Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_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: 4970990
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 21
Found at i:4392684 original size:23 final size:23
Alignment explanation
Indices: 4392646--4392722 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
4392636 AGTCGAGGGT
4392646 TCTACGTGGTTC-TTCGGGACAAA
1 TCTACGTGG-TCATTCGGGACAAA
* *
4392669 TCTACGTTGTCATTCGGGATAAA
1 TCTACGTGGTCATTCGGGACAAA
** * *
4392692 TTCTACACGGTCCTTCAGGACAAA
1 -TCTACGTGGTCATTCGGGACAAA
4392716 TCTACGT
1 TCTACGT
4392723 AGCACTTCGG
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 2 0.05
23 23 0.55
24 17 0.40
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (23 bp):
TCTACGTGGTCATTCGGGACAAA
Found at i:4396653 original size:15 final size:15
Alignment explanation
Indices: 4396633--4396679 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
4396623 TACTATGAGT
*
4396633 ATATGTTATAGGTGA
1 ATATGTTATACGTGA
4396648 ATATGTTATACGTGAA
1 ATATGTTATACGTG-A
*
4396664 AAATGTTATACGTGA
1 ATATGTTATACGTGA
4396679 A
1 A
4396680 AAATGTTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.36
Consensus pattern (15 bp):
ATATGTTATACGTGA
Found at i:4396700 original size:15 final size:16
Alignment explanation
Indices: 4396635--4396697 Score: 83
Period size: 16 Copynumber: 4.0 Consensus size: 16
4396625 CTATGAGTAT
* *
4396635 ATGTTATAGGTG-AAT
1 ATGTTATACGTGAAAA
4396650 ATGTTATACGTGAAAA
1 ATGTTATACGTGAAAA
4396666 ATGTTATACGTGAAAA
1 ATGTTATACGTGAAAA
* *
4396682 ATGTTCTATGTGAAAA
1 ATGTTATACGTGAAAA
4396698 TGTGCTAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
15 11 0.26
16 32 0.74
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTTATACGTGAAAA
Found at i:4396860 original size:23 final size:23
Alignment explanation
Indices: 4396830--4396906 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
4396820 AGTCAAGGGT
4396830 TCTACGTTGTTCTTCGGGACAAA
1 TCTACGTTGTTCTTCGGGACAAA
* *
4396853 TCTACGTTG-TCATTCGAGATAAA
1 TCTACGTTGTTC-TTCGGGACAAA
*** * *
4396876 TTCTACACGGTCCTTCAGGACAAA
1 -TCTACGTTGTTCTTCGGGACAAA
4396900 TCTACGT
1 TCTACGT
4396907 GGCACTTCGG
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
22 2 0.05
23 23 0.57
24 14 0.35
25 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (23 bp):
TCTACGTTGTTCTTCGGGACAAA
Found at i:4402776 original size:27 final size:27
Alignment explanation
Indices: 4402746--4402798 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4402736 TCGGTTTCAT
4402746 TATTATGAA-TATAT-ATTTTATGTGAAA
1 TATTAT-AAGTATATGA-TTTATGTGAAA
4402773 TATTATAAGTATATGATTTATGTGAA
1 TATTATAAGTATATGATTTATGTGAA
4402799 TATGTTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 2 0.08
27 21 0.88
28 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (27 bp):
TATTATAAGTATATGATTTATGTGAAA
Found at i:4403252 original size:23 final size:24
Alignment explanation
Indices: 4403151--4403261 Score: 131
Period size: 24 Copynumber: 4.8 Consensus size: 24
4403141 GAGTCGAGGG
* * *
4403151 TTCTTCGTTGTCCTTCGGGATAAA
1 TTCTACGTGGTCCTTCGGGACAAA
4403175 -TCTACG-GGTCCTTCGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
* * *
4403197 TTCTAAGTTGTCCTTTGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
4403221 TTCTACGTGGTCCTTCGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
4403245 -TCTACGTGG-CACTTCGG
1 TTCTACGTGGTC-CTTCGG
4403262 TGCATATTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
22 15 0.20
23 25 0.33
24 35 0.47
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.32
Consensus pattern (24 bp):
TTCTACGTGGTCCTTCGGGACAAA
Found at i:4403401 original size:19 final size:19
Alignment explanation
Indices: 4403357--4403393 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4403347 ATGTTGGGCT
*
4403357 AATTAAATAAATGGATATA
1 AATTAAACAAATGGATATA
*
4403376 AATTAAACAAATTGATAT
1 AATTAAACAAATGGATAT
4403394 GGATTAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (19 bp):
AATTAAACAAATGGATATA
Found at i:4406493 original size:2 final size:2
Alignment explanation
Indices: 4406486--4406510 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4406476 TCAAAACCAA
4406486 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4406511 AACATTCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4417326 original size:183 final size:186
Alignment explanation
Indices: 4416971--4417789 Score: 540
Period size: 188 Copynumber: 4.4 Consensus size: 186
4416961 GGAGTTTAAC
* *
4416971 TAATGGAGACC-TAGACATT-CACACGGTAACAAAATAAGTTAAAAAGCTAAAAATGTTATAAAT
1 TAATGGAG-CCTTAGACATTCCA-AC-GTAACAAAATAAGTT-AAAAGCTAAAAATGCTATGAAT
* * *
4417034 ATCTATAATAAATCCGGTTGCGCCCAAGAATGTTATCGTTCACTAAGAAAATAAATTGATATCTG
62 ATCTATAAGAAATCCGGTTGCGCCCAAGAATGTTATCATTCACTAAGAAAATAAATTGAGATCTG
* * *
4417099 AAATATTAATTTTCTTTGTAATAAAATCGGTTGCGCCTAAAATGTTACCAAAATTTAATT
127 AAATATCAATTTTCTTTGTAATAAAATCAGTTGCGCCTAAAATGTTACCAAAATTTAAGT
* *
4417159 TGATGGAGCCTTAGACATTCCAACGATAACAAAAGAAGTTAAAAGCT-AAAATGCTATGAATATC
1 TAATGGAGCCTTAGACATTCCAACG-TAACAAAATAAGTTAAAAGCTAAAAATGCTATGAATATC
* * **
4417223 TATAAGAAATCCGGTTGCG-TCAAGAATGTTATCATTCACTAAGAAATTAGGTTGAGATCT-AGA
65 TATAAGAAATCCGGTTGCGCCCAAGAATGTTATCATTCACTAAGAAAATAAATTGAGATCTGA-A
* *
4417286 ATGA-CAATTTT-TTT-TAATAAAATCAGTTGCGCCTAAAATGTTACCAGAGTTTAAGT
129 AT-ATCAATTTTCTTTGTAATAAAATCAGTTGCGCCTAAAATGTTACCAAAATTTAAGT
* * * ** *
4417342 TAATATG-GCCTTAGACTTTCTC-ACTGTAATAAAATAAGTTAAACTCTAAAAATACTATGAATA
1 TAAT-GGAGCCTTAGACATTC-CAAC-GTAACAAAATAAGTTAAAAGCTAAAAATGCTATGAATA
** ** * * * * * * * * *
4417405 TCTATAAGAAATTGGGTTGTACCAAAAAAATGTTATCAGTGAATAA-AAAAGTAGACTGCGGTCT
63 TCTATAAGAAATCCGGTTGCGCC-CAAGAATGTTATCATTCACTAAGAAAA-TAAATTGAGATC-
* * * * * * * * * * * *
4417469 TG-AATGTTAATTTTATGTATAATAAATTCGGTTGTGCCTAAAATGTTACTAGATTTTAAGC
125 TGAAATATCAATTTTCTTTGTAATAAAATCAGTTGCGCCTAAAATGTTACCAAAATTTAAGT
* * * * * * * * *
4417530 TCATAGG-GCCCTGGACAATCCCACAATAACAAAATAATTTAAAATCTAAAAATGTTATGAATAT
1 TAAT-GGAGCCTTAGACATTCCAAC-GTAACAAAATAAGTTAAAAGCTAAAAATGCTATGAATAT
* ** * * * * * * *
4417594 CTATAAAAAAAATAAGATTGCACCCAA-AACTGTTATCGGTTC-CTAAGAAAGTAAGTTGCGATA
64 CTAT--AAGAAATCCGGTTGCGCCCAAGAA-TGTTATC-ATTCACTAAGAAAATAAATTGAGATC
* * * * * ** * *
4417657 TGAGATGTTAATATTT-TGTGTAATAAATTTGGTTGCGCATAAAATGTTA-CAAGAATTTAAGC
125 TGAAATATCAAT-TTTCTTTGTAATAAAATCAGTTGCGCCTAAAATGTTACCAA-AATTTAAGT
* *** * * * * *
4417719 TGATGGAGAAATAAATATT-CACACGATAACTAAATATGTTAAAATGCTAAAAATGATATGAATA
1 TAATGGAGCCTTAGACATTCCA-ACG-TAACAAAATAAGTTAAAA-GCTAAAAATGCTATGAATA
4417783 TCTATAA
63 TCTATAA
4417790 TAATTTCAGT
Statistics
Matches: 501, Mismatches: 100, Indels: 60
0.76 0.15 0.09
Matches are distributed among these distances:
183 72 0.14
184 38 0.08
185 47 0.09
186 68 0.14
187 14 0.03
188 129 0.26
189 91 0.18
190 42 0.08
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (186 bp):
TAATGGAGCCTTAGACATTCCAACGTAACAAAATAAGTTAAAAGCTAAAAATGCTATGAATATCT
ATAAGAAATCCGGTTGCGCCCAAGAATGTTATCATTCACTAAGAAAATAAATTGAGATCTGAAAT
ATCAATTTTCTTTGTAATAAAATCAGTTGCGCCTAAAATGTTACCAAAATTTAAGT
Found at i:4419848 original size:52 final size:51
Alignment explanation
Indices: 4419747--4419849 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 51
4419737 GAGACTCGAC
*
4419747 ATCTTCCAATAGCAAGTACTGTAGGGAGACTTACTTAAGGTTGGGTAAAGT
1 ATCTTCCAATAGCAAGTACTGTAGGGAGACTTACTTAAGGTTGGATAAAGT
* * * * *
4419798 ATCTTCCGATAGCAAGTATTGTTAGGGAGATTTACTTTAGGTTGTATAAAGT
1 ATCTTCCAATAGCAAGTACTG-TAGGGAGACTTACTTAAGGTTGGATAAAGT
4419850 TTGGACAGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
51 19 0.42
52 26 0.58
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (51 bp):
ATCTTCCAATAGCAAGTACTGTAGGGAGACTTACTTAAGGTTGGATAAAGT
Found at i:4420527 original size:30 final size:32
Alignment explanation
