGGAGCAAATTATTCTTCCTTCAAAATTTGGTCTTCCTGAAGAGAAACGAAGCA
AATCACTTCTATTCAATCTTCCTTGAAGAACAGTGAAGTGAATCAAAATTCCCTTGAGCCTGGCC
CCC
Found at i:5131063 original size:2 final size:2
Alignment explanation
Indices: 5131050--5131082 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
5131040 TCATTGTTTA
*
5131050 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5131083 AATAACCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:5135606 original size:15 final size:14
Alignment explanation
Indices: 5135578--5135617 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
5135568 TTTAAAAAAT
**
5135578 AAAAATATCATTTA
1 AAAAATATTTTTTA
5135592 AAAAACTATTTTTTA
1 AAAAA-TATTTTTTA
5135607 AAAAATATTTT
1 AAAAATATTTT
5135618 AGTTGCCCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAATATTTTTTA
Found at i:5135967 original size:11 final size:11
Alignment explanation
Indices: 5135953--5135977 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5135943 TTTTCTCTAA
5135953 TTTTTAATATT
1 TTTTTAATATT
5135964 TTTTTAATATT
1 TTTTTAATATT
5135975 TTT
1 TTT
5135978 AAAAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTAATATT
Found at i:5136911 original size:167 final size:167
Alignment explanation
Indices: 5136635--5137138 Score: 972
Period size: 167 Copynumber: 3.0 Consensus size: 167
5136625 AAGAAAAATC
5136635 TCACAAGATATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTT
1 TCACAAGATATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTT
*
5136700 AAACACTTATGTCAGAAAGGGGGAAATAAAGAGTGACAGTTTTTCTCTTGATCTTCATTGTTTGG
66 AAACACTTATGTCAGAAAGGGGGAAATAAAGAGTGACAGTTTTTCTCTTGATCTTCATTGCTTGG
5136765 ATGAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
131 ATGAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
5136802 TCACAAGATATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTT
1 TCACAAGATATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTT
5136867 AAACACTTATGTCAGAAAGGGGGAAATAAAGAGTGACAGTTTTTCTCTTGATCTTCATTGCTTGG
66 AAACACTTATGTCAGAAAGGGGGAAATAAAGAGTGACAGTTTTTCTCTTGATCTTCATTGCTTGG
5136932 ATGAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
131 ATGAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
5136969 TCACAAGATATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTT
1 TCACAAGATATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTT
*
5137034 AAACACTTATGTCAGAAAGGGGGAAATAAAGAGTGACATAGTTTTTCTCTTGATCTCCATTGCTT
66 AAACACTTATGTCAGAAAGGGGGAAATAAAGAGTGAC--AGTTTTTCTCTTGATCTTCATTGCTT
5137099 GGATGAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
129 GGATGAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
5137138 T
1 T
5137139 GTTTATAAGT
Statistics
Matches: 333, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
167 268 0.80
169 65 0.20
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (167 bp):
TCACAAGATATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTT
AAACACTTATGTCAGAAAGGGGGAAATAAAGAGTGACAGTTTTTCTCTTGATCTTCATTGCTTGG
ATGAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
Found at i:5140239 original size:19 final size:19
Alignment explanation
Indices: 5140215--5140258 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
5140205 CTTGGATGAG
5140215 TGTTCTAACCTTCTTCAAC
1 TGTTCTAACCTTCTTCAAC
* *
5140234 TGTTCTAACCTTCTTTAAG
1 TGTTCTAACCTTCTTCAAC
5140253 TGTTCT
1 TGTTCT
5140259 TTTGTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (19 bp):
TGTTCTAACCTTCTTCAAC
Found at i:5140657 original size:38 final size:38
Alignment explanation
Indices: 5140615--5141223 Score: 607
Period size: 38 Copynumber: 15.7 Consensus size: 38
5140605 CCTAGAACCT
*
5140615 TCAATCTTTGTTATTCTTGACTTCTTCGTGAAGA-AGAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGA-AG
* *
5140653 TCAATCTTTCATTATCATTCTTGACTTCCTCATGAAGAGAAG
1 TCAATCTTT--GT-T-ATTCTTGACTTCCTCGTGAAGAGAAG
* * *
5140695 TTAATCTTTGTTATTCTTGACTTCCTCATGAAGATAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * * * *
5140733 TCAATATTTTTTATTCTTAACTTCCTCGCGAAGAGAAA
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * * *
5140771 TAAATCTTCGTTATTCTTGACTTCATCGTGGAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
5140809 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
** *
5140847 TCAATCTTTGTTCCTCTTGACTTCCTCGTGAAGAGAAT
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
**
5140885 TCGTTCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
** * * * *
5140923 TCAAAATCTGTTAATT-TCGACTTCTTTC-TGAAAAGAA-
1 TCAATCTTTGTT-ATTCTTGACTTC-CTCGTGAAGAGAAG
* ** * *
5140960 TACTATCTTTGTTATTCCCGGC-TCACTCGTGAAGAGAAA
1 T-CAATCTTTGTTATTCTTGACTTC-CTCGTGAAGAGAAG
* *
5140999 TCAATCTTTCAATGTTATTCTCGACTTCCTCGTGAAGAAAAG
1 TCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAG
* *
5141041 TCAATCTTTGTTATTCTTAACTTCTTCGTGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * * *
5141079 TCAATCTTTGTTACTCTTGACTTCTTCATGAAGAGAAA
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * * *
5141117 TCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGGAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* *
5141155 TTAATCTTTCAATGTTATTCTCGACTTCCTCGTGAAGAGAAG
1 TCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAG
* *
5141197 TCAATATATGTTATTCTTGACTTCCTC
1 TCAATCTTTGTTATTCTTGACTTCCTC
5141224 CTATATAGAA
Statistics
Matches: 468, Mismatches: 83, Indels: 40
0.79 0.14 0.07
Matches are distributed among these distances:
37 8 0.02
38 352 0.75
39 11 0.02
40 2 0.00
41 4 0.01
42 88 0.19
43 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (38 bp):
TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
Found at i:5141236 original size:156 final size:152
Alignment explanation
Indices: 5140615--5141225 Score: 602
Period size: 156 Copynumber: 3.9 Consensus size: 152
5140605 CCTAGAACCT
* * *
5140615 TCAATCTTTGTTATTCTTGACTTCTTCGTGAAGA-AGAGTCAATCTTTCATTATCATTCTTGACT
1 TCAATCTTTGTTATTCTTGACTTCTTCGTGAAGAGA-AATCAATCTTT--GT-T-ATTCCTGACT
* * * * * * *
5140679 TCCTCATGAAGAGAAGTTAATCTTTGTTATTCTTGACTTCCTCATGAAGATAAGTCAATATTTTT
61 CCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTTGT
*
5140744 TATTCTTAACTTCCTCGC-GAAGAGAAA
126 TATTCTTAACTTCCTC-CTGAAGAGAAG
* * * * * * *
5140771 TAAATCTTCGTTATTCTTGACTTCATCGTGGAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTC
1 TCAATCTTTGTTATTCTTGACTTCTTCGTGAAGAGAAATCAATCTTTGTTATTCCTGACTCCCTC
** * * ** *
5140836 GTGAAGAGAAGTCAATCTTTGTTCCTCTTGACTTCCTCGTGAAGAGAATTCGTTCTTTGTTATTC
66 GTGAAGAGAAGTCAATCTTTGTTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTTGTTATTC
* *
5140901 TTGACTTCCTCGTGAAGAGAAG
131 TTAACTTCCTCCTGAAGAGAAG
** * * * * * * *
5140923 TCAAAATCTGTTAATT-TCGACTTCTTTC-TGAAAAG-AATACTATCTTTGTTATTCCCGGCTCA
1 TCAATCTTTGTT-ATTCTTGACTTC-TTCGTGAAGAGAAAT-CAATCTTTGTTATTCCTGACTCC
* * *
5140985 CTCGTGAAGAGAAATCAATCTTTCAATGTTATTCTCGACTTCCTCGTGAAGAAAAGTCAATCTTT
63 CTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTT
* *
5141050 GTTATTCTTAACTTCTTCGTGAAGAGAAG
124 GTTATTCTTAACTTCCTCCTGAAGAGAAG
* *
5141079 TCAATCTTTGTTACTCTTGACTTCTTCATGAAGAGAAATCAATCTTTGTTATTCCTGACTCCCTC
1 TCAATCTTTGTTATTCTTGACTTCTTCGTGAAGAGAAATCAATCTTTGTTATTCCTGACTCCCTC
* * * *
5141144 GCGAAGAGGAGTTAATCTTTCAATGTTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATATGTT
66 GTGAAGAGAAGTCAATC-TT---TGTTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTTGTT
*
5141209 ATTCTTGACTTCCTCCT
127 ATTCTTAACTTCCTCCT
5141226 ATATAGAAGT
Statistics
Matches: 378, Mismatches: 65, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
151 2 0.01
152 142 0.38
153 8 0.02
154 1 0.00
155 5 0.01
156 216 0.57
157 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (152 bp):
TCAATCTTTGTTATTCTTGACTTCTTCGTGAAGAGAAATCAATCTTTGTTATTCCTGACTCCCTC
GTGAAGAGAAGTCAATCTTTGTTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTTGTTATTC
TTAACTTCCTCCTGAAGAGAAG
Found at i:5142393 original size:17 final size:18
Alignment explanation
Indices: 5142367--5142404 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5142357 CTTTAATTGC
5142367 TTTTACTTA-TTTAATCAT
1 TTTTACTTATTTTAAT-AT
5142385 TTTTA-TTATTTTAATAT
1 TTTTACTTATTTTAATAT
5142402 TTT
1 TTT
5142405 CTTACCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTACTTATTTTAATAT
Found at i:5149413 original size:18 final size:17
Alignment explanation
Indices: 5149373--5149420 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
5149363 CTTATTTTTA
*
5149373 ATTTAATTACTTTTACTT
1 ATTTAA-TATTTTTACTT
5149391 ATTTAATCATTTTTA-TT
1 ATTTAAT-ATTTTTACTT
5149408 ATTTTAATATTTT
1 A-TTTAATATTTT
