Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_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: 5800122
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 26
Found at i:2702589 original size:30 final size:30
Alignment explanation
Indices: 2702531--2702603 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
2702521 TAACATACAT
2702531 TAATAGGACTAAAATAGAAATACATAAACA
1 TAATAGGACTAAAATAGAAATACATAAACA
*
2702561 TAAT-GGACTAAATTAGTAAA-AGCATAAAC-
1 TAATAGGACTAAAATAG-AAATA-CATAAACA
* *
2702590 TAACAGGGCTAAAA
1 TAATAGGACTAAAA
2702604 AGTAATTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.21
Consensus pattern (30 bp):
TAATAGGACTAAAATAGAAATACATAAACA
Found at i:2702845 original size:76 final size:75
Alignment explanation
Indices: 2702758--2702921 Score: 213
Period size: 76 Copynumber: 2.2 Consensus size: 75
2702748 GTAAAATAAG
* * ** *
2702758 GACTAAAATAAAAGATTTATAAATGTGGTGGCCATATTCGAATATCAAAG-AAACATACATGAAA
1 GACTAAAATAAAAGATTTAAAAATCTCATGGCCATATTCGAATAGCAAAGAAAACATACA--AAA
2702822 TATTAAATCAGT
64 TATTAAATCAGT
* * * * *
2702834 GACTAAAATAAAATATTTAAAAATCTCATGGTCATATTTGAATAGCAAGGAAAATATACAAAATA
1 GACTAAAATAAAAGATTTAAAAATCTCATGGCCATATTCGAATAGCAAAGAAAACATACAAAATA
2702899 TTAAATCAGT
66 TTAAATCAGT
2702909 GACTAAAATAAAA
1 GACTAAAATAAAA
2702922 CTATTACAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
75 28 0.36
76 41 0.53
77 8 0.10
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (75 bp):
GACTAAAATAAAAGATTTAAAAATCTCATGGCCATATTCGAATAGCAAAGAAAACATACAAAATA
TTAAATCAGT
Found at i:2704226 original size:3 final size:3
Alignment explanation
Indices: 2704192--2704279 Score: 133
Period size: 3 Copynumber: 29.3 Consensus size: 3
2704182 TGTAATATAT
* **
2704192 TAA TAA CAA TAA TTAA TAA GCA TAA T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2704237 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2704280 TACAATTAGA
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
2 2 0.03
3 72 0.94
4 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2704748 original size:134 final size:133
Alignment explanation
Indices: 2704479--2704838 Score: 486
Period size: 134 Copynumber: 2.7 Consensus size: 133
2704469 GTTCGGGTCG
* * * * * * *
2704479 TCTAAGGGTGACATGGTTCCTACGTGATGAGGAAATCTGGTCGAGGGTTGACACTGCTCATACGT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
* * *
2704544 GATGAAGAGTTCTTGGCCATCTTTAGGAATGGTGATAACTCGGTTCCTACGCAATGAGGACAACT
66 GATGAGGAG-AC-TGGCCATCTTTAGGAATGGTGATAACTCGGCTCCTACGCAATGAGGACAACT
2704609 AGTTA
129 AGTTA
* *
2704614 TCTAGGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
* * * * ** * *
2704679 GTTGAGGACGGCTGGCCATCTTTAGGAGTGGTGATAGCTCGGCTCCTACGTGATGAGGACGACTG
66 GATGAGGA-GACTGGCCATCTTTAGGAATGGTGATAACTCGGCTCCTACGCAATGAGGACAACTA
2704744 GTTA
130 GTTA
* *
2704748 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTAGAGGGATGACACGGTTCCTACGT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
2704813 GATGAGGATGACTGGCCATCTTTAGG
66 GATGAGGA-GACTGGCCATCTTTAGG
2704839 GATCATGGTT
Statistics
Matches: 198, Mismatches: 26, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
134 134 0.68
135 63 0.32
136 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (133 bp):
TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
GATGAGGAGACTGGCCATCTTTAGGAATGGTGATAACTCGGCTCCTACGCAATGAGGACAACTAG
TTA
Found at i:2704772 original size:43 final size:40
Alignment explanation
Indices: 2704718--2704827 Score: 132
Period size: 40 Copynumber: 2.7 Consensus size: 40
2704708 GGTGATAGCT
2704718 CGGCTCCTACGTGATGAGGACGACTGGTTATCTAAGGG-TGACA
1 CGGCTCCTACGTGATGAGGACGACTGG-TA---AAGGGATGACA
* * *
2704761 CGGCTCCTACGTGATGAGGAGGTCTGGTAGAGGGATGACA
1 CGGCTCCTACGTGATGAGGACGACTGGTAAAGGGATGACA
* *
2704801 CGGTTCCTACGTGATGAGGATGACTGG
1 CGGCTCCTACGTGATGAGGACGACTGG
2704828 CCATCTTTAG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
39 4 0.07
40 29 0.48
42 2 0.03
43 25 0.42
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.23
Consensus pattern (40 bp):
CGGCTCCTACGTGATGAGGACGACTGGTAAAGGGATGACA
Found at i:2704939 original size:31 final size:28
Alignment explanation
Indices: 2704864--2704942 Score: 106
Period size: 28 Copynumber: 2.7 Consensus size: 28
2704854 AGAAATCGAT
2704864 TCAAAGATTTGTTTCAAAAGAAACAAAC
1 TCAAAGATTTGTTTCAAAAGAAACAAAC
*
2704892 TCAAAGATTTGTTTCAAGAA-AAACAAGC
1 TCAAAGATTTGTTTCAA-AAGAAACAAAC
2704920 TCAAAGATAATGTGTTTCAAAAG
1 TCAAAGAT--T-TGTTTCAAAAG
2704943 CAATTGTCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
28 32 0.71
29 2 0.04
30 3 0.07
31 8 0.18
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.27
Consensus pattern (28 bp):
TCAAAGATTTGTTTCAAAAGAAACAAAC
Found at i:2705119 original size:66 final size:63
Alignment explanation
Indices: 2704947--2705124 Score: 169
Period size: 66 Copynumber: 2.7 Consensus size: 63
2704937 CAAAAGCAAT
* * * * *
2704947 TGTCTCGAAAGAGACAAAATTCGTTTCAAAGGAAACAACTCAAATA-TAGCGTTTAAAGGGAAT
1 TGTCTC-AAAGAGACAAAATTCATTTCAAGGGAAACATCTCAAAGATTAGCGTTTAAAGGGAAC
* ** * * * * *
2705010 TGTCTCAAGCGAGACAAAATTTGTTTTTAAGGGAAACATTCTCAAAGATTGGTGTTTCATGGGAA
1 TGTCTCAA-AGAGACAAAA-TTCATTTCAAGGGAAACA-TCTCAAAGATTAGCGTTTAAAGGG-A
2705075 AC
62 AC
2705077 TGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGAT
1 TGTCTCAAA-GAGACAAAATTCATTTCAAGGGAAAC-ATCTCAAAGAT
2705125 GTTTGTTTGT
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
62 2 0.02
63 15 0.16
64 14 0.15
65 7 0.08
66 34 0.37
67 20 0.22
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (63 bp):
TGTCTCAAAGAGACAAAATTCATTTCAAGGGAAACATCTCAAAGATTAGCGTTTAAAGGGAAC
Found at i:2705529 original size:31 final size:31
Alignment explanation
Indices: 2705479--2705539 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 31
2705469 AAGGGAAACG
2705479 ACTCAAAGATGGTTTTATTT-TAAGAGAAACAA
1 ACTCAAAGAT-GTTTTATTTCT-AGAGAAACAA
2705511 ACTCAAAGAT-TTTGTATTTCTAGAGAAAC
1 ACTCAAAGATGTTT-TATTTCTAGAGAAAC
2705540 TGCCTCAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 3 0.11
31 13 0.48
32 11 0.41
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (31 bp):
ACTCAAAGATGTTTTATTTCTAGAGAAACAA
Found at i:2705595 original size:97 final size:95
Alignment explanation
Indices: 2705404--2705596 Score: 203
Period size: 97 Copynumber: 2.0 Consensus size: 95
2705394 CCTTGTTTCC
**
2705404 AGAGAAACAAACTCAAAGATGATCTTGTTTTAAGAGAAAATGTTTCAAGAGACAAAATTCGTTTC
1 AGAGAAACAAACTCAAAGAT-ATCTTGTTTTAAGAGAAAATGCCTCAAGAGACAAAATTCGTTTC
* *
2705469 AAGGGAAACGACTCAAAGATGGTTTTATTTTA
65 AAGAGAAACGACTCAAAGATGG-TGTATTTTA
* * * *
2705501 AGAGAAACAAACTCAAAGAT-T-TTGTATTTCTAGAGAAACTGCCTCAAGGGAGTCAAAATTTGT
1 AGAGAAACAAACTCAAAGATATCTTGT-TTT-AAGAGAAAATGCCTCAA--GAGACAAAATTCGT
* * *
2705564 TTTAATAGAAACGATCTCAAAGGTGG-GTATTTT
62 TTCAAGAGAAACGA-CTCAAAGATGGTGTATTTT
2705597 CAAAAGAAGT
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
94 4 0.05
95 4 0.05
96 13 0.16
97 26 0.32
98 23 0.29
99 10 0.12
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (95 bp):
AGAGAAACAAACTCAAAGATATCTTGTTTTAAGAGAAAATGCCTCAAGAGACAAAATTCGTTTCA
AGAGAAACGACTCAAAGATGGTGTATTTTA
Found at i:2705911 original size:121 final size:122
Alignment explanation
Indices: 2705742--2706062 Score: 364
Period size: 121 Copynumber: 2.6 Consensus size: 122
2705732 AGTGAGATGA
* * * **
2705742 ATTTTT-TTCCAAAGGAAACAATCTCAAAGGTTGGTTTTTCATTAGAAACTGTCTCAAGAGAGAC
1 ATTTTTATTCAAAAGG-AACAAACTCAAAGATT--TTTTTCAAAAGAAACTGTCTCAAGAGAGAC
* * * * **
2705806 AAAATTTGTTTTTAA-AGAAATAAACTAAAAGATGATTTTGTTAGTAGAAACAAACTCAAAG
63 AAAATATG-TTTTAAGAGAAACAAACTAAAAGATGATTTTCTCAAAAGAAA-AAACTCAAAG
* * *
2705867 A-TTTT-TTCAAAAGGAATAGACTCAAAGATTTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
1 ATTTTTATTCAAAAGGAACAAACTCAAAGATTTTTTTCAAAAGAAACTGTCTCAAGAGAGACAAA
* * ** *
2705930 ATATGTTTTAAGAGAAACATACTCAAAGATTTTTTTCTCAAAAGAAATAACTCAAAG
66 ATATGTTTTAAGAGAAACAAACTAAAAGATGATTTTCTCAAAAGAAAAAACTCAAAG
* *
2705987 ATTTTTATTCAAAATGAACAAACTCAAAGATTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAA
1 ATTTTTATTCAAAAGGAACAAACTCAAAGATTTTTTTCAAAAGAAACTGTCTCAAGAGAGACAAA
2706052 A-ATCGTTTTAA
66 ATAT-GTTTTAA
2706063 AATATTCAAA
Statistics
Matches: 169, Mismatches: 23, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
120 16 0.09
121 67 0.40
122 61 0.36
123 12 0.07
124 12 0.07
125 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (122 bp):
ATTTTTATTCAAAAGGAACAAACTCAAAGATTTTTTTCAAAAGAAACTGTCTCAAGAGAGACAAA
ATATGTTTTAAGAGAAACAAACTAAAAGATGATTTTCTCAAAAGAAAAAACTCAAAG
Found at i:2705918 original size:28 final size:27
Alignment explanation
Indices: 2705859--2706032 Score: 77
Period size: 28 Copynumber: 5.9 Consensus size: 27
2705849 GTAGAAACAA
*
2705859 ACTCAAAGATTTTTTCAAAAGGAATAG
1 ACTCAAAGATTTTTTCAAAAGAAATAG
*
2705886 ACTCAAAGATTTTTTTCAAGAGAAACT-G
1 ACTCAAAGA-TTTTTTCAAAAGAAA-TAG
* * * * * *
2705914 TCTCAAGAGAGACAAAATATGTTTTAAGAGAAACAT
1 ACTC-A-A-AG-----AT-TTTTTCAAAAGAAATAG
2705950 ACTCAAAGATTTTTTTCTCAAAAGAAATA-
1 ACTCAAAGA--TTTTT-TCAAAAGAAATAG
2705979 ACTCAAAGATTTTTATTCAAAATGAACA-A-
1 ACTCAAAGA-TTTT-TTCAAAA-GAA-ATAG
2706008 ACTCAAAGATTTGTTTCAAAAGAAA
1 ACTCAAAGATTT-TTTCAAAAGAAA
2706033 CTGTCTCAAG
Statistics
Matches: 116, Mismatches: 12, Indels: 39
0.69 0.07 0.23
Matches are distributed among these distances:
26 1 0.01
27 12 0.10
28 39 0.34
29 29 0.25
30 12 0.10
31 2 0.02
33 2 0.02
34 1 0.01
35 2 0.02
36 16 0.14
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (27 bp):
ACTCAAAGATTTTTTCAAAAGAAATAG
Found at i:2705983 original size:29 final size:27
Alignment explanation
Indices: 2705950--2706032 Score: 105
Period size: 29 Copynumber: 3.0 Consensus size: 27
2705940 AGAGAAACAT
2705950 ACTCAAAGATTTTTTTCTCAAAAGAAATA
1 ACTCAAAGATTTTTTT-TCAAAAGAAA-A
*
2705979 ACTCAAAGATTTTTATTCAAAATGAACAA
1 ACTCAAAGATTTTTTTTCAAAA-GAA-AA
*
2706008 ACTCAAAGA-TTTGTTTCAAAAGAAA
1 ACTCAAAGATTTTTTTTCAAAAGAAA
2706033 CTGTCTCAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
26 1 0.02
27 3 0.06
28 16 0.33
29 28 0.57
30 1 0.02
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.31
Consensus pattern (27 bp):
ACTCAAAGATTTTTTTTCAAAAGAAAA
Found at i:2706041 original size:28 final size:28
Alignment explanation
Indices: 2705942--2706034 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 28
2705932 ATGTTTTAAG
2705942 AGAAAC-ATACTCAAAGATTTTTTTCTCAAA
1 AGAAACTA-ACTCAAAGA-TTTTTT-TCAAA
2705972 AGAAA-TAACTCAAAGATTTTTATTCAAA
1 AGAAACTAACTCAAAGATTTTT-TTCAAA
* *
2706000 ATG-AACAAACTCAAAGATTTGTTTCAAA
1 A-GAAACTAACTCAAAGATTTTTTTCAAA
2706028 AGAAACT
1 AGAAACT
2706035 GTCTCAAGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
27 1 0.02
28 23 0.42
29 25 0.45
30 6 0.11
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (28 bp):
AGAAACTAACTCAAAGATTTTTTTCAAA
Found at i:2706300 original size:36 final size:36
Alignment explanation
Indices: 2706260--2706340 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
2706250 AAAGGAAGAA
* * *
2706260 TGTCTCAAGCGAGACGAAGTTTG-TTTTAAGAGAATT
1 TGTCTCAAGCGAGACAAACTTTGTTTTTAA-AGAAAT
* *
2706296 TGTCTTAAGTGAGACAAACTTTGTTTTTAAAGAAAT
1 TGTCTCAAGCGAGACAAACTTTGTTTTTAAAGAAAT
2706332 TGTCTCAAG
1 TGTCTCAAG
2706341 AAAAACAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 32 0.84
