Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005258.1 Hibiscus syriacus cultivar Beakdansim tig00011895_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: 123650
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:19326 original size:10 final size:10
Alignment explanation
Indices: 19311--19337 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
19301 GTTTATTAAT
19311 ATTTGATTGA
1 ATTTGATTGA
19321 ATTTGATTGA
1 ATTTGATTGA
19331 ATTTGAT
1 ATTTGAT
19338 GTTATGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (10 bp):
ATTTGATTGA
Found at i:22704 original size:6 final size:6
Alignment explanation
Indices: 22693--22734 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
22683 GAATGTAGAA
22693 TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG
1 TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG
22735 ATTTTAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
TGATGG
Found at i:25320 original size:87 final size:88
Alignment explanation
Indices: 25214--25374 Score: 220
Period size: 87 Copynumber: 1.8 Consensus size: 88
25204 ACACTTGAGA
* * *
25214 GGTTGAGTTTTTATACTCTTAATGAA-TCCATAGCCCAGGATTT-AGGTAGTCCTAGTGAGACAG
1 GGTTGAGTTTTTACACTCTTAATGAACT-CATAGCCCAAG-TTTGAGGTAGCCCTAGTGAGACAG
*
25277 ACTTGATGAATACATTGATTTATAT
64 AATTGATGAATACATTGATTTATAT
* * *
25302 GGTTGAG-TTTTACACTCTTAATGAACTCATAGCCCAAGTTTGTGGTGGCCCTAGTGAGACGGAA
1 GGTTGAGTTTTTACACTCTTAATGAACTCATAGCCCAAGTTTGAGGTAGCCCTAGTGAGACAGAA
25366 TTGATGAAT
66 TTGATGAAT
25375 TCACCAAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
86 3 0.05
87 53 0.83
88 8 0.12
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (88 bp):
GGTTGAGTTTTTACACTCTTAATGAACTCATAGCCCAAGTTTGAGGTAGCCCTAGTGAGACAGAA
TTGATGAATACATTGATTTATAT
Found at i:29776 original size:10 final size:10
Alignment explanation
Indices: 29747--29815 Score: 72
Period size: 10 Copynumber: 7.1 Consensus size: 10
29737 GCTGCTGGAA
29747 AACCGGTTTG
1 AACCGGTTTG
*
29757 -ACCAGTTTTG
1 AACC-GGTTTG
29767 AACCGGTTTG
1 AACCGGTTTG
*
29777 -ACCGGTTCG
1 AACCGGTTTG
29786 AACCGGTTTG
1 AACCGGTTTG
*
29796 -ACCGGTCTG
1 AACCGGTTTG
*
29805 AACCGGGTTG
1 AACCGGTTTG
29815 A
1 A
29816 CCTGACCCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 19 0.40
10 26 0.54
11 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:29790 original size:19 final size:19
Alignment explanation
Indices: 29747--29817 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
29737 GCTGCTGGAA
* *
29747 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTTCG
29767 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
29786 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTC-G
*
29805 AACCGGGTTGACC
1 AACCGGTTTGACC
29818 TGACCCGACC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
18 2 0.04
19 32 0.68
20 13 0.28
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:29836 original size:7 final size:7
Alignment explanation
Indices: 29824--29860 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
29814 GACCTGACCC
29824 GACCGTT
1 GACCGTT
29831 GACCGTT
1 GACCGTT
29838 GACCG-T
1 GACCGTT
29844 GACCGTT
1 GACCGTT
*
29851 GACCATT
1 GACCGTT
29858 GAC
1 GAC
29861 TTTCTTTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:29848 original size:13 final size:14
Alignment explanation
Indices: 29824--29860 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
29814 GACCTGACCC
29824 GACCGTTGACCGTT
1 GACCGTTGACCGTT
29838 GACCG-TGACCGTT
1 GACCGTTGACCGTT
*
29851 GACCATTGAC
1 GACCGTTGAC
29861 TTTCTTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (14 bp):
GACCGTTGACCGTT
Found at i:37029 original size:9 final size:9
Alignment explanation
Indices: 37015--37064 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
37005 CTGCTGGAAA
37015 ACCGGTTTG
1 ACCGGTTTG
*
37024 ACCGGTCTG
1 ACCGGTTTG
37033 AACCGGTTTG
1 -ACCGGTTTG
*
37043 ACCGGTCTG
1 ACCGGTTTG
*
37052 AACCGGGTTG
1 -ACCGGTTTG
37062 ACC
1 ACC
37065 TGACCCGACC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 19 0.56
10 15 0.44
ACGTcount: A:0.16, C:0.28, G:0.32, T:0.24
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:37038 original size:19 final size:19
Alignment explanation
Indices: 37014--37064 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
37004 GCTGCTGGAA
37014 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
37033 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
37052 AACCGGGTTGACC
1 AACCGGTTTGACC
37065 TGACCCGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:37039 original size:10 final size:10
Alignment explanation
Indices: 37014--37057 Score: 56
Period size: 9 Copynumber: 4.6 Consensus size: 10
37004 GCTGCTGGAA
*
37014 AACCGGTTTG
1 AACCGGTCTG
37024 -ACCGGTCTG
1 AACCGGTCTG
*
37033 AACCGGTTTG
1 AACCGGTCTG
37043 -ACCGGTCTG
1 AACCGGTCTG
37052 AACCGG
1 AACCGG
37058 GTTGACCTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 16 0.55
10 13 0.45
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (10 bp):
AACCGGTCTG
Found at i:37083 original size:7 final size:7
Alignment explanation
Indices: 37071--37107 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
37061 GACCTGACCC
37071 GACCGTT
1 GACCGTT
37078 GACCGTT
1 GACCGTT
37085 GACCG-T
1 GACCGTT
37091 GACCGTT
1 GACCGTT
*
37098 GACCATT
1 GACCGTT
37105 GAC
1 GAC
37108 TTTCTTTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:37095 original size:13 final size:14
Alignment explanation
Indices: 37071--37107 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
37061 GACCTGACCC
37071 GACCGTTGACCGTT
1 GACCGTTGACCGTT
37085 GACCG-TGACCGTT
1 GACCGTTGACCGTT
*
37098 GACCATTGAC
1 GACCGTTGAC
37108 TTTCTTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (14 bp):
GACCGTTGACCGTT
Found at i:41607 original size:48 final size:48
Alignment explanation
Indices: 41550--41645 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
41540 TTTCATGTAA
*
41550 AAAAAAAAGTTAGAAATTGTCTAGCTAACACTTGAGATTGGTATGATT
1 AAAAAAAAGTTAGAAATTGTCTAACTAACACTTGAGATTGGTATGATT
* *
41598 AAAACAAAGTTATAAATTGTCTAACTAACACTTGAGATTGGTATGATT
1 AAAAAAAAGTTAGAAATTGTCTAACTAACACTTGAGATTGGTATGATT
41646 TAATGGCCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (48 bp):
AAAAAAAAGTTAGAAATTGTCTAACTAACACTTGAGATTGGTATGATT
Found at i:41898 original size:27 final size:27
Alignment explanation
Indices: 41868--41937 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
41858 ATGATCTACT
*
41868 TACACAATATAAAATTCTTTAGTTTTA
1 TACACAATGTAAAATTCTTTAGTTTTA
41895 TACACAATGTAAAATTCTTTAGTTTTA
1 TACACAATGTAAAATTCTTTAGTTTTA
41922 TACACAATGTAAAATT
1 TACACAATGTAAAATT
41938 GTTTGATGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.41
Consensus pattern (27 bp):