Indices: 4420493--4420551 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
4420483 TTTAACTATG
*
4420493 TGTATGTT-T-TTTTCAACTTATATATTTTTC
1 TGTATGTTGTATTTTCAACATATATATTTTTC
*
4420523 TGTATGTTGTATTTTCAACATATTTATTT
1 TGTATGTTGTATTTTCAACATATATATTT
4420552 CTATTTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 1 0.04
32 16 0.64
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.61
Consensus pattern (32 bp):
TGTATGTTGTATTTTCAACATATATATTTTTC
Found at i:4422352 original size:27 final size:28
Alignment explanation
Indices: 4422322--4422375 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
4422312 AATCAAATAT
*
4422322 AGAA-ATACGATAACCAGAGATCATGTA
1 AGAAGATAAGATAACCAGAGATCATGTA
* *
4422349 AGAAGTATAAGATAATCAGATATCATG
1 AGAAG-ATAAGATAACCAGAGATCATG
4422376 CATTCAGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 4 0.18
29 18 0.82
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (28 bp):
AGAAGATAAGATAACCAGAGATCATGTA
Found at i:4425148 original size:52 final size:52
Alignment explanation
Indices: 4425084--4425186 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
4425074 ATTGGTAAAG
4425084 AATAAGAAATGACTTAAGTAAGACCAATTTGTAAAAGATAATTTATTGAAAT
1 AATAAGAAATGACTTAAGTAAGACCAATTTGTAAAAGATAATTTATTGAAAT
* * *
4425136 AATAAGAAATGACTTTAGTAAGACCAATTTGTAAGAGATAGTTTATTGAAA
1 AATAAGAAATGACTTAAGTAAGACCAATTTGTAAAAGATAATTTATTGAAA
4425187 GGGCATTTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.31
Consensus pattern (52 bp):
AATAAGAAATGACTTAAGTAAGACCAATTTGTAAAAGATAATTTATTGAAAT
Found at i:4425884 original size:22 final size:21
Alignment explanation
Indices: 4425835--4425888 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
4425825 AATCTATTTT
*
4425835 TAGTATCGATA-CTGGTAGGG
1 TAGTATCGATACCTAGTAGGG
*
4425855 -GGTATCGATACCTTAGTAGGG
1 TAGTATCGATACC-TAGTAGGG
4425876 TAGTATCGATACC
1 TAGTATCGATACC
4425889 ATGGAAAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 9 0.32
20 1 0.04
21 7 0.25
22 11 0.39
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (21 bp):
TAGTATCGATACCTAGTAGGG
Found at i:4425904 original size:95 final size:96
Alignment explanation
Indices: 4425782--4425967 Score: 250
Period size: 95 Copynumber: 1.9 Consensus size: 96
4425772 ACTGTAGGTG
*
4425782 GTATCGATACCATAATAAGAGGTATCGATACCAAGAAACATCGAATCTATTTTTAGTATCGATAC
1 GTATCGATACCATAATAAGAGGTATCGATACCAAGAAACATCGAACCTATTTTTAGTATCGATAC
**** *
4425847 TGGTAGGGGGTATCGATACCTTAGTAGGGTA
66 CCAAAGGGGGTATCGATACCATAGTAGGGTA
* * * * *
4425878 GTATCGATACCATGGA-AAG-GGTATCGATACCAGGCAACATCGAACCTATTTTTTGTATCGATT
1 GTATCGATACCAT-AATAAGAGGTATCGATACCAAGAAACATCGAACCTATTTTTAGTATCGATA
4425941 CCCAAAGGGGGTATCGATACCATAGTA
65 CCCAAAGGGGGTATCGATACCATAGTA
4425968 TAGAAGTATT
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
95 61 0.78
96 16 0.21
97 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (96 bp):
GTATCGATACCATAATAAGAGGTATCGATACCAAGAAACATCGAACCTATTTTTAGTATCGATAC
CCAAAGGGGGTATCGATACCATAGTAGGGTA
Found at i:4426614 original size:20 final size:21
Alignment explanation
Indices: 4426573--4426616 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4426563 AATCAGATTG
4426573 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
*
4426594 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
4426615 CC
1 CC
4426617 TGTCTAACGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.43, G:0.27, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:4427730 original size:18 final size:20
Alignment explanation
Indices: 4427707--4427752 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4427697 AAACATTTTC
*
4427707 TTTTGAAA-CAAAAAT-AGA
1 TTTTGAAAGCAAAAATGAAA
*
4427725 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAGCAAAAATGAAA
4427745 TTTTGAAA
1 TTTTGAAA
4427753 AAAGATTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 6 0.25
20 10 0.42
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (20 bp):
TTTTGAAAGCAAAAATGAAA
Found at i:4427793 original size:20 final size:20
Alignment explanation
Indices: 4427736--4427795 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
4427726 TTTGAAAGCC
4427736 AAAA-TGAAA-TTTTGAAAA
1 AAAATTGAAAGTTTTGAAAA
* * **
4427754 AAGATT-AGAGCTTTCAAAAA
1 AAAATTGAAAG-TTTTGAAAA
4427774 AAAATTGAAAGTTTTGAAAA
1 AAAATTGAAAGTTTTGAAAA
4427794 AA
1 AA
4427796 GAAAATGATT
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
18 5 0.17
19 1 0.03
20 21 0.70
21 3 0.10
ACGTcount: A:0.57, C:0.03, G:0.13, T:0.27
Consensus pattern (20 bp):
AAAATTGAAAGTTTTGAAAA
Found at i:4428023 original size:99 final size:98
Alignment explanation
Indices: 4427918--4428114 Score: 353
Period size: 99 Copynumber: 2.0 Consensus size: 98
4427908 TAAGGAACAT
4427918 ACTTGTCCTTTAAAGAAAGGAAAACGTTTTAAAATTAGACAAGTATGGG-TC-GAAAGGAACAAG
1 ACTTGTCCTTTAAAGAAAGG-AAACG-TTTAAAATTAGACAAGTATGGGTTCTGAAAGGAACAAG
4427981 GGGCATTGAAAACTAACGTCCAAGGATCCAAAGCAA
64 GGGCATTG-AAACTAACGTCCAAGGATCCAAAGCAA
4428017 ACTTGTCCTTTAAAGAAAGGAAACGTTTAAAATTAGACAAGTATGGGTTCTGAAAGGAACAAGGG
1 ACTTGTCCTTTAAAGAAAGGAAACGTTTAAAATTAGACAAGTATGGGTTCTGAAAGGAACAAGGG
4428082 GCATTGAAACTAACGTCCAAGGATCCAAAGCAA
66 GCATTGAAACTAACGTCCAAGGATCCAAAGCAA
4428115 TTGGATACCA
Statistics
Matches: 96, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
97 22 0.23
98 34 0.35
99 40 0.42
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (98 bp):
ACTTGTCCTTTAAAGAAAGGAAACGTTTAAAATTAGACAAGTATGGGTTCTGAAAGGAACAAGGG
GCATTGAAACTAACGTCCAAGGATCCAAAGCAA
Found at i:4430075 original size:59 final size:58
Alignment explanation
Indices: 4429986--4430160 Score: 221
Period size: 59 Copynumber: 3.0 Consensus size: 58
4429976 TACCAAATGG
*
4429986 CACTTCGTGTGCA-AAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGT
1 CACTTCGTGTG-ATAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGT
* * *
4430044 CACTTCGTGTGATAACATGATAAGAAATTCATACTAAGGGTATGAATTTCTGTGTTGGGT
1 CACTTCGTGTGATAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTCTGT-ATAGGT
* * *
4430104 -ATCCTT-GTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTTTTGTATAGG
1 CA--CTTCGTGTGATAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGG
4430161 AAATATATGG
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
57 1 0.01
58 16 0.16
59 70 0.69
60 12 0.12
61 3 0.03
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (58 bp):
CACTTCGTGTGATAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGT
Found at i:4430867 original size:68 final size:68
Alignment explanation
Indices: 4430529--4430849 Score: 464
Period size: 68 Copynumber: 4.7 Consensus size: 68
4430519 GATTAAGAGT
* *
4430529 CCTAACTGAGCAT-TAGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAGACTAAGTGTCTTT
1 CCTAACTGTGCATAT-GACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
4430593 GAGG
65 GAGG
* * * * * * *
4430597 CCTAAATGTGAATATGATAGAAAGGTATCATTTATGCCAGTTATATGAAAGACCAAGTTTCTTTG
1 CCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTG
4430662 AGG
66 AGG
* * *
4430665 CCTAATTGTGCATATGACAGAAAGATGTCATTTATGCCATTTAGATGAAAGACTAAGTGTCTTTG
1 CCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTG
4430730 AGG
66 AGG
* *
4430733 CCTAACTGTGCATATGGCAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCTTTG
1 CCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTG
4430798 AGG
66 AGG
* * * *
4430801 CCTAACTGTGTATATGGCATAAAGGTGTCAATTATGCCAGTTAGATGAA
1 CCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
4430850 CGGTTAAGTA
Statistics
Matches: 226, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
68 225 1.00
69 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (68 bp):
CCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTG
AGG
Found at i:4430936 original size:81 final size:79
Alignment explanation
Indices: 4430801--4431015 Score: 270
Period size: 81 Copynumber: 2.7 Consensus size: 79
