Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 43
Found at i:4770730 original size:24 final size:24
Alignment explanation
Indices: 4770703--4770788 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 24
4770693 CATAAATCAG
*
4770703 GTCAGGTAACATATCAGAATCTAT
1 GTCAAGTAACATATCAGAATCTAT
* * * *
4770727 GTCAAGTATCATATAAAAAT-TCAG
1 GTCAAGTAACATATCAGAATCT-AT
* * *
4770751 GTCAGGTAACAAATCAGAATCCAT
1 GTCAAGTAACATATCAGAATCTAT
*
4770775 GTCAAGTATCATAT
1 GTCAAGTAACATAT
4770789 AAAAATTCAG
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
23 1 0.02
24 44 0.98
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (24 bp):
GTCAAGTAACATATCAGAATCTAT
Found at i:4770767 original size:48 final size:48
Alignment explanation
Indices: 4770699--4770802 Score: 190
Period size: 48 Copynumber: 2.2 Consensus size: 48
4770689 AAAACATAAA
* *
4770699 TCAGGTCAGGTAACATATCAGAATCTATGTCAAGTATCATATAAAAAT
1 TCAGGTCAGGTAACAAATCAGAATCCATGTCAAGTATCATATAAAAAT
4770747 TCAGGTCAGGTAACAAATCAGAATCCATGTCAAGTATCATATAAAAAT
1 TCAGGTCAGGTAACAAATCAGAATCCATGTCAAGTATCATATAAAAAT
4770795 TCAGGTCA
1 TCAGGTCA
4770803 AATATCATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.27
Consensus pattern (48 bp):
TCAGGTCAGGTAACAAATCAGAATCCATGTCAAGTATCATATAAAAAT
Found at i:4770808 original size:24 final size:24
Alignment explanation
Indices: 4770727--4770812 Score: 100
Period size: 24 Copynumber: 3.6 Consensus size: 24
4770717 CAGAATCTAT
4770727 GTCAAGTATCATATAAAAATTCAG
1 GTCAAGTATCATATAAAAATTCAG
* * * * * * *
4770751 GTCAGGTAACAAATCAGAATCCAT
1 GTCAAGTATCATATAAAAATTCAG
4770775 GTCAAGTATCATATAAAAATTCAG
1 GTCAAGTATCATATAAAAATTCAG
*
4770799 GTCAAATATCATAT
1 GTCAAGTATCATAT
4770813 CAGATAACTA
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (24 bp):
GTCAAGTATCATATAAAAATTCAG
Found at i:4770815 original size:48 final size:48
Alignment explanation
Indices: 4770699--4770816 Score: 173
Period size: 48 Copynumber: 2.5 Consensus size: 48
4770689 AAAACATAAA
** *
4770699 TCAGGTCAGGTAACATATCAGAATCTATGTCAAGTATCATATAAAAAT
1 TCAGGTCAAATAACATATCAGAATCCATGTCAAGTATCATATAAAAAT
** *
4770747 TCAGGTCAGGTAACAAATCAGAATCCATGTCAAGTATCATATAAAAAT
1 TCAGGTCAAATAACATATCAGAATCCATGTCAAGTATCATATAAAAAT
*
4770795 TCAGGTCAAATATCATATCAGA
1 TCAGGTCAAATAACATATCAGA
4770817 TAACTATTCA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.27
Consensus pattern (48 bp):
TCAGGTCAAATAACATATCAGAATCCATGTCAAGTATCATATAAAAAT
Found at i:4775785 original size:24 final size:23
Alignment explanation
Indices: 4775758--4775842 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 23
4775748 CATAAATCAG
*
4775758 GTCAGGTAACAGATCAGAATCCAT
1 GTCAGGTAACATATCA-AATCCAT
* * * * *
4775782 GTCAAGTATCATATAAAAATTCAG
1 GTCAGGTAACATAT-CAAATCCAT
4775806 GTCAGGTAACATATCAAATCCAT
1 GTCAGGTAACATATCAAATCCAT
* *
4775829 GTCAAGTATCATAT
1 GTCAGGTAACATAT
4775843 AAAAATTCAG
Statistics
Matches: 47, Mismatches: 13, Indels: 3
0.75 0.21 0.05
Matches are distributed among these distances:
23 18 0.38
24 28 0.60
25 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (23 bp):
GTCAGGTAACATATCAAATCCAT
Found at i:4775836 original size:47 final size:47
Alignment explanation
Indices: 4775754--4775871 Score: 191
Period size: 47 Copynumber: 2.5 Consensus size: 47
4775744 AAGACATAAA
*
4775754 TCAGGTCAGGTAACAGATCAGAATCCATGTCAAGTATCATATAAAAAT
1 TCAGGTCAGGTAACATATCA-AATCCATGTCAAGTATCATATAAAAAT
4775802 TCAGGTCAGGTAACATATCAAATCCATGTCAAGTATCATATAAAAAT
1 TCAGGTCAGGTAACATATCAAATCCATGTCAAGTATCATATAAAAAT
** *
4775849 TCAGGTCAAATATCATATCAAAT
1 TCAGGTCAGGTAACATATCAAAT
4775872 AACTATTCAT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
47 47 0.71
48 19 0.29
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (47 bp):
TCAGGTCAGGTAACATATCAAATCCATGTCAAGTATCATATAAAAAT
Found at i:4775856 original size:24 final size:24
Alignment explanation
Indices: 4775782--4775866 Score: 109
Period size: 24 Copynumber: 3.6 Consensus size: 24
4775772 CAGAATCCAT
4775782 GTCAAGTATCATATAAAAATTCAG
1 GTCAAGTATCATATAAAAATTCAG
* * * * *
4775806 GTCAGGTAACATAT-CAAATCCAT
1 GTCAAGTATCATATAAAAATTCAG
4775829 GTCAAGTATCATATAAAAATTCAG
1 GTCAAGTATCATATAAAAATTCAG
*
4775853 GTCAAATATCATAT
1 GTCAAGTATCATAT
4775867 CAAATAACTA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 18 0.37
24 31 0.63
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (24 bp):
GTCAAGTATCATATAAAAATTCAG
Found at i:4776624 original size:29 final size:29
Alignment explanation
Indices: 4776592--4776648 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
4776582 TTATTTACAA
* *
4776592 AATTACGAAAATAGCACCATTTTAAAATT
1 AATTACCAAAATAGCACCATTTCAAAATT
* *
4776621 AATTACCAATATAGTACCATTTCAAAAT
1 AATTACCAAAATAGCACCATTTCAAAAT
4776649 ATTTACTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (29 bp):
AATTACCAAAATAGCACCATTTCAAAATT
Found at i:4779215 original size:111 final size:111
Alignment explanation
Indices: 4779101--4779300 Score: 248
Period size: 111 Copynumber: 1.8 Consensus size: 111
4779091 AGACTAGCAA
*
4779101 AAAAATAA-AATTAAATAGTCACTACAT-CGACC-AAAGTGT-AAAACATGCTAAACTTATAGGG
1 AAAAATAACAATT--ATAGTCACTACATACGACCGAAA-TGTAAAAACATGCTAAACTTAGAGGG
*
4779162 ACTAAACAA-TAAATTTACCAAAAATATATTACATGCAAAGAAAAAAAAG
63 ACTAAA-AATTAAATATACCAAAAATATATTACATGCAAAGAAAAAAAAG
* * * * *
4779211 AAAAATAACAATTTTGGTCCCTACATATGACCGAAATGTAAAAACATGCTAAATTTAGAGGGACT
1 AAAAATAACAATTATAGTCACTACATACGACCGAAATGTAAAAACATGCTAAACTTAGAGGGACT
* *
4779276 AAAAATTGAATATACCAAAATTATA
66 AAAAATTAAATATACCAAAAATATA
4779301 AAGCATATAT
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
109 10 0.13
110 17 0.22
111 49 0.64
ACGTcount: A:0.52, C:0.14, G:0.11, T:0.24
Consensus pattern (111 bp):
AAAAATAACAATTATAGTCACTACATACGACCGAAATGTAAAAACATGCTAAACTTAGAGGGACT
AAAAATTAAATATACCAAAAATATATTACATGCAAAGAAAAAAAAG
Found at i:4780999 original size:29 final size:29
Alignment explanation
Indices: 4780967--4781129 Score: 132
Period size: 29 Copynumber: 5.6 Consensus size: 29
4780957 TTTTTTAAAA
* **
4780967 TAATTACCAAAATAGCACCCTTTTCGAAT
1 TAATTCCCAAAATAGCACCAATTTCGAAT
*
4780996 TAATTCCCAAAATAACACCAATTTCGAAT
1 TAATTCCCAAAATAGCACCAATTTCGAAT
** * ** *
4781025 TAATTCCCCGAATATCA-CTGTTT-GAAAAAA
1 TAATTCCCAAAATAGCACCAATTTCG---AAT
* * * *
4781055 AAATTACCAAAATAGCACCCATTTCAAAT
1 TAATTCCCAAAATAGCACCAATTTCGAAT
**
4781084 TAATTCCCAAAATAGCACCAAAATCGAAT
1 TAATTCCCAAAATAGCACCAATTTCGAAT
*
4781113 TAATTCCCAGAATAGCA
1 TAATTCCCAAAATAGCA
4781130 TCGTTCAGCG
Statistics
Matches: 103, Mismatches: 26, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
27 1 0.01
28 4 0.04
29 80 0.78
30 14 0.14
31 4 0.04
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (29 bp):
TAATTCCCAAAATAGCACCAATTTCGAAT
Found at i:4781117 original size:88 final size:88
Alignment explanation
Indices: 4780963--4781126 Score: 265
Period size: 88 Copynumber: 1.9 Consensus size: 88
4780953 ACCTTTTTTT
* * * **
4780963 AAAATAATTACCAAAATAGCACCCTTTTCGAATTAATTCCCAAAATAACACCAATTTCGAATTAA
1 AAAAAAATTACCAAAATAGCACCCATTTCAAATTAATTCCCAAAATAACACCAAAATCGAATTAA
*
4781028 TTCCCCGAATATCACTGTTTGAA
66 TTCCCAGAATATCACTGTTTGAA
*
4781051 AAAAAAATTACCAAAATAGCACCCATTTCAAATTAATTCCCAAAATAGCACCAAAATCGAATTAA
1 AAAAAAATTACCAAAATAGCACCCATTTCAAATTAATTCCCAAAATAACACCAAAATCGAATTAA
4781116 TTCCCAGAATA
66 TTCCCAGAATA
4781127 GCATCGTTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 69 1.00
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (88 bp):
AAAAAAATTACCAAAATAGCACCCATTTCAAATTAATTCCCAAAATAACACCAAAATCGAATTAA
TTCCCAGAATATCACTGTTTGAA
Found at i:4781167 original size:13 final size:13
Alignment explanation
Indices: 4781149--4781196 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
4781139 GGTCGGGTCG
*
4781149 GGTCGGGTCAATA
1 GGTCGGGTCAACA
* *
4781162 GGTCGGGTTAACG
1 GGTCGGGTCAACA
* *
4781175 GGTCGGGTCATCG
1 GGTCGGGTCAACA
4781188 GGTCGGGTC
1 GGTCGGGTC
4781197 GGGTCGTGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.12, C:0.19, G:0.46, T:0.23
Consensus pattern (13 bp):
GGTCGGGTCAACA
Found at i:4787469 original size:14 final size:15
Alignment explanation
Indices: 4787434--4787466 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
4787424 CCAAAATACA
4787434 GAAATCAGATATCAG
1 GAAATCAGATATCAG
4787449 GAAATCA-ATATTCAG
1 GAAATCAGATA-TCAG
4787464 GAA
1 GAA
4787467 TCACGTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (15 bp):
GAAATCAGATATCAG
Found at i:4788278 original size:29 final size:29
Alignment explanation
Indices: 4788245--4788376 Score: 128
Period size: 29 Copynumber: 4.7 Consensus size: 29
4788235 TTTTAAAAAA
*
4788245 TAATTACCAAAATAGCACCCTTTTCAAAT
1 TAATTCCCAAAATAGCACCCTTTTCAAAT
* *
4788274 TAATTCCCAAAATAGCACCAC-TTTCGAAC
1 TAATTCCCAAAATAGCACC-CTTTTCAAAT
** * * *
4788303 TAATTCCCCGAATATCA-CTTTTTGAAA-
1 TAATTCCCAAAATAGCACCCTTTTCAAAT
* *
4788330 -AATTACCAAAATAGCACCCATTTCAAAT
1 TAATTCCCAAAATAGCACCCTTTTCAAAT
*
4788358 TAATTCCCAGAATAGCACC
1 TAATTCCCAAAATAGCACC
4788377 AAAATTGAAT
Statistics
Matches: 80, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