TACACAATGTAAAATTCTTTAGTTTTA
Found at i:42577 original size:16 final size:16
Alignment explanation
Indices: 42541--42583 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
42531 TATGTCTCGT
*
42541 TAAAACCTTACTAAGA
1 TAAAACCTTACGAAGA
42557 TAAAACCTTATCGAAGA
1 TAAAACCTTA-CGAAGA
* *
42574 AAAAATCTTA
1 TAAAACCTTA
42584 ATGAAGGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (16 bp):
TAAAACCTTACGAAGA
Found at i:44099 original size:21 final size:21
Alignment explanation
Indices: 44073--44117 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
44063 TGTTGTAATC
44073 ACAATAGTATGTATCGTGATA
1 ACAATAGTATGTATCGTGATA
44094 ACAATAGTATGTATCGTGATA
1 ACAATAGTATGTATCGTGATA
44115 ACA
1 ACA
44118 GCAGGGCTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (21 bp):
ACAATAGTATGTATCGTGATA
Found at i:48627 original size:14 final size:14
Alignment explanation
Indices: 48608--48641 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
48598 CTATTAGGAT
48608 GCATATAAGTTTTG
1 GCATATAAGTTTTG
48622 GCATATAAGTTTTG
1 GCATATAAGTTTTG
48636 GCATAT
1 GCATAT
48642 TCATATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (14 bp):
GCATATAAGTTTTG
Found at i:51151 original size:13 final size:13
Alignment explanation
Indices: 51129--51158 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51119 TGAGAAATCA
*
51129 CAAGATCAGTTTG
1 CAAGAGCAGTTTG
51142 CAAGAGCAGTTTG
1 CAAGAGCAGTTTG
51155 CAAG
1 CAAG
51159 GCGCATCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (13 bp):
CAAGAGCAGTTTG
Found at i:53259 original size:20 final size:19
Alignment explanation
Indices: 53234--53282 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
53224 GAGAAAGAAG
53234 AGAAAAGTAGAAAGA-GAAAA
1 AGAAAAG-A-AAAGATGAAAA
53254 AGAAAAGAAAAGATGAAAA
1 AGAAAAGAAAAGATGAAAA
*
53273 A-AAGAGAAAA
1 AGAAAAGAAAA
53283 AATTGGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 13 0.48
19 7 0.26
20 7 0.26
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (19 bp):
AGAAAAGAAAAGATGAAAA
Found at i:54894 original size:124 final size:125
Alignment explanation
Indices: 54682--54916 Score: 334
Period size: 124 Copynumber: 1.9 Consensus size: 125
54672 GTTGGGGCAC
* * *
54682 GACTGAACCCACATCATGTTGAGATGGCAAGATTCAGACCAATGAGGCATGAAGAATGAGCCTTA
1 GACTGAACCCACATCATATTGAGATGGAAAGATTCAGACCAATGAGGCATGAAGAATAAGCCTTA
* *
54747 CAATTTGAGGTGATGAGGCATTTTGAAGGCCCATACCAGT-TAAGACGCTGATGGGGAAT
66 CAATCTGAGATGATGAGGCATTTTGAAGGCCCATACCAGTATAAGACGCTGATGGGGAAT
* * *
54806 GACTGAACCCACATCATATTGAGA-GGAAAAGATTTAGACCAA-GAAGGCATTAAGAGTAAGCCT
1 GACTGAACCCACATCATATTGAGATGG-AAAGATTCAGACCAATG-AGGCATGAAGAATAAGCCT
*
54869 TACAATCTGAGAT-ATTGTGGCATTTTGAAGGCCCATACCAGTATAAGA
64 TACAATCTGAGATGA-TGAGGCATTTTGAAGGCCCATACCAGTATAAGA
54917 TGATGTTGCG
Statistics
Matches: 98, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
123 4 0.04
124 89 0.91
125 5 0.05
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (125 bp):
GACTGAACCCACATCATATTGAGATGGAAAGATTCAGACCAATGAGGCATGAAGAATAAGCCTTA
CAATCTGAGATGATGAGGCATTTTGAAGGCCCATACCAGTATAAGACGCTGATGGGGAAT
Found at i:56730 original size:51 final size:51
Alignment explanation
Indices: 56671--58614 Score: 2190
Period size: 51 Copynumber: 37.3 Consensus size: 51
56661 GTGAAGCTAA
56671 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * *
56722 GAAGATGTTCGAGTTCCATATTCCCTAGAGAAAAAGGGAGCAAACCCGTGT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * * *
56773 GAAGTTATTGGAGTTCTATATTTCCT-GAAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* * *
56824 GAAGAAGATGTCCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
56878 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
*
56932 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* *
56983 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCGTGT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * *
57034 GAAGTTATTGGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* *
57085 GAAGATGTTCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
57136 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * *
57190 AAAGATGTTCGAGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCGTGT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * * *
57241 GAAGTTATTGGAGTTCTATACTTCCT-GAAGAAACAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* * * *
57292 GAAGAAGATGTCCGAGTTCTATACTTCCT-GAAGAAAAAGGGAGCGAACCCGTTT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
*
57346 GAAGAAGATGTTCGAGTTCCATACTCCCTAGCGAAAGAGGGAGCGAACCCGTTT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * *
57400 GAAGATGTTCGAGTTCCATACTCCTTAGAGAAAAAGGGAGCGAATCCGTGT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * * * * *
57451 AAAGTTATTGGAATTCTATACTTCCT-GAAGAAAGAGGGAGCGAACTCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* * * *
57502 GAAGAAGATGTCCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGTGAACCCGTTT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
*
57556 GAAGAAGATTTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATG--TT-CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* *
57610 GAAGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * *
57661 GAAGATGTTCGAGTTCCATACTCCTTAGAGAAAAAGGGAGTGAACCCGTGT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * * *
57712 GAAGTTATTGGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCATTT
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* * * *
57763 GAAGAAGATGTCCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCATTT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
57817 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGAGCGAACCCGTTT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGA-GG-GAGCGAACCCGTTT
* *
57873 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCGTGT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * * *
57924 GAAGTTATTAGAGTTCTATACTTCCT-GAAGAAACAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* * * *
57975 GAAGAATATGTCCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCTGTTT
1 GAAG---ATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
58029 GAGGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * *
58083 AAAGATGTTCGAGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCGTGT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * *
58134 GAAGTTATTGGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
58185 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* *
58239 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCGTGT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * *
58290 GAAGTTATTTGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
*
58341 GAAGAATATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