4430791 GTCTTTGAGG
* * *
4430801 CCTAACTGTGTATATGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
1 CCTAACTGTGCAT-TGGCAGAAAGGTATCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
*
4430866 AGTAAAAGAAAAATGG
65 AG-AAAAGAAAAATGA
* * * *
4430882 CCTAGCTGTGCAATTGGCAGAAAGGTATCAATTATGCCAGTTAGATGAATGGTTAATTATCGTTG
1 CCTAACTGTGC-ATTGGCAGAAAGGTATCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
*
4430947 AGAAAAGAATAATGA
65 AGAAAAGAAAAATGA
* ** * *
4430962 TCTAACTGTGCATTGGCAGAAATATCTCAATTATGCCAGTTAGACGAAC-GTTAA
1 CCTAACTGTGCATTGGCAGAAAGGTATCAATTATGCCAGTTAGATGAACGGTTAA
4431016 ACACTATTGA
Statistics
Matches: 117, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
78 5 0.04
79 33 0.28
80 20 0.17
81 57 0.49
82 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (79 bp):
CCTAACTGTGCATTGGCAGAAAGGTATCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGA
GAAAAGAAAAATGA
Found at i:4437019 original size:19 final size:21
Alignment explanation
Indices: 4436997--4437043 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
4436987 ATGGTATCGG
4436997 TACCATA-ATAG-AGTATTGA
1 TACCATAGATAGTAGTATTGA
*
4437016 TACCATAGTATTGTAGTATTGA
1 TACCATAG-ATAGTAGTATTGA
4437038 TACCAT
1 TACCAT
4437044 GGGGGTATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
21 3 0.12
22 14 0.58
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (21 bp):
TACCATAGATAGTAGTATTGA
Found at i:4437442 original size:54 final size:54
Alignment explanation
Indices: 4437382--4437612 Score: 184
Period size: 54 Copynumber: 4.3 Consensus size: 54
4437372 TTACCAAATA
* * *
4437382 GACACTAAGTGTGCATTTCACGGAATTTATCCTATG-TGAATGAATAACTGTTTT
1 GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTTG-ATAAATAACTGTTTC
* * * * * *
4437436 GGCACTAAGTGTACATTTTACGAAATTCATCTTATGTTGATAAATAATTGTTTC
1 GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTTGATAAATAACTGTTTC
* * * *
4437490 GACGCTAAGTGTGCATTTCAGGGAATTCACCCTATG-GGATAAATAA-TCGTTTC
1 GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTTGATAAATAACT-GTTTC
* * * * * * * *
4437543 GACACTAAATATGCAAATCCACGAAATTCATCATGA-GTTGATGAATAACTG-TAC
1 GACACTAAGTGTGC-ATTTCACGGAATTCATCCT-ATGTTGATAAATAACTGTTTC
*
4437597 AGACACTACGTGTGCA
1 -GACACTAAGTGTGCA
4437613 AACCGATGAA
Statistics
Matches: 137, Mismatches: 33, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
52 1 0.01
53 25 0.18
54 87 0.64
55 23 0.17
56 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (54 bp):
GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTTGATAAATAACTGTTTC
Found at i:4437603 original size:55 final size:55
Alignment explanation
Indices: 4437554--4438212 Score: 807
Period size: 55 Copynumber: 12.1 Consensus size: 55
4437544 ACACTAAATA
* * *
4437554 TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACTGTACAGACACTACGTG
1 TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
* * * *
4437609 TGCAAA-CCGATGAAATTCATCATAAGTT-AGTCAATAACCGTATAGGCACTATGTG
1 TGCAAATCC-ACGAAATTCATCATGAGTTGA-TGAATAACCGTACAGGCACTATGTG
* *
4437664 TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAAGCAGTATGTG
1 TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
* *
4437719 TGCAAACCCACGAAATTCATCATGAGTTTATGAATAACCGTACAGGCACTATGTG
1 TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
* * * * *
4437774 TGCAAATCCATGGAATTCATCATGAGTTGATGAATAACCATACAAGTACTATGTG
1 TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
* * * *
4437829 TACAAATCCACGGAATTCATCATGAGTTGATGAATAATCGTACATGCACTATGTG
1 TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
* * *
4437884 TACAAAT-CA--AAATTCATCATGAGTTGATGAATAACCGTACATGCTCTATGTG
1 TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
* * * *
4437936 GGCAAATCCATGGAATTCATCATGAGTTGATGAATAACCATACAGGCACTATGTG
1 TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
* * *
4437991 TGCAAATCCACGGAATCCATCATGAGTTGATGAATAACCATACAGGCACTATGT-
1 TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
* * *
4438045 TGCAAATCCAC-AGAATTCATCATGAGTTGATGAATAATCATACAGGCACTGTGTG
1 TGCAAATCCACGA-AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
* * * * * *
4438100 TGCAAATCAACGGAATTCATCATGAGTTGATGAAAAATCGTACATGCACGATGTG
1 TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
* * * * *
4438155 TGC-AACCCAC-AGAATTCATCATAAGTTAATGAACT-ACCGTATAGGCACTACGTG
1 TGCAAATCCACGA-AATTCATCATGAGTTGATGAA-TAACCGTACAGGCACTATGTG
4438209 TGCA
1 TGCA
4438213 TCTTAATAAA
Statistics
Matches: 527, Mismatches: 64, Indels: 26
0.85 0.10 0.04
Matches are distributed among these distances:
52 45 0.09
53 2 0.00
54 95 0.18
55 382 0.72
56 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (55 bp):
TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
Found at i:4437610 original size:108 final size:110
Alignment explanation
Indices: 4437513--4437811 Score: 271
Period size: 110 Copynumber: 2.7 Consensus size: 110
4437503 CATTTCAGGG
* * * * *
4437513 AATTCACCCTATGGGA-TAAATAATCGTTTCGACACTAAATATGCAAATCCACGAAATTCATCAT
1 AATTCACCATAAGGGAGTAAATAACCGTATAGACACTAAATATGCAAATCCACGAAATTCATCAT
* *
4437577 GAGTTGATGAATAACTGTACAGACACTACGTGTGCAAACCGATGA
66 GAGTTGATGAATAACTGTACAGACACTAAGTGTGCAAACCGAGGA
* ** * * ** *
4437622 AATTCATCATAAGTTAGTCAATAACCGTATAGGCACTATGTGTGCAAATCCACGAAATTCATCAT
1 AATTCACCATAAGGGAGTAAATAACCGTATAGACACTAAATATGCAAATCCACGAAATTCATCAT
* * * * *
4437687 GAGTTGATGAATAACCGTACA-AGCAGTATGTGTGCAAACCCACGA
66 GAGTTGATGAATAACTGTACAGA-CACTAAGTGTGCAAACCGAGGA
* * ** * * * ** * * *
4437732 AATTCATCATGAGTTTA-TGAATAACCGTACAGGCACTATGTGTGCAAATCCATGGAATTCATCA
1 AATTCACCATAAG-GGAGTAAATAACCGTATAGACACTAAATATGCAAATCCACGAAATTCATCA
4437796 TGAGTTGATGAATAAC
65 TGAGTTGATGAATAAC
4437812 CATACAAGTA
Statistics
Matches: 164, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
109 12 0.07
110 149 0.91
111 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (110 bp):
AATTCACCATAAGGGAGTAAATAACCGTATAGACACTAAATATGCAAATCCACGAAATTCATCAT
GAGTTGATGAATAACTGTACAGACACTAAGTGTGCAAACCGAGGA
Found at i:4438635 original size:46 final size:46
Alignment explanation
Indices: 4438566--4438661 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
4438556 GATGTGTGAC
* * *
4438566 AATGTATAATGTTGTATAGAAGGGCATGAAAGGTTGTCATAAATAA
1 AATGTATAATGTTGTATAAAAGGGCATGAAAGGATGCCATAAATAA
4438612 AATGTATAATAG-TGTATAAAAGGGCATGAAAGGATGCCATAAATAA
1 AATGTATAAT-GTTGTATAAAAGGGCATGAAAGGATGCCATAAATAA
4438658 AATG
1 AATG
4438662 CATATGGGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 45 0.98
47 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (46 bp):
AATGTATAATGTTGTATAAAAGGGCATGAAAGGATGCCATAAATAA
Found at i:4438691 original size:45 final size:45
Alignment explanation
Indices: 4438634--4438768 Score: 175
Period size: 45 Copynumber: 3.0 Consensus size: 45
4438624 TGTATAAAAG
4438634 GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATT-TT
1 GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTATT
* * * *
4438678 CGGCATGAAAGGATACCATAATTGAAATGCATATGAGTGCATTATT
1 -GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTATT
* *
4438724 GGCATGAAAGAATGCCATAAAGGAAAATGCATAAT-GGTGCATTAT
1 GGCATGAAAGGATGCCATAAA-TAAAATGCAT-ATGGGTGCATTAT
4438769 AAGTATGAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
45 56 0.73
46 19 0.25
47 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.26
Consensus pattern (45 bp):
GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTATT
Found at i:4438777 original size:46 final size:44
Alignment explanation
Indices: 4438588--4438769 Score: 159
Period size: 45 Copynumber: 4.0 Consensus size: 44
4438578 TGTATAGAAG
* * * * * * * *
4438588 GGCATGAAAGGTTGTCATAAATAAAATGTATAATAGTGTATAAAA
1 GGCATGAAAGGATGCCATAAAGAAAATGCAT-ATGGTGCATTATA
* * *
4438633 GGGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTTTC
1 -GGCATGAAAGGATGCCATAAAGAAAATGCATAT-GGTGCATTATA
* * *
4438679 GGCATGAAAGGATACCATAATTG-AAATGCATATGAGTGCATTATT
1 GGCATGAAAGGATGCCATAA-AGAAAATGCATATG-GTGCATTATA
*
4438724 GGCATGAAAGAATGCCATAAAGGAAAATGCATAATGGTGCATTATA
1 GGCATGAAAGGATGCCATAAA-GAAAATGCAT-ATGGTGCATTATA
4438770 AGTATGAATA
Statistics
Matches: 112, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
44 1 0.01
45 58 0.52
46 50 0.45
47 3 0.03
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (44 bp):
GGCATGAAAGGATGCCATAAAGAAAATGCATATGGTGCATTATA
Found at i:4442491 original size:20 final size:19
Alignment explanation
Indices: 4442438--4442491 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 19
4442428 TGATTAAAGT
*
4442438 GGTATCGATACCAAGAGGG
1 GGTATCGATACCATGAGGG
4442457 GAGTATCGATACCATGAGGAG
1 G-GTATCGATACCATGAGG-G
4442478 GGTATCGATACCAT
1 GGTATCGATACCAT
4442492 TGATCACAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 1 0.03
20 29 0.91
21 2 0.06
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.20
Consensus pattern (19 bp):
GGTATCGATACCATGAGGG
Found at i:4442968 original size:54 final size:54
Alignment explanation
Indices: 4442910--4443121 Score: 246
Period size: 54 Copynumber: 3.9 Consensus size: 54
4442900 ACAAAATAGA
* * *
4442910 CACTAAGTGTACATTTCACAGAATTCATCCTATATGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
* * * *
4442964 CACTAAGTGTGTATTTTATGGAATTCATCATATGTGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
* * * * * *
4443018 CACTAAGTTTGCATTTCAGGGAATTCACCCTATGGGGATGAATAATCATTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
** * *
4443072 CACTAAGTGTGCAAATCAACGGAATTCATCATGA-GTTGATGAATAACCGT
1 CACTAAGTGTGCATTTC-ACGGAATTCATCCT-ATGTGGATGAATAACCGT
4443122 ACAGGCACTA
Statistics
Matches: 130, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
54 106 0.82
55 23 0.18
56 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (54 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
Found at i:4443116 original size:55 final size:55
Alignment explanation
Indices: 4443070--4443562 Score: 585
Period size: 55 Copynumber: 9.1 Consensus size: 55
4443060 TAATCATTTC
* *
4443070 GGCACTAAGTGTGCAAATCAACGGAATTCATCATGAGTTGATGAATAACCGTACA
1 GGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACA
* * ** * *
4443125 GGCACTATGAGTGCAAACCCACAAAATTCATCATGAATTAATGAATAACCGTACA
1 GGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACA
* * * *
4443180 GGCACTATGTATGCAAATCCATGAAATCCATCATGAGTTGATGAATAACCGTACA
1 GGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACA
* * * *
4443235 TGCACTATTTGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAAA
1 GGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACA
* * * * *
4443290 AGCACTATGTGCGCAAACCCATGGAATTCATCATGAGTTGATGAATAATCGTACA
1 GGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACA
** * *
4443345 GGCACTATGTGTGCAAATCCACATAATCCATCATGAGTTGATGAATAACCTTACA
1 GGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACA
*
4443400 GGCACTATGTGTGCAAAT---C------CATCATGAGTTGATGAATAATCGTACA
1 GGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACA
* * * * *
4443446 GACACTATGTGTGAAAATCCACAGAATTCATCATGAGTTGATGAAAAATCGTACA
1 GGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACA
* * * *
4443501 GGCACGATGTGTGC-AACCCACGGAATTCGTCATGAGTTGATGAACT-ACCGTATA
1 GGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA-TAACCGTACA
4443555 GGCACTAT
1 GGCACTAT
4443563 ATATGCATCT
Statistics
Matches: 374, Mismatches: 54, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
46 41 0.11
49 1 0.00
52 1 0.00
54 40 0.11
55 291 0.78
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (55 bp):
GGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACA
Found at i:4443436 original size:46 final size:46
Alignment explanation
Indices: 4443369--4443466 Score: 160
Period size: 46 Copynumber: 2.1 Consensus size: 46
4443359 AAATCCACAT
* * *
4443369 AATCCATCATGAGTTGATGAATAACCTTACAGGCACTATGTGTGCA
1 AATCCATCATGAGTTGATGAATAACCGTACAGACACTATGTGTGAA
*
4443415 AATCCATCATGAGTTGATGAATAATCGTACAGACACTATGTGTGAA
1 AATCCATCATGAGTTGATGAATAACCGTACAGACACTATGTGTGAA
4443461 AATCCA
1 AATCCA
4443467 CAGAATTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (46 bp):
AATCCATCATGAGTTGATGAATAACCGTACAGACACTATGTGTGAA
Found at i:4443501 original size:101 final size:101
Alignment explanation
Indices: 4443318--4443516 Score: 326
Period size: 101 Copynumber: 2.0 Consensus size: 101
4443308 CCATGGAATT
* * *
4443318 CATCATGAGTTGATGAATAATCGTACAGGCACTATGTGTGCAAATCCACATAATCCATCATGAGT
1 CATCATGAGTTGATGAATAATCGTACAGACACTATGTGTGAAAATCCACAGAATCCATCATGAGT
* * *
4443383 TGATGAATAACCTTACAGGCACTATGTGTGCAAATC
66 TGATGAAAAACCGTACAGGCACGATGTGTGCAAATC
*
4443419 CATCATGAGTTGATGAATAATCGTACAGACACTATGTGTGAAAATCCACAGAATTCATCATGAGT
1 CATCATGAGTTGATGAATAATCGTACAGACACTATGTGTGAAAATCCACAGAATCCATCATGAGT
*
4443484 TGATGAAAAATCGTACAGGCACGATGTGTGCAA
66 TGATGAAAAACCGTACAGGCACGATGTGTGCAA
4443517 CCCACGGAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 90 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (101 bp):
CATCATGAGTTGATGAATAATCGTACAGACACTATGTGTGAAAATCCACAGAATCCATCATGAGT
TGATGAAAAACCGTACAGGCACGATGTGTGCAAATC
Found at i:4443558 original size:54 final size:54
Alignment explanation
Indices: 4443419--4443559 Score: 167
Period size: 54 Copynumber: 2.6 Consensus size: 54
4443409 TGTGCAAATC
* * *
4443419 CATCATGAGTTGATGAATAATCGTACAGACACTATGTGTGAAAATCCACAGAATT
1 CATCATGAGTTGATGAAT-ATCGTACAGGCACGATGTGTGAAAACCCACAGAATT
* * *
4443474 CATCATGAGTTGATGAAAAATCGTACAGGCACGATGTGTG-CAACCCACGGAATT
1 CATCATGAGTTGATG-AATATCGTACAGGCACGATGTGTGAAAACCCACAGAATT
* * *
4443528 CGTCATGAGTTGATGAACTACCGTATAGGCAC
1 CATCATGAGTTGATGAA-TATCGTACAGGCAC
4443560 TATATATGCA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
53 2 0.03
54 36 0.49
55 34 0.46
56 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (54 bp):
CATCATGAGTTGATGAATATCGTACAGGCACGATGTGTGAAAACCCACAGAATT
Found at i:4443918 original size:68 final size:68
Alignment explanation
Indices: 4443833--4443969 Score: 202
Period size: 68 Copynumber: 2.0 Consensus size: 68
4443823 AAAGATTAAT
* * * *
4443833 GGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGTCAACTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTATGCATTTGACAAAAATGTGTCAATTATGTCAACTAGATGAAAGACTAAATGCCTT
4443898 TGA
66 TGA
* ** *
4443901 GGCCTAGCTATGCATTTGACAAAAATGTTTCAATTATGTCAGTTAGATGAAATACTAAATGCCTT
1 GGCCTAGCTATGCATTTGACAAAAATGTGTCAATTATGTCAACTAGATGAAAGACTAAATGCCTT
4443966 TGA
66 TGA
4443969 G
1 G
4443970 TAAAAGACTA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (68 bp):
GGCCTAGCTATGCATTTGACAAAAATGTGTCAATTATGTCAACTAGATGAAAGACTAAATGCCTT
TGA
Found at i:4446871 original size:29 final size:29
Alignment explanation
Indices: 4446825--4446883 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
4446815 CTCACTTCTT
* *
4446825 CCCCTCCCTTTGGTGGTCAAAGTAGTTCA
1 CCCCTCCCTTTGGGGGTCAAAGTAATTCA
4446854 CCCCTCCCTTTGGGGGTCAAAGTAATTCA
1 CCCCTCCCTTTGGGGGTCAAAGTAATTCA
4446883 C
1 C
4446884 TTTTTCCCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.19, C:0.32, G:0.20, T:0.29
Consensus pattern (29 bp):
CCCCTCCCTTTGGGGGTCAAAGTAATTCA
Found at i:4462761 original size:30 final size:32
Alignment explanation
Indices: 4462709--4462778 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 32
4462699 CATAAATAAA
*
4462709 CAAAATAATATATAGAAAAACCAA-ACATTCATT
1 CAAAA-AATAAATAGAAAAACCAATA-ATTCATT
4462742 -AAAAAATAAATAG-AAAACCAATAATTCATT
1 CAAAAAATAAATAGAAAAACCAATAATTCATT
4462772 CAAAAAA
1 CAAAAAA
4462779 AGTAAACCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
30 15 0.44
31 15 0.44
32 4 0.12
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.21
Consensus pattern (32 bp):
CAAAAAATAAATAGAAAAACCAATAATTCATT