37 6 0.16
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAACTTTGTTTTTAAAGAAAT
Found at i:2706458 original size:38 final size:36
Alignment explanation
Indices: 2706405--2706561 Score: 129
Period size: 36 Copynumber: 4.3 Consensus size: 36
2706395 AACAAATTCG
* * ** *
2706405 AAATTTGTATCTCAAGGAAAAATGTCTCAAGTGAGACG
1 AAATTTGTTTTTCAA-G-AAAATGTCTCAAACGAGACA
* *
2706443 GAATTTGTTTTTCAAGAAATTGTCTCAAACGAGACA
1 AAATTTGTTTTTCAAGAAAATGTCTCAAACGAGACA
* * *
2706479 AAATTTGTTTTT--AGAAAGCTGTCTCAAGCAAGACA
1 AAATTTGTTTTTCAAGAAA-ATGTCTCAAACGAGACA
* ** * *
2706514 AAATTTGCTTTGAAAGAAATTGTCTCAAGCGAGACAA
1 AAATTTGTTTTTCAAGAAAATGTCTCAAACGAGAC-A
2706551 AAATTTGTTTT
1 AAATTTGTTTT
2706562 AAAATTCTCA
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
34 5 0.05
35 24 0.24
36 41 0.41
37 17 0.17
38 12 0.12
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (36 bp):
AAATTTGTTTTTCAAGAAAATGTCTCAAACGAGACA
Found at i:2706477 original size:36 final size:35
Alignment explanation
Indices: 2706427--2706561 Score: 155
Period size: 36 Copynumber: 3.8 Consensus size: 35
2706417 CAAGGAAAAA
* **
2706427 TGTCTCAAGTGAGACGGAATTTGTTTTTCAAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTT-AAGAAAT
* *
2706463 TGTCTCAAACGAGACAAAATTTGTTTTT-AGAAAGC
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAAGAAA-T
* **
2706498 TGTCTCAAGCAAGACAAAATTTGCTTTGAAAGAAAT
1 TGTCTCAAGCGAGACAAAATTTG-TTTTTAAGAAAT
2706534 TGTCTCAAGCGAGACAAAAATTTGTTTT
1 TGTCTCAAGCGAGAC-AAAATTTGTTTT
2706562 AAAATTCTCA
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
34 5 0.06
35 21 0.25
36 44 0.53
37 13 0.16
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.33
Consensus pattern (35 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAAGAAAT
Found at i:2706922 original size:4 final size:4
Alignment explanation
Indices: 2706913--2708535 Score: 3183
Period size: 4 Copynumber: 408.0 Consensus size: 4
2706903 TTTATGTATC
2706913 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2706961 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707009 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707057 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707105 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707153 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707201 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707248 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707296 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707344 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707392 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707440 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707488 ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707535 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707583 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707631 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707679 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707727 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707775 ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707821 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707869 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707917 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2707965 ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2708011 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2708059 ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2708106 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2708152 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2708200 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2708248 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2708296 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2708344 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2708392 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2708440 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2708488 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2708536 TTTTCTCGAT
Statistics
Matches: 1610, Mismatches: 0, Indels: 18
0.99 0.00 0.01
Matches are distributed among these distances:
2 6 0.00
3 9 0.01
4 1595 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:2709716 original size:11 final size:11
Alignment explanation
Indices: 2709691--2709731 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
2709681 TTATCCTCTT
* *
2709691 TTTTTCTTCGC
1 TTTTTCTTTGA
2709702 TTTTTCTTTGA
1 TTTTTCTTTGA
2709713 TTTTTGCTTTGA
1 TTTTT-CTTTGA
2709725 TTTTTCT
1 TTTTTCT
2709732 CTTTGCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.05, C:0.15, G:0.10, T:0.71
Consensus pattern (11 bp):
TTTTTCTTTGA
Found at i:2709735 original size:13 final size:12
Alignment explanation
Indices: 2709702--2709736 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
2709692 TTTTCTTCGC
2709702 TTTTTCTTTGAT
1 TTTTTCTTTGAT
*
2709714 TTTTGCTTTGAT
1 TTTTTCTTTGAT
2709726 TTTTCTCTTTG
1 TTTT-TCTTTG
2709737 CTCTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTGAT
Found at i:2710367 original size:20 final size:20
Alignment explanation
Indices: 2710344--2710384 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2710334 GGATAAATGC
*
2710344 AATGTTTCAAGGTGTCAAAG
1 AATGTTTCAAGGTCTCAAAG
2710364 AATGTTTCAAGGTCTCAAAG
1 AATGTTTCAAGGTCTCAAAG
2710384 A
1 A
2710385 GAGGGAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (20 bp):
AATGTTTCAAGGTCTCAAAG
Found at i:2713884 original size:30 final size:30
Alignment explanation
Indices: 2713826--2713898 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
2713816 TAACATACAT
2713826 TAATAGGACTAAAATAGAAATACATAAACA
1 TAATAGGACTAAAATAGAAATACATAAACA
*
2713856 TAAT-GGACTAAATTAGTAAA-AGCATAAAC-
1 TAATAGGACTAAAATAG-AAATA-CATAAACA
* *
2713885 TAACAGGGCTAAAA
1 TAATAGGACTAAAA
2713899 AGTAATTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.21
Consensus pattern (30 bp):
TAATAGGACTAAAATAGAAATACATAAACA
Found at i:2714140 original size:76 final size:75
Alignment explanation
Indices: 2714053--2714216 Score: 206
Period size: 76 Copynumber: 2.2 Consensus size: 75
2714043 GTAAAATAAG
* * **
2714053 GACTAAAATAAAAGATTTATAAATGTGGTGGCCATATTCGAATATCAAA-G-AAACATACATGAA
1 GACTAAAATAAAAGATTTAAAAATCTCATGGCCATATTCGAATA-CAAAGGAAAACATACA--AA
2714116 ATATTAAATCAGT
63 ATATTAAATCAGT
* * * * *
2714129 GACTAAAATAAAATATTTAAAAATCTCATGGTCATATTTGAATAGAAAGGAAAATATACAAAATA
1 GACTAAAATAAAAGATTTAAAAATCTCATGGCCATATTCGAATACAAAGGAAAACATACAAAATA
2714194 TTAAATCAGT
66 TTAAATCAGT
2714204 GACTAAAATAAAA
1 GACTAAAATAAAA
2714217 CTATTACAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
75 31 0.40
76 38 0.49
77 8 0.10
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.27
Consensus pattern (75 bp):
GACTAAAATAAAAGATTTAAAAATCTCATGGCCATATTCGAATACAAAGGAAAACATACAAAATA
TTAAATCAGT
Found at i:2715522 original size:3 final size:3
Alignment explanation
Indices: 2715488--2715542 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
2715478 TGTAATATAT
* **
2715488 TAA TAA CAA TAA TTAA TAA GCA TAA T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2715533 TAA TAA TAA T
1 TAA TAA TAA T
2715543 TACAATTAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2727854 original size:26 final size:26
Alignment explanation
Indices: 2727825--2727884 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
2727815 TTACCCATGT
*
2727825 TTGAAATGGAAAAGTAAGAACTGAGC
1 TTGAAATGGAAAAGCAAGAACTGAGC
2727851 TTGAAATGGAAAAGCAAGAACTGAGC
1 TTGAAATGGAAAAGCAAGAACTGAGC
2727877 TTGAAATG
1 TTGAAATG
2727885 AAACCACATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.45, C:0.08, G:0.27, T:0.20
Consensus pattern (26 bp):
TTGAAATGGAAAAGCAAGAACTGAGC
Found at i:2728961 original size:13 final size:13
Alignment explanation
Indices: 2728943--2728969 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2728933 ATATCCACTA
2728943 TCGCAAATTCGCG
1 TCGCAAATTCGCG
2728956 TCGCAAATTCGCG
1 TCGCAAATTCGCG
2728969 T
1 T
2728970 TGCGATAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (13 bp):
TCGCAAATTCGCG
Found at i:2728988 original size:21 final size:22
Alignment explanation
Indices: 2728964--2729019 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 22
2728954 CGTCGCAAAT
2728964 TCGCGTTGCGATAGTGGAAAATCGC
1 TCGCGTTGCGATAGTGGAAAA---C
*
2728989 TCGCGTTGCGATAGTTGAAAA-
1 TCGCGTTGCGATAGTGGAAAAC
2729010 TCGCGTTGCG
1 TCGCGTTGCG
2729020 CTTTTCCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 10 0.33
25 20 0.67
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (22 bp):
TCGCGTTGCGATAGTGGAAAAC
Found at i:2728992 original size:25 final size:25
Alignment explanation
Indices: 2728964--2729013 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2728954 CGTCGCAAAT
2728964 TCGCGTTGCGATAGTGGAAAATCGC
1 TCGCGTTGCGATAGTGGAAAATCGC
*
2728989 TCGCGTTGCGATAGTTGAAAATCGC
1 TCGCGTTGCGATAGTGGAAAATCGC
2729014 GTTGCGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (25 bp):
TCGCGTTGCGATAGTGGAAAATCGC
Found at i:2729171 original size:6 final size:6
Alignment explanation
Indices: 2729160--2729242 Score: 117
Period size: 6 Copynumber: 15.0 Consensus size: 6
2729150 GAAGACACGT
2729160 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
2729208 A-GACC A-GACC A-GACC A-GACC A-GACC -CGACC -CGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
2729243 CGAGACGGAC
Statistics
Matches: 76, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
5 33 0.43
6 43 0.57
ACGTcount: A:0.34, C:0.48, G:0.18, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:2734113 original size:3 final size:3
Alignment explanation
Indices: 2734105--2734151 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
2734095 ATATATATAT
* *
2734105 ATA ATA ATA ATA ATA ATA ATT TTA ATA ATA ATA ATA ATTA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
2734150 AT
1 AT
2734152 TTTAATGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:2734552 original size:76 final size:76
Alignment explanation
Indices: 2734307--2736612 Score: 4224
Period size: 76 Copynumber: 30.4 Consensus size: 76
2734297 AGGTCTGATG
* *
2734307 AACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2734372 GGCTTTTTGGA
66 GGCTTTTTGGA
*
2734383 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTG-AAACATCAAAAAGATCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
*
2734447 GGCATTTTGGA
66 GGCTTTTTGGA
2734458 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2734523 GGCTTTTTGGA
66 GGCTTTTTGGA
2734534 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2734599 GGCTTTTTGGA
66 GGCTTTTTGGA
2734610 AACATCATGCA-TGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2734674 GGCTTTTTGGA
66 GGCTTTTTGGA
*
2734685 AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2734749 GGCTTTTTGGA
66 GGCTTTTTGGA
2734760 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2734825 GGCTTTTTGGA
66 GGCTTTTTGGA
*
2734836 AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCCGA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT-CCCGA
2734901 AGGCTTTTTGGA
65 AGGCTTTTTGGA
2734913 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2734977 GGCTTTTTGGA