1 GAAG---ATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
*
58395 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * **
58446 GAAGATGTTCGAGTTCCATACTCCTTAGAGAAAAAGGGAGTGAACCCGCGT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * * * * * **
58497 GAAGTTATTGGAGTTCTATACTTCCT-GAAGAAAGAGAGAACGAACACGTAA
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* * * * **
58548 GAAGATTTTTGAGTTCTATACTTCCTAGAGAAAGAGGGAGCGAATTCGTTT
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
*
58599 GAAGATTTTCGAGTTC
1 GAAGATGTTCGAGTTC
58615 TATATTCTCT
Statistics
Matches: 1649, Mismatches: 194, Indels: 100
0.85 0.10 0.05
Matches are distributed among these distances:
50 9 0.01
51 1003 0.61
52 5 0.00
53 35 0.02
54 570 0.35
55 10 0.01
56 13 0.01
57 4 0.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (51 bp):
GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
Found at i:57030 original size:156 final size:156
Alignment explanation
Indices: 56671--58603 Score: 2174
Period size: 156 Copynumber: 12.4 Consensus size: 156
56661 GTGAAGCTAA
56671 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT---GAAGATGTTCG
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
* * * * * * * * * *
56733 AGTTCCATATTCCCTAGAGAAAAAGGGAGCAAACCCGTGTGAAGTTATTGGAGTTCTATATTTCC
66 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCC
56798 T-GAAGAAAGAGGGAGCGAACCCGTTT
131 TAG-AGAAAGAGGGAGCGAACCCGTTT
* * *
56824 GAAGAAGATGTCCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
1 ---GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
56888 TTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATAC
62 TTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATAC
*
56953 TCCCTAGAGAAAAAGGGAGCGAACCCGTTT
127 TCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * *
56983 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCG--TG-TGAAGTTATTGG
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
* * * *
57045 AGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTTC
66 AGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCC
57109 CT-GAAGAAAGAGGGAGCGAACCCGTTT
130 CTAG-AGAAAGAGGGAGCGAACCCGTTT
57136 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT--A-AAGATGT
1 ---GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
* * * * * *
57198 TCGAGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCGTGTGAAGTTATTGGAGTTCTATACT
63 TCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACT
* *
57263 TCCT-GAAGAAACAGGGAGCGAACCCGTTT
128 CCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* * * *
57292 GAAGAAGATGTCCGAGTTCTATACTTCCT-GAAGAAAAAGGGAGCGAACCCGTTTGAAGAAGATG
1 ---GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
*
57356 TTCGAGTTCCATACTCCCTAGCGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATAC
62 TTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATAC
* * * *
57421 TCCTTAGAGAAAAAGGGAGCGAATCCGTGT
127 TCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * * * * * *
57451 AAAGTTATTGGAATTCTATACTTCCT-GAAGAAAGAGGGAGCGAACTCGTTTGAAGAAGATGTCC
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
57515 GAGTTCTATACTTCCT-GAAGAAAGAGGGAGTGAACCCGTTTGAAGAAGATTTCCGAGTTCCATA
65 GAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGATG--TT-CGAGTTCCATA
57579 CTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
126 CTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* *
57610 GAAGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTT---GAAGATGTTCG
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
* * * * * * * * *
57672 AGTTCCATACTCCTTAGAGAAAAAGGGAGTGAACCCGTGTGAAGTTATTGGAGTTCTATACTTCC
66 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCC
*
57737 T-GAAGAAAGAGGGAGCGAACCCATTT
131 TAG-AGAAAGAGGGAGCGAACCCGTTT
* * * *
57763 GAAGAAGATGTCCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATG
1 ---GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
57827 TTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGAGCGAACCCGTTTGAAGATGTTCGAGTTCCAT
62 TTCGAGTTCCATACTCCCTAGAGAAAGA-GG-GAGCGAACCCGTTTGAAGATGTTCGAGTTCCAT
* *
57892 ACTCCCTAGAGAAAAAGGGAGCGAACCCGTGT
125 ACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * * * * *
57924 GAAGTTATTAGAGTTCTATACTTCCT-GAAGAAACAGGGAGCGAACCCGTTTGAAGAATATGTCC
1 GAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
57988 GAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCTGTTTGAGGAAGATGTTCGAGTTCCATA
65 GAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT---GAAGATGTTCGAGTTCCATA
58052 CTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
126 CTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * * *
58083 AAAGATGTTCGAGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCG--TG-TGAAGTTATTGG
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
* *
58145 AGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATAC
66 AGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT---GAAGATGTTCGAGTTCCATAC
58209 TCCCTAGAGAAAGAGGGAGCGAACCCGTTT
127 TCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * **
58239 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCGTGTGAAG-TTAT-TT-G
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
* * *
58301 AGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAATATGTCCGAGTTCCATAC
66 AGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAG---ATGTTCGAGTTCCATAC
58365 TCCCTAGAGAAAGAGGGAGCGAACCCGTTT
127 TCCCTAGAGAAAGAGGGAGCGAACCCGTTT
*
58395 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTT---GAAGATGTTCG
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
* * * ** * * * * *
58457 AGTTCCATACTCCTTAGAGAAAAAGGGAGTGAACCCGCGTGAAGTTATTGGAGTTCTATACTTCC
66 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCC
* * * **
58522 T-GAAGAAAGAGAGAACGAACACGTAA
131 TAG-AGAAAGAGGGAGCGAACCCGTTT
* * * * **
58548 GAAGATTTTTGAGTTCTATACTTCCTAGAGAAAGAGGGAGCGAATTCGTTTGAAGA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGA
58604 TTTTCGAGTT
Statistics
Matches: 1544, Mismatches: 178, Indels: 110
0.84 0.10 0.06
Matches are distributed among these distances:
152 4 0.00
153 209 0.14
154 6 0.00
155 6 0.00
156 788 0.51
157 11 0.01
158 84 0.05
159 376 0.24
160 6 0.00
161 53 0.03
162 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (156 bp):
GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCC
TAGAGAAAGAGGGAGCGAACCCGTTT
Found at i:57031 original size:210 final size:208
Alignment explanation
Indices: 56669--58614 Score: 2374
Period size: 210 Copynumber: 9.3 Consensus size: 208
56659 TAGTGAAGCT
* *
56669 AAGAAGATGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCG
1 AAGAAGATGTTCGAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCG
* * * * * * * * * *
56733 AGTTCCATATTCCCTAGAGAAAAAGGGAGCAAACCCGTGTGAAGTTATTGGAGTTCTATATTTCC
65 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCC
* *
56798 T-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTATACTTCCTGAAGAAAGA
130 TAG-AGAAAAAGGGAGCGAACCCGTGTGAAGAAGAT-T-CGAGTTCTATACTTCCTGAAGAAAGA
56862 GGGAGCGAACCCGTTTG
192 GGGAGCGAACCCGTTTG
* *
56879 AAGAAGATGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCG
1 AAGAAGATGTTCGAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCG
*
56943 AGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCC
65 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCC
** *
57008 TAGAGAAAAAGGGAGCGAACCCGTGTGAAG-TTATTGGAGTTCTATACTTCCTGAAGAAAGAGGG
130 TAGAGAAAAAGGGAGCGAACCCGTGTGAAGAAGATTCGAGTTCTATACTTCCTGAAGAAAGAGGG
57072 AGCGAACCCGTTT-
195 AGCGAACCCGTTTG
57085 --GAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
1 AAGAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT---GAAGATGTT
*
57148 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTC
63 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTC
** * *
57213 CCTAGAGAAAAAGGGAGCGAACCCGTGTGAAG-TTATTGGAGTTCTATACTTCCTGAAGAAACAG
128 CCTAGAGAAAAAGGGAGCGAACCCGTGTGAAGAAGATTCGAGTTCTATACTTCCTGAAGAAAGAG
57277 GGAGCGAACCCGTTTG
193 GGAGCGAACCCGTTTG
* *
57293 AAGAAGATGTCCGAGTTCTATACTTCCTGAAGAAAAAGGGAGCGAACCCGTTTGAAGAAGATGTT
1 AAGAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT---GAAGATGTT
*
57358 CGAGTTCCATACTCCCTAGCGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTC
63 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTC
* * * ** * *
57423 CTTAGAGAAAAAGGGAGCGAATCCGTGTAAAG-TTATTGGAATTCTATACTTCCTGAAGAAAGAG
128 CCTAGAGAAAAAGGGAGCGAACCCGTGTGAAGAAGATTCGAGTTCTATACTTCCTGAAGAAAGAG
*
57487 GGAGCGAACTCGTTTG
193 GGAGCGAACCCGTTTG
* * *
57503 AAGAAGATGTCCGAGTTCTATACTTCCTGAAGAAAGAGGGAGTGAACCCGTTTGAAGAAGATTTC
1 AAGAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGATG--TT-
*
57568 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTTGAGTTCCATACTC
63 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTC
* * * * * * *
57633 CCTAGAGAAAGAGGGAGCAAACCCGTTTGAAGATG-TTCGAGTTCCATAC-TCCTTAGAGAAAAA
128 CCTAGAGAAAAAGGGAGCGAACCCGTGTGAAGAAGATTCGAGTTCTATACTTCCTGA-AGAAAGA
*
57696 GGGAGTGAACCCG--TG
192 GGGAGCGAACCCGTTTG
* * * * * *
57711 -TGAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTC
1 AAGAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT---GAAGATGTT
* * *
57775 CGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTCCAT
63 CGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT---GAAGATGTTCGAGTTCCAT
* * * * *
57839 ACTCCCTAGAGAAAGAGGGAGAGCGAACCCGTTTGAAGATG-TTCGAGTTCCATACTCCCT-AGA
124 ACTCCCTAGAGAAA-AAGG-GAGCGAACCCGTGTGAAGAAGATTCGAGTTCTATACTTCCTGA-A
*
57902 GAAAAAGGGAGCGAACCCG--TG
186 GAAAGAGGGAGCGAACCCGTTTG
* * * * * *
57923 -TGAAGTTATTAGAGTTCTATACTTCCTGAAGAAACAGGGAGCGAACCCGTTTGAAGAATATGTC
1 AAGAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAG---ATGTT
* * *
57987 CGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCTGTTTGAGGAAGATGTTCGAGTTCCAT
63 CGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT---GAAGATGTTCGAGTTCCAT
* * * * * *
58051 ACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAAAGATG-TTCGAGTTCCATACTCCCT-AGAGA
124 ACTCCCTAGAGAAAAAGGGAGCGAACCCGTGTGAAGAAGATTCGAGTTCTATACTTCCTGA-AGA
*
58114 AAAAGGGAGCGAACCCG--TG
188 AAGAGGGAGCGAACCCGTTTG
* * * *
58133 -TGAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
1 AAGAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT---GAAGATGTT
58197 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTC
63 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTC
** *
58262 CCTAGAGAAAAAGGGAGCGAACCCGTGTGAAG-TTATTTGAGTTCTATACTTCCTGAAGAAAGAG
128 CCTAGAGAAAAAGGGAGCGAACCCGTGTGAAGAAGATTCGAGTTCTATACTTCCTGAAGAAAGAG
58326 GGAGCGAACCCGTTTG
193 GGAGCGAACCCGTTTG
* * * *
58342 AAGAATATGTCCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCG
1 AAGAAGATGTTCGAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCG
* *
58406 AGTTCCATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAAGATGTTCGAGTTCCATACTCCT
65 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCC
* * ** * *
58471 TAGAGAAAAAGGGAGTGAACCCGCGTGAAG-TTATTGGAGTTCTATACTTCCTGAAGAAAGAGAG
130 TAGAGAAAAAGGGAGCGAACCCGTGTGAAGAAGATTCGAGTTCTATACTTCCTGAAGAAAGAGGG
* *
58535 AACGAACACG--T-
195 AGCGAACCCGTTTG
* * ** *
58546 AAGAAGATTTTTGAGTTCTATACTTCCT-AGAGAAAGAGGGAGCGAATTCGTTTGAAGATTTTCG
1 AAGAAGATGTTCGAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCG
58610 AGTTC
65 AGTTC
58615 TATATTCTCT
Statistics
Matches: 1586, Mismatches: 114, Indels: 78
0.89 0.06 0.04
Matches are distributed among these distances:
204 107 0.07
205 2 0.00
206 2 0.00
207 508 0.32
208 5 0.00
209 16 0.01
210 746 0.47
211 7 0.00
212 186 0.12
213 7 0.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (208 bp):
AAGAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGA
GTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCCT
AGAGAAAAAGGGAGCGAACCCGTGTGAAGAAGATTCGAGTTCTATACTTCCTGAAGAAAGAGGGA
GCGAACCCGTTTG
Found at i:58699 original size:55 final size:54
Alignment explanation
Indices: 58597--58857 Score: 373
Period size: 55 Copynumber: 4.8 Consensus size: 54
58587 GCGAATTCGT
* * * *
58597 TTGAAGATT-TTCGAGT-TCTATATTCTCTGAAGAATAGGGAACGGACACGATTG
1 TTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAATAGGGAGCAGACACGATTA
58650 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACACGATTA
1 TTGAAGATTGTTCGAGTCTTATACTCTCTG-AAGAATAGGGAGCAGACACGATTA
* *
58705 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCATACACGATTA
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAG-AATAGGGAGCAGACACGATTA
* *
58760 TTGGAGATTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAAACACGATTA
1 TTGAAGATTGTTCGAGTCTTATACTCTCTG-AAGAATAGGGAGCAGACACGATTA
* *
58815 TTGAAGTTTGTTCGAGTCTTATACTCCCTGAAGAAATAGGGAG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAG-AATAGGGAG
58858 TGAACATGTT
Statistics
Matches: 190, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
53 9 0.05
54 23 0.12
55 155 0.82
56 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (54 bp):
TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAATAGGGAGCAGACACGATTA
Found at i:64606 original size:40 final size:40
Alignment explanation
Indices: 64562--64683 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
64552 AGGTTTATAA
64562 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
64602 TAATACACTTCGGTGTATATGGTGGCCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
64642 TAAAACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
64682 TA