Found at i:4465963 original size:18 final size:18
Alignment explanation
Indices: 4465916--4465973 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
4465906 ATGTTTAATG
* *
4465916 AAAAAGATACCTATTGTT
1 AAAAAGATATCAATTGTT
4465934 AACAAAAGGATATCAATTGTT
1 -A-AAAA-GATATCAATTGTT
4465955 AAAAAGATATCAATTGTT
1 AAAAAGATATCAATTGTT
4465973 A
1 A
4465974 CCAATTGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 14 0.40
19 5 0.14
20 5 0.14
21 11 0.31
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (18 bp):
AAAAAGATATCAATTGTT
Found at i:4479564 original size:3 final size:3
Alignment explanation
Indices: 4479550--4479583 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
4479540 GTTATTTTGA
4479550 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4479584 ATGATTTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:4486139 original size:31 final size:31
Alignment explanation
Indices: 4486066--4486139 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
4486056 TAAAACTTAT
* * *
4486066 AATATAGTCCCCTAACATTTAGTCTGTTTAC
1 AATATAGTCCCCCAACATTTAGTCTATTCAC
4486097 AATAT-GATCCCCCAACATTTAGTCTATTCAC
1 AATATAG-TCCCCCAACATTTAGTCTATTCAC
4486128 AATATAGTCCCC
1 AATATAGTCCCC
4486140 AACCGTTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 1 0.03
31 36 0.95
32 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (31 bp):
AATATAGTCCCCCAACATTTAGTCTATTCAC
Found at i:4492028 original size:46 final size:46
Alignment explanation
Indices: 4491963--4492056 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
4491953 TTCAGAAGGA
* * * *
4491963 ATTCGAGGCACTCATCGGATGTTCTTCTTCATCATGGTAGTAATCC
1 ATTCGAGACACTCACCGGATCTTCTTCTTCATCACGGTAGTAATCC
* *
4492009 ATTCGAGACATTCACCGGATCTTCTTCTTCATCCCGGTAGTAATCC
1 ATTCGAGACACTCACCGGATCTTCTTCTTCATCACGGTAGTAATCC
4492055 AT
1 AT
4492057 GTGGGAACTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (46 bp):
ATTCGAGACACTCACCGGATCTTCTTCTTCATCACGGTAGTAATCC
Found at i:4492569 original size:18 final size:18
Alignment explanation
Indices: 4492537--4492575 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4492527 TGATGTATGC
* * *
4492537 GTTAATTCGATTTTTTTT
1 GTTAATTCAAATTTTATT
4492555 GTTAATTCAAATTTTATT
1 GTTAATTCAAATTTTATT
4492573 GTT
1 GTT
4492576 GTGTTCACCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (18 bp):
GTTAATTCAAATTTTATT
Found at i:4493554 original size:16 final size:16
Alignment explanation
Indices: 4493533--4493563 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4493523 CATATAAACA
4493533 AACATGTTCACGAACG
1 AACATGTTCACGAACG
*
4493549 AACATGTTCATGAAC
1 AACATGTTCACGAAC
4493564 ATATAAATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (16 bp):
AACATGTTCACGAACG
Found at i:4493610 original size:23 final size:23
Alignment explanation
Indices: 4493548--4493622 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
4493538 GTTCACGAAC
*
4493548 GAACATGTTCATGAACATATAAAT
1 GAACATGTTCGTGAACAT-TAAAT
* * * *
4493572 GAGCACGTTTGCGAACATTAAAT
1 GAACATGTTCGTGAACATTAAAT
*
4493595 GAACATGTTCGTGAACAATAAAT
1 GAACATGTTCGTGAACATTAAAT
*
4493618 AAACA
1 GAACA
4493623 AATATGAACA
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 27 0.68
24 13 0.32
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (23 bp):
GAACATGTTCGTGAACATTAAAT
Found at i:4494622 original size:2 final size:2
Alignment explanation
Indices: 4494617--4494651 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4494607 TTTTTGTTTG
4494617 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4494652 GAACTCCTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4494712 original size:35 final size:35
Alignment explanation
Indices: 4494666--4494735 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
4494656 TCCTAGAAAT
4494666 AATAAGGAAGCTTTATCTGGGATCGAAAATAAGGG
1 AATAAGGAAGCTTTATCTGGGATCGAAAATAAGGG
4494701 AATAAGGAAGCTTTATCTGGGATCGAAAATAAGGG
1 AATAAGGAAGCTTTATCTGGGATCGAAAATAAGGG
4494736 GTATTTGGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.29, T:0.23
Consensus pattern (35 bp):
AATAAGGAAGCTTTATCTGGGATCGAAAATAAGGG
Found at i:4499915 original size:61 final size:61
Alignment explanation
Indices: 4499787--4499908 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
4499777 TGCTTTTCAC
4499787 AGATAGGTGCCTAAATAATTTTTTTGAATCATTCAGGTGTCTAACGTTACAAATGTTACTA
1 AGATAGGTGCCTAAATAATTTTTTTGAATCATTCAGGTGTCTAACGTTACAAATGTTACTA
4499848 AGATAGGTGCCTAAATAATTTTTTTGAATCATTCAGGTGTCTAACGTTACAAATGTTACTA
1 AGATAGGTGCCTAAATAATTTTTTTGAATCATTCAGGTGTCTAACGTTACAAATGTTACTA
4499909 TTATAGGAGC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (61 bp):
AGATAGGTGCCTAAATAATTTTTTTGAATCATTCAGGTGTCTAACGTTACAAATGTTACTA
Found at i:4501017 original size:21 final size:20
Alignment explanation
Indices: 4500993--4501032 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4500983 TCTGGGCAAG
*
4500993 AGTATCAATATTGGGATGAAT
1 AGTATCAATACT-GGATGAAT
*
4501014 AGTATCGATACTGGATGAA
1 AGTATCAATACTGGATGAA
4501033 ATGAGGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (20 bp):
AGTATCAATACTGGATGAAT
Found at i:4501088 original size:19 final size:20
Alignment explanation
Indices: 4501064--4501135 Score: 103
Period size: 19 Copynumber: 3.7 Consensus size: 20
4501054 TCAAGCCAAT
4501064 AGTATCGATACTTTTC-AAG
1 AGTATCGATACTTTTCAAAG
* *
4501083 AGTATCGATACTTTACTAAG
1 AGTATCGATACTTTTCAAAG
4501103 AGTATCGATAC-TTTCAAAG
1 AGTATCGATACTTTTCAAAG
*
4501122 AGGATCGATACTTT
1 AGTATCGATACTTT
4501136 CCGTAACAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
19 31 0.66
20 16 0.34
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
AGTATCGATACTTTTCAAAG
Found at i:4502243 original size:32 final size:32
Alignment explanation
Indices: 4502201--4502303 Score: 143
Period size: 32 Copynumber: 3.2 Consensus size: 32
4502191 CTAGTGATGC
*
4502201 ATTCAAATAATACATACCAGAGTTACTCTTGT
1 ATTCAGATAATACATACCAGAGTTACTCTTGT
* * * **
4502233 ATTCAGATAATGCAAACCAGAGTTAATCTTAC
1 ATTCAGATAATACATACCAGAGTTACTCTTGT
*
4502265 ATTCAGATAATACATACCAGAGTTACTCATGT
1 ATTCAGATAATACATACCAGAGTTACTCTTGT
4502297 ATTCAGA
1 ATTCAGA
4502304 CAATGCACAG
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (32 bp):
ATTCAGATAATACATACCAGAGTTACTCTTGT
Found at i:4502331 original size:64 final size:63
Alignment explanation
Indices: 4502200--4502339 Score: 176
Period size: 64 Copynumber: 2.2 Consensus size: 63
4502190 ACTAGTGATG
* * * *
4502200 CATTCAAATAATACATACCAGAGTTACTCTTGTATTCAGATAATGCAAACCAGAGTTAATCTTA
1 CATTCAAATAATACATACCAGAGTTACTCATGTATTCAGACAATGC-AACCAGAGTTAATATCA
*
4502264 CATTCAGATAATACATACCAGAGTTACTCATGTATTCAGACAATGC-A-CAGTAGTTTCAATATC
1 CATTCAAATAATACATACCAGAGTTACTCATGTATTCAGACAATGCAACCAG-AG-TT-AATATC
4502327 A
63 A
*
4502328 CATTCAACTAAT
1 CATTCAAATAAT
4502340 GCACAACAGA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
61 3 0.05
62 3 0.05
63 2 0.03
64 58 0.88
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (63 bp):
CATTCAAATAATACATACCAGAGTTACTCATGTATTCAGACAATGCAACCAGAGTTAATATCA
Found at i:4503955 original size:20 final size:22
Alignment explanation
Indices: 4503916--4503956 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
4503906 TAACAACAAA
4503916 ATAAATACAATAGATAATAAAG
1 ATAAATACAATAGATAATAAAG
*
4503938 ATAAATA-AA-AGTTAATAAA
1 ATAAATACAATAGATAATAAA
4503957 AAAGGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (22 bp):
ATAAATACAATAGATAATAAAG
Found at i:4503958 original size:76 final size:76
Alignment explanation
Indices: 4503878--4504080 Score: 239
Period size: 85 Copynumber: 2.6 Consensus size: 76
4503868 TATAAATATG
* * *
4503878 AAAAAAGGAAAAAATATTTACATAATAATAACAACAAAATAAATACAATAGATAATAAAGATAAA
1 AAAAAAGGAAAAAATAATAACATAATAATAACAATAAAATAAATACAATAGATAATAAAGATAAA
4503943 TAAAAGTTAAT
66 TAAAAGTTAAT
* *
4503954 AAAAAAGGAAAAAATAATAAAATAATAAAGCAATAA-AATAAAATTAAAAAAATATAATAGATAA