66 GGCTTTTTGGA
2734988 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTG-AAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735052 GGC-TTTTGGA
66 GGCTTTTTGGA
*
2735062 AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735126 GGCTTTTTGGA
66 GGCTTTTTGGA
*
2735137 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735202 GGCTTTTTGGA
66 GGCTTTTTGGA
*
2735213 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTG-AAACATCAAAAAGATCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735277 GGCTTTTTGGA
66 GGCTTTTTGGA
2735288 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735353 GGCTTTTTGGA
66 GGCTTTTTGGA
2735364 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735429 GGCTTTTTGGA
66 GGCTTTTTGGA
2735440 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735505 GGC-TTTTGGA
66 GGCTTTTTGGA
*
2735515 AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735580 GGCTTTTTGGA
66 GGCTTTTTGGA
2735591 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735656 GGC-TTTTGGA
66 GGCTTTTTGGA
2735666 AACATCATGCACTGAAGGACTTACAGATGACCC-AAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735730 GGCTTTTTGGA
66 GGCTTTTTGGA
2735741 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735806 GGCTTTTTGGA
66 GGCTTTTTGGA
2735817 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735882 GGCTTTTTGGA
66 GGCTTTTTGGA
* *
2735893 AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735958 GGCTTTTTGGA
66 GGCTTTTTGGA
* * *
2735969 AACATCATGCACTGAAGGACTTACAGATAACCCTAAGGTTTTGAAGACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2736034 GGCTTTTTGGA
66 GGCTTTTTGGA
*
2736045 AACATCATGCACTGAAGGACTTACAGATGACCTTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2736110 GGCTTTTTGGA
66 GGCTTTTTGGA
*
2736121 AACATCATG--CTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAATATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2736184 GGCTTTTTGGA
66 GGCTTTTTGGA
**
2736195 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCTAAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2736260 GGCTTTTTGGA
66 GGCTTTTTGGA
* *
2736271 AACATCATGCACTGAAGGACTTACAGATGACCCTGAGGCTTTTAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2736336 GGCTTTTTTTTTGGA
66 GGC----TTTTTGGA
*
2736351 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2736416 GGCTTTTTGGA
66 GGCTTTTTGGA
*
2736427 AACATCATGCACTGAAGGACTTACAGATGACCCTGAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2736492 GGCTTTTTTTTTTGGA
66 GGC-----TTTTTGGA
2736508 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2736573 GGCTTTTTGGA
66 GGCTTTTTGGA
2736584 AACATCATGCACTGAAGGACTTACAGATG
1 AACATCATGCACTGAAGGACTTACAGATG
2736613 TGGGAAATAG
Statistics
Matches: 2163, Mismatches: 44, Indels: 46
0.96 0.02 0.02
Matches are distributed among these distances:
74 178 0.08
75 589 0.27
76 1181 0.55
77 67 0.03
80 73 0.03
81 75 0.03
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (76 bp):
AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
GGCTTTTTGGA
Found at i:2734625 original size:151 final size:152
Alignment explanation
Indices: 2734307--2736612 Score: 4224
Period size: 151 Copynumber: 15.2 Consensus size: 152
2734297 AGGTCTGATG
* *
2734307 AACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2734372 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTG-AAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
* *
2734436 AAGATCCCGAAGGCATTTTGGA
131 AAGCTCCCGAAGGCTTTTTGGA
2734458 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2734523 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
2734588 AAGCTCCCGAAGGCTTTTTGGA
131 AAGCTCCCGAAGGCTTTTTGGA
2734610 AACATCATGCA-TGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
*
2734674 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
2734738 AAGCTCCCGAAGGCTTTTTGGA
131 AAGCTCCCGAAGGCTTTTTGGA
2734760 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
*
2734825 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
2734890 AAGCTCCCCGAAGGCTTTTTGGA
131 AAGCT-CCCGAAGGCTTTTTGGA
2734913 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2734977 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTG-AAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
2735041 AAGCTCCCGAAGGC-TTTTGGA
131 AAGCTCCCGAAGGCTTTTTGGA
*
2735062 AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
*
2735126 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
2735191 AAGCTCCCGAAGGCTTTTTGGA
131 AAGCTCCCGAAGGCTTTTTGGA
*
2735213 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTG-AAACATCAAAAAGATCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735277 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
2735342 AAGCTCCCGAAGGCTTTTTGGA
131 AAGCTCCCGAAGGCTTTTTGGA
2735364 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735429 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
2735494 AAGCTCCCGAAGGC-TTTTGGA
131 AAGCTCCCGAAGGCTTTTTGGA
*
2735515 AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735580 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
2735645 AAGCTCCCGAAGGC-TTTTGGA
131 AAGCTCCCGAAGGCTTTTTGGA
2735666 AACATCATGCACTGAAGGACTTACAGATGACCC-AAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2735730 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
2735795 AAGCTCCCGAAGGCTTTTTGGA
131 AAGCTCCCGAAGGCTTTTTGGA
2735817 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
*
2735882 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
*
2735947 AAGCTCCCAAAGGCTTTTTGGA
131 AAGCTCCCGAAGGCTTTTTGGA
* * *
2735969 AACATCATGCACTGAAGGACTTACAGATAACCCTAAGGTTTTGAAGACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
*
2736034 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGCTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
2736099 AAGCTCCCGAAGGCTTTTTGGA
131 AAGCTCCCGAAGGCTTTTTGGA
*
2736121 AACATCATG--CTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAATATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2736184 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
**
2736249 AAGCTCCTAAAGGCTTTTTGGA
131 AAGCTCCCGAAGGCTTTTTGGA
* *
2736271 AACATCATGCACTGAAGGACTTACAGATGACCCTGAGGCTTTTAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2736336 GGCTTTTTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACAT
66 GGC----TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACAT
*
2736401 CAAAAAGCTCCCAAAGGCTTTTTGGA
127 CAAAAAGCTCCCGAAGGCTTTTTGGA
*
2736427 AACATCATGCACTGAAGGACTTACAGATGACCCTGAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
2736492 GGCTTTTTTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
66 GGC-----TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
2736557 TCAAAAAGCTCCCGAAGGCTTTTTGGA
126 TCAAAAAGCTCCCGAAGGCTTTTTGGA
2736584 AACATCATGCACTGAAGGACTTACAGATG
1 AACATCATGCACTGAAGGACTTACAGATG
2736613 TGGGAAATAG
Statistics
Matches: 2104, Mismatches: 34, Indels: 28
0.97 0.02 0.01
Matches are distributed among these distances:
149 123 0.06
150 336 0.16
151 765 0.36
152 546 0.26
153 68 0.03
156 150 0.07
157 116 0.06
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (152 bp):
AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
AAGCTCCCGAAGGCTTTTTGGA
Found at i:2737094 original size:22 final size:22
Alignment explanation
Indices: 2737067--2737109 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2737057 TTTATTTTTG
2737067 AAAAGAGAATATATCATCTTTA
1 AAAAGAGAATATATCATCTTTA
*
2737089 AAAAGAGAATCTATCATCTTT
1 AAAAGAGAATATATCATCTTT
2737110 GAAGAGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (22 bp):
AAAAGAGAATATATCATCTTTA
Found at i:2739658 original size:114 final size:114
Alignment explanation
Indices: 2739458--2739776 Score: 446
Period size: 114 Copynumber: 2.8 Consensus size: 114
2739448 ACGATCATGC
* * * * * * * **
2739458 AATTCATCTTTTAATTCCAATGATTGGTTCTGGGGTTCCTACTGAACCAGATCAGATAATTCAAA
1 AATTCATCTTTCAAATCCAATGATTGATTTTTGAGTTCATACCAAACCAGATCAGATAATTCAAA
* * *
2739523 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCA
* * * *
2739572 AATTCATCTTTC-AA-CCAATGATTGGTTTTTTTGGGTTTATACCAAACCAGATCAGATAACTCA
1 AATTCATCTTTCAAATCCAATGATT-G-ATTTTTGAGTTCATACCAAACCAGATCAGATAATTCA
2739635 AAGAACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCA
64 AAGAACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCA
*
2739686 AATTCATCTTTCAAATCCAATGATTGATTTTTGAGTTCATACCAAATCAGATCAGATAATTCAAA
1 AATTCATCTTTCAAATCCAATGATTGATTTTTGAGTTCATACCAAACCAGATCAGATAATTCAAA
2739751 GAACACTTCCAGAAGATGCTA-TGAGC
66 GAACACTTCCAGAAGATGCTATTGAGC
2739777 ACATTCATCT
Statistics
Matches: 183, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
112 9 0.05
113 7 0.04
114 155 0.85
115 3 0.02
116 9 0.05
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (114 bp):
AATTCATCTTTCAAATCCAATGATTGATTTTTGAGTTCATACCAAACCAGATCAGATAATTCAAA
GAACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCA
Found at i:2739848 original size:93 final size:93
Alignment explanation
Indices: 2739679--2739958 Score: 438
Period size: 93 Copynumber: 3.0 Consensus size: 93
2739669 TATTTCTACC
* * * * *
2739679 ATGAGCAAATTCATCTTTCAAATCCAATGATTGATT-TTTGAG-TTCATACCAAATCAGATCAGA
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTG-GTTTCATACCAAACCAGATCAGA
*
2739742 TAATTCAAAGAACACTTCCAGAAGATGCT
65 TAACTCAAAGAACACTTCCAGAAGATGCT
2739771 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
*
2739836 AACTCAAAGAACACTTCCAAAAGATGCT
66 AACTCAAAGAACACTTCCAGAAGATGCT
* *
2739864 ATGAGCACATTCATCTTCCAAAATCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGAT
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
* *
2739929 AACTCAAAAAACACTTCCAGAAGATACT
66 AACTCAAAGAACACTTCCAGAAGATGCT
2739957 AT
1 AT
2739959 TGGGTCTTCT
Statistics
Matches: 174, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
92 34 0.20
93 140 0.80
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.29
Consensus pattern (93 bp):
ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
AACTCAAAGAACACTTCCAGAAGATGCT
Found at i:2743999 original size:14 final size:14
Alignment explanation
Indices: 2743982--2744020 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
2743972 TAAAAGTATG
2743982 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
2743996 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
2744011 AATG-AAAATG
1 AATGCAAAATG
2744021 CATGTATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:2746983 original size:23 final size:24
Alignment explanation
Indices: 2746939--2746985 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
2746929 AAAATTAATC
*
2746939 AAATAATATATATTAATAAAAATA
1 AAATAATATATACTAATAAAAATA
*
2746963 AAATAATA-ATACTAATTAAAATA
1 AAATAATATATACTAATAAAAATA
2746986 TTAAACATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATAATATATACTAATAAAAATA
Found at i:2766941 original size:28 final size:28
Alignment explanation
Indices: 2766902--2766994 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
2766892 TTAGTTTTAT
2766902 TATATGGTCGGCTCTACCGCCTGATTGA
1 TATATGGTCGGCTCTACCGCCTGATTGA
2766930 TATATGGTCGGCTCTACCGCCTGATTGA
1 TATATGGTCGGCTCTACCGCCTGATTGA
* * *
2766958 TATATGGTCGGTTATACCGCCTGAATGA
1 TATATGGTCGGCTCTACCGCCTGATTGA
2766986 TATATGGTC