5149421 CTTATCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTAATATTTTTACTT
Found at i:5149643 original size:38 final size:38
Alignment explanation
Indices: 5149600--5149902 Score: 333
Period size: 38 Copynumber: 8.0 Consensus size: 38
5149590 AGTTGTCATC
* * *
5149600 GATCTTTGTTATTCTTAACTTCCCCGTGAAGAGAATTT
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
* *
5149638 GATCTTTGTTATTCTTGACTTCCTCATGAAGGGAAGTT
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
*
5149676 GATCTTTGTTATTCTTGATTTCCTCGTGAAGAGAAGTT
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
* * *
5149714 GATATTTTTTATTATTGACTTCCTCGTGAAGAGAAGTT
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
* * * *
5149752 AATCTTT-TTCATTCTTGACTGCCCCGTGAAGAGAAGTCA
1 GATCTTTGTT-ATTCTTGACTTCCTCGTGAAGAGAAGT-T
* * * * *
5149791 AAT-TTTATTATTCTTTATTTTCTCGTGAAGAGAAGTT
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
* * * *
5149828 GATATTTGTTATTCTTGAATTCCTCGTGAAGAGAGGTA
1 GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
* * *
5149866 AAACTTTGTTATT-TCTGACTTTCTCGTGAAGAGAAGT
1 GATCTTTGTTATTCT-TGACTTCCTCGTGAAGAGAAGT
5149903 CAATCTCTCA
Statistics
Matches: 223, Mismatches: 37, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
37 5 0.02
38 213 0.96
39 5 0.02
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (38 bp):
GATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTT
Found at i:5149935 original size:45 final size:44
Alignment explanation
Indices: 5149881--5150514 Score: 499
Period size: 45 Copynumber: 14.2 Consensus size: 44
5149871 TTGTTATTTC
* * * *
5149881 TGACTTTCTCGTGAAGAGAAGTCAATCTCTCAGTGTTGTTTTCCT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTGTCTT-CT
* * *
5149926 TGACTTTCTCGTGAAGATGAGTCCATCTTTCAATATTGTCATTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTGTC-TTCT
* *
5149971 TGACTTTCTCGTGAAGAGTAGTCAATATTTCAGTATTGTCTTCCT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTGTCTT-CT
* * * * *
5150016 TGAATTTCTCATGAAGAGGAGTCCATCTTTTAGTGTTGTCCTTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTGT-CTTCT
* ** * * * * *
5150061 TTACTTTCTCACGAAGATGAGTCAAACTTTTAGTGTTGTCCTCAT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTGTCTTC-T
* * * *
5150106 TGACTTTATCGCGAAGAGGATTCAATCTTTCAGTATTGTCTTCCC
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTGTCTT-CT
* * * * *
5150151 TGAATTTGTCGTGAAGAGGAGTCAATCTTTTAGTGTTATCCTTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTGT-CTTCT
* * * ** *
5150196 TGAATTTATCGCGAAGAGGAGTCAATCTTTTGGTATTGTTTTTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTG-TCTTCT
* * *
5150241 TGACTTTCTCGTGAAGAGGAGTCAAT-ATT---T-TGGTGTTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTGTCTTCT
** * * *
5150280 TGACTTTCTCACGAATAGGAGCCAATCTTTCGGTATTGTCTTCAT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTGTCTTC-T
* * * **
5150325 TGACTTTCTCGTGAAGTGGAGTCAATCTTTTAGTGTTACCCTTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATT-GTCTTCT
** * * * ** **
5150370 TGACACTCTTGGGAAGAGGAGTCAATATTTTGGTGGTGTCCTTCT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTGT-CTTCT
*
5150415 T-ACTTTCTCGTGAAGAGGAGTCAATCTTTC-GATATTGTTTTCCT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAG-TATTGTCTT-CT
* * ** * *
5150459 TGACTTTCTCATGAAGAGGAGTCAATATTTTGGTGTTGTCCTTAT
1 TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTGT-CTTCT
5150504 TGACTTTCTCG
1 TGACTTTCTCG
5150515 CGATGAGAAA
Statistics
Matches: 470, Mismatches: 99, Indels: 40
0.77 0.16 0.07
Matches are distributed among these distances:
39 27 0.06
40 4 0.01
41 1 0.00
43 4 0.01
44 43 0.09
45 374 0.80
46 17 0.04
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (44 bp):
TGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTATTGTCTTCT
Found at i:5150474 original size:134 final size:129
Alignment explanation
Indices: 5150253--5150495 Score: 333
Period size: 134 Copynumber: 1.8 Consensus size: 129
5150243 ACTTTCTCGT
* *
5150253 GAAGAGGAGTCAATATTTTGGTGTTCTTGACTTTCTCACGAATAGGAGCCAATCTTTCGGTATTG
1 GAAGAGGAGTCAATATTTTGGTGTTCTTGACTTTCTCACGAAGAGGAGCCAATCTTTCGATATTG
* * *
5150318 TCTTCATTGACTTTCTCGTGAAGTGGAGTCAATCTTTTAGTGTTACCCTTCTTGACACTCTTGG
66 TCTTCATTGACTTTCTCATGAAGAGGAGTCAATATTTTAGTGTTACCCTTCTTGACACTCTTGG
* ** *
5150382 GAAGAGGAGTCAATATTTTGGTGGTGTCCTTCTTACTTTCTCGTGAAGAGGAGTCAATCTTTCGA
1 GAAGAGGAGTCAATATTTTGGT-GT-T-C-T-TGACTTTCTCACGAAGAGGAGCCAATCTTTCGA
* * *
5150447 TATTGTTTTCCTTGACTTTCTCATGAAGAGGAGTCAATATTTTGGTGTT
61 TATTGTCTTCATTGACTTTCTCATGAAGAGGAGTCAATATTTTAGTGTT
5150496 GTCCTTATTG
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
129 22 0.23
130 2 0.02
131 1 0.01
132 1 0.01
133 1 0.01
134 70 0.72
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (129 bp):
GAAGAGGAGTCAATATTTTGGTGTTCTTGACTTTCTCACGAAGAGGAGCCAATCTTTCGATATTG
TCTTCATTGACTTTCTCATGAAGAGGAGTCAATATTTTAGTGTTACCCTTCTTGACACTCTTGG
Found at i:5151140 original size:135 final size:133
Alignment explanation
Indices: 5150819--5151140 Score: 351
Period size: 134 Copynumber: 2.4 Consensus size: 133
5150809 ACAAGATAAA
* * *
5150819 CAAATCGATTCTAATTCAATCGTCCTTGAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTG
1 CAAATCAATTCT-ATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATTTTCTCGAGTCTG
* * * * * * * **
5150884 ATCTCCCTTAAAGTGTAGTAGAGCATATTCTTCTTATTACAGATTTGGTCTTTCTGAAGAGCAGT
65 ATCTCCCTTAAAGAGTAGTAGAGAAAATTATTCTTATTACAAATTTGGTCTTCCTGAAGAGAAAC
*
5150949 GAAG
130 GAAC
* * ** * * *
5150953 CAAATCAATTCCGATTCAGTCTTCTCTT-AAGAGCAGCAAATTGGATCGAAATTTTCTCGAGTTT
1 CAAATCAATT-CTATTCAATCTTC-CTTGAAGAGCAGTGAAGTGGATCAAAATTTTCTCGAGTCT
* * * *
5151017 GATCT-CCTCTAAAGAGTTGTGGAGAAAATTATTCTTCTTTCAAAATTTGGTCTTCCTGAAGAGA
64 GATCTCCCT-TAAAGAGTAGTAGAGAAAATTATTCTTATTAC-AAATTTGGTCTTCCTGAAGAGA
5151081 AACGAAC
127 AACGAAC
*
5151088 CAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATT
1 CAAATCA-ATTCTATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATT
5151141 CCCTTGAAGA
Statistics
Matches: 151, Mismatches: 31, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
133 3 0.02
134 80 0.53
135 66 0.44
136 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (133 bp):
CAAATCAATTCTATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATTTTCTCGAGTCTGA
TCTCCCTTAAAGAGTAGTAGAGAAAATTATTCTTATTACAAATTTGGTCTTCCTGAAGAGAAACG
AAC
Found at i:5151425 original size:341 final size:341
Alignment explanation
Indices: 5150802--5151488 Score: 1284
Period size: 341 Copynumber: 2.0 Consensus size: 341
5150792 ATCCGATCTT
5150802 CTTGAAGACAAGATAAACAAATCGATTCTAATTCAATCGTCCTTGAAGAGCAGTGAAGTGGATCA
1 CTTGAAGACAAGATAAACAAATCGATTCTAATTCAATCGTCCTTGAAGAGCAGTGAAGTGGATCA
*
5150867 AAGTTTTCTCGAGTCTGATCTCCCTTAAAGTGTAGTAGAGCATATTCTTCTTATTACAGATTTGG
66 AAGTTTTCTCGAGTCTGATCTCCCTTAAAGTGTAGTAGAGCATATTCTTCTAATTACAGATTTGG
*
5150932 TCTTTCTGAAGAGCAGTGAAGCAAATCAATTCCGATTCAGTCTTCTCTTAAGAGCAGCAAATTGG
131 TCTTTCTGAAGAGCAGTGAAGCAAATCAATTCCGATTCAGTCTTCTCTTAAGAGCAGCAAAGTGG
* **
5150997 ATCGAAATTTTCTCGAGTTTGATCTCCTCTAAAGAGTTGTGGAGAAAATTATTCTTCTTTCAAAA
196 ATCAAAATTTTCTCGAGTTTGATCGACTCTAAAGAGTTGTGGAGAAAATTATTCTTCTTTCAAAA
5151062 TTTGGTCTTCCTGAAGAGAAACGAACCAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGA
261 TTTGGTCTTCCTGAAGAGAAACGAACCAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGA
5151127 AGTGGATCAAAATTCC
326 AGTGGATCAAAATTCC
*
5151143 CTTGAAGACAAGATAAACAAATCGATTCTAATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCA
1 CTTGAAGACAAGATAAACAAATCGATTCTAATTCAATCGTCCTTGAAGAGCAGTGAAGTGGATCA
* *
5151208 CAGTTTTCTCGAGTCTGATCTCCCTTAAAGTGTAGTAGAGCATATTCTTCTAATTACATATTTGG
66 AAGTTTTCTCGAGTCTGATCTCCCTTAAAGTGTAGTAGAGCATATTCTTCTAATTACAGATTTGG
5151273 TCTTTCTGAAGAGCAGTGAAGCAAATCAATTCCGATTCAGTCTTCTCTTAAGAGCAGCAAAGTGG
131 TCTTTCTGAAGAGCAGTGAAGCAAATCAATTCCGATTCAGTCTTCTCTTAAGAGCAGCAAAGTGG
*
5151338 ATCAAAATTTTCTCGAGTTTGATCGACTCTAAAGAGTTGTGGAGCAAATTATTCTTCTTTCAAAA
196 ATCAAAATTTTCTCGAGTTTGATCGACTCTAAAGAGTTGTGGAGAAAATTATTCTTCTTTCAAAA
*
5151403 TTTGGTCTTCCTGAAGAGAAACGAAGCAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGA
261 TTTGGTCTTCCTGAAGAGAAACGAACCAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGA
5151468 AGTGGATCAAAATTCC
326 AGTGGATCAAAATTCC
5151484 CTTGA
1 CTTGA
5151489 GCCTGGTCCC
Statistics
Matches: 336, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
341 336 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (341 bp):
CTTGAAGACAAGATAAACAAATCGATTCTAATTCAATCGTCCTTGAAGAGCAGTGAAGTGGATCA