1 AAAAAAGGAAAAAATAATAACATAAT-----AATAACAATAAAA-T----AAATACAATAGATAA
*
4504018 TAAAGATAAATAAAAGTTAGT
56 TAAAGATAAATAAAAGTTAAT
*
4504039 AAAAAAGGAAAAAATAATAACATAATAA-AGCAATAAAATAAA
1 AAAAAAGGAAAAAATAATAACATAATAATAACAATAAAATAAA
4504081 ATTAAAAAAA
Statistics
Matches: 108, Mismatches: 8, Indels: 23
0.78 0.06 0.17
Matches are distributed among these distances:
75 3 0.03
76 23 0.21
79 2 0.02
80 15 0.14
81 6 0.06
85 59 0.55
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.20
Consensus pattern (76 bp):
AAAAAAGGAAAAAATAATAACATAATAATAACAATAAAATAAATACAATAGATAATAAAGATAAA
TAAAAGTTAAT
Found at i:4503972 original size:38 final size:38
Alignment explanation
Indices: 4503929--4504058 Score: 102
Period size: 38 Copynumber: 3.2 Consensus size: 38
4503919 AATACAATAG
4503929 ATAATAAAGATAAATAAAAGTTAATAAAAAAGGAAAAA
1 ATAATAAAGATAAATAAAAGTTAATAAAAAAGGAAAAA
* * **
4503967 ATAATAAA-AT-AATAAAGCAATAAAATAAAATTAAAAAAATATA
1 ATAATAAAGATAAATAAA--AGT-TAATAAAA--AAGGAAA-A-A
*
4504010 ATAGATAATAAAGATAAATAAAAGTTAGTAAAAAAGGAAAAA
1 AT--A-A-TAAAGATAAATAAAAGTTAATAAAAAAGGAAAAA
4504052 ATAATAA
1 ATAATAA
4504059 CATAATAAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 26
0.67 0.09 0.25
Matches are distributed among these distances:
36 6 0.09
37 2 0.03
38 13 0.19
39 8 0.11
40 1 0.01
41 5 0.07
42 4 0.06
43 4 0.06
44 5 0.07
45 1 0.01
46 7 0.10
47 6 0.09
48 2 0.03
49 6 0.09
ACGTcount: A:0.70, C:0.01, G:0.08, T:0.21
Consensus pattern (38 bp):
ATAATAAAGATAAATAAAAGTTAATAAAAAAGGAAAAA
Found at i:4504016 original size:85 final size:85
Alignment explanation
Indices: 4503913--4504095 Score: 321
Period size: 85 Copynumber: 2.1 Consensus size: 85
4503903 TAATAACAAC
*
4503913 AAAATAAATACAATAGATAATAAAGATAAATAAAAGTTAATAAAAAAGGAAAAAATAATAAAATA
1 AAAA-AAATATAATAGATAATAAAGATAAATAAAAGTTAATAAAAAAGGAAAAAATAATAAAATA
4503978 ATAAAGCAATAAAATAAAATT
65 ATAAAGCAATAAAATAAAATT
* *
4503999 AAAAAAATATAATAGATAATAAAGATAAATAAAAGTTAGTAAAAAAGGAAAAAATAATAACATAA
1 AAAAAAATATAATAGATAATAAAGATAAATAAAAGTTAATAAAAAAGGAAAAAATAATAAAATAA
4504064 TAAAGCAATAAAATAAAATT
66 TAAAGCAATAAAATAAAATT
*
4504084 AAAAAAACATAA
1 AAAAAAATATAA
4504096 ATGCAAGTGG
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
85 89 0.96
86 4 0.04
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (85 bp):
AAAAAAATATAATAGATAATAAAGATAAATAAAAGTTAATAAAAAAGGAAAAAATAATAAAATAA
TAAAGCAATAAAATAAAATT
Found at i:4506455 original size:16 final size:15
Alignment explanation
Indices: 4506431--4506460 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4506421 AATATAAAAA
4506431 AAATAAACAATAAAC
1 AAATAAACAATAAAC
4506446 AAATAGAACAATAAA
1 AAATA-AACAATAAA
4506461 TCATGTCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.10, G:0.03, T:0.13
Consensus pattern (15 bp):
AAATAAACAATAAAC
Found at i:4510624 original size:23 final size:23
Alignment explanation
Indices: 4510582--4510643 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
4510572 ATAAGGCAGA
* *
4510582 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
4510604 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
4510627 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
4510644 AGGGGAATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
22 14 0.38
23 23 0.62
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:4517872 original size:15 final size:15
Alignment explanation
Indices: 4517852--4517881 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4517842 ATAGTGTCAC
4517852 ATTGACTTTTCAAAA
1 ATTGACTTTTCAAAA
*
4517867 ATTGACTTTTTAAAA
1 ATTGACTTTTCAAAA
4517882 GATAGTTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (15 bp):
ATTGACTTTTCAAAA
Found at i:4521996 original size:31 final size:31
Alignment explanation
Indices: 4521932--4522005 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
4521922 ATGACGGTGG
* * *
4521932 AGTAACCATTTTGTTACAAACCGATAACATT
1 AGTAACCATTTTGCTACAAACCAAGAACATT
* **
4521963 AGTAACCATTTTGCTACAAATCAAGAATGTT
1 AGTAACCATTTTGCTACAAACCAAGAACATT
*
4521994 AGTTACCATTTT
1 AGTAACCATTTT
4522006 ATTACTTTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (31 bp):
AGTAACCATTTTGCTACAAACCAAGAACATT
Found at i:4524972 original size:19 final size:19
Alignment explanation
Indices: 4524950--4524999 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
4524940 AAGCAACTCA
4524950 AAAGTGTCCTACGTGCGGG
1 AAAGTGTCCTACGTGCGGG
4524969 AAAGTGTCCTACGTGCGGG
1 AAAGTGTCCTACGTGCGGG
4524988 AAAGTGTCCTAC
1 AAAGTGTCCTAC
4525000 AAGCATGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (19 bp):
AAAGTGTCCTACGTGCGGG
Found at i:4525974 original size:5 final size:5
Alignment explanation
Indices: 4525959--4525991 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
4525949 AAAAATTTAA
4525959 AAAAG -AAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
4525992 TATGAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:4527904 original size:42 final size:42
Alignment explanation
Indices: 4527841--4527951 Score: 177
Period size: 42 Copynumber: 2.6 Consensus size: 42
4527831 TATTATAAAG
* *
4527841 CTTTAATTGTTAAAGTCCATGGCTTTGTCTTATTCCATAGTA
1 CTTTAATTATTAAATTCCATGGCTTTGTCTTATTCCATAGTA
* * *
4527883 CTTTAATTATTAAATTTCATGGCTTTTTCTTATTCCATAGTG
1 CTTTAATTATTAAATTCCATGGCTTTGTCTTATTCCATAGTA
4527925 CTTTAATTATTAAATTCCATGGCTTTG
1 CTTTAATTATTAAATTCCATGGCTTTG
4527952 CCTTCTCCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (42 bp):
CTTTAATTATTAAATTCCATGGCTTTGTCTTATTCCATAGTA
Found at i:4532453 original size:8 final size:8
Alignment explanation
Indices: 4532448--4532508 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
4532438 GGGCAAAAAC
4532448 AAAAAAGA
1 AAAAAAGA
*
4532456 AAAGAAGA
1 AAAAAAGA
4532464 AAAAAAGA
1 AAAAAAGA
* *
4532472 AGAAAACA
1 AAAAAAGA
4532480 AAAGAAAGA
1 AAA-AAAGA
*
4532489 ACAAAAA-T
1 A-AAAAAGA
*
4532497 CAAAAAGA
1 AAAAAAGA
4532505 AAAA
1 AAAA
4532509 GGGACAAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
7 5 0.12
8 25 0.62
9 8 0.20
10 2 0.05
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:4532502 original size:25 final size:23
Alignment explanation
Indices: 4532441--4532507 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 23
4532431 ACAAAAAGGG
4532441 CAAAAACAAAAAAGAAAAGAAGAA
1 CAAAAAC-AAAAAGAAAAGAAGAA
* *
4532465 -AAAAAGAAGAAAACAAAAGAAAGAA
1 CAAAAA-CA-AAAAGAAAAG-AAGAA
4532490 CAAAAATCAAAAAGAAAA
1 CAAAAA-CAAAAAGAAAA
4532508 AGGGACAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
23 6 0.18
24 9 0.26
25 13 0.38
26 6 0.18
ACGTcount: A:0.79, C:0.07, G:0.12, T:0.01
Consensus pattern (23 bp):
CAAAAACAAAAAGAAAAGAAGAA
Found at i:4533137 original size:22 final size:22
Alignment explanation
Indices: 4533109--4533161 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
4533099 GCTACCCCAT
*
4533109 CAAACCTTTGAGTATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
4533131 CAAACCTTTGAGCATCAAATTC
1 CAAACCTTTGAGCATCAAATGC
4533153 CAAACCTTT
1 CAAACCTTT
4533162 TACCAAACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.28
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:4534235 original size:106 final size:106
Alignment explanation
Indices: 4534083--4534928 Score: 1284
Period size: 106 Copynumber: 8.0 Consensus size: 106
4534073 GTGCCACTTG
* * * *
4534083 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAAATT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
4534148 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCT
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
4534189 AGACAACACAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
4534254 CAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
4534295 TGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
4534360 CAGAGCCAATTTAAACTTTACAGCGAAGGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