1 TATATGGTC
2766995 AGCCTTGCCG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (28 bp):
TATATGGTCGGCTCTACCGCCTGATTGA
Found at i:2767006 original size:56 final size:56
Alignment explanation
Indices: 2766902--2767007 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 56
2766892 TTAGTTTTAT
* * *
2766902 TATATGGTCGGCTCTACCGCCTGATTGATATATGGTCGGCTCTACCGCCTGATTGA
1 TATATGGTCGGCTATACCGCCTGAATGATATATGGTCGCCTCTACCGCCTGATTGA
* *
2766958 TATATGGTCGGTTATACCGCCTGAATGATATATGGTCAGCCT-TGCCGCCT
1 TATATGGTCGGCTATACCGCCTGAATGATATATGGTC-GCCTCTACCGCCT
2767008 ATGTATTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
56 41 0.93
57 3 0.07
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.32
Consensus pattern (56 bp):
TATATGGTCGGCTATACCGCCTGAATGATATATGGTCGCCTCTACCGCCTGATTGA
Found at i:2774359 original size:38 final size:38
Alignment explanation
Indices: 2774308--2774382 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
2774298 CTGCAAAATG
2774308 TATGGCAAAGGTATTCAATAAGTGAAGAAGGTTCTGTC
1 TATGGCAAAGGTATTCAATAAGTGAAGAAGGTTCTGTC
2774346 TATGGCAAAGGTATTCAATAAGTGAAGAAGGTTCTGT
1 TATGGCAAAGGTATTCAATAAGTGAAGAAGGTTCTGT
2774383 TTTAGACCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (38 bp):
TATGGCAAAGGTATTCAATAAGTGAAGAAGGTTCTGTC
Found at i:2777465 original size:55 final size:56
Alignment explanation
Indices: 2777361--2777488 Score: 204
Period size: 55 Copynumber: 2.3 Consensus size: 56
2777351 CTAACAAATC
* *
2777361 AAACTTAAAATATTTATTGAATAAAAAAAAGTTAGATATCAAATTATATCTTATAATT
1 AAACTT-AAATATTTATTGAAT-AAAAAAAGTCAGATATCAAATAATATCTTATAATT
2777419 AAACTTAAATATTTATTGAAT-AAAAAAGTCAGATATCAAATAATATCTTATAATT
1 AAACTTAAATATTTATTGAATAAAAAAAGTCAGATATCAAATAATATCTTATAATT
*
2777474 AAATTTAAATATTTA
1 AAACTTAAATATTTA
2777489 ATTAATTTAG
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
55 46 0.69
57 15 0.22
58 6 0.09
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (56 bp):
AAACTTAAATATTTATTGAATAAAAAAAGTCAGATATCAAATAATATCTTATAATT
Found at i:2778728 original size:12 final size:12
Alignment explanation
Indices: 2778703--2778741 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2778693 AATATATGGG
2778703 TTTTTAAAATTTA
1 TTTTTAAAA-TTA
2778716 TTTTTAAAATTA
1 TTTTTAAAATTA
* *
2778728 TATTTAAAACTA
1 TTTTTAAAATTA
2778740 TT
1 TT
2778742 AGAAAAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTTAAAATTA
Found at i:2778731 original size:14 final size:13
Alignment explanation
Indices: 2778703--2778736 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
2778693 AATATATGGG
2778703 TTTTTAAAATTTA
1 TTTTTAAAATTTA
2778716 TTTTTAAAA-TTA
1 TTTTTAAAATTTA
*
2778728 TATTTAAAA
1 TTTTTAAAA
2778737 CTATTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTAAAATTTA
Found at i:2780364 original size:42 final size:42
Alignment explanation
Indices: 2780317--2780400 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
2780307 AGGAAATTAT
2780317 CCAAAATATGTATTTAGTTTTATGTTATAATTTTGAATATTC
1 CCAAAATATGTATTTAGTTTTATGTTATAATTTTGAATATTC
*
2780359 CCAAAATATGTATTTAGTTTTTTGTTATAATTTTGAATATTC
1 CCAAAATATGTATTTAGTTTTATGTTATAATTTTGAATATTC
2780401 TTATTTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (42 bp):
CCAAAATATGTATTTAGTTTTATGTTATAATTTTGAATATTC
Found at i:2786828 original size:17 final size:17
Alignment explanation
Indices: 2786806--2786848 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
2786796 GATATCAGAA
*
2786806 TTTTCGGATATTCGATT
1 TTTTCGGATATCCGATT
2786823 TTTTCGGATATCCGATT
1 TTTTCGGATATCCGATT
2786840 TTTTCGGAT
1 TTTTCGGAT
2786849 CGGATACGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.14, G:0.19, T:0.51
Consensus pattern (17 bp):
TTTTCGGATATCCGATT
Found at i:2786961 original size:23 final size:24
Alignment explanation
Indices: 2786907--2786962 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
2786897 TTGATATATA
*
2786907 TTTTTAAA-AATTATTTTTTAAAT
1 TTTTTAAATGATTATTTTTTAAAT
*
2786930 TATTT-AATGATT-TTTTTTAAAT
1 TTTTTAAATGATTATTTTTTAAAT
2786952 TTTTTAAATGA
1 TTTTTAAATGA
2786963 ACATCATGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTTTAAATGATTATTTTTTAAAT
Found at i:2787856 original size:20 final size:20
Alignment explanation
Indices: 2787831--2787880 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2787821 TCCTATTTCC
2787831 TGGTAATCTTTTATTCACAA
1 TGGTAATCTTTTATTCACAA
* **
2787851 TGGTAATATTTTATTCTTAA
1 TGGTAATCTTTTATTCACAA
*
2787871 TGTTAATCTT
1 TGGTAATCTT
2787881 ACATTCATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (20 bp):
TGGTAATCTTTTATTCACAA
Found at i:2789905 original size:20 final size:22
Alignment explanation
Indices: 2789866--2789905 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2789856 CTCATGATTA
*
2789866 TTTTGATATATTATTATAAACT
1 TTTTAATATATTATTATAAACT
2789888 TTTTAATATA-TATT-TAAA
1 TTTTAATATATTATTATAAA
2789906 TAATGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (22 bp):
TTTTAATATATTATTATAAACT
Found at i:2795901 original size:13 final size:13
Alignment explanation
Indices: 2795875--2795939 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 13
2795865 TAAAAAAATA
*
2795875 TTATATTATATATT
1 TTAT-TTATTTATT
2795889 TTATTTATTTA-T
1 TTATTTATTTATT
2795901 TTATTTA-TTATT
1 TTATTTATTTATT
2795913 ATTA-TTATTTATT
1 -TTATTTATTTATT
2795926 ATTA-TTATTT-TT
1 -TTATTTATTTATT
2795938 TT
1 TT
2795940 GCAACCCCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
11 5 0.11
12 14 0.30
13 24 0.51
14 4 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTATTTATT
Found at i:2795907 original size:16 final size:15
Alignment explanation
Indices: 2795873--2795928 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 15
2795863 TCTAAAAAAA
*
2795873 TATTATATTATATATTT
1 TATT-TATTATTTA-TT
2795890 TATTTATTTATTTATT
1 TATTTA-TTATTTATT
2795906 TA-TTATTA-TTA-T
1 TATTTATTATTTATT
2795918 TATTTATTATT
1 TATTTATTATT
2795929 ATTATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 9 0.26
14 4 0.11
15 3 0.09
16 6 0.17
17 10 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTATTATTTATT
Found at i:2795913 original size:3 final size:3
Alignment explanation
Indices: 2795873--2795934 Score: 56
Period size: 3 Copynumber: 19.3 Consensus size: 3
2795863 TCTAAAAAAA
2795873 TAT TA- TAT TAT ATAT T-T TATT TATT TATT TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TA-T TA-T TA-T TA-T TAT TAT TAT TAT
2795918 TATT TAT TAT TAT TAT T
1 TA-T TAT TAT TAT TAT T
2795935 TTTTTGCAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.07
3 29 0.54
4 21 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:2795934 original size:16 final size:15
Alignment explanation
Indices: 2795873--2795931 Score: 70
Period size: 16 Copynumber: 3.9 Consensus size: 15
2795863 TCTAAAAAAA
2795873 TATTATATTATATATTT
1 TATT-TATTAT-TATTT
2795890 TATTTA-T-TTA-TT
1 TATTTATTATTATTT
2795902 TATTTATTATTATTAT
1 TATTTATTATTATT-T
2795918 TATTTATTATTATT
1 TATTTATTATTATT
2795932 ATTTTTTTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.21
13 3 0.08
14 4 0.11
15 2 0.05
16 17 0.45
17 4 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTATTATTATTT
Found at i:2796994 original size:3 final size:3
Alignment explanation
Indices: 2796980--2797017 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
2796970 GTCGTTGTAA
2796980 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2797018 TCTAACATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:2809306 original size:84 final size:83
Alignment explanation
Indices: 2809090--2809761 Score: 626
Period size: 84 Copynumber: 8.1 Consensus size: 83
2809080 TTTAAGACAA
* * * * *
2809090 CATTTGCAGTATAACTTAAGTCGATAAGGGTTATCTG-CTAACAAAAGACCTTTGAGTTCGATTA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-AAC-AAAGACCTTCGAGTTCGACTA
* * * * *
2809154 CACCCAGCTTCGAGGACATAT
64 CGCTCAGCTCCAAGG-CACAT
* * * * *
2809175 CATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACG
*
2809240 CTCAGCTCCAAGGCATAT
66 CTCAGCTCCAAGGCACAT
** * * * *
2809258 CATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCTGTCAACACAAGACCTTTGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACA-AAGACCTTCGAGTTCGACTAC
2809323 GCTCAGCT-CAACGGCACAT
65 GCTCAGCTCCAA-GGCACAT
* * * * * *
2809342 CATTTACAACATAGCTTAATTCGAGAAGGGCTATTTG-C--CAAAGATCC-CCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACAAAGA-CCTTCGAGTTCGACTAC
* * * * **
2809403 ACTCAGCTTCGAGGGCGCGC
65 GCTCAGC-TCCAAGGCACAT
* * *
2809423 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTAG
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGACTAC
* *
2809488 GCTCAACTCTAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * * * *
2809507 CATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACATTCGAGTTCGACAAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGACTAC
*
2809572 GTTCAGCTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * ** * *
2809591 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--CAAAGACCCCCGAGTTCGATTACA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACG
* * *
2809653 CTCAGCTTCGAGGGCATAT
66 CTCAGC-TCCAAGGCACAT
* * * * *
2809672 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACG
2809737 CTCAGCT-CAAGGCACAT
66 CTCAGCTCCAAGGCACAT
2809754 CATTTACA
1 CATTTACA
2809762 ACATTGCCCA
Statistics
Matches: 471, Mismatches: 100, Indels: 35
0.78 0.17 0.06
Matches are distributed among these distances:
80 44 0.09
81 81 0.17
82 18 0.04
83 47 0.10
84 225 0.48
85 55 0.12
86 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACAT
Found at i:2809580 original size:249 final size:247
Alignment explanation
Indices: 2809143--2809759 Score: 894
Period size: 249 Copynumber: 2.5 Consensus size: 247
2809133 AAAGACCTTT
* * *
2809143 GAGTTCGATTACACCCAGCTTCGAGGACATATCATTTACAGCATAACTCAAGGCTAAAAGGGTTA
1 GAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTA
* *
2809208 TCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCACAAC
66 TCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATTTATAGCACAAC
* * * * * * *
2809273 TTAAGTCTAGAAGGGTTGTCTGTCAACACAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGG
130 TCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACATTCGAGTTCGACAACGCTCAGCTCCAA-GG
* * *
2809337 CACATCATTTACAACATAGCTTAATTCGAGAAGGGCTATTTGCCAAAGATCCCC
194 CACATCATTTACAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCC
* **** * * *
2809391 GAGTTCGACTACACTCAGCTTCGAGGGCGCGCCATTTACAGCATAACTTAAGTCGAGAAGGGTTA
1 GAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTA
* * * * *
2809456 TCTGCCAACCAAAGACCTTCGAGTTTGACTAGGCTCAACTCTAAGGCACATCATTTATAGCATAA
66 TCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC-AAGGCACATCATTTATAGCACAA
* *
2809521 CTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACATTCGAGTTCGACAACGTTCAGCTCCAAGG
129 CTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACATTCGAGTTCGACAACGCTCAGCTCCAAGG
* *
2809586 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCC
194 CACATCATTTACAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCC
*
2809640 GAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTA
1 GAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTA
2809705 TCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCACATCATTTA
66 TCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCACATCATTTA
2809760 CAACATTGCC
Statistics
Matches: 321, Mismatches: 45, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
247 15 0.05
248 91 0.28
249 212 0.66
250 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (247 bp):
GAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTA
TCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCACATCATTTATAGCACAACT
CAAGGCTAGAAGGGTTATCTGTCAACAAAAGACATTCGAGTTCGACAACGCTCAGCTCCAAGGCA
CATCATTTACAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCC
Found at i:2809718 original size:333 final size:332
Alignment explanation
Indices: 2809090--2809743 Score: 807
Period size: 333 Copynumber: 2.0 Consensus size: 332
2809080 TTTAAGACAA
* * * * * *
2809090 CATTTGCAGTATAACTTAAGTCGATAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * *
2809155 ACCCAGCTTCGAGGACATATCATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCACCAAA
66 ACCCAACTTCAAGGACACATCATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCACCAAA
* * * * *
2809220 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCACAACTTAAGTCTAGAA
131 GACATTCGAGTTCGACAACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAA
* * *** *
2809285 GGGTTGTCTGTCAACACAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTACA
196 GGGCTATCTGTC-ACACAAGACCCCCGAGTTCGACTACACTCAGCTCAACGGCACATCATTTACA
* * ** *
2809350 ACATAGCTTAATTCGAGAAGGGCTATTTGCCAAAGATCC-CCGAGTTCGACTACACTCAGCTTCG
260 ACATAACTCAAGGCGAGAAGGGCTATTTACCAAAGA-CCTCCGAGTTCGACTACACTCAGCTTCG
2809414 AGGGCGCGC
324 AGGGCGCGC
* * *
2809423 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTAG
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * * *
2809488 GCTCAAC-TCTAAGG-CACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAA
66 ACCCAACTTC-AAGGACACATCATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCACC-A
* * *
2809551 AAGACATTCGAGTTCGACAACGTTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
129 AAGACATTCGAGTTCGACAACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAG
* * * *
2809616 AAGGGCTATCTG-C-CA-AAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTA
194 AAGGGCTATCTGTCACACAAGACCCCCGAGTTCGACTACACTCAGC-TCAACGGCACATCATTTA
* * * *
2809678 CAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC
258 CAACATAACTCAAGGCGAGAAGGGCTAT-T-T-ACCAAAGACCTCCGAGTTCGACTACACTCAGC
2809743 T
320 T
2809744 CAAGGCACAT
Statistics
Matches: 271, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
329 23 0.08
330 39 0.14
331 1 0.00
332 50 0.18
333 158 0.58
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (332 bp):
CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
ACCCAACTTCAAGGACACATCATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCACCAAA
GACATTCGAGTTCGACAACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAA
GGGCTATCTGTCACACAAGACCCCCGAGTTCGACTACACTCAGCTCAACGGCACATCATTTACAA
CATAACTCAAGGCGAGAAGGGCTATTTACCAAAGACCTCCGAGTTCGACTACACTCAGCTTCGAG
GGCGCGC
Found at i:2809814 original size:165 final size:167
Alignment explanation
Indices: 2809090--2809761 Score: 727
Period size: 165 Copynumber: 4.0 Consensus size: 167
2809080 TTTAAGACAA
* * *
2809090 CATTTGCAGTATAACTTAAGTCGATAAGGGTTATCTG-CTAACAAAAGACCTTTGAGTTCGATTA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-AAC-AAAGACCTTTGAGTTCGATTA
* * * * *
2809154 CACCCAGCTTCGAGGACATATCATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCACCAA
64 CACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAA
*
2809219 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
129 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
** * * * *
2809258 CATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCTGTCAACACAAGACCTTTGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACA-AAGACCTTTGAGTTCGATTAC
* * * * * ** * * *
2809323 GCTCAGC-TCAACGGCACATCATTTACAACATAGCTTAATTCGAGAAGGGCTAT-T-T-GCCAAA
65 ACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAA
* * * * * **
2809384 GATCC-CCGAGTTCGACTACACTCAGCTTCGAGGGCGCGC
130 GA-CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACAT
* * * * *
2809423 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTAG
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAA-CAAAGACCTTTGAGTTCGATTAC
* * * * * *
2809488 GCTCAAC-TCTAAGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAA
65 ACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AA
* * *
2809552 AGACATTCGAGTTCGACAACGTTCAGCTCCAAGGCACAT
129 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * ***
2809591 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--CAAAGACCCCCGAGTTCGATTACA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACA
*
2809653 CTCAGCTTCGAGGGCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAG
66 CTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAG
2809718 ACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACAT
131 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
2809754 CATTTACA
1 CATTTACA
2809762 ACATTGCCCA
Statistics
Matches: 413, Mismatches: 80, Indels: 27
0.79 0.15 0.05
Matches are distributed among these distances:
163 17 0.04
164 76 0.18
165 153 0.37
166 4 0.01
167 37 0.09
168 103 0.25
169 23 0.06
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (167 bp):
CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACA
CTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAG
ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
Found at i:2817080 original size:60 final size:60
Alignment explanation
Indices: 2817011--2817164 Score: 164
Period size: 60 Copynumber: 2.6 Consensus size: 60
2817001 AAAATACTAG
* * * * ** ** *
2817011 GGACCAATTTAGAATGATATTCATAGTTTAGGGATGAAATTTGAATGTTCAAAAGTTTAA
1 GGACTAATTTAGAATGAGAGTCATAGTTTAAGGATGAAATTAAAAAATTAAAAAGTTTAA
* * *
2817071 GGACTAATTTAAAATGAGAGTCATATTTTAAGGATGAAATTAAAAAATTAAAAATTTTAA
1 GGACTAATTTAGAATGAGAGTCATAGTTTAAGGATGAAATTAAAAAATTAAAAAGTTTAA
* * * *
2817131 GGAATAATTTGGAATGAGAGTTATATTTTAAGGA
1 GGACTAATTTAGAATGAGAGTCATAGTTTAAGGA
2817165 CACATGATGC
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 78 1.00
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (60 bp):
GGACTAATTTAGAATGAGAGTCATAGTTTAAGGATGAAATTAAAAAATTAAAAAGTTTAA
Found at i:2817101 original size:31 final size:31
Alignment explanation
Indices: 2817066--2817165 Score: 82
Period size: 31 Copynumber: 3.3 Consensus size: 31
2817056 TGTTCAAAAG
*
2817066 TTTAAGGACTAATTTAAAATGAGAGTCATAT
1 TTTAAGGACTAATTTAAAATGAGAGTAATAT
* * *
2817097 TTTAAGGA-TGAAATTAAAA--A-ATTAAAAAT
1 TTTAAGGACT-AATTTAAAATGAGAGT-AATAT
* ** *
2817126 TTTAAGGAATAATTTGGAATGAGAGTTATAT
1 TTTAAGGACTAATTTAAAATGAGAGTAATAT
2817157 TTTAAGGAC
1 TTTAAGGAC
2817166 ACATGATGCA
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
28 2 0.04
29 18 0.35
30 2 0.04
31 28 0.54
32 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (31 bp):
TTTAAGGACTAATTTAAAATGAGAGTAATAT
Found at i:2818674 original size:20 final size:19
Alignment explanation
Indices: 2818646--2818684 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
2818636 ATTGAAACTC
2818646 ACCACTTGCCCTTTTCTTTT
1 ACCACTTG-CCTTTTCTTTT
*
2818666 ACCATTTGCCTTTTCTTTT
1 ACCACTTGCCTTTTCTTTT
2818685 CTAAGTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.10, C:0.31, G:0.05, T:0.54
Consensus pattern (19 bp):
ACCACTTGCCTTTTCTTTT
Found at i:2824182 original size:20 final size:22
Alignment explanation
Indices: 2824157--2824214 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
2824147 TTCCCCTTGA
2824157 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
*
2824177 AGTGCATCGATACATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
2824200 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
2824215 CTACCCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 3 0.09
24 12 0.38
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:2824276 original size:65 final size:63
Alignment explanation
Indices: 2824202--2824343 Score: 178
Period size: 65 Copynumber: 2.2 Consensus size: 63
2824192 TCTTTAACAT
* *
2824202 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACCTTCGATGTTTTCATT-TTTAAAGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATG-TTTC-TTCTTTAAAGA
* ** * * *
2824266 GATGCATCGATGCACTTCTTATGCATCGATGCACCAATTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGA
2824330 GTGCATCGATGCAC
1 GTGCATCGATGCAC
2824344 ATTGAATGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
63 15 0.22
64 13 0.19
65 40 0.59
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGA
Found at i:2824356 original size:65 final size:65
Alignment explanation
Indices: 2824203--2824365 Score: 172
Period size: 65 Copynumber: 2.5 Consensus size: 65
2824193 CTTTAACATG
** * * *
2824203 TGCATCGATGCAC-TACCCATGCATCGATACACAAATTACCTTCGATGTTTTCATTTTTAAAGGG
1 TGCATCGATGCACTTA-ATATGCATCGATACACCAATTACATTCGATGTTTTCATTTTTAAAGAG
2824267 A
65 A
** * *
2824268 TGCATCGATGCACTTCTTATGCATCGATGCACCAATTGCATTCGATG-TTTC-TTCTTTAAAGAG
1 TGCATCGATGCACTTAATATGCATCGATACACCAATTACATTCGATGTTTTCATT-TTTAAAGAG
2824331 -
65 A
*
2824331 TGCATCGATGCACATTGAATGTGCATCGATACACC
1 TGCATCGATGCAC-TT-AATATGCATCGATACACC
2824366 TTGCCCAGAA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
63 15 0.18
64 14 0.17
65 52 0.63
66 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (65 bp):
TGCATCGATGCACTTAATATGCATCGATACACCAATTACATTCGATGTTTTCATTTTTAAAGAGA
Found at i:2827965 original size:30 final size:30
Alignment explanation
Indices: 2827929--2827995 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
2827919 TACAGAACGG
* *
2827929 CGGTTCACACCGATTTTGCCGATTTTCAGC
1 CGGTTCACACCGATTTTACCGATTCTCAGC
* * *
2827959 CGGTTCACACCGGTTTTACCGGTTCTCAGT
1 CGGTTCACACCGATTTTACCGATTCTCAGC
2827989 CGGTTCA
1 CGGTTCA
2827996 TTGCAAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.15, C:0.30, G:0.22, T:0.33
Consensus pattern (30 bp):
CGGTTCACACCGATTTTACCGATTCTCAGC
Found at i:2828065 original size:15 final size:16
Alignment explanation
Indices: 2828040--2828071 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
2828030 ACAGACCACT
2828040 GGTTCACGATTCAACC
1 GGTTCACGATTCAACC
2828056 GGTT-ACGATTCAACC
1 GGTTCACGATTCAACC
2828071 G
1 G
2828072 ATTGAACCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (16 bp):
GGTTCACGATTCAACC
Found at i:2834188 original size:7 final size:7
Alignment explanation
Indices: 2834178--2834208 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
2834168 TTTTAGAGGA
2834178 AAAAAGT
1 AAAAAGT
2834185 AAAAAGT
1 AAAAAGT
2834192 AAAAAGT
1 AAAAAGT
*
2834199 AAAAAAT
1 AAAAAGT
2834206 AAA
1 AAA
2834209 TAATAAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (7 bp):
AAAAAGT
Found at i:2835704 original size:15 final size:16
Alignment explanation
Indices: 2835666--2835705 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
2835656 ACAGAGTCTC
*
2835666 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
2835682 TGAATCATTCAGCGCT
1 TGAATCATTCAGCACT
2835698 T-AATCATT
1 TGAATCATT
2835706 TTGAAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:2836423 original size:99 final size:99
Alignment explanation
Indices: 2836317--2836520 Score: 363