26 12 0.15
27 7 0.09
28 6 0.08
29 54 0.68
30 1 0.01
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.28
Consensus pattern (29 bp):
TAATTCCCAAAATAGCACCCTTTTCAAAT
Found at i:4788391 original size:84 final size:84
Alignment explanation
Indices: 4788246--4788400 Score: 240
Period size: 84 Copynumber: 1.8 Consensus size: 84
4788236 TTTAAAAAAT
* **
4788246 AATTACCAAAATAGCACCCTTTTCAAATTAATTCCCAAAATAGCACCACTTTCGAACTAATTCCC
1 AATTACCAAAATAGCACCCATTTCAAATTAATTCCCAAAATAGCACCAAATTCGAACTAATTCCC
*
4788311 CGAATATCACTTTTTGAAA
66 AGAATATCACTTTTTGAAA
* *
4788330 AATTACCAAAATAGCACCCATTTCAAATTAATTCCCAGAATAGCACCAAAATT-GAATTAATTCC
1 AATTACCAAAATAGCACCCATTTCAAATTAATTCCCAAAATAGCACC-AAATTCGAACTAATTCC
4788394 CAGAATA
65 CAGAATA
4788401 GCACCGGTCA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
84 61 0.95
85 3 0.05
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (84 bp):
AATTACCAAAATAGCACCCATTTCAAATTAATTCCCAAAATAGCACCAAATTCGAACTAATTCCC
AGAATATCACTTTTTGAAA
Found at i:4788435 original size:17 final size:18
Alignment explanation
Indices: 4788413--4788446 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4788403 ACCGGTCAAC
4788413 GGTCAAC-GGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
4788430 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
4788447 ATCGGGACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.12, C:0.24, G:0.47, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:4788441 original size:13 final size:13
Alignment explanation
Indices: 4788423--4788473 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
4788413 GGTCAACGGT
4788423 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
4788436 CGGGTCGGGTCAT
1 CGGGTCGGGTCAA
* * *
4788449 CGGGACGAGTTAA
1 CGGGTCGGGTCAA
4788462 CGGGTCGGGTCA
1 CGGGTCGGGTCA
4788474 TGACCGGTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.16, C:0.22, G:0.45, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:4790597 original size:26 final size:27
Alignment explanation
Indices: 4790549--4790599 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
4790539 TTCGCATACC
*
4790549 CATTTCAGAAACTTTTACATTCAAACA
1 CATTTCAGAAACTTTCACATTCAAACA
* *
4790576 CATTTCAG-AACTTTCGCTTTCAAA
1 CATTTCAGAAACTTTCACATTCAAA
4790600 TTTCATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (27 bp):
CATTTCAGAAACTTTCACATTCAAACA
Found at i:4795675 original size:18 final size:18
Alignment explanation
Indices: 4795654--4795694 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
4795644 CATCGGTCAA
4795654 CGGGTCGGATCAACGGGT
1 CGGGTCGGATCAACGGGT
*
4795672 CGGGTCGGGTCAACGGGT
1 CGGGTCGGATCAACGGGT
4795690 CGGGT
1 CGGGT
4795695 TGTGACCGGT
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):
CGGGTCGGATCAACGGGT
Found at i:4795694 original size:13 final size:13
Alignment explanation
Indices: 4795648--4795677 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4795638 GGTCAACATC
4795648 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
4795661 GATCAACGGGTCG
1 GGTCAACGGGTCG
4795674 GGTC
1 GGTC
4795678 GGGTCAACGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:4803413 original size:36 final size:36
Alignment explanation
Indices: 4803364--4803432 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
4803354 ATCAATAAGA
* *
4803364 AATTACCAACTTGAT-AGGTGTTGAACTTACATAAAG
1 AATTACCAACTTGATCAGAT-TTGAACCTACATAAAG
* *
4803400 AATTGCCAGCTTGATCAGATTTGAACCTACATA
1 AATTACCAACTTGATCAGATTTGAACCTACATA
4803433 CTCCAGAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 25 0.89
37 3 0.11
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (36 bp):
AATTACCAACTTGATCAGATTTGAACCTACATAAAG
Found at i:4804231 original size:27 final size:27
Alignment explanation
Indices: 4804171--4804231 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
4804161 AGGTATATGA
*
4804171 GTCATTTTACACTTTAGGGGTATTTTG
1 GTCATTTTACACTTTAAGGGTATTTTG
* **
4804198 GTTATTTTACGGTTTAAGGGTATTTAT-
1 GTCATTTTACACTTTAAGGGTATTT-TG
4804225 GTCATTT
1 GTCATTT
4804232 CCTTCAGTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.20, C:0.08, G:0.21, T:0.51
Consensus pattern (27 bp):
GTCATTTTACACTTTAAGGGTATTTTG
Found at i:4805120 original size:20 final size:20
Alignment explanation
Indices: 4805095--4805146 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4805085 GGTCGGTTAG
4805095 GTTGACTCAGACCGATTCGA
1 GTTGACTCAGACCGATTCGA
4805115 GTTGACTCAGACCGATTCGA
1 GTTGACTCAGACCGATTCGA
*
4805135 GTTAACTCAGAC
1 GTTGACTCAGAC
4805147 TAGTTCTAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTGACTCAGACCGATTCGA
Found at i:4805830 original size:27 final size:27
Alignment explanation
Indices: 4805768--4805827 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
4805758 GGAATGGACA
4805768 GGGGTTTCTTGAGAGAATGAGTTTTAG
1 GGGGTTTCTTGAGAGAATGAGTTTTAG
*
4805795 GGGGTTTCTTGATAGAATGAGTTTT-G
1 GGGGTTTCTTGAGAGAATGAGTTTTAG
4805821 GGGGTTT
1 GGGGTTT
4805828 TCTCATTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 8 0.25
27 24 0.75
ACGTcount: A:0.18, C:0.03, G:0.38, T:0.40
Consensus pattern (27 bp):
GGGGTTTCTTGAGAGAATGAGTTTTAG
Found at i:4807815 original size:24 final size:24
Alignment explanation
Indices: 4807788--4807864 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
4807778 TTGATATTGA
*
4807788 ATGCTTACACCTT-TGGCATTCTTG
1 ATGCTGACA-CTTATGGCATTCTTG
4807812 ATGCTGACACTTATGGCATTCTTG
1 ATGCTGACACTTATGGCATTCTTG
*
4807836 ATGCTGACACTTATGGCATTCCTG
1 ATGCTGACACTTATGGCATTCTTG
4807860 ATGCT
1 ATGCT
4807865 CAAATCCAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
23 3 0.06
24 47 0.94
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (24 bp):
ATGCTGACACTTATGGCATTCTTG
Found at i:4808295 original size:2 final size:2
Alignment explanation
Indices: 4808282--4808335 Score: 99
Period size: 2 Copynumber: 26.5 Consensus size: 2
4808272 TCTCTAATCG
4808282 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4808325 TA TA TA TA TA T
1 TA TA TA TA TA T
4808336 TCATATTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 49 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4809213 original size:14 final size:14
Alignment explanation
Indices: 4809140--4809220 Score: 58
Period size: 14 Copynumber: 5.8 Consensus size: 14
4809130 AAATAATTAA
4809140 AATAATATATTTTAT
1 AATAATATA-TTTAT
*
4809155 GATAATATATTTAT
1 AATAATATATTTAT
* *
4809169 AATCATTTA-TTATT
1 AATAATATATTTA-T
** * *
4809183 TTTAAAATA-TTAA
1 AATAATATATTTAT
4809196 AATAATATATTTAT
1 AATAATATATTTAT
*
4809210 AATAATTTATT
1 AATAATATATT
4809221 ATATTTTTAA
Statistics
Matches: 49, Mismatches: 15, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
13 9 0.18
14 32 0.65
15 8 0.16
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (14 bp):
AATAATATATTTAT
Found at i:4809225 original size:19 final size:19
Alignment explanation
Indices: 4809160--4809235 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 19
4809150 TTTATGATAA
*
4809160 TATATTTATAATCATTTAT
1 TATATTTATAATAATTTAT
* * *
4809179 TATTTTTAAAAT-ATTAAAATAA
1 TATATTTATAATAATT----TAT
4809201 TATATTTATAATAATTTAT
1 TATATTTATAATAATTTAT
*
4809220 TATATTTTTAATAATT
1 TATATTTATAATAATT
4809236 ATCGTAACCG
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
18 3 0.07
19 27 0.60
22 12 0.27
23 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATTTATAATAATTTAT
Found at i:4809711 original size:9 final size:9
Alignment explanation
Indices: 4809680--4809718 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
4809670 CAAGTAAATT
4809680 AAAT-AAAA
1 AAATAAAAA
*
4809688 AAATAAAAG
1 AAATAAAAA
*
4809697 ACATAAAAA
1 AAATAAAAA
4809706 AAATAAAAA
1 AAATAAAAA
4809715 AAAT
1 AAAT
4809719 CCATAAAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (9 bp):
AAATAAAAA
Found at i:4809772 original size:30 final size:30
Alignment explanation
Indices: 4809732--4809788 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4809722 TAAAAGCAAA
*
4809732 TGAAATAAATAATATAC-TAGAAAATAATGG
1 TGAAAAAAAT-ATATACATAGAAAATAATGG
*
4809762 TGAAAAAAATATATACATAGTAAATAA
1 TGAAAAAAATATATACATAGAAAATAA
4809789 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.26
Consensus pattern (30 bp):
TGAAAAAAATATATACATAGAAAATAATGG
Found at i:4809937 original size:2 final size:2
Alignment explanation
Indices: 4809924--4810004 Score: 146
Period size: 2 Copynumber: 41.0 Consensus size: 2
4809914 ATGAAAATTA
*
4809924 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
4809966 AT AT AT AT AT AT AT AT AT AT AT AT -T 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
4810005 GTGTGTGTGT
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 75 0.99
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4810087 original size:22 final size:22
Alignment explanation
Indices: 4810045--4810100 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
4810035 ATATACTAAA
* *
4810045 GTAAAAAGAAAATGGATAAAAT
1 GTAAAAAGAAAATGAAAAAAAT
4810067 GTAAAAA-AAATATGAAAAAAA-
1 GTAAAAAGAAA-ATGAAAAAAAT