4534401 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
4534466 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGATTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
4534507 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
4534572 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
4534613 AGACAACGTAAGTTCAACTTCACGATGAAGGGACAGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
4534678 -AGAGCCAATTTTAACTTCACAGCAAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
4534718 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCTAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
4534783 CAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * * *
4534824 AGACAACACAAGTTCAGCTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCCCGATT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCCCAATT
* *
4534888 CCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
65 TCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
4534929 GGAAAAATGC
Statistics
Matches: 682, Mismatches: 55, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
105 98 0.14
106 584 0.86
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
Found at i:4536178 original size:16 final size:16
Alignment explanation
Indices: 4536151--4536195 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
4536141 TTGCCTGAAC
4536151 CGTTTG-AAGCTTTAT
1 CGTTTGAAAGCTTTAT
4536166 CGTTTGAAAGCTTTAT
1 CGTTTGAAAGCTTTAT
4536182 CGTTT-AAGAGCTTT
1 CGTTTGAA-AGCTTT
4536196 TTTGAGGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.29
16 20 0.71
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.44
Consensus pattern (16 bp):
CGTTTGAAAGCTTTAT
Found at i:4536704 original size:42 final size:42
Alignment explanation
Indices: 4536631--4536741 Score: 168
Period size: 42 Copynumber: 2.6 Consensus size: 42
4536621 TATTATAAAG
* *
4536631 CTTTAATTGTTAAAGTCCATGGCTTTGTCTTATTCCATAGTA
1 CTTTAATTATTAAATTCCATGGCTTTGTCTTATTCCATAGTA
* * * *
4536673 CTTTGATTATTAAATTTCATGGCTTTTTCTTATTCCATAGTG
1 CTTTAATTATTAAATTCCATGGCTTTGTCTTATTCCATAGTA
4536715 CTTTAATTATTAAATTCCATGGCTTTG
1 CTTTAATTATTAAATTCCATGGCTTTG
4536742 CCTTCTCCCT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (42 bp):
CTTTAATTATTAAATTCCATGGCTTTGTCTTATTCCATAGTA
Found at i:4545327 original size:24 final size:24
Alignment explanation
Indices: 4545300--4545360 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
4545290 AAATAAAAGT
4545300 ATAATAATATAATTA-TAAAAAATA
1 ATAATAATATAATTAGT-AAAAATA
*
4545324 ATAATATTAT-ATTAGTAAAAATA
1 ATAATAATATAATTAGTAAAAATA
*
4545347 TTAATAAATATAAT
1 ATAAT-AATATAAT
4545361 GTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 15 0.48
24 14 0.45
25 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
ATAATAATATAATTAGTAAAAATA
Found at i:4545337 original size:23 final size:23
Alignment explanation
Indices: 4545293--4545360 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 23
4545283 ATTATGAAAA
*
4545293 TAAAAGTATAATAATATAATTA-
1 TAAAAATATAATAATATAATTAG
4545315 TAAAAA-ATAATAATATTATATTAG
1 TAAAAATATAATAATA-TA-ATTAG
4545339 TAAAAATATTAATAAATATAAT
1 TAAAAATA-TAAT-AATATAAT
4545361 GTAATAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
21 9 0.23
22 7 0.18
23 4 0.10
24 6 0.15
25 3 0.08
26 6 0.15
27 4 0.10
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (23 bp):
TAAAAATATAATAATATAATTAG
Found at i:4548585 original size:64 final size:63
Alignment explanation
Indices: 4548498--4548638 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 63
4548488 TCTTTAACAT
* * * *
4548498 GTGCATCAATGCACTACCCATGCATCGATGCACAAATCACATTCGATGTTTTCAT-TTTAAGGG
1 GTGCATCGATGCACTACCCATGCATCAATGCACAAATCACATTCGATG-TTTCATCTTTAAAGA
* * ** *
4548561 GATGCATCGATGCACT-CCTTATGCATCAATGCACCAATTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACC-CATGCATCAATGCACAAATCACATTCGATGTTTCATCTTTAAAGA
4548625 GTGCATCGATGCAC
1 GTGCATCGATGCAC
4548639 ATTGAATGTG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
63 21 0.32
64 45 0.68
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCAATGCACAAATCACATTCGATGTTTCATCTTTAAAGA
Found at i:4554512 original size:82 final size:82
Alignment explanation
Indices: 4554375--4554779 Score: 352
Period size: 82 Copynumber: 4.9 Consensus size: 82
4554365 AATTCAAACA
* * * * *
4554375 ATTGTGGCGTTTATTGAAAAAATGCCACTATAGGTAAACACTATTACGACGTTTGTATAAAAACG
1 ATTGCGGCGTTTATTG-AAAAACGCCACTATAGGTGAACCCTATTACGACATTTGTATAAAAACG
4554440 CCGCTAAAGTTCTAA-AT
65 CCGCTAAAGTTCTAATAT
* * * * * * *
4554457 ATTGTGGTGTTTATTGACAAAACACCACTATAGGTGAACCCTATTGCGATATTTGTATACAAACA
1 ATTGCGGCGTTTATTGA-AAAACGCCACTATAGGTGAACCCTATTACGACATTTGTATAAAAACG
** *
4554522 TGGCTAAAGTTCTAATTT
65 CCGCTAAAGTTCTAATAT
* * * *
4554540 GTTGCGGCGTTTATT-ATAAAATGCCACTATAGGTGAACCCTATTA-TAGCGTTTGTATAAAAAC
1 ATTGCGGCGTTTATTGA-AAAACGCCACTATAGGTGAACCCTATTACGA-CATTTGTATAAAAAC
* * *
4554603 GCCACTAAAGTACTAATCT
64 GCCGCTAAAGTTCTAATAT
* * * * * * *
4554622 GTTGCGGTGTTTATTGAACAAACGCCACAATAGATGGA-CCTATTACGGCATTTGTATAAAAATG
1 ATTGCGGCGTTTATTGAA-AAACGCCACTATAGGTGAACCCTATTACGACATTTGTATAAAAACG
* ** *
4554686 CCGCTAAAGTACTTCTTT
65 CCGCTAAAGTTCTAATAT
* * * * * * *
4554704 GTTGCAGCGTTTGTCGAAAATATGCCACTATAGATGAACCCTATTACGACATTTGTA-AAGAAAT
1 ATTGCGGCGTTTATTGAAAA-ACGCCACTATAGGTGAACCCTATTACGACATTTGTATAA-AAAC
4554768 GCCGCTAAAGTT
64 GCCGCTAAAGTT
4554780 ACCATTTTGT
Statistics
Matches: 262, Mismatches: 52, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
81 4 0.02
82 197 0.75
83 61 0.23
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (82 bp):
ATTGCGGCGTTTATTGAAAAACGCCACTATAGGTGAACCCTATTACGACATTTGTATAAAAACGC
CGCTAAAGTTCTAATAT
Found at i:4554778 original size:165 final size:163
Alignment explanation
Indices: 4554381--4554778 Score: 439
Period size: 164 Copynumber: 2.4 Consensus size: 163
4554371 AACAATTGTG
* *
4554381 GCGTTTATTGAAAAAATGCCACTATAGGTAAACACTATTACGACGTTTGTATAAAAACGCCGCTA
1 GCGTTTA-TG-AAAAATGCCACTATAGGTGAACCCTATTACGACGTTTGTATAAAAACGCCGCTA
* * * * * *
4554446 AAGTTCTAAATATTGTGGTGTTTATTGACAAAACACCACTATAGGTGAACCCTATTGCGATATTT
64 AAGTACTAAATATTGCGGTGTTTATTGACAAAACACCACAATAGATGAACCCTATTACGACATTT
* *
4554511 GTATACAAACATGGCTAAAGTTCTAATTTGTTGCG
129 GTATACAAACATGGCTAAAGTACTAATTTGTTGCA
* * *
4554546 GCGTTTATTATAAAATGCCACTATAGGTGAACCCTATTA-TAGCGTTTGTATAAAAACGCCACTA
1 GCGTTTATGA-AAAATGCCACTATAGGTGAACCCTATTACGA-CGTTTGTATAAAAACGCCGCTA
* * * * *
4554610 AAGTACTAATCTGTTGCGGTGTTTATTGA-ACAAACGCCACAATAGATGGA-CCTATTACGGCAT
64 AAGTACTAA-ATATTGCGGTGTTTATTGACA-AAACACCACAATAGATGAACCCTATTACGACAT
**
4554673 TTGTATA-AAA-ATGCCGCTAAAGTACTTCTTTGTTGCA
127 TTGTATACAAACATG--GCTAAAGTACTAATTTGTTGCA
* * * *
4554710 GCGTTTGTCGAAAATATGCCACTATAGATGAACCCTATTACGACATTTGTA-AAGAAATGCCGCT
1 GCGTTTAT-GAAAA-ATGCCACTATAGGTGAACCCTATTACGACGTTTGTATAA-AAACGCCGCT
4554774 AAAGT
63 AAAGT
4554779 TACCATTTTG
Statistics
Matches: 196, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
162 3 0.02
163 5 0.03
164 104 0.53
165 83 0.42
166 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (163 bp):
GCGTTTATGAAAAATGCCACTATAGGTGAACCCTATTACGACGTTTGTATAAAAACGCCGCTAAA
GTACTAAATATTGCGGTGTTTATTGACAAAACACCACAATAGATGAACCCTATTACGACATTTGT
ATACAAACATGGCTAAAGTACTAATTTGTTGCA
Found at i:4554965 original size:18 final size:18
Alignment explanation
Indices: 4554942--4554981 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
4554932 CATAATTATT
4554942 AAAAA-TTAGAAAAATATA
1 AAAAATTTAGAAAAAT-TA
*
4554960 AAAAATTTAGATAAATTA
1 AAAAATTTAGAAAAATTA
4554978 AAAA
1 AAAA
4554982 TAATTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (18 bp):
AAAAATTTAGAAAAATTA
Found at i:4554992 original size:10 final size:10
Alignment explanation
Indices: 4554973--4555051 Score: 52
Period size: 10 Copynumber: 7.4 Consensus size: 10