Period size: 99 Copynumber: 2.1 Consensus size: 99
2836307 CTCAGTTGTA
* * *
2836317 AATAAATAGAACATTCGGTGAACTGTCCGTATGATATTTGTTTATGTTTGTTTGTTAAGCTAAAT
1 AATAAATAGAACATTCAGTGAAATGTCCGTATGATATTTGTTTATGTTTGTTTGTTAAGCAAAAT
*
2836382 CAACGAGTATGAATAAAAAATTATATGCTCGTTT
66 AAACGAGTATGAATAAAAAATTATATGCTCGTTT
2836416 AATAAATAGAACATTCAGTGAAATGTCCGTATGATATTTGTTTATGTTTGTTTGTTAAGCAAAAT
1 AATAAATAGAACATTCAGTGAAATGTCCGTATGATATTTGTTTATGTTTGTTTGTTAAGCAAAAT
*
2836481 AAACGAGTATGAATAAAAAATTATATGTTCGTTT
66 AAACGAGTATGAATAAAAAATTATATGCTCGTTT
2836515 AATAAA
1 AATAAA
2836521 CTAGCATGAA
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (99 bp):
AATAAATAGAACATTCAGTGAAATGTCCGTATGATATTTGTTTATGTTTGTTTGTTAAGCAAAAT
AAACGAGTATGAATAAAAAATTATATGCTCGTTT
Found at i:2842720 original size:24 final size:24
Alignment explanation
Indices: 2842693--2842773 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
2842683 CCACTTAACA
2842693 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCCTTTGAAT
* *
2842717 GTGCATCGATTCAT-CATGTTG-A-
1 GTGCATCGATGCATCCCT-TTGAAT
*
2842739 -TGCACCGATGCA-CGCC-TTGAAT
1 GTGCATCGATGCATC-CCTTTGAAT
2842761 GTGCATCGATGCA
1 GTGCATCGATGCA
2842774 CGGGGTCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
20 3 0.07
21 11 0.24
22 1 0.02
23 14 0.31
24 16 0.36
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTTGAAT
Found at i:2844348 original size:21 final size:21
Alignment explanation
Indices: 2844306--2844349 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2844296 ACCCCGGGAG
*
2844306 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
2844327 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
2844348 CT
1 CT
2844350 CCGGCACCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:2845564 original size:64 final size:64
Alignment explanation
Indices: 2845477--2845620 Score: 186
Period size: 64 Copynumber: 2.2 Consensus size: 64
2845467 ATTTTCAAAG
* * *
2845477 TTATGCA-CGATGCACCAATCCATGCATCGGTGCACTAATTAATTTTTC-AAACATTGAATGCAT
1 TTATGCATCGATGCA-CAATCCATGCATCGATGCACTAA-GAATTTTTCAAAACATCGAATGCAT
2845540 T
64 T
* **
2845541 TTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAGGCTTTTTCAAAACATCGAATGCATT
1 TTATGCATCGATGCACAAT-CCATGCATCGATGCACTAAGAATTTTTCAAAACATCGAATGCATT
2845605 TTATGCATCGATGCAC
1 TTATGCATCGATGCAC
2845621 TCTTAGTGCA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
63 8 0.11
64 56 0.79
65 7 0.10
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (64 bp):
TTATGCATCGATGCACAATCCATGCATCGATGCACTAAGAATTTTTCAAAACATCGAATGCATT
Found at i:2846920 original size:2 final size:2
Alignment explanation
Indices: 2846913--2846968 Score: 75
Period size: 2 Copynumber: 30.0 Consensus size: 2
2846903 CCGCCCCGAT
*
2846913 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2846954 TA T- TA -A T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
2846969 AAATATTTTC
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
1 4 0.08
2 45 0.92
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:2848268 original size:17 final size:17
Alignment explanation
Indices: 2848248--2848281 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2848238 TGAACATTTA
2848248 ATCACTTTATTACAGTC
1 ATCACTTTATTACAGTC
2848265 ATCACTTTATTACAGTC
1 ATCACTTTATTACAGTC
2848282 GTTGGTGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
ATCACTTTATTACAGTC
Found at i:2849503 original size:47 final size:47
Alignment explanation
Indices: 2849434--2849535 Score: 204
Period size: 47 Copynumber: 2.2 Consensus size: 47
2849424 CCTGATCTTC
2849434 AACAAATTAGCCTACGTTGTTCATGCAGCTGCAGAACGCCCTGTAGG
1 AACAAATTAGCCTACGTTGTTCATGCAGCTGCAGAACGCCCTGTAGG
2849481 AACAAATTAGCCTACGTTGTTCATGCAGCTGCAGAACGCCCTGTAGG
1 AACAAATTAGCCTACGTTGTTCATGCAGCTGCAGAACGCCCTGTAGG
2849528 AACAAATT
1 AACAAATT
2849536 CATTGTAATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (47 bp):
AACAAATTAGCCTACGTTGTTCATGCAGCTGCAGAACGCCCTGTAGG
Found at i:2850655 original size:22 final size:22
Alignment explanation
Indices: 2850628--2850671 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2850618 GATTAGATTA
2850628 AAATTT-AATAAATATTTAAATT
1 AAATTTAAAT-AATATTTAAATT
*
2850650 AAATTTAAATTATATTTAAATT
1 AAATTTAAATAATATTTAAATT
2850672 TTTAATGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATTTAAATAATATTTAAATT
Found at i:2850658 original size:11 final size:11
Alignment explanation
Indices: 2850628--2850671 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
2850618 GATTAGATTA
*
2850628 AAATTT-AATA
1 AAATTTAAATT
2850638 AATATTTAAATT
1 AA-ATTTAAATT
2850650 AAATTTAAATT
1 AAATTTAAATT
*
2850661 ATATTTAAATT
1 AAATTTAAATT
2850672 TTTAATGAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 2 0.07
11 23 0.77
12 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATTTAAATT
Found at i:2851538 original size:15 final size:17
Alignment explanation
Indices: 2851506--2851538 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2851496 GATGAGTTTT
2851506 AATAAAATATATTAGAA
1 AATAAAATATATTAGAA
2851523 AATAAAAT-TA-TAGAA
1 AATAAAATATATTAGAA
2851538 A
1 A
2851539 CATCCAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 2 0.12
17 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (17 bp):
AATAAAATATATTAGAA
Found at i:2864061 original size:10 final size:11
Alignment explanation
Indices: 2864046--2864127 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 11
2864036 AACAAACCAC
2864046 AAAAAAATAAA
1 AAAAAAATAAA
2864057 AAAAAAATAAA
1 AAAAAAATAAA
*
2864068 AAAACTAACTAGATTTA
1 AAAA--AAATA-A---A
*
2864085 AAAAAAAGAAA
1 AAAAAAATAAA
2864096 AAAAAAA-AAA
1 AAAAAAATAAA
*
2864106 AAGAAAACATAAT
1 AA-AAAA-ATAAA
2864119 AAAAAAATA
1 AAAAAAATA
2864128 TGATTAAGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
10 5 0.09
11 30 0.52
12 5 0.09
13 8 0.14
14 2 0.03
15 3 0.05
17 5 0.09
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:2864173 original size:16 final size:16
Alignment explanation
Indices: 2864148--2864181 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2864138 AAGAAAAGAA
2864148 AATAACAAAATAAAAT
1 AATAACAAAATAAAAT
* *
2864164 AATAATAAAATATAAT
1 AATAACAAAATAAAAT
2864180 AA
1 AA
2864182 CTTAGTCACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAACAAAATAAAAT
Found at i:2865952 original size:34 final size:35
Alignment explanation
Indices: 2865883--2866036 Score: 265
Period size: 35 Copynumber: 4.4 Consensus size: 35
2865873 AAGGTCTTGG
* *
2865883 GTTTTAAGAGAAACATTTTCAAAGGTTTTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTGT
2865918 GTTTCAAGAGAAACAATTTCAAAGG-TTTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTGT
2865952 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTGT
2865987 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGG-TTTTTTTTGT
*
2866023 TTTTCAAGAGAAAC
1 GTTTCAAGAGAAAC
2866037 TGTCCCATGG
Statistics
Matches: 114, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
34 34 0.30
35 57 0.50
36 23 0.20
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (35 bp):
GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTGT
Found at i:2865972 original size:69 final size:70
Alignment explanation
Indices: 2865883--2866036 Score: 265
Period size: 69 Copynumber: 2.2 Consensus size: 70
2865873 AAGGTCTTGG
* *
2865883 GTTTTAAGAGAAACATTTTCAAAGGTTTTTTTTGTGTTTCAAGAGAAACAATTTCAAAGG-TTTT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTTT
2865947 TTTGT
66 TTTGT
2865952 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTTT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTGTGTTTCAAGAGAAACAATTTCAAAGG-TTTT
2866017 TTTTGT
65 TTTTGT
*
2866023 TTTTCAAGAGAAAC
1 GTTTCAAGAGAAAC
2866037 TGTCCCATGG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
69 58 0.73
71 22 0.28
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (70 bp):
GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTTT
TTTGT
Found at i:2866167 original size:21 final size:21
Alignment explanation
Indices: 2866108--2866173 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
2866098 AGAAACTGTC
2866108 TCAAGAGAGACAAAACTTTGTT
1 TCAAGAGAGACAAAA-TTTGTT
*
2866130 TCAAG-G-G---AAA-CTGTT
1 TCAAGAGAGACAAAATTTGTT
2866145 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
2866166 TCAAGAGA
1 TCAAGAGA
2866174 AACTGTCTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
15 9 0.25
16 1 0.03
17 4 0.11
20 4 0.11
21 13 0.36
22 5 0.14
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:2866176 original size:36 final size:37
Alignment explanation
Indices: 2866089--2866203 Score: 205
Period size: 37 Copynumber: 3.1 Consensus size: 37
2866079 CAAAGATTGG
2866089 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* *
2866126 TGTTTCAAGGGAAACTGTTTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
2866162 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
2866199 TGTTT
1 TGTTT
2866204 TGAGTAACTT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 34 0.47
37 39 0.53
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
Found at i:2866494 original size:115 final size:115
Alignment explanation
Indices: 2866292--2866519 Score: 350
Period size: 115 Copynumber: 2.0 Consensus size: 115
2866282 CCTGAAGATA
* * *
2866292 AATGTTGCTGGTGGGTACATTCCCTTCGTCATGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTG
1 AATGTTGCTGGTGAGCACATTCCCTTCGTCATGAAGTTGAAACCGCGGATGGCCCCTTCGTTGTG
* *
2866357 AAGTTGAGCCTTGAATTGGATATCCTTCGCCGTGAAATTGAAATCCAATG
66 AAGTTGAACCTGGAATTGGATATCCTTCGCCGTGAAATTGAAATCCAATG
* *
2866407 AATGTTGCTGGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGCGGGTGG-CCCTTCGTTGT
1 AATGTTGCTGGTGAGCAC-ATTCCCTTCGTCATGAAGTTGAAACCGCGGATGGCCCCTTCGTTGT
* * *
2866471 GAAGTTGAACCTGGATTTGGATATCCTTCGTCGTGAAGTTGAAATCCAA
65 GAAGTTGAACCTGGAATTGGATATCCTTCGCCGTGAAATTGAAATCCAA
2866520 GTAAGTTATA
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
115 71 0.70
116 31 0.30
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (115 bp):
AATGTTGCTGGTGAGCACATTCCCTTCGTCATGAAGTTGAAACCGCGGATGGCCCCTTCGTTGTG
AAGTTGAACCTGGAATTGGATATCCTTCGCCGTGAAATTGAAATCCAATG
Found at i:2867292 original size:32 final size:32
Alignment explanation
Indices: 2867219--2867293 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
2867209 ATTGAATTCC
* * *
2867219 CAAAGATACCCCAATATTCGATGTTGAATCTA
1 CAAAGATGCCCCAACATTCGATGTTCAATCTA
* * * *
2867251 AAAAAATGCCCCAACATTTGATGTTCAATCTT
1 CAAAGATGCCCCAACATTCGATGTTCAATCTA
2867283 CAAAGATGCCC
1 CAAAGATGCCC
2867294 TCATTGTTCC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (32 bp):
CAAAGATGCCCCAACATTCGATGTTCAATCTA
Found at i:2868403 original size:42 final size:39
Alignment explanation
Indices: 2868346--2868430 Score: 98
Period size: 42 Copynumber: 2.1 Consensus size: 39
2868336 TATTGTCTTC
* *
2868346 TTTTTTCTTTACTTTTTCCTTTGTTTTTGTTTCTCCTTTTTA
1 TTTTCTCTTTACTTTTTCCTTCG-TTTT-TTTCT-CTTTTTA
* * *
2868388 TTTTCTCTTTGCTTTTTTCTTCGTTTTTTTCTCTTTTTC
1 TTTTCTCTTTACTTTTTCCTTCGTTTTTTTCTCTTTTTA
2868427 TTTT
1 TTTT
2868431 TGTTCTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
39 10 0.26
40 5 0.13
41 4 0.11
42 19 0.50
ACGTcount: A:0.02, C:0.18, G:0.05, T:0.75
Consensus pattern (39 bp):
TTTTCTCTTTACTTTTTCCTTCGTTTTTTTCTCTTTTTA