**
4810088 AAAAAAAGAAAAT
1 GTAAAAAGAAAAT
4810101 AACAAAACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.14
Consensus pattern (22 bp):
GTAAAAAGAAAATGAAAAAAAT
Found at i:4810396 original size:37 final size:37
Alignment explanation
Indices: 4810355--4810462 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
4810345 TTATGGATCC
* *
4810355 TATTTTTAGGAGTTTGAATTATAGTAGAACTCTATCA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
*
4810392 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
* *
4810429 TATTTTTAGGAGTTTGAATCCTAGTGAAACTCTA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
4810463 ACGCTATGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
Found at i:4811236 original size:35 final size:35
Alignment explanation
Indices: 4811193--4811283 Score: 157
Period size: 35 Copynumber: 2.6 Consensus size: 35
4811183 AACTCGAGGG
*
4811193 TTTG-GTGTTTCAAGAGAAACATTTTCAAAGGTTT
1 TTTGTGTGTTTCAAGAGAAACAATTTCAAAGGTTT
4811227 TTTGTGTGTTTCAAGAGAAACAATTTCAAAGGTTT
1 TTTGTGTGTTTCAAGAGAAACAATTTCAAAGGTTT
*
4811262 TTTTTGTGTTTCAAGAGAAACA
1 TTTGTGTGTTTCAAGAGAAACA
4811284 GTATTCCAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
34 4 0.07
35 50 0.93
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (35 bp):
TTTGTGTGTTTCAAGAGAAACAATTTCAAAGGTTT
Found at i:4811382 original size:34 final size:36
Alignment explanation
Indices: 4811312--4811398 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 36
4811302 TTCAAGGGAG
*** **
4811312 ACTGTCTCAAGAGAGACAAATTTTGTTTAAAGAGAA
1 ACTGTCTCAAGAGAGACAAAAACTGTCCAAAGAGAA
4811348 ACTGTCTCAAGAGAGACAAAAACT-TCCAAA-AGAA
1 ACTGTCTCAAGAGAGACAAAAACTGTCCAAAGAGAA
*
4811382 ACTGTCTCAAGGGAGAC
1 ACTGTCTCAAGAGAGAC
4811399 GAGATTTGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 20 0.44
35 4 0.09
36 21 0.47
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.21
Consensus pattern (36 bp):
ACTGTCTCAAGAGAGACAAAAACTGTCCAAAGAGAA
Found at i:4811521 original size:36 final size:36
Alignment explanation
Indices: 4811481--4811549 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
4811471 AGAGAAACTG
* *
4811481 TCTCAAGGGAGACAAAATTTATTTCAAGGAAAACGA
1 TCTCAAGAGAGACAAAATTCATTTCAAGGAAAACGA
* *
4811517 TCTCATGAGTGACAAAATTCATTTCAAGGAAAA
1 TCTCAAGAGAGACAAAATTCATTTCAAGGAAAA
4811550 TGTTTTCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.25
Consensus pattern (36 bp):
TCTCAAGAGAGACAAAATTCATTTCAAGGAAAACGA
Found at i:4811572 original size:101 final size:100
Alignment explanation
Indices: 4811433--4811834 Score: 352
Period size: 101 Copynumber: 3.9 Consensus size: 100
4811423 TTCAAAGATT
* * *
4811433 TTATTTCAAAGGAAACTGTTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 TTATTTC-AAGGAAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
* * *
4811498 TTTATTTCAAGGAAAAC-GATCTCATGAGTGACAAAA
65 TTTGTTTCAAGGAAAACTG-TCTCAAGAGAGACAAAA
*
4811534 TTCATTTCAAGGAAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTTAAGGGAGACAAAA
1 TT-ATTTCAAGGAAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
* * * *
4811599 TATTGTTCCAA-AAGAAACTGTCTCAAGGGAGACAGAA
65 T-TTGTTTCAAGGA-AAACTGTCTCAAGAGAGACAAAA
* * * * *
4811636 TTAGTTTCAAGGAAAACAGATTT-AAT-TATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TTA-TTTCAAGGAAAA-TGTTTTCAATGT-TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
* * *
4811699 AATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAT
63 AATTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAA
* * * * * * * *
4811737 TTGTTTCAA-GAGAACTGTCTTAAGAGAGACAAAATT-TGTTTCAAGGGAAACTGTCTC-AGAGA
1 TTATTTCAAGGA-AAATGTTTTCA-A-TG-----TTTATGTTTCAAGAGAAACTGTCTCAAGGGA
4811799 GACAAAATTTGTTTCAA-GAGAAACTGTCTCAAGAGA
58 GACAAAATTTGTTTCAAGGA-AAACTGTCTCAAGAGA
4811835 CAAAACTTAG
Statistics
Matches: 251, Mismatches: 31, Indels: 34
0.79 0.10 0.11
Matches are distributed among these distances:
99 5 0.02
100 9 0.04
101 91 0.36
102 80 0.32
103 5 0.02
104 1 0.00
105 37 0.15
106 21 0.08
107 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (100 bp):
TTATTTCAAGGAAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
TTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAA
Found at i:4811712 original size:36 final size:36
Alignment explanation
Indices: 4811665--4811981 Score: 363
Period size: 36 Copynumber: 9.1 Consensus size: 36
4811655 ATTTAATTAT
4811665 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
4811701 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC-AAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
4811736 TTTGTTTCAAGAG-AACTGTCTTAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
4811771 TTTGTTTCAAGGGAAACTGTCTC-AGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
4811806 TTTGTTTCAAGAGAAACTGTCTC-A-AGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * *
4811840 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** *
4811877 TTAGTTTCAAGGAAAACAAAT-TC-A-A-AG----AT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
*
4811906 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
4811942 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGATAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
4811978 TTTG
1 TTTG
4811982 GAAATTGTCT
Statistics
Matches: 238, Mismatches: 29, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
28 1 0.00
29 17 0.07
30 1 0.00
31 1 0.00
32 2 0.01
33 2 0.01
34 26 0.11
35 86 0.36
36 93 0.39
37 9 0.04
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:4811762 original size:70 final size:72
Alignment explanation
Indices: 4811665--4811981 Score: 356
Period size: 70 Copynumber: 4.6 Consensus size: 72
4811655 ATTTAATTAT
* *
4811665 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
4811730 GAC-AAA
66 GACAAAA
*
4811736 TTTGTTTCAAGAG-AACTGTCTTAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTC-AGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
4811799 GACAAAA
66 GACAAAA
* * ** *
4811806 TTTGTTTCAAGAGAAACTGTCTC-A-AGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAG
*
4811869 AGACGAAA
65 AGACAAAA
* ** * *
4811877 TTAGTTTCAAG-GAAAACAAAT-TC-A-A-AG----ATTTTGTTTCAAGGGAAATTGTCTCAAGA
1 TTTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGA
4811933 GAGACAAAA
64 GAGACAAAA
* * *
4811942 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGATAAAATTTG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
4811982 GAAATTGTCT
Statistics
Matches: 205, Mismatches: 26, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
64 1 0.00
65 45 0.22
66 3 0.01
68 2 0.01
69 17 0.08
70 83 0.40
71 48 0.23
72 6 0.03
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (72 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
GACAAAA
Found at i:4811910 original size:241 final size:241
Alignment explanation
Indices: 4811300--4811981 Score: 778
Period size: 241 Copynumber: 2.9 Consensus size: 241
4811290 CAAGATTGAA
* *
4811300 GTTTCAAGGGAGACTGTCTCAAGAGAGACAAATTTTGTTTAAAGAGAAACTGTCTCAAGAGAGAC
1 GTTTCAAGGGAAACTGTCTC-AGAGAGACAAATTTTGTTTCAAGAGAAACTGTCTC-A-AGAGAC
* * * * *
4811365 AAAA--ACTTCCAAAAGAAACTGTCTCAAGGGAGACGAGATTTGTTT-AACGTAAAACATATTCA
63 AAAATTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTAGTTTCAA-GGAAAACAAATTCA
* * * * * *
4811427 AAGATTTTATTTCAAAGGAAACTGTTTTC-A-A-AG-----TTTATGCTTCAAGAGAAACTGTCT
127 AAGATTTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT-TGTTTCAAGGGAAACTGTCT
* * *
4811484 CAAGGGAGACAAAATTTATTTCAAGGAAAACGATCTCATGAGTGACAAAATTC
190 CAAGGGAGAC-AAATTTGTTTCAAGGAAAACGATCTCAAGAGAGACAAAATTC
* * * * *
4811537 ATTTCAA-GGAAAATGTTTTCA-A-TG-----TTTATGTTTCAAGAGAAACTGTCTTAAGGGAGA
1 GTTTCAAGGGAAACTG-TCTCAGAGAGACAAATTT-TGTTTCAAGAGAAACTGTCTCAA--GAGA
* *
4811594 CAAAATATTGTTCCAAAAGAAACTGTCTCAAGGGAGAC-AGAATTAGTTTCAAGGAAAACAGATT
62 CAAAAT-TAGTTCCAAAAGAAACTGTCTCAAGGGAGACGA-AATTAGTTTCAAGGAAAACAAATT
* **
4811658 TAATTATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCT
125 CAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCT
* * *
4811723 CAAGGGAGACAAATTTGTTTCAA-GAGAACTG-TCTTAAGAGAGACAAAATTT
190 CAAGGGAGACAAATTTGTTTCAAGGAAAAC-GATCTCAAGAGAGACAAAATTC
*
4811774 GTTTCAAGGGAAACTGTCTCAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGACAAA
1 GTTTCAAGGGAAACTGTCTCAGAGAGACAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGACAAA
4811839 ACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTAGTTTCAAGGAAAACAAATTCAAAG
66 A-TTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTAGTTTCAAGGAAAACAAATTCAAAG
*
4811904 ATTTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGG
130 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGG
*
4811969 GAGATAAAATTTG
195 GAGA-CAAATTTG
4811982 GAAATTGTCT
Statistics
Matches: 375, Mismatches: 41, Indels: 53
0.80 0.09 0.11
Matches are distributed among these distances:
228 1 0.00
229 4 0.01
230 28 0.07
232 4 0.01
233 67 0.18
234 4 0.01
235 3 0.01
236 7 0.02
237 40 0.11
238 21 0.06
239 29 0.08
240 2 0.01
241 132 0.35
242 9 0.02
243 22 0.06
244 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.27