AAGTTTTCTCGAGTCTGATCTCCCTTAAAGTGTAGTAGAGCATATTCTTCTAATTACAGATTTGG
TCTTTCTGAAGAGCAGTGAAGCAAATCAATTCCGATTCAGTCTTCTCTTAAGAGCAGCAAAGTGG
ATCAAAATTTTCTCGAGTTTGATCGACTCTAAAGAGTTGTGGAGAAAATTATTCTTCTTTCAAAA
TTTGGTCTTCCTGAAGAGAAACGAACCAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGA
AGTGGATCAAAATTCC
Found at i:5151461 original size:135 final size:132
Alignment explanation
Indices: 5151160--5151599 Score: 461
Period size: 134 Copynumber: 3.3 Consensus size: 132
5151150 ACAAGATAAA
* * *
5151160 CAAATCGATTCTAATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCACAGTTTTCTCGAGTCTG
1 CAAATCAATTCT-ATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATTTTCTCGAGTCTG
* * * * ** * * * *
5151225 ATCTCCCTTAAAGTGTAGTAGAGCATATTCTTCTAATTACATATTTGGTCTTTCTGAAGAGCAGT
65 ATCACCC-TAAAGAGTAGTGGAGCAAATTCTTCTTCTTTCAAATTTGGTCTTCCTGAAGAGCAAT
5151290 GAAG
129 GAAG
* * ** *
5151294 CAAATCAATTCCGATTCAGTCTTCTCTT-AAGAGCAGCAAAGTGGATCAAAATTTTCTCGAGTTT
1 CAAATCAATT-CTATTCAATCTTC-CTTGAAGAGCAGTGAAGTGGATCAAAATTTTCTCGAGTCT
* * * *
5151358 GATCGACTCTAAAGAGTTGTGGAGCAAATTATTCTTCTTTCAAAATTTGGTCTTCCTGAAGAGAA
64 GATC-ACCCTAAAGAGTAGTGGAGCAAATTCTTCTTCTTTC-AAATTTGGTCTTCCTGAAGAGCA
*
5151423 ACGAAG
127 ATGAAG
* ** * *
5151429 CAAATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATTCCCTTGAGCCTG
1 CAAATCA-ATTCTATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATTTTCTCGAGTCTG
* * * * *
5151494 GTCCCCCTAAAGAGTAGTGGAGCAAATTCTTCTTCCTTCAGATTTGGTCTTCTTGAAGAGCAATG
65 ATCACCCTAAAGAGTAGTGGAGCAAATTCTTCTTCTTTCAAATTTGGTCTTCCTGAAGAGCAATG
5151559 AAG
130 AAG
** *
5151562 CAAATTGATTCTGATTCAATCTTACC-TGAAGAACAGTG
1 CAAATCAATTCT-ATTCAATCTT-CCTTGAAGAGCAGTG
5151600 GAATGAATCA
Statistics
Matches: 251, Mismatches: 47, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
132 4 0.02
133 51 0.20
134 114 0.45
135 80 0.32
136 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (132 bp):
CAAATCAATTCTATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATTTTCTCGAGTCTGA
TCACCCTAAAGAGTAGTGGAGCAAATTCTTCTTCTTTCAAATTTGGTCTTCCTGAAGAGCAATGA
AG
Found at i:5151610 original size:133 final size:133
Alignment explanation
Indices: 5151366--5151610 Score: 327
Period size: 133 Copynumber: 1.8 Consensus size: 133
5151356 TTGATCGACT
* *
5151366 CTAAAGAGTTGTGGAGCAAATTATTCTTCTTTCAAAATTTGGTCTTCCTGAAGAGAAACGAAGCA
1 CTAAAGAGTAGTGGAGCAAATTATTCTTCCTTCAAAATTTGGTCTTCCTGAAGAGAAACGAAGCA
* *
5151431 AATCACGTTCTATTCAATCTTCCTTGAAGAGCAGTGAAGTGGATCAAAATTCCCTTGAGCCTGGT
66 AATCAC-TTCTATTCAATCTTCCTTGAAGAACAGTGAAGTGAATCAAAATTCCCTTGAGCCTGGT
5151496 CCCC
130 CCCC
* * * * *
5151500 CTAAAGAGTAGTGGAGCAAATTCTTCTTCCTTC-AGATTTGGTCTTCTTGAAGAGCAATGAAGCA
1 CTAAAGAGTAGTGGAGCAAATTATTCTTCCTTCAAAATTTGGTCTTCCTGAAGAGAAACGAAGCA
*
5151564 AATTGA-TTCTGATTCAATCTTACC-TGAAGAACAGTGGAA-TGAATCAA
66 AA-TCACTTCT-ATTCAATCTT-CCTTGAAGAACAGT-GAAGTGAATCAA
5151611 TGTCTCTTGA
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
132 4 0.04
133 56 0.58
134 37 0.38
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (133 bp):
CTAAAGAGTAGTGGAGCAAATTATTCTTCCTTCAAAATTTGGTCTTCCTGAAGAGAAACGAAGCA
AATCACTTCTATTCAATCTTCCTTGAAGAACAGTGAAGTGAATCAAAATTCCCTTGAGCCTGGTC
CCC
Found at i:5151837 original size:2 final size:2
Alignment explanation
Indices: 5151832--5151882 Score: 93
Period size: 2 Copynumber: 25.0 Consensus size: 2
5151822 ACCCTTCTAT
5151832 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5151874 TA TA CTA TA
1 TA TA -TA TA
5151883 ATTTATGATG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 46 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5152145 original size:2 final size:2
Alignment explanation
Indices: 5152132--5152186 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
5152122 TCATTGTTTA
*
5152132 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5152174 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
5152187 ACCTACAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5157604 original size:6 final size:6
Alignment explanation
Indices: 5157595--5157630 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
5157585 TAAAATATTA
*
5157595 ATTAAT ATTAAT AATAAT A-TAAT ATTAAT ATTAAT A
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT A
5157631 ATATTGAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
ATTAAT
Found at i:5157619 original size:17 final size:17
Alignment explanation
Indices: 5157588--5157630 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
5157578 TGAAAAATAA
5157588 AATATTAAT-TAATATT
1 AATATTAATATAATATT
*
5157604 AATAATAATATAATATT
1 AATATTAATATAATATT
5157621 AATATTAATA
1 AATATTAATA
5157631 ATATTGAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTAATATAATATT
Found at i:5157625 original size:23 final size:22
Alignment explanation
Indices: 5157583--5157633 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
5157573 GGATCTGAAA
*
5157583 AATAA-AATATTAATTAATATT
1 AATAATAATATAAATTAATATT
5157604 AATAATAATATAATATTAATATT
1 AATAATAATATAA-ATTAATATT
5157627 AATAATA
1 AATAATA
5157634 TTGAATGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 5 0.19
22 6 0.22
23 16 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATAATAATATAAATTAATATT
Found at i:5158869 original size:21 final size:21
Alignment explanation
Indices: 5158844--5158893 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
5158834 CTCTAACAAC
5158844 CTAACTAACTCAAAACTACTT
1 CTAACTAACTCAAAACTACTT
*
5158865 CTAACTAACTCAAAACTGCTT
1 CTAACTAACTCAAAACTACTT
5158886 CTAACTAA
1 CTAACTAA
5158894 TTAGTAACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (21 bp):
CTAACTAACTCAAAACTACTT
Found at i:5163225 original size:19 final size:21
Alignment explanation
Indices: 5163187--5163236 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
5163177 AAATGATTTG
*
5163187 ATTTTG-AAAGCAAAAGTT-A
1 ATTTTGAAAAACAAAAGTTAA
5163206 ATTTTGAAAAACAAAA-TTAA
1 ATTTTGAAAAACAAAAGTTAA
*
5163226 ACTTTGAAAAA
1 ATTTTGAAAAA
5163237 TGATTTAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (21 bp):
ATTTTGAAAAACAAAAGTTAA
Found at i:5163448 original size:23 final size:23
Alignment explanation
Indices: 5163407--5163450 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
5163397 AAAAATTCAG
* *
5163407 GAGCTCGATTGAAGATCGATTTT
1 GAGCTCAATTCAAGATCGATTTT
*
5163430 GAGCTCAATTCAAGCTCGATT
1 GAGCTCAATTCAAGATCGATT
5163451 GAACCAGGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (23 bp):
GAGCTCAATTCAAGATCGATTTT
Found at i:5165110 original size:13 final size:13
Alignment explanation
Indices: 5165092--5165166 Score: 150
Period size: 13 Copynumber: 5.8 Consensus size: 13
5165082 GGAAAATTCT
5165092 CTTCTTCTTCTCC
1 CTTCTTCTTCTCC
5165105 CTTCTTCTTCTCC
1 CTTCTTCTTCTCC
5165118 CTTCTTCTTCTCC
1 CTTCTTCTTCTCC
5165131 CTTCTTCTTCTCC
1 CTTCTTCTTCTCC
5165144 CTTCTTCTTCTCC
1 CTTCTTCTTCTCC
5165157 CTTCTTCTTC
1 CTTCTTCTTC
5165167 CTCCTCCTTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 62 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (13 bp):
CTTCTTCTTCTCC
Found at i:5167378 original size:12 final size:12
Alignment explanation
Indices: 5167361--5167420 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
5167351 TAGAAATCAA
*
5167361 AACAGAATTCAT
1 AACAGAATTCAG
* *
5167373 ATCAG-ATATCAT
1 AACAGAAT-TCAG
*
5167385 AACAGAATCCAG
1 AACAGAATTCAG
* *
5167397 ATCAGAAATCAG
1 AACAGAATTCAG
5167409 AACAGAATTCAG
1 AACAGAATTCAG
5167421 GTTAGAAATT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
11 2 0.05
12 33 0.89
13 2 0.05
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.20
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:5167388 original size:24 final size:24
Alignment explanation
Indices: 5167352--5167453 Score: 123
Period size: 24 Copynumber: 4.2 Consensus size: 24
5167342 CAGAGATTTT
*
5167352 AGAAATCAAAACAGAATTCATATC
1 AGAAATCAAAACAGAATTCAGATC
* * *
5167376 AGATATCATAACAGAATCCAGATC
1 AGAAATCAAAACAGAATTCAGATC
* * *
5167400 AGAAATCAGAACAGAATTCAGGTT
1 AGAAATCAAAACAGAATTCAGATC
* *
5167424 AGAAATTAAAACAGAATTCAAATC
1 AGAAATCAAAACAGAATTCAGATC
5167448 AGAAAT
1 AGAAAT
5167454 AAGATAAAAC
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.21
Consensus pattern (24 bp):
AGAAATCAAAACAGAATTCAGATC
Found at i:5171884 original size:24 final size:24
Alignment explanation
Indices: 5171857--5171928 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
5171847 AAACGGAGAT
*
5171857 ATCAGAAATCAAAACAGAATTTAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
5171881 ATCAGATATCATAACAGAATCCAT
1 ATCAGAAATCAAAACAGAATTCAG