1 TA
64684 GCACTACGGT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:64886 original size:47 final size:44
Alignment explanation
Indices: 64788--64905 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 44
64778 GTAAGCATAC
* *
64788 AAATAAGCTTACGAGCTTTTGGAATAATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATGGGTA
* * * *
64832 AAATAAGCTTACGAGCTTATGGATTTTAAATGATAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGA--AT-AATGACAAGTATATGGGTA
*
64879 AAATAAGCTTACGAGCTTATGGGATAA
1 AAATAAGCTTACGAGCTTATGGAATAA
64906 ATGGTAAGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 24 0.38
45 1 0.02
46 1 0.02
47 37 0.59
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.32
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATGGGTA
Found at i:65445 original size:22 final size:23
Alignment explanation
Indices: 65404--65459 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 23
65394 CATCGATACA
65404 ATCACTGTTCACGGGTACTGTTC
1 ATCACTGTTCACGGGTACTGTTC
*
65427 ATCACTATTCAC-GGTACTGTTC
1 ATCACTGTTCACGGGTACTGTTC
65449 ATCACTGTTCA
1 ATCACTGTTCA
65460 TAAAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (23 bp):
ATCACTGTTCACGGGTACTGTTC
Found at i:69205 original size:19 final size:18
Alignment explanation
Indices: 69186--69232 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
69176 TGAAAGCTCA
69186 AAATCATTTTTCAAAATC
1 AAATCATTTTTCAAAATC
*
69204 AAA-CTTTGCTTTCAAAATC
1 AAATCATT--TTTCAAAATC
69223 AAATCATTTT
1 AAATCATTTT
69233 CAACTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 3 0.12
18 5 0.21
19 13 0.54
20 3 0.12
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (18 bp):
AAATCATTTTTCAAAATC
Found at i:72434 original size:2 final size:2
Alignment explanation
Indices: 72427--72480 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
72417 TTAGACACAA
72427 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
72469 AT AT AT AT AT AT
1 AT AT AT AT AT AT
72481 TAAAATGTCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72818 original size:330 final size:326
Alignment explanation
Indices: 72470--73130 Score: 1286
Period size: 330 Copynumber: 2.0 Consensus size: 326
72460 TATATATATA
72470 TATATATATATTAAAATGTCTCTAAAATTTTGATTATATAAATATAAATTTTAAAATATATTCAT
1 TATATATATATTAAAATGTCTCTAAAATTTTGATTATATAAATATAAATTTTAAAATATATTCAT
72535 TAAAAGTATATATTATGTGCATTTATTGTAAAATTAAATTGATATATTTTATGATTCTATGCTAC
66 TAAAAGTATATATTATGTGCATTTATTGTAAAATTAAA-TGATATATTTTATGATTCTATGCTAC
72600 AAGTGTGTAAAATTATGGGTAAATAAAAAATAGACGAATTTTATTTCTTTGAATTCTTATGAAAA
130 AAGTGTGTAAAATT-TGGGTAAATAAAAAATAGACGAATTTTATTTCTTTGAATTCTTATGAAAA
72665 TAGATAAATTTTAAATAATTTATAATTTTTTATTAGAATGATAGTTTGATATATAATTTATATTG
194 TAGATAAATTTTAAATAATTTATAA-TTTTTATTAGAATGATAGTTTGATATATAA-TTATATTG
72730 ACAAAAATATTAAAAATATTTGAGTTAAATTATTCAATTTTTTAAAAGCCTCCAAAAGATAATGT
257 ACAAAAATATTAAAAATATTTGAGTTAAATTATTCAATTTTTTAAAAGCCTCCAAAAGATAATGT
72795 TGAAT
322 TGAAT
72800 TATATATATATTAAAATGTCTCTAAAATTTTGATTATATAAATATAAATTTTAAAATATATTCAT
1 TATATATATATTAAAATGTCTCTAAAATTTTGATTATATAAATATAAATTTTAAAATATATTCAT
72865 TAAAAGTATATATTATGTGCATTTATTGTAAAATTAAATGATATATTTTATGATTCTATGCTACA
66 TAAAAGTATATATTATGTGCATTTATTGTAAAATTAAATGATATATTTTATGATTCTATGCTACA
72930 AGTGTGTAAAATTTGGGTAAATAAAAAATAGACGAATTTTATTTCTTTGAATTCTTATGAAAATA
131 AGTGTGTAAAATTTGGGTAAATAAAAAATAGACGAATTTTATTTCTTTGAATTCTTATGAAAATA
72995 GATAAATTTTAAATAATTTATAATTTTTATTAGAATGATAGTTTGATATATAATTATATTGACAA
196 GATAAATTTTAAATAATTTATAATTTTTATTAGAATGATAGTTTGATATATAATTATATTGACAA
73060 AAATATTAAAAATATTTGAGTTAAATTATTCAATTTTTTAAAAGCCTCCAAAAGATAATGTTGAA
261 AAATATTAAAAATATTTGAGTTAAATTATTCAATTTTTTAAAAGCCTCCAAAAGATAATGTTGAA
73125 T
326 T
73126 TATAT
1 TATAT
73131 CACTAGTTTA
Statistics
Matches: 331, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
326 83 0.25
327 30 0.09
328 75 0.23
329 40 0.12
330 103 0.31
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (326 bp):
TATATATATATTAAAATGTCTCTAAAATTTTGATTATATAAATATAAATTTTAAAATATATTCAT
TAAAAGTATATATTATGTGCATTTATTGTAAAATTAAATGATATATTTTATGATTCTATGCTACA
AGTGTGTAAAATTTGGGTAAATAAAAAATAGACGAATTTTATTTCTTTGAATTCTTATGAAAATA
GATAAATTTTAAATAATTTATAATTTTTATTAGAATGATAGTTTGATATATAATTATATTGACAA
AAATATTAAAAATATTTGAGTTAAATTATTCAATTTTTTAAAAGCCTCCAAAAGATAATGTTGAA
T
Found at i:88588 original size:23 final size:23
Alignment explanation
Indices: 88562--88609 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
88552 ATAAAGTACA
*
88562 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
88585 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
88608 AT
1 AT
88610 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:89062 original size:23 final size:23
Alignment explanation
Indices: 89036--89098 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
89026 ATATAACCAC
89036 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
89059 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
89082 TACCTATTACATCATAT
1 TACCTATTACATTATAT
89099 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:89557 original size:39 final size:39
Alignment explanation
Indices: 89503--89589 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
89493 TCAAGTTGTA
*
89503 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
89542 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
89581 GATTTTGAT
1 GATTTTGAT
89590 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:89872 original size:18 final size:18
Alignment explanation
Indices: 89849--89885 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
89839 CGAAATATAT
89849 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
89867 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
89885 A
1 A
89886 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:90307 original size:25 final size:25
Alignment explanation
Indices: 90273--90323 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
90263 TTTTTCCAAA
*
90273 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
90298 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
90323 T
1 T
90324 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:90654 original size:23 final size:23
Alignment explanation
Indices: 90591--90663 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
90581 ACACTTTACA
* *
90591 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
90614 ATATAAACGATACATATTACATT
1 ATATAAACGCTACCTATTACATT
** *
90637 ATATAAGGGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
90660 ATAT
1 ATAT
90664 GTTTACCTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:90977 original size:229 final size:229
Alignment explanation
Indices: 90695--91172 Score: 823
Period size: 229 Copynumber: 2.1 Consensus size: 229