Found at i:2870303 original size:5 final size:5
Alignment explanation
Indices: 2870268--2870296 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2870258 GCAAGTGATG
2870268 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
2870297 AATAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:2871913 original size:16 final size:16
Alignment explanation
Indices: 2871888--2871925 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2871878 AAGAAAAGAA
2871888 AATAACAAAATAAAAT
1 AATAACAAAATAAAAT
* *
2871904 AATAATAAAATAATAT
1 AATAACAAAATAAAAT
2871920 AATAAC
1 AATAAC
2871926 TTAGTACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAACAAAATAAAAT
Found at i:2874321 original size:23 final size:23
Alignment explanation
Indices: 2874284--2874385 Score: 177
Period size: 23 Copynumber: 4.4 Consensus size: 23
2874274 AAGTCAATTG
* *
2874284 AAGCTCAATTATGAGCTCGATTC
1 AAGCTCGATTGTGAGCTCGATTC
2874307 AAGCTCGATTGTGAGCTCGATTC
1 AAGCTCGATTGTGAGCTCGATTC
2874330 AAGCTCGATTGTGAGCTCGATTC
1 AAGCTCGATTGTGAGCTCGATTC
2874353 AAGCTCGATTGTGAGCTCGATTC
1 AAGCTCGATTGTGAGCTCGATTC
*
2874376 AATCTCGATT
1 AAGCTCGATT
2874386 CAAGCTCGAT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 76 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (23 bp):
AAGCTCGATTGTGAGCTCGATTC
Found at i:2874325 original size:12 final size:11
Alignment explanation
Indices: 2874285--2874374 Score: 81
Period size: 12 Copynumber: 7.8 Consensus size: 11
2874275 AGTCAATTGA
*
2874285 AGCTCAATTATG
1 AGCTCGATT-TG
**
2874297 AGCTCGATTCA
1 AGCTCGATTTG
2874308 AGCTCGATTGTG
1 AGCTCGATT-TG
**
2874320 AGCTCGATTCA
1 AGCTCGATTTG
2874331 AGCTCGATTGTG
1 AGCTCGATT-TG
**
2874343 AGCTCGATTCA
1 AGCTCGATTTG
2874354 AGCTCGATTGTG
1 AGCTCGATT-TG
2874366 AGCTCGATT
1 AGCTCGATT
2874375 CAATCTCGAT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
11 27 0.44
12 35 0.56
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (11 bp):
AGCTCGATTTG
Found at i:2874337 original size:34 final size:33
Alignment explanation
Indices: 2874297--2874450 Score: 134
Period size: 34 Copynumber: 4.5 Consensus size: 33
2874287 CTCAATTATG
**
2874297 AGCTCGATTCAAGCTCGATTGTGAGCTCGATTCA
1 AGCTCGATTCAAGCTCGATT-CAAGCTCGATTCA
** **
2874331 AGCTCGATTGTGAGCTCGATTCAAGCTCGATTGTG
1 AGCTCGATT-CAAGCTCGATTCAAGCTCGATT-CA
*
2874366 AGCTCGATTCAATCTCGATTCAAGCTCGATTGTC-
1 AGCTCGATTCAAGCTCGATTCAAGCTCGA-T-TCA
* * *
2874400 AGCTCAATTCAAGCTTGAATT-AAGCTCAATTCA
1 AGCTCGATTCAAGCTCG-ATTCAAGCTCGATTCA
2874433 AGCTCGACTT-AAGCTCGA
1 AGCTCGA-TTCAAGCTCGA
2874451 GGATGAGTTA
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
32 3 0.03
33 13 0.13
34 58 0.60
35 22 0.23
36 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (33 bp):
AGCTCGATTCAAGCTCGATTCAAGCTCGATTCA
Found at i:2874404 original size:46 final size:46
Alignment explanation
Indices: 2874297--2874396 Score: 166
Period size: 46 Copynumber: 2.2 Consensus size: 46
2874287 CTCAATTATG
**
2874297 AGCTCGATTCAAGCTCGATTGTGAGCTCGATTCAAGCTCGATTGTG
1 AGCTCGATTCAAGCTCGATTGTGAGCTCGATTCAAGCTCGATTGCA
*
2874343 AGCTCGATTCAAGCTCGATTGTGAGCTCGATTCAATCTCGATT-CA
1 AGCTCGATTCAAGCTCGATTGTGAGCTCGATTCAAGCTCGATTGCA
2874388 AGCTCGATT
1 AGCTCGATT
2874397 GTCAGCTCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 9 0.18
46 42 0.82
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (46 bp):
AGCTCGATTCAAGCTCGATTGTGAGCTCGATTCAAGCTCGATTGCA
Found at i:2874444 original size:22 final size:21
Alignment explanation
Indices: 2874284--2874448 Score: 89
Period size: 23 Copynumber: 7.3 Consensus size: 21
2874274 AAGTCAATTG
2874284 AAGCTCAATT-ATGAGCTCGATT
1 AAGCTCAATTCA--AGCTCGATT
* **
2874306 CAAGCTCGATTGTGAGCTCGATT
1 -AAGCTCAATT-CAAGCTCGATT
* **
2874329 CAAGCTCGATTGTGAGCTCGATT
1 -AAGCTCAATT-CAAGCTCGATT
* **
2874352 CAAGCTCGATTGTGAGCTCGATT
1 -AAGCTCAATT-CAAGCTCGATT
* *
2874375 CAATCTCGATTCAAGCTCGATTGT
1 -AAGCTCAATTCAAGCTCGA-T-T
* *
2874399 CAGCTCAATTCAAGCTTGAATT
1 AAGCTCAATTCAAGCTCG-ATT
2874421 AAGCTCAATTCAAGCTCGACTT
1 AAGCTCAATTCAAGCTCGA-TT
2874443 AAGCTC
1 AAGCTC
2874449 GAGGATGAGT
Statistics
Matches: 125, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
21 1 0.01
22 32 0.26
23 90 0.72
24 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (21 bp):
AAGCTCAATTCAAGCTCGATT
Found at i:2874446 original size:11 final size:11
Alignment explanation
Indices: 2874297--2874450 Score: 134
Period size: 11 Copynumber: 13.6 Consensus size: 11
2874287 CTCAATTATG
2874297 AGCTCGATTCA
1 AGCTCGATTCA
**
2874308 AGCTCGATTGTG
1 AGCTCGATT-CA
2874320 AGCTCGATTCA
1 AGCTCGATTCA
**
2874331 AGCTCGATTGTG
1 AGCTCGATT-CA
2874343 AGCTCGATTCA
1 AGCTCGATTCA
**
2874354 AGCTCGATTGTG
1 AGCTCGATT-CA
2874366 AGCTCGATTCA
1 AGCTCGATTCA
*
2874377 ATCTCGATTCA
1 AGCTCGATTCA
2874388 AGCTCGATTGTC-
1 AGCTCGA-T-TCA
*
2874400 AGCTCAATTCA
1 AGCTCGATTCA
*
2874411 AGCTTGAATT-A
1 AGCTCG-ATTCA
*
2874422 AGCTCAATTCA
1 AGCTCGATTCA
2874433 AGCTCGACTT-A
1 AGCTCGA-TTCA
2874444 AGCTCGA
1 AGCTCGA
2874451 GGATGAGTTA
Statistics
Matches: 114, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
10 5 0.04
11 68 0.60
12 39 0.34
13 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:2875314 original size:184 final size:183
Alignment explanation
Indices: 2874953--2875315 Score: 566
Period size: 184 Copynumber: 2.0 Consensus size: 183
2874943 AACATCAGGA
*
2874953 CCCTTGAATTCTGGAACTCAGGCGAAGCAGAAAAATCCAGTTGCAAATGATCCTGCAGTTGCTAA
1 CCCTTGAATTCTGGAACTCAGGCGAAGCAGAAAAATCCAGTTGCAAATGATCCTGCAGTTGCCAA
* *
2875018 GGACACTATGGTATTTTTATTTTTATGATTATGCTCATGGATCGAATACAGTCTAGTATTCCAGT
66 AGACACTATGGTATTTTTATTTTTATGATTATGCTCATGGATCGAATACAGTCTAGCATTCCAGT
* *
2875083 AATTGTCTTACTTCCTTTTCACTGTGGATGCATCTACATACACACACACACACT
131 AACTGTCTTACTTCCTTTTCACTGAGGATGCATCTACATA-ACACACACACACT
* * *
2875137 CCCTTGAATTTTGGAAGTCAGGCGAAGCAGAAAAATCCAGTTGCAAATGATCCTGCAGTTTCCAA
1 CCCTTGAATTCTGGAACTCAGGCGAAGCAGAAAAATCCAGTTGCAAATGATCCTGCAGTTGCCAA
** * *
2875202 AGACACTATGGTATTTTTATTTTTATTTTTATGATTACATGGATCGAGTACAGTCTAGCATTCCA
66 AGACACTATGGTATTTTTATTTTTATGATTATG-CT-CATGGATCGAATACAGTCTAGCATTCCA
* *
2875267 GTTACTGTCTTACTTCCTTTTCATTGAGGATGCATCTACAT-ACACACAC
129 GTAACTGTCTTACTTCCTTTTCACTGAGGATGCATCTACATAACACACAC
2875316 TCCTATGAAG
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
184 99 0.61
185 1 0.01
186 63 0.39
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (183 bp):
CCCTTGAATTCTGGAACTCAGGCGAAGCAGAAAAATCCAGTTGCAAATGATCCTGCAGTTGCCAA
AGACACTATGGTATTTTTATTTTTATGATTATGCTCATGGATCGAATACAGTCTAGCATTCCAGT
AACTGTCTTACTTCCTTTTCACTGAGGATGCATCTACATAACACACACACACT
Found at i:2881409 original size:53 final size:53
Alignment explanation
Indices: 2881352--2881454 Score: 129
Period size: 53 Copynumber: 1.9 Consensus size: 53
2881342 CAGGATGGAA
* *
2881352 ACCATC-ATCAAAATGGGTCACTAATCGAATAAAAT-TCAGATTTCAGGGTGAGC
1 ACCATCAAT-AAAATAGGTCACTAATCGAAGAAAATCT-AGATTTCAGGGTGAGC
* * *
2881405 ACCATCAATAAAATATGTGACTAATCGAAGAAAATCTGGATTTCAGGGTG
1 ACCATCAATAAAATAGGTCACTAATCGAAGAAAATCTAGATTTCAGGGTG
2881455 GACACGTGCC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
53 40 0.93
54 3 0.07
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (53 bp):
ACCATCAATAAAATAGGTCACTAATCGAAGAAAATCTAGATTTCAGGGTGAGC
Found at i:2891103 original size:15 final size:15
Alignment explanation
Indices: 2891083--2891132 Score: 100
Period size: 15 Copynumber: 3.3 Consensus size: 15
2891073 CCGTAGGACC
2891083 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
2891098 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
2891113 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
2891128 ACTAC
1 ACTAC
2891133 AATACCCTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:2891788 original size:35 final size:36
Alignment explanation
Indices: 2891742--2891810 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
2891732 TCATTTAGGG
2891742 GGAATCGATACCCCCCAGGGG-GAATCTGTTCCCGT
1 GGAATCGATACCCCCCAGGGGAGAATCTGTTCCCGT
2891777 GGAATCGATACCCCCCAGGGGAGAATCTGTTCCC
1 GGAATCGATACCCCCCAGGGGAGAATCTGTTCCC
2891811 CCTGCACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 21 0.64
36 12 0.36
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.19
Consensus pattern (36 bp):
GGAATCGATACCCCCCAGGGGAGAATCTGTTCCCGT
Found at i:2894416 original size:17 final size:18
Alignment explanation
Indices: 2894386--2894419 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2894376 TAATCTTTTG
2894386 TGTTTGTCCTAATTTTAT
1 TGTTTGTCCTAATTTTAT
*
2894404 TGTTTTTCC-AATTTTA
1 TGTTTGTCCTAATTTTA
2894420 ATTTTAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.18, C:0.12, G:0.09, T:0.62
Consensus pattern (18 bp):
TGTTTGTCCTAATTTTAT
Found at i:2903197 original size:39 final size:38
Alignment explanation
Indices: 2903143--2903256 Score: 155
Period size: 34 Copynumber: 3.1 Consensus size: 38
2903133 AAAGTCAAGT
* *
2903143 CTTCACCAAAGAGTAGTAAAGCAAATCCATTTTGTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCA-TCTGTAAGC
2903182 CTTCACCAAAGAGTAGTGAAGC--A-CCATCT-TAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATCTGTAAGC
**
2903216 CTTCACGGAAGAGTAGTGAAGCAAATCCATCTGTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATCTGTAAGC
2903254 CTT
1 CTT
2903257 TAGAGCAAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
34 25 0.37
35 2 0.03
36 4 0.06
37 7 0.10
38 8 0.12
39 21 0.31
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (38 bp):
CTTCACCAAAGAGTAGTGAAGCAAATCCATCTGTAAGC
Found at i:2903468 original size:42 final size:41
Alignment explanation
Indices: 2903409--2903503 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 41
2903399 TTTATAAGTA
* * * *
2903409 CTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATC
1 CTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG-ATAAATC
* *
2903451 CTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGATAAGTC
1 CTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAATC
2903492 CTTCGGGCCATC
1 CTTCGGGCCATC
2903504 CATAAAACCT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 17 0.36
42 30 0.64
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (41 bp):
CTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAATC
Found at i:2903692 original size:42 final size:41
Alignment explanation
Indices: 2903624--2903721 Score: 115
Period size: 42 Copynumber: 2.4 Consensus size: 41
2903614 TATAAGTCTG
* * * *
2903624 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCT
1 TCGGGCCATCAGTAAGCCTTTAGAGCAAGATG-ATAAATCCT
* * *
2903666 TCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCT
1 TCGGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAATCCT
*
2903707 TCGGGCCATCCGTAA
1 TCGGGCCATCAGTAA
2903722 AACCTTCGGG
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 20 0.43
42 27 0.57
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (41 bp):
TCGGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAATCCT
Found at i:2903883 original size:215 final size:214
Alignment explanation
Indices: 2903242--2903883 Score: 1083
Period size: 213 Copynumber: 3.0 Consensus size: 214
2903232 TGAAGCAAAT
2903242 CCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
1 CCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
*