*
5171905 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
5171929 GTCAAAAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:5175121 original size:23 final size:23
Alignment explanation
Indices: 5175095--5175153 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
5175085 TACATACGCG
5175095 GTCCTTCGGGACAATTCTACGTT
1 GTCCTTCGGGACAATTCTACGTT
5175118 GTCCTTCGGGACAATTCTACGTT
1 GTCCTTCGGGACAATTCTACGTT
5175141 GTCCTTCGGGACA
1 GTCCTTCGGGACA
5175154 TATTTGTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (23 bp):
GTCCTTCGGGACAATTCTACGTT
Found at i:5176631 original size:14 final size:14
Alignment explanation
Indices: 5176612--5176641 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5176602 TATAATTATC
*
5176612 AATAATGTATTTTT
1 AATAATGTAATTTT
5176626 AATAATGTAATTTT
1 AATAATGTAATTTT
5176640 AA
1 AA
5176642 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:5178841 original size:116 final size:116
Alignment explanation
Indices: 5178643--5178875 Score: 278
Period size: 116 Copynumber: 2.0 Consensus size: 116
5178633 AATATATATT
* * * *
5178643 AATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGT
1 AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGT
* * *
5178708 GCCTTAAGATAGCTCTTTTCTTTGATATT-CAAAA-AAATAAATAATTAAAAC
66 GCCTTAAAATAGCTCTTTTC-TTAATATTGAAAAATAAATAAAT-ATTAAAAC
**
5178759 AATTAATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAG
1 AATTAATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-GGACATCCAG
* **
5178823 TTGTTTTAAAACT-G-TCTTTTCTTAATATTGAAAAATAAATAAATATTAAAAC
64 GTGCCTTAAAA-TAGCTCTTTTCTTAATATTGAAAAATAAATAAATATTAAAAC
5178875 A
1 A
5178876 GGATTAAAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
115 13 0.13
116 62 0.62
117 24 0.24
118 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (116 bp):
AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGT
GCCTTAAAATAGCTCTTTTCTTAATATTGAAAAATAAATAAATATTAAAAC
Found at i:5178951 original size:22 final size:18
Alignment explanation
Indices: 5178906--5178941 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5178896 TAATTAAATA
5178906 AAATAAATATTATTTATT
1 AAATAAATATTATTTATT
*
5178924 ATATAAATATATATTTAT
1 AAATAAATAT-TATTTAT
5178942 GGCTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATAAATATTATTTATT
Found at i:5180338 original size:2 final size:2
Alignment explanation
Indices: 5180331--5180367 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
5180321 TGGGCTTGTA
5180331 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5180368 ATAATTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5180670 original size:76 final size:76
Alignment explanation
Indices: 5180507--5180942 Score: 703
Period size: 76 Copynumber: 5.7 Consensus size: 76
5180497 ATGAAATATT
* * * * *
5180507 GAAATCATCATGCACTGAAGGGCTTATAGACGA-CCTGAAGGTTTTGAAAACATCAAAAAAGCTC
1 GAAA-CATCATGCACTGTAGGACTTACAGATGACCCT-AAGGCTTTGAAAACATC-AAAAAGCTC
*
5180571 CTGAAGGCTTTTTG
63 CCGAAGGCTTTTTG
* *
5180585 GAAACATCATACACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGTTCCCG
1 GAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
5180650 AAGGCTTTTTG
66 AAGGCTTTTTG
* *
5180661 GAAACATCATGCACTGTAGGACTTACAGATAACCCTAAGACTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
5180726 AAGGCTTTTTG
66 AAGGCTTTTTG
5180737 GAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
5180802 AAGGCTTTTTG
66 AAGGCTTTTTG
5180813 GAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
5180878 AAGGCCTTTTG
66 AAGGCTTTTTG
* * * *
5180889 GAAACATCATGCACTGCAAGACATACAGATGACCCTAAGGCTTTAAAAACATCA
1 GAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
5180943 TGCACTGTAG
Statistics
Matches: 338, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
76 292 0.86
77 39 0.12
78 7 0.02
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (76 bp):
GAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTG
Found at i:5180944 original size:45 final size:45
Alignment explanation
Indices: 5180890--5180987 Score: 160
Period size: 45 Copynumber: 2.2 Consensus size: 45
5180880 GGCCTTTTGG
5180890 AAACATCATGCACTGCAAGACATACAGATGACCCTAAGGCTTTAA
1 AAACATCATGCACTGCAAGACATACAGATGACCCTAAGGCTTTAA
* * * *
5180935 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGA
1 AAACATCATGCACTGCAAGACATACAGATGACCCTAAGGCTTTAA
5180980 AAACATCA
1 AAACATCA
5180988 AAAAGCTCCC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.21
Consensus pattern (45 bp):
AAACATCATGCACTGCAAGACATACAGATGACCCTAAGGCTTTAA
Found at i:5180950 original size:197 final size:197
Alignment explanation
Indices: 5180738--5181139 Score: 759
Period size: 197 Copynumber: 2.0 Consensus size: 197
5180728 GGCTTTTTGG
5180738 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
5180803 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
*
5180868 AAAGCTCCCGAAGGCCTTTTGGAAACATCATGCACTGCAAGACATACAGATGACCCTAAGGCTTT
131 AAAGCTCCCGAAGGCCTTTTGGAAACATAATGCACTGCAAGACATACAGATGACCCTAAGGCTTT
5180933 AA
196 AA
5180935 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
5181000 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
* * *
5181065 AAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
131 AAAGCTCCCGAAGGCCTTTTGGAAACATAATGCACTGCAAGACATACAGATGACCCTAAGGCTTT
*
5181130 GA
196 AA
5181132 AAACATCA
1 AAACATCA
5181140 AAAAGCTCCC
Statistics
Matches: 200, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
197 200 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (197 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
AAAGCTCCCGAAGGCCTTTTGGAAACATAATGCACTGCAAGACATACAGATGACCCTAAGGCTTT
AA
Found at i:5180959 original size:121 final size:121
Alignment explanation
Indices: 5180814--5181063 Score: 455
Period size: 121 Copynumber: 2.1 Consensus size: 121
5180804 GGCTTTTTGG
5180814 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
5180879 AGGCCTTTTGGAAACATCATGCACTGCAAGACATACAGATGACCCTAAGGCTTTAA
66 AGGCCTTTTGGAAACATCATGCACTGCAAGACATACAGATGACCCTAAGGCTTTAA
5180935 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
* * * * *
5181000 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGA
66 AGGCCTTTTGGAAACATCATGCACTGCAAGACATACAGATGACCCTAAGGCTTTAA
5181056 AAACATCA
1 AAACATCA
5181064 AAAAGCTCCC
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 124 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (121 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCCTTTTGGAAACATCATGCACTGCAAGACATACAGATGACCCTAAGGCTTTAA
Found at i:5181073 original size:273 final size:273
Alignment explanation
Indices: 5180662--5181215 Score: 1027
Period size: 273 Copynumber: 2.0 Consensus size: 273
5180652 GGCTTTTTGG
5180662 AAACATCATGCACTGTAGGACTTACAGATAACCCTAAGACTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATAACCCTAAGACTTTGAAAACATCAAAAAGCTCCCGA
5180727 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
* *
5180792 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
*
5180857 GAAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATCATGCACTGCAAGACATACAGATGAC
196 GAAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATAATGCACTGCAAGACATACAGATGAC
5180922 CCTAAGGCTTTAA
261 CCTAAGGCTTTAA
* *
5180935 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATAACCCTAAGACTTTGAAAACATCAAAAAGCTCCCGA
5181000 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
5181065 AAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
* * *
5181130 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGAC
196 GAAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATAATGCACTGCAAGACATACAGATGAC
*
5181195 CCTAAGGCTTTGA
261 CCTAAGGCTTTAA
5181208 AAACATCA
1 AAACATCA
5181216 AAAATCTCTC
Statistics
Matches: 272, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
273 272 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (273 bp):
AAACATCATGCACTGTAGGACTTACAGATAACCCTAAGACTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
GAAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATAATGCACTGCAAGACATACAGATGAC
CCTAAGGCTTTAA
Found at i:5181231 original size:349 final size:349
Alignment explanation
Indices: 5180586--5181291 Score: 1286
Period size: 349 Copynumber: 2.0 Consensus size: 349
5180576 GGCTTTTTGG
*
5180586 AAACATCATACACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGTTCCCGA
1 AAACATCATACACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
5180651 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATAACCCTAAGACTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATAACCCTAAGACTTTGAAAACATCAA