90685 TGTCCATACT
*
90695 TTTTATAAAAATGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTTTTTAACAG
1 TTTTATAAAAATGATAGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTTTTTAACAG
**
90760 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAAATTTTATTTGATT
66 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATT
*
90825 GTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAATATAATAAT
131 GTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
*
90890 AAATATGTTTTCAACAGTGAAATAAGTATGGACAC
196 AAATATATTTTC-ACAGTGAAATAAGTATGGACAC
* * *
90925 TTTTATAAAAATGATATATAC-TTTTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAG
1 TTTTATAAAAATGATAGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTTTTTAACAG
*
90989 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATT
66 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATT
* *
91054 GTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAAT
131 GTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
*
91119 AAATATATTTTCACTGTGAAATAAGTATGGACAC
196 AAATATATTTTCACAGTGAAATAAGTATGGACAC
*
91153 TTTTATAAAAAGGATAGATA
1 TTTTATAAAAATGATAGATA
91173 ATTTACAATA
Statistics
Matches: 234, Mismatches: 14, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
228 39 0.17
229 176 0.75
230 19 0.08
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (229 bp):
TTTTATAAAAATGATAGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTTTTTAACAG
TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATT
GTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
AAATATATTTTCACAGTGAAATAAGTATGGACAC
Found at i:92297 original size:25 final size:25
Alignment explanation
Indices: 92261--92325 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
92251 AGACAATTGA
92261 ATTC-TTTTATAATGATCTTTCTCG
1 ATTCTTTTTATAATGATCTTTCTCG
92285 ATTCTTTTTATAATGATCTTTCTCG
1 ATTCTTTTTATAATGATCTTTCTCG
92310 ATTCTTTTTATAATGA
1 ATTCTTTTTATAATGA
92326 ATTCTTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 4 0.10
25 36 0.90
ACGTcount: A:0.23, C:0.14, G:0.08, T:0.55
Consensus pattern (25 bp):
ATTCTTTTTATAATGATCTTTCTCG
Found at i:92331 original size:16 final size:16
Alignment explanation
Indices: 92310--92341 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
92300 ATCTTTCTCG
92310 ATTCTTTTTATAATGA
1 ATTCTTTTTATAATGA
92326 ATTCTTTTTATAATGA
1 ATTCTTTTTATAATGA
92342 TCATTATCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTCTTTTTATAATGA
Found at i:92918 original size:11 final size:11
Alignment explanation
Indices: 92902--92926 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
92892 AATAATTAAA
92902 ATAATATATTT
1 ATAATATATTT
92913 ATAATATATTT
1 ATAATATATTT
92924 ATA
1 ATA
92927 TTTTTAATAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATAATATATTT
Found at i:98353 original size:17 final size:18
Alignment explanation
Indices: 98316--98356 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
98306 ATATTATGTA
*
98316 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
98334 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
98351 TTTACT
1 TTTACT
98357 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:100063 original size:18 final size:18
Alignment explanation
Indices: 100036--100075 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
100026 ACAGCAGCCA
* *
100036 CCGCAGCCATTTATGATG
1 CCGCAACCATATATGATG
100054 CCGCAACCATATATGATG
1 CCGCAACCATATATGATG
100072 CCGC
1 CCGC
100076 CATCGCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (18 bp):
CCGCAACCATATATGATG
Found at i:100312 original size:9 final size:9
Alignment explanation
Indices: 100298--100322 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
100288 GCGATGTCTG
100298 AGTTTTCCC
1 AGTTTTCCC
100307 AGTTTTCCC
1 AGTTTTCCC
100316 AGTTTTC
1 AGTTTTC
100323 GTAGGTCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.28, G:0.12, T:0.48
Consensus pattern (9 bp):
AGTTTTCCC
Found at i:100633 original size:26 final size:24
Alignment explanation
Indices: 100562--100633 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 24
100552 TTATATTTGT
100562 ATTTACTTTATTTTGTTTAATTATA
1 ATTTACTTTATTTTGTTTAATT-TA
*
100587 ATTT--TTTATTTT-TTCTCATTTA
1 ATTTACTTTATTTTGTT-TAATTTA
*
100609 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTTAATTT
100634 GTTGGACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
22 6 0.16
23 12 0.32
24 2 0.05
25 4 0.11
26 12 0.32
27 2 0.05
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTTAATTTA
Found at i:106676 original size:15 final size:15
Alignment explanation
Indices: 106658--106706 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 15
106648 TATTTTTTAA
106658 AAAAAATTCTAATTT
1 AAAAAATTCTAATTT
**
106673 AAAAAATAATAATTTT
1 AAAAAATTCTAA-TTT
*
106689 TAAAAATTCTAA-TT
1 AAAAAATTCTAATTT
106703 AAAA
1 AAAA
106707 TAGGAATCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
14 5 0.19
15 10 0.37
16 12 0.44
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAAATTCTAATTT
Found at i:106676 original size:16 final size:16
Alignment explanation
Indices: 106657--106706 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
106647 ATATTTTTTA
106657 AAAAAAATTCTAATTT
1 AAAAAAATTCTAATTT
**
106673 -AAAAAATAATAATTT
1 AAAAAAATTCTAATTT
**
106688 TTAAAAATTCTAA-TT
1 AAAAAAATTCTAATTT
106703 AAAA
1 AAAA
106707 TAGGAATCAC
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAAAAATTCTAATTT
Found at i:106768 original size:45 final size:44
Alignment explanation
Indices: 106717--106808 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
106707 TAGGAATCAC
* *
106717 AAATTTTTTTAAAAAATCAATATTAAAAAAAATCCT-TAATTTAAA
1 AAATTTTATGAAAAAATCAA-ATTAAAAAAAATCCTCTAA-TTAAA
* ** *
106762 AAATTTTATGAAAAATTGTAATTAAAAAAAATTCTCTAATTAAA
1 AAATTTTATGAAAAAATCAAATTAAAAAAAATCCTCTAATTAAA
106806 AAA
1 AAA
106809 GTTATTGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
44 22 0.55
45 18 0.45
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (44 bp):
AAATTTTATGAAAAAATCAAATTAAAAAAAATCCTCTAATTAAA
Found at i:107101 original size:20 final size:20
Alignment explanation
Indices: 107071--107445 Score: 164
Period size: 20 Copynumber: 18.6 Consensus size: 20
107061 ATAACCAACA
*
107071 AATTT-GCAACACGAACTTC
1 AATTTCGCAACACGAATTTC
*
107090 AATTTCGCAACAC-AGTTTCC
1 AATTTCGCAACACGAATTT-C
*
107110 AAATTCGCAACACGGAATTTC
1 AATTTCGCAACAC-GAATTTC
*
107131 GAA-TTCGCAACTCG-ATTTC
1 -AATTTCGCAACACGAATTTC
* *
107150 TGAA-TTCGCAACGCGGATTTGAC
1 --AATTTCGCAACACGAATTT--C
**
107173 AATTTCGCAATGCGAATTTC
1 AATTTCGCAACACGAATTTC
* * *
107193 -TTTTACGCAACGCGATTTTC
1 AATTT-CGCAACACGAATTTC
* * * *
107213 AAATTCGCAACATGAACTCC
1 AATTTCGCAACACGAATTTC