Consensus pattern (241 bp):
GTTTCAAGGGAAACTGTCTCAGAGAGACAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGACAAA
ATTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTAGTTTCAAGGAAAACAAATTCAAAGA
TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGG
AGACAAATTTGTTTCAAGGAAAACGATCTCAAGAGAGACAAAATTC
Found at i:4813228 original size:32 final size:32
Alignment explanation
Indices: 4813192--4813252 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
4813182 CCAAAGATGG
* *
4813192 CCCAATATTCGATGTTGAATCTCAAAAAAGGC
1 CCCAACATTCGATGTTAAATCTCAAAAAAGGC
* *
4813224 CCCAACATTTGATGTTAAATTTCAAAAAA
1 CCCAACATTCGATGTTAAATCTCAAAAAA
4813253 ATGCCCCAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (32 bp):
CCCAACATTCGATGTTAAATCTCAAAAAAGGC
Found at i:4813259 original size:33 final size:33
Alignment explanation
Indices: 4813192--4813283 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
4813182 CCAAAGATGG
* * *
4813192 CCCAATATTCGATGTTGAATCTC-AAAAAAGGC
1 CCCAACATTTGATGTTGAATTTCAAAAAAAGGC
* *
4813224 CCCAACATTTGATGTTAAATTTCAAAAAAATGC
1 CCCAACATTTGATGTTGAATTTCAAAAAAAGGC
* *
4813257 CCCAGCATTTGATTTTGAATCTTCAAA
1 CCCAACATTTGATGTTGAAT-TTCAAA
4813284 GATGCCCTCA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
32 19 0.38
33 25 0.50
34 6 0.12
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (33 bp):
CCCAACATTTGATGTTGAATTTCAAAAAAAGGC
Found at i:4814322 original size:69 final size:69
Alignment explanation
Indices: 4814206--4814343 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
4814196 TCTCTCTCTC
* *
4814206 TTGATGCTCTATGATCTTCGAGTGGAGTGATTCAGTGATTCAAAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAATGATTCAAAAATGATTGTGCTTGATCAATC
4814271 TCAT
66 TCAT
* * **
4814275 TTGATGCTCTATGATCTTCGAGTTAAGTGGTTCAATGATTCGGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAATGATTCAAAAATGATTGTGCTTGATCAATC
4814340 TCAT
66 TCAT
4814344 AGTTTGAATC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAATGATTCAAAAATGATTGTGCTTGATCAATC
TCAT
Found at i:4814439 original size:17 final size:18
Alignment explanation
Indices: 4814421--4814469 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
4814411 TTCAATTTTC
* *
4814421 TTTTGTTTTTTTTTCTCT
1 TTTTATTTTCTTTTCTCT
*
4814439 TTTTATTTTCTTTTTTCT
1 TTTTATTTTCTTTTCTCT
*
4814457 TTTT-TTCTCTTTT
1 TTTTATTTTCTTTT
4814470 TGTTCTGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (18 bp):
TTTTATTTTCTTTTCTCT
Found at i:4814447 original size:18 final size:18
Alignment explanation
Indices: 4814416--4814470 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
4814406 TTTTCTTCAA
4814416 TTTTCTTTTGT-TTTT-TT
1 TTTTCTTTT-TATTTTCTT
*
4814433 TTCTCTTTTTATTTTCTT
1 TTTTCTTTTTATTTTCTT
*
4814451 TTTTCTTTTT-TTCTCTT
1 TTTTCTTTTTATTTTCTT
4814468 TTT
1 TTT
4814471 GTTCTGATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 1 0.03
17 21 0.64
18 11 0.33
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.84
Consensus pattern (18 bp):
TTTTCTTTTTATTTTCTT
Found at i:4814459 original size:28 final size:28
Alignment explanation
Indices: 4814415--4814470 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
4814405 TTTTTCTTCA
4814415 ATTTTCTTTTGTTTTTTTTTCTCTTTTT
1 ATTTTCTTTTGTTTTTTTTTCTCTTTTT
4814443 ATTTTCTTTT-TTCTTTTTTTCTCTTTTT
1 ATTTTCTTTTGTT-TTTTTTTCTCTTTTT
4814471 GTTCTGATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (28 bp):
ATTTTCTTTTGTTTTTTTTTCTCTTTTT
Found at i:4814470 original size:11 final size:10
Alignment explanation
Indices: 4814401--4814470 Score: 52
Period size: 10 Copynumber: 6.8 Consensus size: 10
4814391 GCATATTGTC
*
4814401 TTCTTTTTTC
1 TTCTTTTTTT
*
4814411 TTCAATTTTCTT
1 TTC--TTTTTTT
*
4814423 TTGTTTTTTT
1 TTCTTTTTTT
*
4814433 TTCTCTTTTTA
1 TTCT-TTTTTT
*
4814444 TT-TTCTTTT
1 TTCTTTTTTT
4814453 TTCTTTTTTT
1 TTCTTTTTTT
*
4814463 CTCTTTTT
1 TTCTTTTT
4814471 GTTCTGATTG
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
9 6 0.13
10 26 0.57
11 7 0.15
12 7 0.15
ACGTcount: A:0.04, C:0.14, G:0.01, T:0.80
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:4814470 original size:17 final size:16
Alignment explanation
Indices: 4814401--4814470 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 16
4814391 GCATATTGTC
**
4814401 TTCTTTTTTCTTCAATT
1 TTCTTTTTT-TTCTTTT
4814418 TTCTTTTGTTTT-TTTT
1 TTCTTTT-TTTTCTTTT
4814434 TCTCTTTTTATTTTCTTTT
1 T-TC-TTTT-TTTTCTTTT
4814453 TTCTTTTTTTCTCTTTT
1 TTCTTTTTTT-TCTTTT
4814470 T
1 T
4814471 GTTCTGATTG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 6 0.13
17 22 0.49
18 12 0.27
19 5 0.11
ACGTcount: A:0.04, C:0.14, G:0.01, T:0.80
Consensus pattern (16 bp):
TTCTTTTTTTTCTTTT
Found at i:4817502 original size:21 final size:21
Alignment explanation
Indices: 4817485--4817536 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
4817475 ACGAAAAGAA
4817485 AAATAAAAGACATAAAAAAAT
1 AAATAAAAGACATAAAAAAAT
**
4817506 AAATAAAATCCATAAAAGCAAAT
1 AAATAAAAGACATAAAA--AAAT
4817529 GAAATAAA
1 -AAATAAA
4817537 TAAAATACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 15 0.58
23 4 0.15
24 7 0.27
ACGTcount: A:0.71, C:0.08, G:0.06, T:0.15
Consensus pattern (21 bp):
AAATAAAAGACATAAAAAAAT
Found at i:4817552 original size:15 final size:17
Alignment explanation
Indices: 4817534--4817575 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
4817524 CAAATGAAAT
4817534 AAATAAA-ATAC-TAGA
1 AAATAAATATACATAGA
*
4817549 AAATAATATATACATAGT
1 AAATAA-ATATACATAGA
4817567 AAATAAATA
1 AAATAAATA
4817576 AATAAATGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 6 0.26
16 1 0.04
17 7 0.30
18 9 0.39
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (17 bp):
AAATAAATATACATAGA
Found at i:4817718 original size:2 final size:2
Alignment explanation
Indices: 4817711--4817762 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
4817701 TAATGAAAAT
4817711 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
4817753 TA TA TA TA TA
1 TA TA TA TA TA
4817763 CTAAAGTGTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4817773 original size:2 final size:2
Alignment explanation
Indices: 4817768--4817797 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4817758 ATATACTAAA
4817768 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
4817798 AATCATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:4818151 original size:37 final size:37
Alignment explanation
Indices: 4818096--4818207 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
4818086 ATGCTTCTGG
* *
4818096 ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
**
4818133 ATCCTATTTTTAAAAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
*
4818170 ATCCTATTTATAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
4818207 A
1 A
4818208 ACGCTATGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:4818336 original size:2 final size:2
Alignment explanation
Indices: 4818329--4818386 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
4818319 TATTTAAAAT
4818329 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
4818371 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
4818387 ATCAGGTCGG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4822795 original size:2 final size:2
Alignment explanation
Indices: 4822788--4822823 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4822778 ATTTTAAATA
4822788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4822824 CATTAAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4825472 original size:15 final size:15
Alignment explanation
Indices: 4825437--4825465 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4825427 ATATACAGAA
4825437 AATAATTTGAAATTG
1 AATAATTTGAAATTG
4825452 AATAATTTGAAATT
1 AATAATTTGAAATT
4825466 AATTAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (15 bp):
AATAATTTGAAATTG
Found at i:4825589 original size:21 final size:22
Alignment explanation
Indices: 4825565--4825613 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 22
4825555 TAAAAACTGG
4825565 TATTTAAAATATATTT-ATATA
1 TATTTAAAATATATTTCATATA
*
4825586 TATTT--AATATTTTTCATATA
1 TATTTAAAATATATTTCATATA
4825606 TAGTTTAA
1 TA-TTTAA
4825614 TAAAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 8 0.35
20 7 0.30
21 8 0.35
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTTAAAATATATTTCATATA
Found at i:4825812 original size:22 final size:21
Alignment explanation
Indices: 4825778--4825820 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
4825768 ATGTAAAAAG
4825778 AAAAAATAAATA-TTTAATTT
1 AAAAAATAAATATTTTAATTT
4825798 AAAAAATATACATATTTTAATTT
1 AAAAAATA-A-ATATTTTAATTT
4825821 TAAATTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 3 0.15
23 8 0.40
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAAATAAATATTTTAATTT
Found at i:4825887 original size:65 final size:63
Alignment explanation
Indices: 4825770--4825897 Score: 179
Period size: 65 Copynumber: 2.0 Consensus size: 63
4825760 AACTATAAAT
* * *
4825770 GTAAAAAGAAAAAATAAATATTTAATTTAAAAAATATACATATTTTAATTTTAAATTTTGAAG