* *
5180716 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
* *
5180781 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGAC
196 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGAC
5180846 CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATCATGCACTGCAAGAC
261 CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATCATGCACTGCAAGAC
5180911 ATACAGATGACCCTAAGGCTTTAA
326 ATACAGATGACCCTAAGGCTTTAA
*
5180935 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATACACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
* *
5181000 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATAACCCTAAGACTTTGAAAACATCAA
5181065 AAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
5181130 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGAC
196 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGAC
* * * *
5181195 CCTAAGGCTTTGAAAACATCAAAAATCTCTCGAAGGCTTTTTGGAAACATCATGCACTGCAGGAC
261 CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATCATGCACTGCAAGAC
* *
5181260 TTACAGATGACCCTAAGGCTTTGA
326 ATACAGATGACCCTAAGGCTTTAA
5181284 AAACATCA
1 AAACATCA
5181292 AAAAGCTCCC
Statistics
Matches: 343, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
349 343 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (349 bp):
AAACATCATACACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATAACCCTAAGACTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGAC
CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATCATGCACTGCAAGAC
ATACAGATGACCCTAAGGCTTTAA
Found at i:5181352 original size:425 final size:426
Alignment explanation
Indices: 5180512--5181367 Score: 1509
Period size: 425 Copynumber: 2.0 Consensus size: 426
5180502 ATATTGAAAT
* * * *
5180512 CATCATGCACTGAAGGGCTTATAGACGACCTGAAGGTTTTGAAAACATCAAAAAAGCTCCTGAAG
1 CATCATGCACTGAAGGACTTACAGACGACCTGAAGGCTTTGAAAACATCAAAAAAGCTCCCGAAG
5180577 GCTTTTTGGAAACATCATACACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
66 GCTTTTTGGAAACATCATACACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
* * *
5180642 AGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATAACCCTAAGACTTTGA
131 AGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATAACCCTAAGACTTTGA
* *
5180707 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCC
196 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACCC
*
5180772 TAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTT
261 TAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTT
5180837 ACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATCATGCA
326 ACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATCATGCA
5180902 CTGCAAGACATACAGATGACCCTAAGGCTTTAAAAA
391 CTGCAAGACATACAGATGACCCTAAGGCTTTAAAAA
* *
5180938 CATCATGCACTGTAGGACTTACAGATGACCCT-AAGGCTTTGAAAACATC-AAAAAGCTCCCGAA
1 CATCATGCACTGAAGGACTTACAGACGA-CCTGAAGGCTTTGAAAACATCAAAAAAGCTCCCGAA
*
5181001 GGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
65 GGCTTTTTGGAAACATCATACACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
* *
5181066 AAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTG
130 AAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATAACCCTAAGACTTTG
5181131 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACC
195 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACC
* *
5181196 CTAAGGCTTTGAAAACATCAAAAATCTCTCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACT
260 CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACT
*
5181261 TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
325 TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATCATGC
* *
5181326 ACTGCAGGACTTACAGATGACCCTAAGGCTTTAAAAA
390 ACTGCAAGACATACAGATGACCCTAAGGCTTTAAAAA
5181363 CATCA
1 CATCA
5181368 AAAAGCTCCC
Statistics
Matches: 409, Mismatches: 20, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
425 366 0.89
426 40 0.10
427 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (426 bp):
CATCATGCACTGAAGGACTTACAGACGACCTGAAGGCTTTGAAAACATCAAAAAAGCTCCCGAAG
GCTTTTTGGAAACATCATACACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
AGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATAACCCTAAGACTTTGA
AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCACTGCAGGACTTACAGATGACCC
TAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTT
ACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCCTTTTGGAAACATCATGCA
CTGCAAGACATACAGATGACCCTAAGGCTTTAAAAA
Found at i:5181523 original size:76 final size:76
Alignment explanation
Indices: 5180935--5181496 Score: 1043
Period size: 76 Copynumber: 7.4 Consensus size: 76
5180925 AAGGCTTTAA
*
5180935 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
5181000 AGGCTTTTTGG
66 AGGCTTTTTGG
*
5181011 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
5181076 AGGCTTTTTGG
66 AGGCTTTTTGG
*
5181087 AAACATAATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
5181152 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
5181163 AAACATAATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAATCTCTCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
5181228 AGGCTTTTTGG
66 AGGCTTTTTGG
5181239 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
5181304 AGGCTTTTTGG
66 AGGCTTTTTGG
*
5181315 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
5181380 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
5181391 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
5181456 AGGCTTTTTGG
66 AGGCTTTTTGG
5181467 AAACATCATGCACTGCAGGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
5181497 TGGGAAATAG
Statistics
Matches: 474, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 474 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:5182199 original size:22 final size:22
Alignment explanation
Indices: 5182174--5182228 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
5182164 CATAAAACTT
*
5182174 TCATCTTTGAAAAGAAAATCTA
1 TCATCTTTGAAAAGAAAACCTA
* *
5182196 TCATCTTTAAAAAGAGAACCTA
1 TCATCTTTGAAAAGAAAACCTA
5182218 TCATCTTTGAA
1 TCATCTTTGAA
5182229 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAAAGAAAACCTA
Found at i:5188762 original size:14 final size:14
Alignment explanation
Indices: 5188745--5188783 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
5188735 TAAAAGTATG
5188745 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
5188759 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
5188774 AATG-AAAATG
1 AATGCAAAATG
5188784 CATATATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:5191681 original size:29 final size:29
Alignment explanation
Indices: 5191649--5191707 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
5191639 ATTTCAAAAT
*
5191649 TATAATTATGAAAAAAACATATTAATTTATA
1 TATATTTAT-AAAAAAA-ATATTAATTTATA
* *
5191680 TATATTTATAAATAAAATATTTATTTAT
1 TATATTTATAAAAAAAATATTAATTTAT
5191708 TCAGAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 6 0.24
31 8 0.32
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (29 bp):
TATATTTATAAAAAAAATATTAATTTATA
Found at i:5191977 original size:22 final size:18
Alignment explanation
Indices: 5191932--5191967 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5191922 TAATTAAATA
5191932 AAATAAATATTATTTATT
1 AAATAAATATTATTTATT
*
5191950 ATATAAATATATATTTAT
1 AAATAAATAT-TATTTAT
5191968 GGCTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATAAATATTATTTATT
Found at i:5193375 original size:2 final size:2
Alignment explanation
Indices: 5193368--5193402 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5193358 TGGGCTTGTA
5193368 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5193403 AATAATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5195804 original size:22 final size:22
Alignment explanation
Indices: 5195778--5195821 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5195768 ATCAACACTA
* *
5195778 ATTGTAAAATATTTGAGTGTTT
1 ATTGTAAAATAGTTGAGGGTTT
*
5195800 ATTGTCAAATAGTTGAGGGTTT
1 ATTGTAAAATAGTTGAGGGTTT
5195822 CTAGAATAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.45
Consensus pattern (22 bp):
ATTGTAAAATAGTTGAGGGTTT
Found at i:5197834 original size:36 final size:36
Alignment explanation
Indices: 5197793--5198123 Score: 481
Period size: 36 Copynumber: 9.2 Consensus size: 36
5197783 AAAGATGAAC
**
5197793 ACTTGAATCGGAAGTGTTGATGCTTCCTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
*
5197829 ACTTGAATCGGAAGTGTCC-ATGCTTCCTCCCGTTCG
1 ACTTGAATCGGAAGTG-CCGATGCTTCCTTCCGTTCG