* *
107233 AATTT-GACAACGC-ATTTTCC
1 AATTTCG-CAACACGAATTT-C
*
107253 AAATTCGCAACACGAAATTTC
1 AATTTCGCAACACG-AATTTC
* *
107274 AAATTCGCAACTCG-ATTTC
1 AATTTCGCAACACGAATTTC
* * *
107293 TGGA-TTCGCAACGCGAATCTC
1 --AATTTCGCAACACGAATTTC
**
107314 TTTTTCGCAACACGAATTTC
1 AATTTCGCAACACGAATTTC
**
107334 TTTTTCGCAACAC-AAGTTTC
1 AATTTCGCAACACGAA-TTTC
** * *
107354 CTTTTCGCAACAAGATTTTC
1 AATTTCGCAACACGAATTTC
*
107374 TAA-TTCGCAACACGAATTTT
1 -AATTTCGCAACACGAATTTC
** * * *
107394 GTTTTCGCAACTCCATTTTC
1 AATTTCGCAACACGAATTTC
* *
107414 GAA-TTCGCAACACGACTTTT
1 -AATTTCGCAACACGAATTTC
107434 AATTTCGCAACA
1 AATTTCGCAACA
107446 ACTTTTATTT
Statistics
Matches: 274, Mismatches: 55, Indels: 53
0.72 0.14 0.14
Matches are distributed among these distances:
19 28 0.10
20 182 0.66
21 39 0.14
22 24 0.09
23 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (20 bp):
AATTTCGCAACACGAATTTC
Found at i:107393 original size:143 final size:142
Alignment explanation
Indices: 107069--107393 Score: 350
Period size: 143 Copynumber: 2.3 Consensus size: 142
107059 AAATAACCAA
* * * * * *
107069 CAAATTTGCAACACGAACTTCAATTTCGCAACAC-AGTTTCCAAATTCGCAACACGGAATTTCGA
1 CAAATTCGCAACAAGAACTCCAA-TTCGCAACACGATTTTCCAAATTCGCAACACGAAATTTCAA
* * **
107133 ATTCGCAACTCGATTTCTGAATTCGCAACGCGGATTTGACAATTTCGCAATGCGAATTTCTTTTA
65 ATTCGCAACTCGATTTCTGAATTCGCAACGCGAATCT-ACAATTTCGCAACACGAATTTCTTTTA
* * *
107198 CGCAACGCGATTTT
129 CGCAACACAAGTTT
* * *
107212 CAAATTCGCAACATGAACTCCAATTTGACAACGC-ATTTTCCAAATTCGCAACACGAAATTTCAA
1 CAAATTCGCAACAAGAACTCCAATTCG-CAACACGATTTTCCAAATTCGCAACACGAAATTTCAA
* ** *
107276 ATTCGCAACTCGATTTCTGGATTCGCAACGCGAATCT-CTTTTTCGCAACACGAATTTCTTTTTC
65 ATTCGCAACTCGATTTCTGAATTCGCAACGCGAATCTACAATTTCGCAACACGAATTTCTTTTAC
107340 GCAACACAAGTTT
130 GCAACACAAGTTT
*** ** *
107353 CCTTTTCGCAACAAGATTTTCTAATTCGCAACACGAATTTT
1 CAAATTCGCAACAAGA-ACTCCAATTCGCAACACG-ATTTT
107394 GTTTTCGCAA
Statistics
Matches: 150, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
141 49 0.33
142 10 0.07
143 91 0.61
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.31
Consensus pattern (142 bp):
CAAATTCGCAACAAGAACTCCAATTCGCAACACGATTTTCCAAATTCGCAACACGAAATTTCAAA
TTCGCAACTCGATTTCTGAATTCGCAACGCGAATCTACAATTTCGCAACACGAATTTCTTTTACG
CAACACAAGTTT
Found at i:107451 original size:18 final size:19
Alignment explanation
Indices: 107417--107465 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
107407 CATTTTCGAA
107417 TTCGCAACACGACTTTTAAT
1 TTCGCAACAC-ACTTTTAAT
*
107437 TTCGCAACA-ACTTTTATT
1 TTCGCAACACACTTTTAAT
*
107455 TTTGCAACACA
1 TTCGCAACACA
107466 AATGTTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 16 0.62
19 1 0.04
20 9 0.35
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (19 bp):
TTCGCAACACACTTTTAAT
Found at i:108208 original size:12 final size:12
Alignment explanation
Indices: 108187--108220 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
108177 ACCACATTTC
*
108187 CAATACCAAACA
1 CAATATCAAACA
108199 CAATATCAAACA
1 CAATATCAAACA
*
108211 CAATCTCAAA
1 CAATATCAAA
108221 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:110683 original size:18 final size:18
Alignment explanation
Indices: 110660--110695 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
110650 AAGCAAAAGG
*
110660 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
110678 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
110696 CAACTGGCTT
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:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:110962 original size:20 final size:20
Alignment explanation
Indices: 110939--110986 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
110929 TCCGATTCGT
* *
110939 AACGCGAAAGTCAAATTCAC
1 AACGCGAAAATAAAATTCAC
* *
110959 AACGCAAAAATAAAATTCGC
1 AACGCGAAAATAAAATTCAC
110979 AACGCGAA
1 AACGCGAA
110987 TTTGATTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.23, G:0.15, T:0.12
Consensus pattern (20 bp):
AACGCGAAAATAAAATTCAC
Found at i:112541 original size:21 final size:21
Alignment explanation
Indices: 112515--112555 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
112505 AGTATGCCAT
*
112515 GTGGATCCTGAACGGTGGGAA
1 GTGGATCCTGAACGATGGGAA
112536 GTGGATCCTGAACGATGGGA
1 GTGGATCCTGAACGATGGGA
112556 GGGGCCTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.41, T:0.20
Consensus pattern (21 bp):
GTGGATCCTGAACGATGGGAA
Found at i:112600 original size:21 final size:21
Alignment explanation
Indices: 112576--112622 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
112566 GAACGATGAC
*
112576 AGGTGAATCTTAAACAATGGG
1 AGGTGAATCCTAAACAATGGG
* * *
112597 AGGTGGATCCTGAACAATGGT
1 AGGTGAATCCTAAACAATGGG
112618 AGGTG
1 AGGTG
112623 TATCGAGCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.34, T:0.23
Consensus pattern (21 bp):
AGGTGAATCCTAAACAATGGG
Found at i:113016 original size:42 final size:43
Alignment explanation
Indices: 112923--113019 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 43
112913 CATAGAGCAG
112923 ATACCTCATCACGTAAAGAAAATACCTCACCACGTAAAGCACC
1 ATACCTCATCACGTAAAGAAAATACCTCACCACGTAAAGCACC
** ** *
112966 AT-TGTCATCACGTAAA-ACATCTACCTCACTACGTAAAG-ACC
1 ATACCTCATCACGTAAAGA-AAATACCTCACCACGTAAAGCACC
*
113007 CTACCTCATCACG
1 ATACCTCATCACG
113020 CCATGCACCA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
41 5 0.11
42 37 0.84
43 2 0.05
ACGTcount: A:0.37, C:0.33, G:0.09, T:0.21
Consensus pattern (43 bp):
ATACCTCATCACGTAAAGAAAATACCTCACCACGTAAAGCACC
Found at i:113060 original size:21 final size:21
Alignment explanation
Indices: 112924--113065 Score: 87
Period size: 21 Copynumber: 6.8 Consensus size: 21
112914 ATAGAGCAGA
* **
112924 TACCTCATCACGTAAAGAAAA
1 TACCTCATCACGTAAAGCACC
*
112945 TACCTCACCACGTAAAGCACC
1 TACCTCATCACGTAAAGCACC
** * *
112966 -ATTGTCATCACGTAAAACATC
1 TA-CCTCATCACGTAAAGCACC
112987 TACCTCA-CTACGTAAAG-ACCC
1 TACCTCATC-ACGTAAAGCA-CC
** *
113008 TACCTCATCACGCCATGCACC
1 TACCTCATCACGTAAAGCACC
*
113029 ATTA--TCGTCACGTAAAGCACC
1 --TACCTCATCACGTAAAGCACC
*
113050 GACCTCATCACGTAAA
1 TACCTCATCACGTAAA
113066 AAACTGACCT
Statistics
Matches: 89, Mismatches: 22, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
19 1 0.01
20 3 0.03
21 80 0.90
22 3 0.03
23 2 0.02
ACGTcount: A:0.35, C:0.34, G:0.11, T:0.20
Consensus pattern (21 bp):
TACCTCATCACGTAAAGCACC
Found at i:113074 original size:21 final size:21
Alignment explanation
Indices: 113036--113085 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
113026 ACCATTATCG
**
113036 TCACGTAAAGCACCGACCTCA
1 TCACGTAAAAAACCGACCTCA
* *
113057 TCACGTAAAAAACTGACCTCG
1 TCACGTAAAAAACCGACCTCA
*
113078 TTACGTAA
1 TCACGTAA
113086 CTCCCCTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.30, G:0.14, T:0.20