1 GTAAAAAGAAAAAATAAAGATTAAATTTAAAAAATATACATATTTTAATTTTAAAATTTGAAG
4825833 GTAAAAAG-AAAAATAAAGATTAAATTTAGTTTAAAAA-ATACATATTTTAATTTTAAAATTTGA
1 GTAAAAAGAAAAAATAAAGATTAAATTTA----AAAAATATACATATTTTAATTTTAAAATTTGA
4825896 AG
62 AG
4825898 ATCGAATTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
62 18 0.31
63 8 0.14
65 27 0.47
66 5 0.09
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (63 bp):
GTAAAAAGAAAAAATAAAGATTAAATTTAAAAAATATACATATTTTAATTTTAAAATTTGAAG
Found at i:4826060 original size:27 final size:27
Alignment explanation
Indices: 4826030--4826083 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
4826020 TGTCTTCTTT
4826030 GTAGCTTATTTTTCTTCAACTAGATTA
1 GTAGCTTATTTTTCTTCAACTAGATTA
4826057 GTAGCTTATTTTTCTTCAACTAGATTA
1 GTAGCTTATTTTTCTTCAACTAGATTA
4826084 TGAGATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (27 bp):
GTAGCTTATTTTTCTTCAACTAGATTA
Found at i:4840898 original size:21 final size:18
Alignment explanation
Indices: 4840872--4840938 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 18
4840862 AAATAATTTT
4840872 TATTTTATTATATTTACTTAA
1 TATTTTATTAT-TTTA--TAA
4840893 TATTTTATTATTTTATAA
1 TATTTTATTATTTTATAA
4840911 TA--TTA-TATTTTACTAA
1 TATTTTATTATTTTA-TAA
4840927 TTATTTT-TTATT
1 -TATTTTATTATT
4840939 ACTTTTTGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.17
16 6 0.15
17 2 0.05
18 5 0.12
19 6 0.15
20 4 0.10
21 11 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTTATTATTTTATAA
Found at i:4840927 original size:16 final size:16
Alignment explanation
Indices: 4840877--4840927 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
4840867 ATTTTTATTT
4840877 TATTATA-TTTACTTAA
1 TATTATATTTTAC-TAA
4840893 TATTTTATTATTTTA-TAA
1 TA--TTA-TATTTTACTAA
4840911 TATTATATTTTACTAA
1 TATTATATTTTACTAA
4840927 T
1 T
4840928 TATTTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
15 7 0.23
16 9 0.30
18 8 0.27
19 2 0.07
20 4 0.13
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTATATTTTACTAA
Found at i:4842717 original size:21 final size:21
Alignment explanation
Indices: 4842654--4842751 Score: 90
Period size: 21 Copynumber: 4.7 Consensus size: 21
4842644 ACACCTTCGT
* *
4842654 TTCAGATGGCACCACAACC-A
1 TTCAGATGCCACCACAGCCGA
* *
4842674 TTTCAAATGCCACCACAACCGA
1 -TTCAGATGCCACCACAGCCGA
*
4842696 TTCAGATGCCACCACAGTCGA
1 TTCAGATGCCACCACAGCCGA
* * * *
4842717 TTCATATACAACCGCAGCCGA
1 TTCAGATGCCACCACAGCCGA
*
4842738 TTCAGATGCTACCA
1 TTCAGATGCCACCA
4842752 TAGCAGGGTT
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
21 61 0.98
22 1 0.02
ACGTcount: A:0.33, C:0.34, G:0.14, T:0.19
Consensus pattern (21 bp):
TTCAGATGCCACCACAGCCGA
Found at i:4843809 original size:16 final size:18
Alignment explanation
Indices: 4843774--4843809 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4843764 AGCAATTAGT
4843774 ATCGATACTGATGTAGGA
1 ATCGATACTGATGTAGGA
4843792 ATCGATACT-ATG-AGGA
1 ATCGATACTGATGTAGGA
4843808 AT
1 AT
4843810 ATATCGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 3 0.17
18 9 0.50
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (18 bp):
ATCGATACTGATGTAGGA
Found at i:4843968 original size:95 final size:95
Alignment explanation
Indices: 4843812--4843988 Score: 234
Period size: 95 Copynumber: 1.9 Consensus size: 95
4843802 TGAGGAATAT
* * *
4843812 ATCGATATCATTGATTCCATAATGCATAAATGGTACTGATACCGTAATGGAGCATCGATACTAGA
1 ATCGATACCATAGATTCCATAATGCATAAATGGTACTGATACCGTAAAGGAGCATCGATACTAGA
4843877 GTATAGAAGTATCGATAATAAGAGAAAGGC
66 GTATAGAAGTATCGATAATAAGAGAAAGGC
* * * *
4843907 ATCGATACCATAGATTCCATAATGTCA-AAATGGTA-TCGATACTG-AAAGAGGGTATCTATACT
1 ATCGATACCATAGATTCCATAATG-CATAAATGGTACT-GATACCGTAAAG-GAGCATCGATACT
*
4843969 ATAGTATAGAAGTATCGATA
63 AGAGTATAGAAGTATCGATA
4843989 CCAGGGTAGG
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
94 4 0.06
95 65 0.92
96 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (95 bp):
ATCGATACCATAGATTCCATAATGCATAAATGGTACTGATACCGTAAAGGAGCATCGATACTAGA
GTATAGAAGTATCGATAATAAGAGAAAGGC
Found at i:4844400 original size:54 final size:54
Alignment explanation
Indices: 4844335--4844838 Score: 706
Period size: 54 Copynumber: 9.3 Consensus size: 54
4844325 TATGTACTAT
* * *
4844335 GTATAGACACTAAGTGTGCAACCCACGGAATTCATCATATATTGATGAACAACC
1 GTATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACC
***
4844389 GTATAGGCACTAAGTGTGCAACCCATTTAATTCATCATATGTTGATGAACAACC
1 GTATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACC
* * *
4844443 GTATAGGCACTAAGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACT
1 GTATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACC
* *
4844497 GTATAGACACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACT
1 GTATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACC
* * *
4844551 ATATAGGCACTAAGTGTGCAACCCACATAATTCATCATATGTTCATGAACAACC
1 GTATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACC
*
4844605 ATATAGGCACTAAGTGTGCAACCCAC-GAAATTCATCATATGTTGATGAACAACC
1 GTATAGGCACTAAGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACAACC
* *
4844659 GTATAGGCACTAAGTGTGCAACCCACATAATTCATCATATGTTGATGAACATCC
1 GTATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACC
* * * * *
4844713 GTATAAGCACTAAGTGTACAACCCACACAATTCATCATATATTGATGAACGACC
1 GTATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACC
* * * * * **
4844767 GTATAGGCACTATGTGTACAAACCA-AGGAATTCATAATATGTTTATGAATGACC
1 GTATAGGCACTAAGTGTGCAACCCACA-GAATTCATCATATGTTGATGAACAACC
*
4844821 GTATAGGCACTACGTGTG
1 GTATAGGCACTAAGTGTG
4844839 TATCTTAACG
Statistics
Matches: 408, Mismatches: 39, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
53 1 0.00
54 407 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (54 bp):
GTATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACC
Found at i:4847187 original size:21 final size:20
Alignment explanation
Indices: 4847163--4847262 Score: 76
Period size: 21 Copynumber: 4.7 Consensus size: 20
4847153 TAATTTACAT
*
4847163 CGAAGTGCCACATAATTGTCT
1 CGAAG-GCCACATAATTGTCC
*
4847184 CGAAGGACCACATAGGTTG-CAC
1 CGAAGG-CCACATA-ATTGTC-C
** *
4847206 AAAAGTGCCACATATTTGTCC
1 CGAAG-GCCACATAATTGTCC
4847227 CGAAGGACCACATAATTGTCC
1 CGAAGG-CCACATAATTGTCC
*
4847248 CGAAGAACCACATAA
1 CGAAG-GCCACATAA
4847263 AACCCTCGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
20 2 0.03
21 46 0.73
22 14 0.22
23 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
CGAAGGCCACATAATTGTCC
Found at i:4847908 original size:20 final size:20
Alignment explanation
Indices: 4847885--4847958 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
4847875 TCTTAAAAAA
4847885 TGGTATCGATACCATCCTCC
1 TGGTATCGATACCATCCTCC
* * * *
4847905 TGGTATCGATACTACCCACA
1 TGGTATCGATACCATCCTCC
* * *
4847925 TAGTATCGATACCCTCTTCAAC
1 TGGTATCGATACCATCCTC--C
4847947 TGGTATCGATAC
1 TGGTATCGATAC
4847959 TACCCTTAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 29 0.73
22 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (20 bp):
TGGTATCGATACCATCCTCC
Found at i:4854599 original size:23 final size:23
Alignment explanation
Indices: 4854572--4854642 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
4854562 CTCGTATAAA
4854572 TGCACCGAAGTGCCACATAAAAT
1 TGCACCGAAGTGCCACATAAAAT
* * *
4854595 TGCACCGAAGTGTCACGTAGAAT
1 TGCACCGAAGTGCCACATAAAAT
* * * *
4854618 TGTACCGTAGTGCCATATAAGAT
1 TGCACCGAAGTGCCACATAAAAT
4854641 TG
1 TG
4854643 TCCCTAAGGA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAAAAT
Found at i:4857866 original size:28 final size:28
Alignment explanation
Indices: 4857826--4857889 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
4857816 GTCTCAAATT
4857826 AAGCTCTTTTTGAGTCATCAGGTATTTC
1 AAGCTCTTTTTGAGTCATCAGGTATTTC
4857854 AAGCTCTTTTTGAGTCATCAGGTATTTC
1 AAGCTCTTTTTGAGTCATCAGGTATTTC
4857882 AAGCTCTT
1 AAGCTCTT
4857890 ATGATCCGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (28 bp):
AAGCTCTTTTTGAGTCATCAGGTATTTC
Found at i:4861535 original size:23 final size:22
Alignment explanation
Indices: 4861509--4861577 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
4861499 CACCACAGCT
4861509 CGTATAAATGCACCGAAGTGCCA
1 CGTA-AAATGCACCGAAGTGCCA
* * *
4861532 CGTAGAATTGCACCGAAGTGACG
1 CGTA-AAATGCACCGAAGTGCCA
* *
4861555 CGTAGAATGGCACCGTAGTGCCA
1 CGTAAAAT-GCACCGAAGTGCCA
4861578 TATAAGATTG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 2 0.06
23 34 0.94
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.17
Consensus pattern (22 bp):
CGTAAAATGCACCGAAGTGCCA
Found at i:4862323 original size:63 final size:64
Alignment explanation
Indices: 4862214--4862372 Score: 169
Period size: 63 Copynumber: 2.5 Consensus size: 64
4862204 ATCCCTTGAT
* * ** *
4862214 GGGTGCATCGATGCACTA-TCTATGCATCGATACAGAAATCTTATTCGATGTTTGTA-TTTAAGG
1 GGGTGCATCGATGCACTACT-TGTGCATCGATACACAAATCGAATTCGATGTTTGTATTTTAAAG
** * * *
4862277 GGGTGCATCGATGCACTACTTGTGCATCGATACACTGATGGAATTCGATGTTTTTATTTTAAAT
1 GGGTGCATCGATGCACTACTTGTGCATCGATACACAAATCGAATTCGATGTTTGTATTTTAAAG
** * *
4862341 TAGTGCATCGATGCACTTCATGTGCATCGATA