** * *
5197865 ACTTGAATCGGAAGTGTTGATGTTTCCTCCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
*
5197901 ACTTGAATCGGAAGTGTCC-ATGCTTCCTCCCGTTCG
1 ACTTGAATCGGAAGTG-CCGATGCTTCCTTCCGTTCG
5197937 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTC-
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
*
5197972 ACTTGAATCGGAAGTGCCGATGCTTTCTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
* * *
5198008 AATTGAATCGGAAGTGCTGATGCTTACTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
* *
5198044 ATTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
5198080 ACTTGAATCGGAAGTGCCGATGCTTCCCTT-CGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTT-CCTTCCGTTCG
5198116 ACTTGAAT
1 ACTTGAAT
5198124 TGATGCAAAC
Statistics
Matches: 269, Mismatches: 20, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
35 36 0.13
36 230 0.86
37 3 0.01
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.33
Consensus pattern (36 bp):
ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
Found at i:5198092 original size:179 final size:179
Alignment explanation
Indices: 5197792--5198123 Score: 492
Period size: 179 Copynumber: 1.9 Consensus size: 179
5197782 AAAAGATGAA
** * *
5197792 CACTTGAATCGGAAGTGTTGATGCTTCCTTCCGTTCGACTTGAATCGGAAGTGTCCATGCTTCCT
1 CACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAATTGAATCGGAAGTGTCCATGCTTACT
** *
5197857 CCCGTTCGACTTGAATCGGAAGTGTTGATGTTTCCTCCCGTTCGACTTGAATCGGAAGTGTCC-A
66 CCCGTTCGACTTGAATCGGAAGTGCCGATGTTCCCTCCCGTTCGACTTGAATCGGAAGTG-CCGA
5197921 TGCTT-CCTCCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTT
130 TGCTTCCCT-CCGTTCGACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTT
* *
5197971 CACTTGAATCGGAAGTGCCGATGCTTTCTTCCGTTCGAATTGAATCGGAAGTG-CTGATGCTTAC
1 CACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAATTGAATCGGAAGTGTC-CATGCTTAC
* *
5198035 TTCCGTTCGATTTGAATCGGAAGTGCCGATGCTTCCCT-CCGTTCGACTTGAATCGGAAGTGCCG
65 TCCCGTTCGACTTGAATCGGAAGTGCCGATG-TTCCCTCCCGTTCGACTTGAATCGGAAGTGCCG
*
5198099 ATGCTTCCCTTCGTTCGACTTGAAT
129 ATGCTTCCCTCCGTTCGACTTGAAT
5198124 TGATGCAAAC
Statistics
Matches: 137, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
178 3 0.02
179 126 0.92
180 8 0.06
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.33
Consensus pattern (179 bp):
CACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAATTGAATCGGAAGTGTCCATGCTTACT
CCCGTTCGACTTGAATCGGAAGTGCCGATGTTCCCTCCCGTTCGACTTGAATCGGAAGTGCCGAT
GCTTCCCTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTT
Found at i:5203255 original size:22 final size:21
Alignment explanation
Indices: 5203195--5203348 Score: 182
Period size: 22 Copynumber: 7.6 Consensus size: 21
5203185 GGGTATATTA
5203195 GTCCTTCGGGA-G-AT-AGTG
1 GTCCTTCGGGACGTATCAGTG
5203213 GTCCTTCGGGA--TAT-AGTG
1 GTCCTTCGGGACGTATCAGTG
5203231 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTAT-CAGTG
*
5203253 GTCCTTCGGGATGTATCTAGTG
1 GTCCTTCGGGACGTATC-AGTG
*
5203275 GTCCTTCGGGATGTATCCAGTG
1 GTCCTTCGGGACGTAT-CAGTG
5203297 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTAT-CAGTG
*
5203319 GCCCTTCGGGAC--AT-AGTG
1 GTCCTTCGGGACGTATCAGTG
5203337 GTCCTTCGGGAC
1 GTCCTTCGGGAC
5203349 AAATACTGAA
Statistics
Matches: 125, Mismatches: 4, Indels: 14
0.87 0.03 0.10
Matches are distributed among these distances:
18 43 0.34
20 5 0.04
21 1 0.01
22 75 0.60
23 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.33, T:0.29
Consensus pattern (21 bp):
GTCCTTCGGGACGTATCAGTG
Found at i:5209581 original size:19 final size:19
Alignment explanation
Indices: 5209557--5209606 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
5209547 ATGCCATTAA
5209557 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
5209576 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
5209595 TGCATCGATGCA
1 TGCATCGATGCA
5209607 CCTACTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (19 bp):
TGCATCGATGCATAAGGAG
Found at i:5210200 original size:18 final size:19
Alignment explanation
Indices: 5210177--5210309 Score: 119
Period size: 22 Copynumber: 6.7 Consensus size: 19
5210167 GGGTATATTA
5210177 GTCCTTCGGGACAT-AGTG
1 GTCCTTCGGGACATCAGTG
5210195 GTCCTTCGGGACAT-AGTG
1 GTCCTTCGGGACATCAGTG
*
5210213 GTCCTTCGGGAAGTATCCAGTG
1 GTCCTTCGGG-A-CAT-CAGTG
*
5210235 GTCCTTCGGGACGTATCCAGAG
1 GTCCTTCGGGAC--AT-CAGTG
*
5210257 GTCCTTCAGGACGTATCCAGTG
1 GTCCTTCGGGAC--AT-CAGTG
* *
5210279 GTCCTTTGGGATAT-AGTG
1 GTCCTTCGGGACATCAGTG
5210297 GTCCTTCGGGACA
1 GTCCTTCGGGACA
5210310 AATACTGAAC
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
18 43 0.43
19 1 0.01
20 4 0.04
21 1 0.01
22 50 0.51
ACGTcount: A:0.17, C:0.23, G:0.32, T:0.28
Consensus pattern (19 bp):
GTCCTTCGGGACATCAGTG
Found at i:5210237 original size:22 final size:22
Alignment explanation
Indices: 5210209--5210307 Score: 125
Period size: 22 Copynumber: 4.7 Consensus size: 22
5210199 TTCGGGACAT
5210209 AGTGGTCCTTCGGGAAGTATCC
1 AGTGGTCCTTCGGGAAGTATCC
*
5210231 AGTGGTCCTTCGGGACGTATCC
1 AGTGGTCCTTCGGGAAGTATCC
* * *
5210253 AGAGGTCCTTCAGGACGTATCC
1 AGTGGTCCTTCGGGAAGTATCC
*
5210275 AGTGGTCCTTTGGG-A-TAT--
1 AGTGGTCCTTCGGGAAGTATCC
5210293 AGTGGTCCTTCGGGA
1 AGTGGTCCTTCGGGA
5210308 CAAATACTGA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
18 13 0.19
20 3 0.04
22 52 0.76
ACGTcount: A:0.17, C:0.22, G:0.32, T:0.28
Consensus pattern (22 bp):
AGTGGTCCTTCGGGAAGTATCC
Found at i:5210275 original size:44 final size:40
Alignment explanation
Indices: 5210191--5210303 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 40
5210181 TTCGGGACAT
* *
5210191 AGTGGTCCTTCGGGACATAGTGGTCCTTCGGGAAGTATCC
1 AGTGGTCCTTCGGGACATAGAGGTCCTTCAGGAAGTATCC
*
5210231 AGTGGTCCTTCGGGACGTATCCAGAGGTCCTTCAGGACGTATCC
1 AGTGGTCCTTCGGGAC--AT--AGAGGTCCTTCAGGAAGTATCC
* * *
5210275 AGTGGTCCTTTGGGATATAGTGGTCCTTC
1 AGTGGTCCTTCGGGACATAGAGGTCCTTC
5210304 GGGACAAATA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
40 26 0.41
42 4 0.06
44 33 0.52
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.29
Consensus pattern (40 bp):
AGTGGTCCTTCGGGACATAGAGGTCCTTCAGGAAGTATCC
Found at i:5211867 original size:18 final size:19
Alignment explanation
Indices: 5211828--5211870 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
5211818 TTAGAACCCT
*
5211828 AATTTTTATAATTTCATAA
1 AATTTTTATAATCTCATAA
*
5211847 AATTTTTATAATCTCCT-A
1 AATTTTTATAATCTCATAA
5211865 AATTTT
1 AATTTT
5211871 CGTATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTTTTATAATCTCATAA
Found at i:5212158 original size:51 final size:51
Alignment explanation
Indices: 5212095--5212252 Score: 142
Period size: 51 Copynumber: 3.1 Consensus size: 51
5212085 GTAGCAGTAA
* ** *
5212095 AGCGCGCTCCCTGCCCCGCGCTATATGCTGATTTGGC-GCCACGTGGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATA-GCTGATTTGGCTGACACGTGGGGTAT
* * ** *
5212146 AGCGCGCCCCCTGTACCGCGCTACACGCTGACATGGCTTACACGT-GGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATA-GCTGATTTGGCTGACACGTGGGGTAT
* * * * **
5212197 AGCGCGGCCCCTGATCCACACTATAGCT-ATTTATCTGACACGTGGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATAGCTGATTTGGCTGACACGTGGGGTAT
5212247 AGCGCG
1 AGCGCG
5212253 GTACAGGGGG
Statistics
Matches: 85, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
49 10 0.12
50 15 0.18
51 55 0.65
52 5 0.06
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.22
Consensus pattern (51 bp):
AGCGCGCCCCCTGAACCGCGCTATAGCTGATTTGGCTGACACGTGGGGTAT
Found at i:5214916 original size:21 final size:21
Alignment explanation
Indices: 5214873--5214977 Score: 88
Period size: 21 Copynumber: 5.0 Consensus size: 21
5214863 AATCAGATTG
* * *
5214873 CCCAGGGCGTACAAATT-CCC
1 CCCAGGGGGAACAGATTCCCC
5214893 CCCAGGGGGAACAGATTCCCC
1 CCCAGGGGGAACAGATTCCCC
* * *
5214914 CCCAGGGGGTACCGATTCCCG
1 CCCAGGGGGAACAGATTCCCC
* *
5214935 CCCAAGGGGAACATATTTCCCC
1 CCCAGGGGGAACAGA-TTCCCC
* * *
5214957 CCAAGGGGTATC-GATTCCCC
1 CCCAGGGGGAACAGATTCCCC
5214977 C
1 C
5214978 TGTCTAACGG
Statistics
Matches: 67, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
20 21 0.31
21 33 0.49
22 13 0.19
ACGTcount: A:0.22, C:0.38, G:0.25, T:0.15
Consensus pattern (21 bp):
CCCAGGGGGAACAGATTCCCC
Found at i:5214957 original size:42 final size:41
Alignment explanation
Indices: 5214873--5214977 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 41
5214863 AATCAGATTG
* ** *
5214873 CCCAGGGCGTACAAATTCCCCCCAGGGGGAACAGATTCCCC
1 CCCAGGGGGTACCGATTCCCCCCAAGGGGAACAGATTCCCC
* *
5214914 CCCAGGGGGTACCGATTCCCGCCCAAGGGGAACATATTTCCC
1 CCCAGGGGGTACCGATTCCC-CCCAAGGGGAACAGATTCCCC
* *
5214956 CCCAAGGGGTATCGATTCCCCC