Consensus pattern (21 bp):
TCACGTAAAAAACCGACCTCA
Found at i:113076 original size:63 final size:63
Alignment explanation
Indices: 112925--113076 Score: 164
Period size: 63 Copynumber: 2.4 Consensus size: 63
112915 TAGAGCAGAT
* * * * *
112925 ACCTCATCACGTAAAGAAAATACCTCACCACGTAAAGCACCATTGTCATCACGTAAAACATCT
1 ACCTCATCACGTAAAGAAACTACCTCACCACGCAAAGCACCATTATCATCACGTAAAACACCG
** * * * * *
112988 ACCTCA-CTACGTAAAGACCCTACCTCATCACGCCATGCACCATTATCGTCACGTAAAGCACCG
1 ACCTCATC-ACGTAAAGAAACTACCTCACCACGCAAAGCACCATTATCATCACGTAAAACACCG
113051 ACCTCATCACGTAAA-AAACTGACCTC
1 ACCTCATCACGTAAAGAAACT-ACCTC
113077 GTTACGTAAC
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
62 4 0.06
63 67 0.93
64 1 0.01
ACGTcount: A:0.36, C:0.34, G:0.11, T:0.20
Consensus pattern (63 bp):
ACCTCATCACGTAAAGAAACTACCTCACCACGCAAAGCACCATTATCATCACGTAAAACACCG
Found at i:113267 original size:42 final size:42
Alignment explanation
Indices: 113200--113303 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
113190 ATGATGGAAT
* *
113200 AGGTGATGGCTCTCGCTATCGAGGTG-TAGAAT-CGACTCGATC
1 AGGTGATGGCTCTCGATGTCGAGGTGCT-GAATCCG-CTCGATC
* * **
113242 AGGTGATGGCTCTCGGTGTCTAGGTGCTGGCTCCGCTCGATC
1 AGGTGATGGCTCTCGATGTCGAGGTGCTGAATCCGCTCGATC
*
113284 AGGTGATGGATCTCGATGTC
1 AGGTGATGGCTCTCGATGTC
113304 AAAGTAGAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 50 0.94
43 3 0.06
ACGTcount: A:0.16, C:0.22, G:0.34, T:0.28
Consensus pattern (42 bp):
AGGTGATGGCTCTCGATGTCGAGGTGCTGAATCCGCTCGATC
Found at i:113287 original size:21 final size:22
Alignment explanation
Indices: 113235--113298 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
113225 GTAGAATCGA
113235 CTCGATCAGGTGATGGCTCTCG
1 CTCGATCAGGTGATGGCTCTCG
* *
113257 GT-G-TCTAGGTGCTGGCTC-CG
1 CTCGATC-AGGTGATGGCTCTCG
*
113277 CTCGATCAGGTGATGGATCTCG
1 CTCGATCAGGTGATGGCTCTCG
113299 ATGTCAAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
20 5 0.15
21 23 0.70
22 5 0.15
ACGTcount: A:0.12, C:0.25, G:0.34, T:0.28
Consensus pattern (22 bp):
CTCGATCAGGTGATGGCTCTCG
Found at i:114877 original size:20 final size:20
Alignment explanation
Indices: 114795--114868 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
114785 GTTTATTCTT
* * *
114795 GAAAATTAAATTCGCAACAC
1 GAAAATAAAATTTGCAACGC
* * * * *
114815 AAAAATGAAATTCGTAACGT
1 GAAAATAAAATTTGCAACGC
114835 GAAAATAAAATTTGCAACGC
1 GAAAATAAAATTTGCAACGC
114855 GAAAACTAAAATTT
1 GAAAA-TAAAATTT
114869 CATTGCGAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
20 35 0.81
21 8 0.19
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (20 bp):
GAAAATAAAATTTGCAACGC
Found at i:114894 original size:20 final size:19
Alignment explanation
Indices: 114871--114933 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 19
114861 TAAAATTTCA
*
114871 TTGCGAATTTTATTTTCGCG
1 TTGCGAA-TTTATTTTCGTG
114891 TTGCG-A--T--TTTCGTG
1 TTGCGAATTTATTTTCGTG
114905 TTGCGAATTTCATTTTCGTG
1 TTGCGAATTT-ATTTTCGTG
114925 TTGCGAATT
1 TTGCGAATT
114934 AAGTTTCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
14 11 0.31
15 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 21 0.58
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.49
Consensus pattern (19 bp):
TTGCGAATTTATTTTCGTG
Found at i:114901 original size:14 final size:14
Alignment explanation
Indices: 114882--114915 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
114872 TGCGAATTTT
114882 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
*
114896 ATTTTCGTGTTGCG
1 ATTTTCGCGTTGCG
*
114910 AATTTC
1 ATTTTC
114916 ATTTTCGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:115299 original size:22 final size:22
Alignment explanation
Indices: 115269--115319 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
115259 ATAGAGGGAG
* * *
115269 GTCGTCGGATATGGGGACGGAT
1 GTCGCCGGAGATGGGGACAGAT
115291 GTCGCCGGAGATGGGGACAGAT
1 GTCGCCGGAGATGGGGACAGAT
115313 GTCGCCG
1 GTCGCCG
115320 TAGAGAGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.18, C:0.20, G:0.45, T:0.18
Consensus pattern (22 bp):
GTCGCCGGAGATGGGGACAGAT
Found at i:115451 original size:26 final size:26
Alignment explanation
Indices: 115412--115461 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
115402 ATTTGTGTTG
* * * *
115412 CGAAATTAATATTCGTGTTTCGAATT
1 CGAAAATAAAATTCGCGTTGCGAATT
115438 CGAAAATAAAATTCGCGTTGCGAA
1 CGAAAATAAAATTCGCGTTGCGAA
115462 ATAAACGCGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (26 bp):
CGAAAATAAAATTCGCGTTGCGAATT
Found at i:116458 original size:14 final size:15
Alignment explanation
Indices: 116438--116475 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
116428 TAATATAATT
116438 TTTTATTTATGAATA
1 TTTTATTTATGAATA
*
116453 -TTTATTT-TGATTA
1 TTTTATTTATGAATA
116466 TTTTATTTAT
1 TTTTATTTAT
116476 AATTTTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (15 bp):
TTTTATTTATGAATA
Found at i:116491 original size:19 final size:21
Alignment explanation
Indices: 116456--116494 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
116446 ATGAATATTT
116456 ATTTTGATTATTTTATTTATA
1 ATTTTGATTATTTTATTTATA
116477 ATTTTGA-TA-TTTATTTAT
1 ATTTTGATTATTTTATTTAT
116495 TTTATTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
ATTTTGATTATTTTATTTATA
Found at i:118046 original size:20 final size:21
Alignment explanation
Indices: 118021--118062 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
118011 TTACTTGAAA
*
118021 TAAAAAATTA-TGTAATGTTT
1 TAAAAAATTATTGTAATATTT
*
118041 TAAAAACTTATTGTAATATTT
1 TAAAAAATTATTGTAATATTT
118062 T
1 T
118063 TTTAGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAAAAATTATTGTAATATTT
Found at i:118194 original size:53 final size:52
Alignment explanation
Indices: 118102--118231 Score: 179
Period size: 53 Copynumber: 2.5 Consensus size: 52
118092 TAGTTAATTG
* * *
118102 AACTTGTAAAAATATATAGTTAATGAAAAATTATGTAATGTTGAGTTAAGCT
1 AACTTGCAAAAATATATAGTTAATGAAAAAGTATGTAATGTTGAGTTAAGCA
* *
118154 AACTTGCAAAAATATATTAGTTGATGAAAAAGTATGTAATGTTGAGTTAATCA
1 AACTTGCAAAAATATA-TAGTTAATGAAAAAGTATGTAATGTTGAGTTAAGCA
* *
118207 AACTTGCAAAATATGTTTAGTTAAT
1 AACTTGCAAAA-ATATATAGTTAAT
118232 CGGAAAAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
52 15 0.22
53 50 0.74
54 3 0.04
ACGTcount: A:0.43, C:0.05, G:0.15, T:0.36
Consensus pattern (52 bp):
AACTTGCAAAAATATATAGTTAATGAAAAAGTATGTAATGTTGAGTTAAGCA
Found at i:121596 original size:13 final size:13
Alignment explanation
Indices: 121578--121603 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
121568 GAAGAGGGAG
121578 GAAATGAAGAAGA
1 GAAATGAAGAAGA
121591 GAAATGAAGAAGA
1 GAAATGAAGAAGA
121604 TGGAGAGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (13 bp):
GAAATGAAGAAGA
Done.