1 GGGTGCATCGATGCACTACTTGTGCATCGATA
4862373 TACCTTAAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
63 46 0.57
64 34 0.43
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (64 bp):
GGGTGCATCGATGCACTACTTGTGCATCGATACACAAATCGAATTCGATGTTTGTATTTTAAAG
Found at i:4862829 original size:10 final size:10
Alignment explanation
Indices: 4862814--4862842 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
4862804 TCACGATGGA
4862814 GAAGAAGAAT
1 GAAGAAGAAT
4862824 GAAGAAGAAT
1 GAAGAAGAAT
4862834 GAAGAAGAA
1 GAAGAAGAA
4862843 GATAAGTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (10 bp):
GAAGAAGAAT
Found at i:4866842 original size:22 final size:23
Alignment explanation
Indices: 4866810--4866857 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
4866800 CTTCAATACT
*
4866810 TAAATGTTGAAGGGCTAAATTTA
1 TAAATGTTGAAGGACTAAATTTA
4866833 TAAAT-TTGAAGGACTAAATTTA
1 TAAATGTTGAAGGACTAAATTTA
4866855 TAA
1 TAA
4866858 TTAAACCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (23 bp):
TAAATGTTGAAGGACTAAATTTA
Found at i:4875157 original size:71 final size:70
Alignment explanation
Indices: 4875066--4875203 Score: 240
Period size: 71 Copynumber: 2.0 Consensus size: 70
4875056 GTTGATTGCA
*
4875066 GACTGTTAGTTTCTCTTTCTCTTTGTTTCTTTTTTAGTTTTTAGTAAGAATAATTATATCTTTGT
1 GACTGTCAGTTTCTCTTTCTCTTTGTTTCTTTTTTAGTTTTTAGTAAGAATAATTATATCTTTGT
4875131 GAACC
66 GAACC
* *
4875136 GACTGTCAGTTTTCTTTTTCTCTTTGTTTCTTTTTTAGTTTTTATTAAGAATAATTATATCTTTG
1 GACTGTCAG-TTTCTCTTTCTCTTTGTTTCTTTTTTAGTTTTTAGTAAGAATAATTATATCTTTG
4875201 TGA
65 TGA
4875204 CACATTTATC
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
70 8 0.12
71 56 0.88
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.57
Consensus pattern (70 bp):
GACTGTCAGTTTCTCTTTCTCTTTGTTTCTTTTTTAGTTTTTAGTAAGAATAATTATATCTTTGT
GAACC
Found at i:4875225 original size:23 final size:24
Alignment explanation
Indices: 4875197--4875247 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
4875187 TAATTATATC
4875197 TTTGTGACACATTTATCTATG-CT
1 TTTGTGACACATTTATCTATGCCT
**
4875220 TTTGTGACATGTTTATCTATGCCT
1 TTTGTGACACATTTATCTATGCCT
4875244 TTTG
1 TTTG
4875248 GTAGTTTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.51
Consensus pattern (24 bp):
TTTGTGACACATTTATCTATGCCT
Found at i:4885075 original size:20 final size:21
Alignment explanation
Indices: 4885046--4885096 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4885036 TCTCTATAAG
*
4885046 AGTATTGATACTC-G-GGGCTC
1 AGTATCGATACTCAGAGGG-TC
4885066 AGTATCGATACTCAGAGGGTC
1 AGTATCGATACTCAGAGGGTC
4885087 AGTATCGATA
1 AGTATCGATA
4885097 ACGACATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.43
21 13 0.46
22 3 0.11
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (21 bp):
AGTATCGATACTCAGAGGGTC
Found at i:4894146 original size:48 final size:48
Alignment explanation
Indices: 4894056--4894270 Score: 256
Period size: 48 Copynumber: 4.5 Consensus size: 48
4894046 TTATGAATGT
* * * *
4894056 TATTGATGATGATTAGCATGTC--A-GTCTGTGTTACGGTGGTGCTAT
1 TATTGATGATAATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTAC
* * *
4894101 TATTCATTATAATTAGCACGTCTGACGTCTGTGTGATGGTGGTGCTAC
1 TATTGATGATAATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTAC
* * *
4894149 TATTGATAATGATTAGCACGTCTGACGTCTGTGTGACGGTGATGCTAC
1 TATTGATGATAATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTAC
* * ** * **
4894197 TATTGATGATGATTTGTGCGTCTGACGTTTGTGTGACAATGGTGCTAC
1 TATTGATGATAATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTAC
4894245 TATTGATGATAATTAGCACGTCTGAC
1 TATTGATGATAATTAGCACGTCTGAC
4894271 ATTACTTATG
Statistics
Matches: 143, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
45 18 0.13
47 1 0.01
48 124 0.87
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (48 bp):
TATTGATGATAATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTAC
Found at i:4895543 original size:142 final size:143
Alignment explanation
Indices: 4895287--4895571 Score: 554
Period size: 142 Copynumber: 2.0 Consensus size: 143
4895277 TCTGCTAATC
4895287 CATAAGGAATTGAATCTAAGACAAATGAGATGGGATCAATTTTTTAAAAATATTATGAAGTAGTA
1 CATAAGGAATTGAATCTAAGACAAATGAGATGGGATCAATTTTTTAAAAATATTATGAAGTAGTA
4895352 TTTATTTATCATTTGAAGACAACTAAAGTTGTAGCTAATGCATTTTGCTGAAAAACATTC-TTTG
66 TTTATTTATCATTTGAAGACAACTAAAGTTGTAGCTAATGCATTTTGCTGAAAAACATTCTTTTG
4895416 TTCTGAGTGTTGT
131 TTCTGAGTGTTGT
*
4895429 CATAAGGAATTGAATCTAAGACAAATGAGATGGGATCAATTTTTTTAAAATATTATGAAGTAGTA
1 CATAAGGAATTGAATCTAAGACAAATGAGATGGGATCAATTTTTTAAAAATATTATGAAGTAGTA
4895494 TTTATTTATCATTTGAAGACAACTAAAGTTGTAGCTAATGCATTTTGCTGAAAAACATTCTTTTG
66 TTTATTTATCATTTGAAGACAACTAAAGTTGTAGCTAATGCATTTTGCTGAAAAACATTCTTTTG
4895559 TTCTGAGTGTTGT
131 TTCTGAGTGTTGT
4895572 AGATGTTTAG
Statistics
Matches: 141, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
142 124 0.88
143 17 0.12
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (143 bp):
CATAAGGAATTGAATCTAAGACAAATGAGATGGGATCAATTTTTTAAAAATATTATGAAGTAGTA
TTTATTTATCATTTGAAGACAACTAAAGTTGTAGCTAATGCATTTTGCTGAAAAACATTCTTTTG
TTCTGAGTGTTGT
Found at i:4896417 original size:20 final size:20
Alignment explanation
Indices: 4896392--4896433 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
4896382 ATTTTATATT
4896392 AGAGAAATTTAGATCACATC
1 AGAGAAATTTAGATCACATC
4896412 AGAGAAATTTAGATCACATC
1 AGAGAAATTTAGATCACATC
4896432 AG
1 AG
4896434 TGAATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (20 bp):
AGAGAAATTTAGATCACATC
Found at i:4898600 original size:10 final size:10
Alignment explanation
Indices: 4898585--4898622 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
4898575 TAAGTTTAAG
4898585 AAATTATTAT
1 AAATTATTAT
*
4898595 AAATTATACAT
1 AAATTAT-TAT
4898606 AAATTATTAT
1 AAATTATTAT
4898616 AAATTAT
1 AAATTAT
4898623 ACACAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (10 bp):
AAATTATTAT
Found at i:4898609 original size:11 final size:11
Alignment explanation
Indices: 4898593--4898630 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
4898583 AGAAATTATT
4898593 ATAAATTATAC
1 ATAAATTATAC
*
4898604 ATAAATTAT-T
1 ATAAATTATAC
4898614 ATAAATTATAC
1 ATAAATTATAC
*
4898625 ACAAAT
1 ATAAAT
4898631 GATTAGACGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAAATTATAC
Found at i:4898609 original size:21 final size:21
Alignment explanation
Indices: 4898585--4898635 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
4898575 TAAGTTTAAG
*
4898585 AAATTATTATAAATTATACAT
1 AAATTATTATAAATTATACAC
4898606 AAATTATTATAAATTATACAC
1 AAATTATTATAAATTATACAC
*
4898627 AAATGATTA
1 AAATTATTA
4898636 GACGATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATTATTATAAATTATACAC
Found at i:4905290 original size:41 final size:37
Alignment explanation
Indices: 4905249--4905318 Score: 101
Period size: 34 Copynumber: 2.0 Consensus size: 37
4905239 TCAAATTTTA
*
4905249 TTATATATATGATATTATATATTTATATCTTTCGTA-
1 TTATTTATATGATATTATATATTTATATCTTTCGTAT
*
4905285 --ATTTATCTGATATTATATATTTATATCTTTCGTA
1 TTATTTATATGATATTATATATTTATATCTTTCGTA
4905319 ATTTCTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (37 bp):
TTATTTATATGATATTATATATTTATATCTTTCGTAT
Found at i:4905296 original size:34 final size:34
Alignment explanation
Indices: 4905258--4905322 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
4905248 ATTATATATA
4905258 TGATATTATATATTTATATCTTTCGTAATTTATC
1 TGATATTATATATTTATATCTTTCGTAATTTATC
4905292 TGATATTATATATTTATATCTTTCGTAATTT
1 TGATATTATATATTTATATCTTTCGTAATTT
4905323 CTATATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (34 bp):
TGATATTATATATTTATATCTTTCGTAATTTATC
Found at i:4911554 original size:13 final size:14
Alignment explanation
Indices: 4911528--4911556 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4911518 GGGCTAAACC
4911528 TATATACGTTTTTG
1 TATATACGTTTTTG
4911542 TATATAC-TTTTTG
1 TATATACGTTTTTG
4911555 TA
1 TA
4911557 GACACATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (14 bp):
TATATACGTTTTTG
Found at i:4914459 original size:21 final size:21
Alignment explanation
Indices: 4914418--4914459 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4914408 TCTTATTTGA
*
4914418 CAAAGATAATACTATAAATAT
1 CAAAGATAATAATATAAATAT
*
4914439 CAAAGAT-ATAATTTAATATAT
1 CAAAGATAATAATATAA-ATAT
4914460 TTTAAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (21 bp):
CAAAGATAATAATATAAATAT
Found at i:4914792 original size:23 final size:23
Alignment explanation
Indices: 4914741--4914792 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
4914731 CAAAATTGTT
* *
4914741 ATTAAAAGTTAATTTTTATTAAT
1 ATTAAAAGTTAACTTTTATTAAC
*
4914764 ACTAAAAGTTAACTTTTATTAAC
1 ATTAAAAGTTAACTTTTATTAAC
4914787 ATTAAA
1 ATTAAA
4914793 GATATAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (23 bp):
ATTAAAAGTTAACTTTTATTAAC
Found at i:4916692 original size:13 final size:13
Alignment explanation
Indices: 4916670--4916702 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4916660 TCATTGGAAG