1 CCCAGGGGGTACCGATTCCCCC
5214978 TGTCTAACGG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 19 0.35
42 36 0.65
ACGTcount: A:0.22, C:0.38, G:0.25, T:0.15
Consensus pattern (41 bp):
CCCAGGGGGTACCGATTCCCCCCAAGGGGAACAGATTCCCC
Found at i:5215366 original size:34 final size:32
Alignment explanation
Indices: 5215327--5215394 Score: 100
Period size: 34 Copynumber: 2.1 Consensus size: 32
5215317 TTGTAAAGGA
*
5215327 GAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTAGG
1 GAAAGGTTCTAGCTTAGCCCG-G-AAAAACTAGG
*
5215361 GAAAGGTTCTAGTTTAGCCCGGAAAAACTAGG
1 GAAAGGTTCTAGCTTAGCCCGGAAAAACTAGG
5215393 GA
1 GA
5215395 GTTTGTAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.22
Consensus pattern (32 bp):
GAAAGGTTCTAGCTTAGCCCGGAAAAACTAGG
Found at i:5217641 original size:22 final size:22
Alignment explanation
Indices: 5217611--5217652 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5217601 AATCAGATTG
*
5217611 CCCATGGGGTACAGATTCCCTC
1 CCCAGGGGGTACAGATTCCCTC
*
5217633 CCCAGGGGGTACCGATTCCC
1 CCCAGGGGGTACAGATTCCC
5217653 CCTGTCTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.38, G:0.26, T:0.19
Consensus pattern (22 bp):
CCCAGGGGGTACAGATTCCCTC
Found at i:5218420 original size:35 final size:33
Alignment explanation
Indices: 5218380--5218464 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
5218370 GTATTTCACT
5218380 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
5218415 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
5218450 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
5218465 TAAAATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:5222154 original size:51 final size:50
Alignment explanation
Indices: 5222030--5222156 Score: 114
Period size: 51 Copynumber: 2.5 Consensus size: 50
5222020 CTACGTGGCG
* ** *
5222030 TATAGCGTGGATCAGGAGCCGCGCTATACCCACGTGTAAGCCATGTCAGCG
1 TATAGCGTGGAACAGGAG-CGCGCTATACCCACGTGTAAGCCAAATCAGCA
* * *
5222081 TATAGCGCGGTACAAAGG-GCGCGCTATACCCCACGTG-ACGCCAAATCAGCA
1 TATAGCGTGG-A-ACAGGAGCGCGCTATA-CCCACGTGTAAGCCAAATCAGCA
**
5222132 TATAGCGTGGGGCAGGGAGCGCGCT
1 TATAGCGTGGAACA-GGAGCGCGCT
5222157 TTACTGCTAC
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
49 1 0.02
50 2 0.03
51 44 0.73
52 10 0.17
53 3 0.05
ACGTcount: A:0.24, C:0.28, G:0.31, T:0.17
Consensus pattern (50 bp):
TATAGCGTGGAACAGGAGCGCGCTATACCCACGTGTAAGCCAAATCAGCA
Found at i:5225008 original size:23 final size:23
Alignment explanation
Indices: 5224947--5225010 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
5224937 TTTTTAACAC
* *
5224947 GTTTTAATTTTGTTTTATGACAT
1 GTTTTTATTTTATTTTATGACAT
* * * *
5224970 -ATTTTACTCTACTTTTGTGACAT
1 GTTTTTATTTTA-TTTTATGACAT
5224993 GTTTTTATTTTATTTTAT
1 GTTTTTATTTTATTTTAT
5225011 CGTGCATTAT
Statistics
Matches: 29, Mismatches: 10, Indels: 4
0.67 0.23 0.09
Matches are distributed among these distances:
22 6 0.21
23 15 0.52
24 8 0.28
ACGTcount: A:0.20, C:0.08, G:0.09, T:0.62
Consensus pattern (23 bp):
GTTTTTATTTTATTTTATGACAT
Found at i:5229707 original size:23 final size:23
Alignment explanation
Indices: 5229677--5229726 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
5229667 GGATTCGCAT
**
5229677 GATTGCTTGTTCCTCAACTGCAG
1 GATTGCTTGGCCCTCAACTGCAG
5229700 GATTGCTTGGCCCTCAACTGCAG
1 GATTGCTTGGCCCTCAACTGCAG
5229723 GATT
1 GATT
5229727 CCACCAGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (23 bp):
GATTGCTTGGCCCTCAACTGCAG
Found at i:5233026 original size:162 final size:161
Alignment explanation
Indices: 5232723--5233054 Score: 520
Period size: 162 Copynumber: 2.1 Consensus size: 161
5232713 CCTACACAAG
** *
5232723 AAATGTGCCCAGCTACCCCATGAAATCAACCATCCCTTTCACAAACAACACCCCCTTGTTCTACA
1 AAATGTGCCCAAATACCCCATGAAATCAACAATCCCTTTCACAAACAACACCCCCTTGTTCTACA
* * * * * *
5232788 GTTAATGGTGAACGTTTCTCTTGCAACATATGCCAGCAGACACGATATAGGGGATTTCTTTATTG
66 GTTAATGGTGAACGTTCCTCCTGCAACATATGCCAACAGACACGACAGAGGGAATTTCTTTATTG
*
5232853 TTGTTCACCGTGTAAGCTTGCTCTTCACATT
131 TTGTTCACCGTGTAAGCTTGCTCTTCACATC
* *
5232884 AAATGTGCCCAAATACCTCATGAAATCAACAATCCCTTTCACAAACAACACCCTCTTGTTCTACA
1 AAATGTGCCCAAATACCCCATGAAATCAACAATCCCTTTCACAAACAACACCCCCTTGTTCTACA
* *
5232949 GTTTAATGGTGAACGTTCCTCCTGTAACATATGCCAACAGACACGACAGAGGTAATTTCTTTATT
66 G-TTAATGGTGAACGTTCCTCCTGCAACATATGCCAACAGACACGACAGAGGGAATTTCTTTATT
*
5233014 GTTGTTCACCGTGTAAGTTTGCTCTTCACATC
130 GTTGTTCACCGTGTAAGCTTGCTCTTCACATC
5233046 AAATGTGCC
1 AAATGTGCC
5233055 GAGTTACCTC
Statistics
Matches: 155, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
161 61 0.39
162 94 0.61
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (161 bp):
AAATGTGCCCAAATACCCCATGAAATCAACAATCCCTTTCACAAACAACACCCCCTTGTTCTACA
GTTAATGGTGAACGTTCCTCCTGCAACATATGCCAACAGACACGACAGAGGGAATTTCTTTATTG
TTGTTCACCGTGTAAGCTTGCTCTTCACATC
Found at i:5233099 original size:162 final size:162
Alignment explanation
Indices: 5232723--5233112 Score: 471
Period size: 162 Copynumber: 2.4 Consensus size: 162
5232713 CCTACACAAG
** * * * ** *
5232723 AAATGTGCCCAGCTACCCCATGAAATCAACCATCCCTTTCACAAACAACACCCCCTTGTTCTACA
1 AAATGTGCCCAAATACCTCATGAAATCAACAACCCCTCCCACAAACAACACCCTCTTGTTCTACA
* * * * * *
5232788 G-TTAATGGTGAACGTTTCTCTTGCAACATATGCCAGCAGACACGATATAGGGGATTTCTTTATT
66 GTTTAATGGTGAACGTTCCTCCTGCAACATATGCCAACAGACACGACAGAGGGAATTTCTTTATT
*
5232852 GTTGTTCACCGTGTAAGCTTGCTCTTCACATT
131 GTTGTTCACCGTGTAAGCTTGCTCTTCACATC
* **
5232884 AAATGTGCCCAAATACCTCATGAAATCAACAATCCCTTTCACAAACAACACCCTCTTGTTCTACA
1 AAATGTGCCCAAATACCTCATGAAATCAACAACCCCTCCCACAAACAACACCCTCTTGTTCTACA
* *
5232949 GTTTAATGGTGAACGTTCCTCCTGTAACATATGCCAACAGACACGACAGAGGTAATTTCTTTATT
66 GTTTAATGGTGAACGTTCCTCCTGCAACATATGCCAACAGACACGACAGAGGGAATTTCTTTATT
*
5233014 GTTGTTCACCGTGTAAGTTTGCTCTTCACATC
131 GTTGTTCACCGTGTAAGCTTGCTCTTCACATC
* ** * ** * * *
5233046 AAATGTGCCGAGTTACCTCCT-ATAATCAGTAACCCCTCCCATCATA-GACACCCTCTTGTTTTA
1 AAATGTGCCCAAATACCTCATGA-AATCAACAACCCCTCCCA-CAAACAACACCCTCTTGTTCTA
5233109 CAGT
64 CAGT
5233113 CCAACCATGA
Statistics
Matches: 199, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
161 62 0.31
162 134 0.67
163 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (162 bp):
AAATGTGCCCAAATACCTCATGAAATCAACAACCCCTCCCACAAACAACACCCTCTTGTTCTACA
GTTTAATGGTGAACGTTCCTCCTGCAACATATGCCAACAGACACGACAGAGGGAATTTCTTTATT
GTTGTTCACCGTGTAAGCTTGCTCTTCACATC
Found at i:5243593 original size:2 final size:2
Alignment explanation
Indices: 5243586--5243626 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5243576 AATGTTTCTC
5243586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5243627 GGAAAATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5252468 original size:84 final size:84
Alignment explanation
Indices: 5252325--5254123 Score: 2138
Period size: 84 Copynumber: 21.5 Consensus size: 84
5252315 AAAGCACCTT
* *
5252325 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCGAAA-ACACATCATTTGCAACATAGCTCA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTC-AAAGGCACATCATTTGCAGCATAGCTCA
*
5252389 AGGTGAGAAGGGTTATCTGC
65 AGGTGAGAAGGGCTATCTGC
* * * *
5252409 CAACAAAAGACCTTTGAGTTC-ACTTACACTCAGCTCAGAGGCATATCATTTGCAGCATAGATCA
1 CAACAAAAGACCTTCGAGTTCGA-TTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCA
*
5252473 AGGCGAGAAGGGCTATCTGC
65 AGGTGAGAAGGGCTATCTGC
* * *
5252493 AAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGACACATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
5252558 GGCGAGAAGGGCTATCTGC
66 GGTGAGAAGGGCTATCTGC
* *
5252577 CAACAAAAGACCTTCGATTTCGATTACACTCAGCTCAAAGGCACATCAGTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* *
5252642 GGCGAGAAGGGCAATCTGC
66 GGTGAGAAGGGCTATCTGC
* * * * * *
5252661 CAAGAAAAGACCTTCGAGTTCGATTACGCTCAGCTCAAAGGCGCATAATTTGCAACATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* *
5252726 GGTGAGAAGGGCTATTTGT
66 GGTGAGAAGGGCTATCTGC
* * * *
5252745 CAAAAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCGCATCATTTGCAGCATATCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
5252810 GGTGAGAAGGGCTATCTGC
66 GGTGAGAAGGGCTATCTGC
* * * **
5252829 CAACAAAAGACCTTCGAGTTTGATTACACTCAGTTCGAAGGTGCATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
5252894 GGTGAGAAGGGCTATCTAC
66 GGTGAGAAGGGCTATCTGC
* * * * * *
5252913 CAACAAAAGACCTTCAAGCTCGATGATATTCAGCTCAAAGG-AGCATCATTTGCAGCATAACTCA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATCATTTGCAGCATAGCTCA
* *
5252977 AGGTGATAAGGGCTATATGC
65 AGGTGAGAAGGGCTATCTGC
* * * * * *
5252997 CAACAAAAGACCTTTGAGTTCAATTACACTCATCTCAAAGGCACATCATTTACAGAATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