2903307 ATGTTTTTACATGAATTTGAAAAATGAAAAAATGATGTTTTGAGAAGATGAAATTTTTGAAAACA
66 ATGTTTTTACATGAATTTG-AAAATGAAAAAACGATGTTTTGAGAAGATGAAATTTTTGAAAACA
2903372 AAGAATGTGATTTTCAAAATTTCACAATTTATAAGTACTTCGGGCCATCAGTAAGTCTTTCGAGC
130 AAGAATGTGATTTTCAAAATTTCACAATTTATAAG-ACTTCGGGCCATCAGTAAGTCTTTCGAGC
2903437 ATGATGCTTAAATCCTTCGGG
194 ATGATGCTTAAATCCTTCGGG
2903458 CCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
1 CCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
* * *
2903523 ATGTTTTTACATGAATTTGAAAATG---AAACTTATGTTTTAAGAAGATGAAATTTTTGAAAACG
66 ATGTTTTTACATGAATTTGAAAATGAAAAAAC-GATGTTTTGAGAAGATGAAATTTTTGAAAACA
* * *
2903585 AGGAATGTGATTTTCAAAATTTCATAATTTATAAGTCTGTCGGGCCATCAGTAAGTCTTTCGAGC
130 AAGAATGTGATTTTCAAAATTTCACAATTTATAAGACT-TCGGGCCATCAGTAAGTCTTTCGAGC
2903650 ATGATGCTTAAATCCTTCGGG
194 ATGATGCTTAAATCCTTCGGG
* *
2903671 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAAACCTTCGGGTAGG
1 CCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
* *
2903736 ATATTTTCACATGAATTTGAAAATGAAAAAACGATGTTTTGAGAAGATGAAATTTTTGAAAACAA
66 ATGTTTTTACATGAATTTGAAAATGAAAAAACGATGTTTTGAGAAGATGAAATTTTTGAAAACAA
* * *
2903801 AGAATGCGATTTTCAAAATTTCACAATTTATAAGCCCTTCGGGCCATTAGTAAGTCTTTCGAGCA
131 AGAATGTGATTTTCAAAATTTCACAATTTATAAG-ACTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
2903866 TGATGATTAAATCCTTCG
195 TGATGCTTAAATCCTTCG
2903884 AGTAATTTGC
Statistics
Matches: 400, Mismatches: 20, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
212 5 0.01
213 195 0.49
215 110 0.28
216 90 0.22
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (214 bp):
CCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
ATGTTTTTACATGAATTTGAAAATGAAAAAACGATGTTTTGAGAAGATGAAATTTTTGAAAACAA
AGAATGTGATTTTCAAAATTTCACAATTTATAAGACTTCGGGCCATCAGTAAGTCTTTCGAGCAT
GATGCTTAAATCCTTCGGG
Found at i:2903942 original size:13 final size:13
Alignment explanation
Indices: 2903924--2903948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2903914 TGAAGCAAAT
2903924 CCATCAGTAAGTG
1 CCATCAGTAAGTG
2903937 CCATCAGTAAGT
1 CCATCAGTAAGT
2903949 CTTTCGAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:2904105 original size:53 final size:53
Alignment explanation
Indices: 2904041--2904440 Score: 536
Period size: 53 Copynumber: 7.5 Consensus size: 53
2904031 ATCACACCAT
* *
2904041 AAGATTGTTCGAGTTCTACTCCCTAAAGCAAGAGGGGGCGAACCCGTAGGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
*
2904094 AAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
* * *
2904147 AAGATTGTTCGAGTTTTACTCCCTGAAGCAAGCGGGAGCGAACCCATAGGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
* *
2904200 AAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAGGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
* * *
2904253 AATATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAGGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
* * *
2904306 AAGACTGTTCAAGTTCTACTCCCTTAAGCAAGAGGGAGCGAACCCGCT-GGTC-G
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCG-TAGG-CAG
* * * ** **
2904359 AAGATTGTTCGAGTTCTACTCCATGAAGCAATAGGGAG-AAGACCCGTTTGTTG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGA-ACCCGTAGGCAG
*
2904412 AAGATTGTTCGAGTCATATACTCCCTGAA
1 AAGATTGTTCGAGT--TCTACTCCCTGAA
2904441 CGAATAGGTA
Statistics
Matches: 309, Mismatches: 31, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
52 2 0.01
53 294 0.95
54 2 0.01
55 11 0.04
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (53 bp):
AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
Found at i:2905851 original size:17 final size:18
Alignment explanation
Indices: 2905811--2905853 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2905801 CTTTAGAATT
*
2905811 TAATCTTTTGTGTTTGTCC
1 TAAT-TTTTCTGTTTGTCC
*
2905830 TAATTTTTCTGTTTTTCC
1 TAATTTTTCTGTTTGTCC
2905848 -AATTTT
1 TAATTTT
2905854 AATTTTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 12 0.55
19 4 0.18
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.63
Consensus pattern (18 bp):
TAATTTTTCTGTTTGTCC
Found at i:2908493 original size:27 final size:26
Alignment explanation
Indices: 2908459--2908511 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
2908449 CTATTTTTTT
2908459 CTTTTTTTCT-TTTTTAAATTTATAAA
1 CTTTTTTT-TATTTTTAAATTTATAAA
* *
2908485 CTTTATTTTTATTTTTAATTTTTTAAA
1 CTTT-TTTTTATTTTTAAATTTATAAA
2908512 ATATTTTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (26 bp):
CTTTTTTTTATTTTTAAATTTATAAA
Found at i:2909963 original size:20 final size:21
Alignment explanation
Indices: 2909938--2910030 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
2909928 TTTTCCCAAT
*
2909938 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2909958 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
2909979 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2909999 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2910020 TCGCAATGCGA
1 TCGCAATGCGA
2910031 CACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2909983 original size:41 final size:41
Alignment explanation
Indices: 2909938--2910030 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
2909928 TTTTCCCAAT
2909938 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2909979 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2910020 TCGCAATGCGA
1 TCGCAATGCGA
2910031 CACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:2910061 original size:41 final size:41
Alignment explanation
Indices: 2910016--2910093 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
2910006 GCGAATTGGG
* * *
2910016 AAAATCGCAATGCGACACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGACACTGACTATCGCAACGCGATAATAC
* * *
2910057 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGACACTGACTATCGCAACGCGATA
2910094 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (41 bp):
AAAATCGCAACGAGACACTGACTATCGCAACGCGATAATAC
Found at i:2910086 original size:20 final size:20
Alignment explanation
Indices: 2910061--2910133 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
2910051 TAATACAAAA
*
2910061 TCGCAACGAGATACTTACTT
1 TCGCAACGAGATACTGACTT
*
2910081 TCGCAACGCGATACTGACTT
1 TCGCAACGAGATACTGACTT
*
2910101 TCGCAACGCA-ATTCTGACTT
1 TCGCAACG-AGATACTGACTT
*
2910121 TCGCAACGCGATA
1 TCGCAACGAGATA
2910134 ATATATAATC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (20 bp):
TCGCAACGAGATACTGACTT
Found at i:2910349 original size:22 final size:22
Alignment explanation
Indices: 2910321--2910364 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2910311 CACTCTCTCA
2910321 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2910343 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2910365 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2910652 original size:20 final size:20
Alignment explanation
Indices: 2910627--2910664 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2910617 CGATTCTCTC
2910627 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
2910647 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
2910665 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:2912019 original size:18 final size:18
Alignment explanation
Indices: 2911975--2912019 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2911965 TCCACTTCGG
*
2911975 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
2911993 GAACTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
2912011 GAGCCATCA
1 GAGCCATCA
2912020 TCTGATCGAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.44, G:0.13, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2912572 original size:14 final size:14
Alignment explanation
Indices: 2912553--2912610 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2912543 ATGCGAAATG
2912553 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2912567 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
2912583 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2912599 AAAATCGCAACG
1 AAAATCGCAACG
2912611 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2912595 original size:32 final size:33
Alignment explanation
Indices: 2912537--2912627 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
2912527 CGAAATGGCT
2912537 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
2912570 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
2912602 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
2912628 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:2912621 original size:19 final size:19
Alignment explanation
Indices: 2912500--2912632 Score: 90
Period size: 19 Copynumber: 7.6 Consensus size: 19
2912490 TAGTTTACTT
* **
2912500 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
2912519 TCGCAACGCGAAATGGCTA
1 TCGCAACGCGAAATGAAAA
*
2912538 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2912557 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
*
2912571 TCGCAATGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
2912589 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
2912603 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2912622 TCGCAATGCGA
1 TCGCAACGCGA
2912633 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 22
0.74 0.09 0.18
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 52 0.57
ACGTcount: A:0.43, C:0.23, G:0.20, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2912663 original size:14 final size:14
Alignment explanation
Indices: 2912644--2912701 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
2912634 TTGTGTTTCG
*
2912644 CGTTGCGATTTTGT
1 CGTTGCGATTTTTT
2912658 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TTT
2912674 CGCGTTGCGATTTTTT
1 --CGTTGCGATTTTTT
*
2912690 CGTTGCAATTTT
1 CGTTGCGATTTT
2912702 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 22 0.58
16 5 0.13
18 11 0.29
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTTT
Found at i:2912678 original size:32 final size:33
Alignment explanation
Indices: 2912639--2912717 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
2912629 GCGATTTGTG
*
2912639 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCAATTTTCA
*
2912671 TTTCGCGTTGCGATTTTTTCGTTGCAATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCAATTTTCA
*
2912704 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
2912718 AGCCATTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 25 0.58
33 18 0.42
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCAATTTTCA
Found at i:2912736 original size:20 final size:19
Alignment explanation
Indices: 2912702--2912757 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
2912692 TTGCAATTTT
*
2912702 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
2912721 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
2912741 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
2912758 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:2914626 original size:14 final size:14
Alignment explanation
Indices: 2914607--2914642 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2914597 ATTGTTTAAT
2914607 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2914621 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2914635 TGATTTGT
1 TGATTTGT
2914643 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Done.