4916670 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
*
4916683 AAAGACAGAAAGA
1 AAAGAAAGAAAGA
4916696 AAA-AAAG
1 AAAGAAAG
4916703 GCAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 3 0.17
13 15 0.83
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:4916692 original size:17 final size:16
Alignment explanation
Indices: 4916667--4916702 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
4916657 TTTTCATTGG
4916667 AAGAAAGAAAGAAAGAA
1 AAGAAAGAAAGAAA-AA
*
4916684 AAGACAGAAAGAAAAA
1 AAGAAAGAAAGAAAAA
4916700 AAG
1 AAG
4916703 GCAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (16 bp):
AAGAAAGAAAGAAAAA
Found at i:4918777 original size:2 final size:2
Alignment explanation
Indices: 4918770--4918813 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4918760 ACATAAACGC
4918770 AT AT AT 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
4918812 AT
1 AT
4918814 TGTTTCATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4919204 original size:23 final size:23
Alignment explanation
Indices: 4919168--4919232 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
4919158 CAGCTCATAT
4919168 AAATGCACCGAAGTGCCATGTAG
1 AAATGCACCGAAGTGCCATGTAG
* * **
4919191 AATTGCACCTAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCATGTAG
*
4919214 AAATGCACCGAAGTTCCAT
1 AAATGCACCGAAGTGCCAT
4919233 ATAAGATGTC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCATGTAG
Found at i:4924557 original size:17 final size:17
Alignment explanation
Indices: 4924537--4924569 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4924527 TATTTTATTT
4924537 AAAAA-TATATTTAAGTG
1 AAAAATTATA-TTAAGTG
4924554 AAAAATTATATTAAGT
1 AAAAATTATATTAAGT
4924570 ATTAAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
AAAAATTATATTAAGTG
Found at i:4927138 original size:31 final size:31
Alignment explanation
Indices: 4927100--4927159 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
4927090 CCTATGTAAC
*
4927100 TGTCCATATGTTTCGAAGAACATAGGTAAAT
1 TGTCCATATGTTCCGAAGAACATAGGTAAAT
* *
4927131 TGTCCATATGTTCCGTAGAACGTAGGTAA
1 TGTCCATATGTTCCGAAGAACATAGGTAA
4927160 CCCTCGACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (31 bp):
TGTCCATATGTTCCGAAGAACATAGGTAAAT
Found at i:4929790 original size:27 final size:25
Alignment explanation
Indices: 4929731--4929791 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 25
4929721 CACTCAAAAC
4929731 ATTATTATTTTATATTTTTAATATTA
1 ATTATTATTTTATATTTTTAATA-TA
4929757 ATATATTATTTTAGTATCATTTTAATA-A
1 AT-TATTATTTTA-TAT--TTTTAATATA
4929785 ATTATTA
1 ATTATTA
4929792 ACTATTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
26 2 0.06
27 15 0.48
28 6 0.19
30 8 0.26
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (25 bp):
ATTATTATTTTATATTTTTAATATA
Found at i:4929861 original size:17 final size:18
Alignment explanation
Indices: 4929839--4929877 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
4929829 ATATTATATT
*
4929839 TTATTATAATA-ATTATA
1 TTATTATAATATATAATA
4929856 TTATTATAATATATAATA
1 TTATTATAATATATAATA
4929874 TTAT
1 TTAT
4929878 ACATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTATAATATATAATA
Found at i:4930064 original size:25 final size:26
Alignment explanation
Indices: 4930008--4930065 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
4929998 ATATTTTATT
*
4930008 TTAATATTATAATTTTAAATAATTTA
1 TTAATATTATAATTTTAAATAAATTA
** * *
4930034 AAAATATTTTTATTTT-AATAAATTA
1 TTAATATTATAATTTTAAATAAATTA
4930059 TTAATAT
1 TTAATAT
4930066 AATTATTAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTAATATTATAATTTTAAATAAATTA
Found at i:4930071 original size:12 final size:12
Alignment explanation
Indices: 4930048--4930083 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
4930038 TATTTTTATT
4930048 TTAATA-AATTA
1 TTAATATAATTA
4930059 TTAATATAATTA
1 TTAATATAATTA
4930071 TTAATAT-ATTA
1 TTAATATAATTA
4930082 TT
1 TT
4930084 CTTATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.50
12 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAATATAATTA
Found at i:4930090 original size:42 final size:39
Alignment explanation
Indices: 4929995--4930145 Score: 134
Period size: 40 Copynumber: 3.7 Consensus size: 39
4929985 AAAATATAAT
4929995 ATAATATTTTATTTTAATATTATAATT-TTAA-ATAATTTA-A
1 ATAATATTTTATTTT-A-A-TA-AATTATTAATATAATTTATA
4930035 A-AATATTTTTATTTTAATAAATTATTAATATAA-TTATTA
1 ATAATA-TTTTATTTTAATAAATTATTAATATAATTTA-TA
* *
4930074 ATATATTATTCTTATTTTAATAAATAATTTACTATAATTTATA
1 ATA-A-TATT-TTATTTTAATAAATTA-TTAATATAATTTATA
4930117 ATAA-ATTTTATTTTAATAAAATATATTAA
1 ATAATATTTTATTTTAAT-AAAT-TATTAA
4930146 ACAAAATATT
Statistics
Matches: 94, Mismatches: 4, Indels: 26
0.76 0.03 0.21
Matches are distributed among these distances:
36 4 0.04
37 9 0.10
38 5 0.05
39 17 0.18
40 21 0.22
41 4 0.04
42 18 0.19
43 13 0.14
44 3 0.03
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (39 bp):
ATAATATTTTATTTTAATAAATTATTAATATAATTTATA
Found at i:4930111 original size:81 final size:83
Alignment explanation
Indices: 4929991--4930145 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 83
4929981 CCTTAAAATA
*
4929991 TAATATAATATTTTATTTTAATATTATAATTTTAAATAATTTA-AA-AATATTTTTATTTTAAT-
1 TAATATAATATTTTATTTTAATATAATAATTTTAAATAATTTATAATAA-A-TTTTATTTTAATA
4930053 AAAT-TATTAATATAATTAT
64 AAATATATTAATATAATTAT
* *
4930072 TAATATATTATTCTTATTTTAATA-AATAA-TTTACTATAATTTATAATAAATTTTATTTTAATA
1 TAATATAATATT-TTATTTTAATATAATAATTTTA-AATAATTTATAATAAATTTTATTTTAATA
4930135 AAATATATTAA
64 AAATATATTAA
4930146 ACAAAATATT
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
80 4 0.06
81 35 0.54
82 18 0.28
83 8 0.12
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (83 bp):
TAATATAATATTTTATTTTAATATAATAATTTTAAATAATTTATAATAAATTTTATTTTAATAAA
ATATATTAATATAATTAT
Found at i:4930113 original size:23 final size:22
Alignment explanation
Indices: 4930045--4930123 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
4930035 AAATATTTTT
*
4930045 ATTTTAATAAATTATTAATATA
1 ATTTTAATAAATTATTACTATA
*
4930067 ATTATTAATATATTATT-CT-T-
1 ATT-TTAATAAATTATTACTATA
*
4930087 ATTTTAATAAATAATTTACTATA
1 ATTTTAATAAATTA-TTACTATA
4930110 ATTTATAATAAATT
1 ATTT-TAATAAATT
4930124 TTATTTTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
19 9 0.20
20 5 0.11
21 3 0.07
22 5 0.11
23 16 0.35
24 8 0.17
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTAATAAATTATTACTATA
Found at i:4931676 original size:2 final size:2
Alignment explanation
Indices: 4931671--4931701 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4931661 GGTTTTTGAA
*
4931671 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4931702 GTTTTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4931760 original size:37 final size:36
Alignment explanation
Indices: 4931693--4931773 Score: 128
Period size: 36 Copynumber: 2.2 Consensus size: 36
4931683 ATATATATAC
*
4931693 ATATATATAGTTTTTGAAAACA-TTTCAAAACATAT
1 ATATATATAGTTTTTGAAAACATTTTGAAAACATAT
*
4931728 ATAATATATAGTTTTTAAAAACATTTTGAAAACATAT
1 AT-ATATATAGTTTTTGAAAACATTTTGAAAACATAT
4931765 ATATATATA
1 ATATATATA
4931774 TATATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
35 2 0.05
36 26 0.62
37 14 0.33
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (36 bp):
ATATATATAGTTTTTGAAAACATTTTGAAAACATAT
Found at i:4931768 original size:2 final size:2
Alignment explanation
Indices: 4931761--4931790 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4931751 TTTTGAAAAC
4931761 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
4931791 TTTAAAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4931773 original size:38 final size:38
Alignment explanation
Indices: 4931687--4931944 Score: 223
Period size: 38 Copynumber: 6.7 Consensus size: 38
4931677 ATATATATAT
* *
4931687 ATATACATATATATAGTTTTTGAAAACA-TTTCAAAAC
1 ATATATATATATATAGTTTTTGAAAACATTTTGAAAAC
*
4931724 ATATATA-ATATATAGTTTTTAAAAACATTTTGAAAAC
1 ATATATATATATATAGTTTTTGAAAACATTTTGAAAAC
* * *
4931761 ATATATATATATATATATATATATATATATTTTAAAAACATTTTGAAAGC
1 ----------ATATATATATATATA-GT-TTTTGAAAACATTTTGAAAAC
*
4931811 ATATATATAATATATAGTTTTT-AAAACATTTTGAAAAA
1 ATATATAT-ATATATAGTTTTTGAAAACATTTTGAAAAC
*
4931849 ATATATATAATAAATAG-TTTTGAAAACATTTTTGAAAAC
1 ATATATAT-ATATATAGTTTTTGAAAACA-TTTTGAAAAC
*
4931888 --ATATATA-ATATA-TTTTTGAAAACATTTT---AAT
1 ATATATATATATATAGTTTTTGAAAACATTTTGAAAAC
4931919 ATATATATATATATAGTTTTTGAAAA
1 ATATATATATATATAGTTTTTGAAAA
4931945 TGTATATGAT
Statistics
Matches: 187, Mismatches: 12, Indels: 46
0.76 0.05 0.19
Matches are distributed among these distances:
31 2 0.01
33 7 0.04
34 9 0.05
35 25 0.13
36 20 0.11
37 24 0.13
38 36 0.19
39 13 0.07
40 9 0.05
41 7 0.04
47 7 0.04
48 7 0.04
49 1 0.01
50 20 0.11
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (38 bp):
ATATATATATATATAGTTTTTGAAAACATTTTGAAAAC
Found at i:4931801 original size:50 final size:48
Alignment explanation
Indices: 4931724--4931826 Score: 163
Period size: 50 Copynumber: 2.1 Consensus size: 48
4931714 ATTTCAAAAC