5253062 GGTGAGAAGGGTTATCTGC
66 GGTGAGAAGGGCTATCTGC
* * * ** *
5253081 CAACAAAAGAGCTTCAAGTTCGATTATACTCAGCTCAAAGGTGCATCATTTGTAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
5253146 GGTGAGAAGGGCTATATGC
66 GGTGAGAAGGGCTATCTGC
* * * * *
5253165 CAA-AAAAGGCCGTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGTAGCATAACTTAC
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCA-
*
5253229 A--TCAAGAAGGGCTATCTGC
65 AGGT-GAGAAGGGCTATCTGC
* * * ** * **
5253248 CAACAAAAGTCCTCCGAGTTCGATTACAGTCAGCTCAAAGGTGCATCATTTGCAACATAATTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
5253313 GGCGAGAAGGGCTATCTGC
66 GGTGAGAAGGGCTATCTGC
* * * * *
5253332 CAACAAAATACCTTCTAGTTCGATTACACTCAGCTCATAA-GCGCATCATTTGTAGCATAACTCA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCA-AAGGCACATCATTTGCAGCATAGCTCA
*
5253396 AGGCGAGAAGGGCTATCTGC
65 AGGTGAGAAGGGCTATCTGC
* * * ** * *
5253416 CAACAAAAGACCTTCAAGTTCGATTACAGTCAGCTCAAA-TCTACATCATTTGCAATATAACTTA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGC-ACATCATTTGCAGCATAGCTCA
5253480 AGGTGAGAAGGGCTATCTGC
65 AGGTGAGAAGGGCTATCTGC
* * *
5253500 CAACAAAAGACTTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCATTTGCAACATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* *
5253565 GGCGAGAACGGCTATCTGC
66 GGTGAGAAGGGCTATCTGC
* * * *
5253584 CAACAAAAGACTTTCTAGTTCAATTACACTCAGCTCAAAGGCATATCATTTGCAGCATAG----A
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
5253645 --T--CAAGGGCTATCTGC
66 GGTGAGAAGGGCTATCTGC
* *
5253660 CAACAAAAGACCTTCGAGTTCGATTTCACTCAGCTCAAAGGCACATCATTTGTAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* *
5253725 GGCGGCGAGAAGGGTTATCTGC
66 ---GGTGAGAAGGGCTATCTGC
* *
5253747 TAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* * *
5253812 GGAGAGAAGGGTTATCTAC
66 GGTGAGAAGGGCTATCTGC
* * * * *
5253831 AAACAAAAGACTTTCGAGTTCGATTACACTCAGCTCAAAGACATATCATTTGTAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
5253896 GGTGAGAAGGGCTATCTAC
66 GGTGAGAAGGGCTATCTGC
* * * * * * *
5253915 CAACAAAATACCTTTGAGTTCGATTACACTCAACTCAAAGGCACTTCTAATTTACAGCATAACCC
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAGCTC
* * *
5253980 AAGGAGAGAAGAGTTATCTGC
64 AAGGTGAGAAGGGCTATCTGC
* * * * * * * *
5254001 CAACAAAAGACCTTCAAGTTCAATTGCACTCAGCTCAAGGGCATATCAAATTTACATCATAACTC
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAGCTC
** * *
5254066 AAGGAAAGAAGGGTTATCTGT
64 AAGGTGAGAAGGGCTATCTGC
* * * *
5254087 CAAC-AAATACCTTCAAGTTTGATTACATTCAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAA
5254124 GAGCATGTCA
Statistics
Matches: 1485, Mismatches: 204, Indels: 51
0.85 0.12 0.03
Matches are distributed among these distances:
76 66 0.04
80 2 0.00
82 1 0.00
83 75 0.05
84 1131 0.76
85 33 0.02
86 104 0.07
87 73 0.05
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (84 bp):
CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
GGTGAGAAGGGCTATCTGC
Found at i:5254169 original size:85 final size:85
Alignment explanation
Indices: 5253731--5254206 Score: 254
Period size: 84 Copynumber: 5.6 Consensus size: 85
5253721 TCAAGGCGGC
* * * *
5253731 GAGAAGGGTTATCTG-CTAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAA-AGGC--A-C
1 GAGAAGAGTTATCTGTC-AACAAAA-ACCTTCAAGTTTGATTACATTCAGCTCAAGA-GCATATC
** * * *
5253791 AACATTTGCAGCATAGCTCAAGGA
63 AA-ATTCACAACATAACTAAAGGA
* * * * * *
5253815 GAGAAGGGTTATCT-ACAAACAAAAGACTTTCGAGTTCGATTACACTCAGCTCAA-AGACATATC
1 GAGAAGAGTTATCTGTC-AACAAAA-ACCTTCAAGTTTGATTACATTCAGCTCAAGAG-CATATC
*** * * * *
5253878 --ATTTGTAGCATAGCTCAAGGT
63 AAATTCACAACATAACTAAAGGA
* * ** ** * * *
5253899 GAGAAGGGCTATCTACCAACAAAATACCTTTGAGTTCGATTACACTCAACTCAA-AGGCACT-TC
1 GAGAAGAGTTATCTGTCAACAAAA-ACCTTCAAGTTTGATTACATTCAGCTCAAGA-GCA-TATC
* * * **
5253962 TAATTTACAGCATAACCCAAGGA
63 AAATTCACAACATAACTAAAGGA
* ** * * *
5253985 GAGAAGAGTTATCTGCCAACAAAAGACCTTCAAGTTCAATTGCACTCAGCTCAAGGGCATATCAA
1 GAGAAGAGTTATCTGTCAACAAAA-ACCTTCAAGTTTGATTACATTCAGCTCAAGAGCATATCAA
* * *
5254050 ATTTACATCATAACTCAAGGA
65 ATTCACAACATAACTAAAGGA
* * * *
5254071 AAGAAGGGTTATCTGTCAACAAATACCTTCAAGTTTGATTACATTCAGCTCAAGAGCATGTCAAA
1 GAGAAGAGTTATCTGTCAACAAAAACCTTCAAGTTTGATTACATTCAGCTCAAGAGCATATCAAA
**
5254136 TTCACAACATAACTAAAGTC
66 TTCACAACATAACTAAAGGA
* * * * ** *
5254156 GAGAAAAGCTATCTGTCAATAAAAACTTTTGAGTTTGATTCCATTCAGCTC
1 GAGAAGAGTTATCTGTCAACAAAAACCTTCAAGTTTGATTACATTCAGCTC
5254207 GATGACACAT
Statistics
Matches: 327, Mismatches: 53, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
83 1 0.00
84 123 0.38
85 95 0.29
86 107 0.33
87 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (85 bp):
GAGAAGAGTTATCTGTCAACAAAAACCTTCAAGTTTGATTACATTCAGCTCAAGAGCATATCAAA
TTCACAACATAACTAAAGGA
Found at i:5255741 original size:3 final size:3
Alignment explanation
Indices: 5255733--5255764 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
5255723 GGAAGAACAC
5255733 TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5255765 ATTTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:5255758 original size:11 final size:11
Alignment explanation
Indices: 5255733--5255767 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
5255723 GGAAGAACAC
5255733 TATTATTATTAT
1 TATTATTA-TAT
5255745 TATTATTATAT
1 TATTATTATAT
5255756 TATTATTATAT
1 TATTATTATAT
5255767 T
1 T
5255768 TTTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTATTATAT
Found at i:5256071 original size:21 final size:20
Alignment explanation
Indices: 5256043--5256084 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
5256033 TTTTTTACAC
5256043 TTTTTTTTGTA-T-ATTTTTA
1 TTTTTTTT-TATTCATTTTTA
5256062 TTTTTATTTTATTCATTTTTA
1 TTTTT-TTTTATTCATTTTTA
5256083 TT
1 TT
5256085 ATAACTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTTTTATTCATTTTTA
Found at i:5256144 original size:19 final size:19
Alignment explanation
Indices: 5256120--5256182 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
5256110 TTCGTATTTG
5256120 TTTTTTATGTTTATTCTTA
1 TTTTTTATGTTTATTCTTA
*
5256139 TTTTTT-TATTTATTTCTT-
1 TTTTTTATGTTTA-TTCTTA
*
5256157 TTGTTTTA-GTTTGTT-TTA
1 TT-TTTTATGTTTATTCTTA
5256175 GTTTTTTA
1 -TTTTTTA
5256183 AATTTTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
17 2 0.06
18 14 0.39
19 20 0.56
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (19 bp):
TTTTTTATGTTTATTCTTA
Found at i:5256150 original size:18 final size:19
Alignment explanation
Indices: 5256120--5256182 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
5256110 TTCGTATTTG
5256120 TTTTTTATGTTTATTCTTAT
1 TTTTTTA-GTTTATTCTTAT
5256140 TTTTTTA-TTTATTTCTT-T
1 TTTTTTAGTTTA-TTCTTAT
* * *
5256158 TGTTTTAGTTTGTT-TTAG
1 TTTTTTAGTTTATTCTTAT
5256176 TTTTTTA
1 TTTTTTA
5256183 AATTTTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
17 2 0.06
18 19 0.53
19 8 0.22
20 7 0.19
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (19 bp):
TTTTTTAGTTTATTCTTAT
Found at i:5258170 original size:11 final size:11
Alignment explanation
Indices: 5258154--5258180 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
5258144 TGATGCATGA
5258154 AATTAAGTAAT
1 AATTAAGTAAT
5258165 AATTAAGTAAT
1 AATTAAGTAAT
5258176 AATTA
1 AATTA
5258181 TAATTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (11 bp):
AATTAAGTAAT
Found at i:5259155 original size:37 final size:37
Alignment explanation
Indices: 5259106--5259357 Score: 273
Period size: 37 Copynumber: 6.7 Consensus size: 37
5259096 TATACATAAC
*
5259106 ATATATAATATATAGTTTTGAAAACATTTTTGAACTT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAATT
* * *
5259143 ATATATAGTATATAGTTTTAAAAACATTTTTTTAAATATAT
1 ATATATAATATATAGTTTTGAAAACA--TTTTTGAA-AT-T
*
5259184 ATATATATATATAATAATTTTGAAAACATTTTTGAAATT
1 ATATATA-ATAT-ATAGTTTTGAAAACATTTTTGAAATT
**
5259223 ATATATAATATATAGTTTTG--AATTTTTTTGAGAA-T
1 ATATATAATATATAGTTTTGAAAACATTTTTGA-AATT
5259258 ATATATAATATATAGTTTTGAAAACATTTTTGAAATT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAATT
* * ***
5259295 GTATATAGTATATAGTTTTG-AATTTTTTTTG-AA-T
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAATT
5259329 ATATATATATAATATAGTTTTGAAAACAT
1 ATATATA-AT-ATATAGTTTTGAAAACAT
5259358 ATATAATATA
Statistics
Matches: 179, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
34 7 0.04
35 33 0.18
36 23 0.13
37 63 0.35
38 4 0.02
39 15 0.08
40 3 0.02
41 15 0.08
42 3 0.02
43 13 0.07
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.48
Consensus pattern (37 bp):
ATATATAATATATAGTTTTGAAAACATTTTTGAAATT
Done.