4931724 ATATATAATATATAGTTTTTAAAAACATTTTGAAAACATATATATATAT
1 ATATATAATATATAGTTTTTAAAAACATTTTGAAAACATATATATA-AT
*
4931773 ATATATATATATATA-TATTTTAAAAACATTTTGAAAGCATATATATAAT
1 ATATATA-ATATATAGT-TTTTAAAAACATTTTGAAAACATATATATAAT
4931822 ATATA
1 ATATA
4931827 GTTTTTAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
49 15 0.29
50 36 0.71
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (48 bp):
ATATATAATATATAGTTTTTAAAAACATTTTGAAAACATATATATAAT
Found at i:4931837 original size:88 final size:87
Alignment explanation
Indices: 4931664--4931857 Score: 277
Period size: 88 Copynumber: 2.2 Consensus size: 87
4931654 AAAAATTGGT
* *
4931664 TTTTG-AAATATATATATATATATATATACATATATATAGTTTTTGAAAACATTTCAAAACATAT
1 TTTTGAAAAAATATATATATATATATATACATATATATAG-TTTTAAAAACATTTCAAAACATAT
4931728 ATAATATATAGTTTTTAAAAACA
65 ATAATATATAGTTTTTAAAAACA
* * * *
4931751 TTTTGAAAACATATATATATATATATATATATATATATA-TTTTAAAAACATTTTGAAAGCATAT
1 TTTTGAAAAAATATATATATATATATATACATATATATAGTTTTAAAAACA-TTTCAAA--ACAT
4931815 ATATAATATATAGTTTTT-AAAACA
63 ATATAATATATAGTTTTTAAAAACA
4931839 TTTTGAAAAAATATATATA
1 TTTTGAAAAAATATATATA
4931858 ATAAATAGTT
Statistics
Matches: 97, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
86 10 0.10
87 11 0.11
88 55 0.57
89 21 0.22
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (87 bp):
TTTTGAAAAAATATATATATATATATATACATATATATAGTTTTAAAAACATTTCAAAACATATA
TAATATATAGTTTTTAAAAACA
Found at i:4931848 original size:50 final size:50
Alignment explanation
Indices: 4931740--4931848 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
4931730 AATATATAGT
* *
4931740 TTTTAAAAACATTTTGAAAACATATATATATATATATATATATATATATA
1 TTTTAAAAACATTTTGAAAACATATATATATATATATATATATATAAACA
* * *
4931790 TTTTAAAAACATTTTGAAAGCATATATATA-ATATATAGTTTTTA-AAACA
1 TTTTAAAAACATTTTGAAAACATATATATATATATATA-TATATATAAACA
4931839 TTTTGAAAAA
1 TTTT-AAAAA
4931849 ATATATATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 14 0.27
50 38 0.73
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (50 bp):
TTTTAAAAACATTTTGAAAACATATATATATATATATATATATATAAACA
Found at i:4931883 original size:12 final size:12
Alignment explanation
Indices: 4931866--4931915 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
4931856 TAATAAATAG
4931866 TTTTGAAAACAT
1 TTTTGAAAACAT
4931878 TTTTGAAAACAT
1 TTTTGAAAACAT
* * * *
4931890 ATAT-AATATAT
1 TTTTGAAAACAT
4931901 TTTTGAAAACAT
1 TTTTGAAAACAT
4931913 TTT
1 TTT
4931916 AATATATATA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
11 7 0.24
12 22 0.76
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (12 bp):
TTTTGAAAACAT
Found at i:4931918 original size:22 final size:23
Alignment explanation
Indices: 4931876--4931922 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
4931866 TTTTGAAAAC
4931876 ATTTTTGAAAACATATATAATAT
1 ATTTTTGAAAACATATATAATAT
*
4931899 ATTTTTGAAAACAT-TTTAATAT
1 ATTTTTGAAAACATATATAATAT
4931921 AT
1 AT
4931923 ATATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (23 bp):
ATTTTTGAAAACATATATAATAT
Found at i:4931978 original size:21 final size:23
Alignment explanation
Indices: 4931921--4931985 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
4931911 ATTTTAATAT
4931921 ATATATATATATAGTTTTTGAAA
1 ATATATATATATAGTTTTTGAAA
*
4931944 ATGTATATGATATAG-TTTTGAAA
1 ATATATAT-ATATAGTTTTTGAAA
4931967 ATATATATTATATAGTTTT
1 ATATATA-TATATAGTTTT
4931986 AAAACAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 27 0.73
24 10 0.27
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (23 bp):
ATATATATATATAGTTTTTGAAA
Found at i:4932054 original size:38 final size:37
Alignment explanation
Indices: 4931775--4932064 Score: 169
Period size: 38 Copynumber: 7.6 Consensus size: 37
4931765 ATATATATAT
*
4931775 ATATATATATATATA-TTTTAAAA-ACA-TTTTGAAAGC
1 ATATATAT-TATATAGTTTTAAAACA-ATTTTTGAAAAC
*
4931811 ATATATATAATATATAGTTTTTAAAAC-A-TTTTGAAAAA
1 ATATATAT--TATATAG-TTTTAAAACAATTTTTGAAAAC
*
4931849 ATATATATAATAAATAGTTTTGAAAAC-ATTTTTGAAAAC
1 ATATATAT--TATATAGTTTT-AAAACAATTTTTGAAAAC
* * *
4931888 ATATATA--ATATATTTTTGAAAAC-A-TTTT-AATAT
1 ATATATATTATATAGTTTT-AAAACAATTTTTGAAAAC
*
4931921 ATATATA-TATATAGTTTTTGAAAATGTATATGATATAGTTTTG-AAA-
1 ATATATATTATATAG-TTTT---AA---A-A-CA-AT--TTTTGAAAAC
*
4931967 ATATATATTATATAGTTTTAAAACAATTTTTGAAAAT
1 ATATATATTATATAGTTTTAAAACAATTTTTGAAAAC
*
4932004 ATATATATTATATGGTTTTGAAAACAATTTTT-AAAAGC
1 ATATATATTATATAGTTTT-AAAACAATTTTTGAAAA-C
* *
4932042 ATGTATAATATATAGTTTTAAAA
1 ATATATATTATATAGTTTTAAAA
4932065 TATTTTTTTA
Statistics
Matches: 210, Mismatches: 18, Indels: 51
0.75 0.06 0.18
Matches are distributed among these distances:
33 10 0.05
34 9 0.04
35 24 0.11
36 11 0.05
37 41 0.20
38 60 0.29
39 25 0.12
40 2 0.01
41 1 0.00
43 2 0.01
44 1 0.00
46 11 0.05
47 13 0.06
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (37 bp):
ATATATATTATATAGTTTTAAAACAATTTTTGAAAAC
Found at i:4932073 original size:13 final size:15
Alignment explanation
Indices: 4932046--4932102 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 15
4932036 AAAAGCATGT
*
4932046 ATAATATATAGTTTTA
1 ATAATAT-TATTTTTA
4932062 A-AATATT-TTTTTA
1 ATAATATTATTTTTA
*
4932075 ATATTATTATTTTTA
1 ATAATATTATTTTTA
4932090 AT-AT-TTATTTTTA
1 ATAATATTATTTTTA
4932103 TATATTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
13 15 0.42
14 7 0.19
15 13 0.36
16 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
ATAATATTATTTTTA
Found at i:4932089 original size:15 final size:15
Alignment explanation
Indices: 4932065--4932108 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
4932055 AGTTTTAAAA
4932065 TATT-TTTTTAATAT
1 TATTATTTTTAATAT
4932079 TATTATTTTTAATA-
1 TATTATTTTTAATAT
4932093 T-TTATTTTTATATAT
1 TATTATTTTTA-ATAT
4932108 T
1 T
4932109 TATTTATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.33
14 8 0.30
15 10 0.37
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTTTAATAT
Found at i:4932092 original size:26 final size:27
Alignment explanation
Indices: 4932063--4932113 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4932053 ATAGTTTTAA
4932063 AATATTT-TTTTAATAT-TATTATTTTT
1 AATATTTATTTTAATATAT-TTATTTTT
*
4932089 AATATTTATTTTTATATATTTATTT
1 AATATTTATTTTAATATATTTATTT
4932114 ATGTTGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 14 0.64
28 1 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (27 bp):
AATATTTATTTTAATATATTTATTTTT
Found at i:4932101 original size:14 final size:14
Alignment explanation
Indices: 4932068--4932113 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
4932058 TTTAAAATAT
4932068 TTTTTTAATA-TTA
1 TTTTTTAATATTTA
4932081 TTATTTTTAATATTTA
1 -T-TTTTTAATATTTA
4932097 -TTTTTATATATTTA
1 TTTTTTA-ATATTTA
4932111 TTT
1 TTT
4932114 ATGTTGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 6 0.21
14 8 0.29
15 11 0.39
16 3 0.11
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:4932114 original size:18 final size:18
Alignment explanation
Indices: 4932091--4932133 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
4932081 TTATTTTTAA
4932091 TATTTAT-TT-TTATATATT
1 TATTTATGTTGTTAT-TA-T
4932109 TATTTATGTTGTTATTAT
1 TATTTATGTTGTTATTAT
4932127 TATTTAT
1 TATTTAT
4932134 CATTTATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 15 0.65
19 4 0.17
20 4 0.17
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
TATTTATGTTGTTATTAT
Found at i:4933250 original size:23 final size:22
Alignment explanation
Indices: 4933187--4933256 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
4933177 GTCCTTTAAA
4933187 TTTTTAGTTATTCATTTTTTTC
1 TTTTTAGTTATTCATTTTTTTC
*
4933209 TTTTTAATT-TTAGCATTTTTTT-
1 TTTTTAGTTATT--CATTTTTTTC
* *
4933231 ATTTTAGTTATTCATTTTTTCC
1 TTTTTAGTTATTCATTTTTTTC
4933253 TTTT
1 TTTT
4933257 AATTTCAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
21 10 0.26
22 18 0.46
23 11 0.28
ACGTcount: A:0.16, C:0.09, G:0.04, T:0.71
Consensus pattern (22 bp):
TTTTTAGTTATTCATTTTTTTC
Found at i:4933270 original size:43 final size:44
Alignment explanation
Indices: 4933188--4933271 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 44
4933178 TCCTTTAAAT
* * *
4933188 TTTTAGTTATTCATTTTTTTCTTTTTAATTTTAGCATTTTTTTA
1 TTTTAGTTATTCATTTTTTTCCTTTTAATTTCAACATTTTTTTA
*
4933232 TTTTAGTTATTCA-TTTTTTCCTTTTAATTTCAATATTTTT
1 TTTTAGTTATTCATTTTTTTCCTTTTAATTTCAACATTTTT
4933272 ATTTGTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 23 0.64
44 13 0.36
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.69
Consensus pattern (44 bp):
TTTTAGTTATTCATTTTTTTCCTTTTAATTTCAACATTTTTTTA
Found at i:4933285 original size:14 final size:13
Alignment explanation
Indices: 4933268--4933317 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 13
4933258 ATTTCAATAT
4933268 TTTTATTTGTTTTA
1 TTTTATTT-TTTTA
4933282 TTTTATTTTTTTA
1 TTTTATTTTTTTA
4933295 CTTCTTATTATTTTTA
1 -TT-TTATT-TTTTTA
*
4933311 ATTTATT
1 TTTTATT
4933318 ACTTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 15 0.47
15 6 0.19
16 6 0.19
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTTTA
Done.