4554963 AATTTAGATA
4554973 AATTAAAAAT
1 AATTAAAAAT
4554983 AATTGAAAATAGT
1 AATT-AAAA-A-T
*
4554996 TATTAAAAAT
1 AATTAAAAAT
* *
4555006 AATTAATATT
1 AATTAAAAAT
4555016 CAATTTAAATAAT
1 -AA-TTAAA-AAT
*
4555029 TATTAAAAAT
1 AATTAAAAAT
*
4555039 AATT-TAAAT
1 AATTAAAAAT
4555048 AATT
1 AATT
4555052 TAGATAAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
9 8 0.15
10 18 0.33
11 12 0.22
12 10 0.19
13 6 0.11
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (10 bp):
AATTAAAAAT
Found at i:4555126 original size:22 final size:23
Alignment explanation
Indices: 4555094--4555142 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
4555084 AAAAAATGTC
*
4555094 TTTTAACATATATTAAATAATT-
1 TTTTAACATATATTAAAGAATTG
* *
4555116 TTTTAATATATTTTAAAGAATTG
1 TTTTAACATATATTAAAGAATTG
4555139 TTTT
1 TTTT
4555143 GGATTGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (23 bp):
TTTTAACATATATTAAAGAATTG
Found at i:4556183 original size:23 final size:24
Alignment explanation
Indices: 4556148--4556196 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
4556138 CTACTAGGGG
* *
4556148 CTATGAATTTGTCCCGAATGACCA
1 CTATGAATATGTCCCGAAGGACCA
4556172 CTATGAA-ATGTCCCGAAGGACCA
1 CTATGAATATGTCCCGAAGGACCA
4556195 CT
1 CT
4556197 GTATATCCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (24 bp):
CTATGAATATGTCCCGAAGGACCA
Found at i:4559471 original size:54 final size:55
Alignment explanation
Indices: 4559405--4559530 Score: 191
Period size: 54 Copynumber: 2.3 Consensus size: 55
4559395 ACACCCCTAA
* * *
4559405 GAGGGTACCGATACCTCTATATAAGATTTGGCTCTAAG-AATAACAGATTGCTCG
1 GAGGGTACCGATACCCCTATATAAGATTTGGATCCAAGAAATAACAGATTGCTCG
* * *
4559459 GAGGGTATCGATACCCCTATGTAAGATTTGGATCCGAGAAATAACAGATTGCTCG
1 GAGGGTACCGATACCCCTATATAAGATTTGGATCCAAGAAATAACAGATTGCTCG
4559514 GAGGGTACCGATACCCC
1 GAGGGTACCGATACCCC
4559531 CAGTCTTATA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 32 0.50
55 32 0.50
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (55 bp):
GAGGGTACCGATACCCCTATATAAGATTTGGATCCAAGAAATAACAGATTGCTCG
Found at i:4565312 original size:22 final size:23
Alignment explanation
Indices: 4565267--4565326 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 23
4565257 TCTGGCGATA
* *
4565267 GGTATTGATACCCCCTTTGCATG
1 GGTACTGATACCCCCTTTGAATG
4565290 GGTACTGATACCCCC-TTGAATG
1 GGTACTGATACCCCCTTTGAATG
4565312 GGTACTGATACCCCC
1 GGTACTGATACCCCC
4565327 ACATGAGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 21 0.60
23 14 0.40
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (23 bp):
GGTACTGATACCCCCTTTGAATG
Found at i:4568019 original size:55 final size:55
Alignment explanation
Indices: 4567949--4568070 Score: 158
Period size: 55 Copynumber: 2.2 Consensus size: 55
4567939 CCCAAGAGGG
*
4567949 TACCGATACCCCTATGTAAGATTTGGCACT-GAGAAATAACT-GATTGCTAGGAGAC
1 TACCGATACCCCTATGTAAGATTTAGC-CTCGAGAAATAA-TAGATTGCTAGGAGAC
* * * **
4568004 TACTGATACCCCTATGTAAGATTTAGCTTCGAGAAATAATAGATTGCTCGGAGGG
1 TACCGATACCCCTATGTAAGATTTAGCCTCGAGAAATAATAGATTGCTAGGAGAC
4568059 TACCGATACCCC
1 TACCGATACCCC
4568071 CCGGGAGGTA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 2 0.03
55 56 0.97
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (55 bp):
TACCGATACCCCTATGTAAGATTTAGCCTCGAGAAATAATAGATTGCTAGGAGAC
Found at i:4572467 original size:82 final size:84
Alignment explanation
Indices: 4572355--4572518 Score: 233
Period size: 82 Copynumber: 2.0 Consensus size: 84
4572345 GAGAATATCA
* * * * *
4572355 ATTTAATATTTTTAAATTTAAAATATATTATTATCTGTTTAAATTTAAATATTAAAAGATATTTG
1 ATTTAATATTTTTAAATTTAAAAAATATTATTATCTATTTAAATCTAAATATTAAAAGAGATTTA
4572420 GTTAGAGT-AAACTCTCAG
66 GTTAGAGTAAAACTCTCAG
* * *
4572438 ATTTAATA-TTTTAAATTTAAAAAATATTATTATCTATTTAAATCTAGATATTTAAATAGATTTA
1 ATTTAATATTTTTAAATTTAAAAAATATTATTATCTATTTAAATCTAAATATTAAAAGAGATTTA
*
4572502 GTTGGAGTAAAACTCTC
66 GTTAGAGTAAAACTCTC
4572519 TCGTAACTCC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 55 0.77
83 16 0.23
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.45
Consensus pattern (84 bp):
ATTTAATATTTTTAAATTTAAAAAATATTATTATCTATTTAAATCTAAATATTAAAAGAGATTTA
GTTAGAGTAAAACTCTCAG
Found at i:4573039 original size:27 final size:28
Alignment explanation
Indices: 4573001--4573060 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
4572991 AGATAATTTA
* *
4573001 AAATTGTGGGGAAAACGAGATAGTAAAC
1 AAATTGTGGGGAAAAAGAGATAATAAAC
* *
4573029 AAATTGT-GGGAAAAATAGATAATAAAT
1 AAATTGTGGGGAAAAAGAGATAATAAAC
4573056 AAATT
1 AAATT
4573061 ATCATGAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.52, C:0.03, G:0.22, T:0.23
Consensus pattern (28 bp):
AAATTGTGGGGAAAAAGAGATAATAAAC
Found at i:4577518 original size:83 final size:83
Alignment explanation
Indices: 4577423--4577584 Score: 245
Period size: 83 Copynumber: 2.0 Consensus size: 83
4577413 TGTATATCTG
* * *
4577423 TTAATATTTTAAATTAAAAAGATATTATTATCTATTTAAATTTAGATATTAAAAGA-TATCATGT
1 TTAACATTTTAAATTAAAAAGAAATTATTATATATTTAAATTTAGATATTAAAAGAGTATCA-GT
4577487 TGGAGTAAAACTCTCAGGT
65 TGGAGTAAAACTCTCAGGT
* * * *
4577506 TTAACATTTTAAATTTAAAAGAAATTATTATATGTTTAAATTTAGATATTAAAAGAGTTTTAGTT
1 TTAACATTTTAAATTAAAAAGAAATTATTATATATTTAAATTTAGATATTAAAAGAGTATCAGTT
4577571 GGAGTAAAACTCTC
66 GGAGTAAAACTCTC
4577585 TCGAAATTCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
83 68 0.96
84 3 0.04
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (83 bp):
TTAACATTTTAAATTAAAAAGAAATTATTATATATTTAAATTTAGATATTAAAAGAGTATCAGTT
GGAGTAAAACTCTCAGGT
Found at i:4588184 original size:81 final size:81
Alignment explanation
Indices: 4588019--4588191 Score: 224
Period size: 81 Copynumber: 2.1 Consensus size: 81
4588009 GAAGAATATT
* * *
4588019 CTTCTCCCGACGTTCCTTTGGGAAGTTCGAATGAATTAGCACAAACTTTGAAAAGAAAGAAGAGA
1 CTTCTCCCGATGTTCCTTTGGGAAGTTCGAAAGAATCAGCACAAACTTTGAAAAGAAAGAAGAGA
*
4588084 GACAACGACGATTCTG
66 GACAACGACGATTCGG
* *
4588100 CTTCTTCCGATGTTCCTTTGGGAAGCTT-GAAAGAATCAGTACAAACTTTGAAAAGAAAGAAGAG
1 CTTCTCCCGATGTTCCTTTGGGAAG-TTCGAAAGAATCAGCACAAACTTTGAAAAGAAAGAAGAG
* * * *
4588164 AGGCGAC-AGTGGTTCGG
65 AGACAACGA-CGATTCGG
4588181 CTTCTCCCGAT
1 CTTCTCCCGAT
4588192 TTGAATAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 76 0.96
82 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (81 bp):
CTTCTCCCGATGTTCCTTTGGGAAGTTCGAAAGAATCAGCACAAACTTTGAAAAGAAAGAAGAGA
GACAACGACGATTCGG
Found at i:4591132 original size:32 final size:33
Alignment explanation
Indices: 4591080--4591151 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
4591070 TAAGGCGACC
* * *
4591080 CTTGGGT-AGGCTCTGCGG-CCCCGAGATTTTT
1 CTTGGGTAAGCCTCTGCGGCCCCCGAGAATTGT
*
4591111 CTTGGGTAAGCCTCTGTGGCCCCCGAGAATTGT
1 CTTGGGTAAGCCTCTGCGGCCCCCGAGAATTGT
4591144 CTTGGGTA
1 CTTGGGTA
4591152 GGCTCTCAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 7 0.20
32 9 0.26
33 19 0.54
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (33 bp):
CTTGGGTAAGCCTCTGCGGCCCCCGAGAATTGT
Found at i:4591164 original size:32 final size:31
Alignment explanation
Indices: 4591080--4591165 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 31
4591070 TAAGGCGACC
* *
4591080 CTTGGGTAGGCTCTGCGG-CCCCGAGATTTTT
1 CTTGGGTAGGCTCT-CGGCCCCCGAGAATTGT
* *
4591111 CTTGGGTAAGCCTCTGTGGCCCCCGAGAATTGT
1 CTTGGGT-AGGCTCT-CGGCCCCCGAGAATTGT
4591144 CTTGGGTAGGCTCTCAGGCCCC
1 CTTGGGTAGGCTCTC-GGCCCC
4591166 AAGGCACTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
31 7 0.15
32 21 0.46
33 18 0.39
ACGTcount: A:0.12, C:0.29, G:0.31, T:0.28
Consensus pattern (31 bp):
CTTGGGTAGGCTCTCGGCCCCCGAGAATTGT
Found at i:4593432 original size:10 final size:10
Alignment explanation
Indices: 4593405--4593436 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
4593395 TATATAAAAT
4593405 CCGGTTGAAC
1 CCGGTTGAAC
4593415 CGCGGTTGAAC
1 C-CGGTTGAAC
4593426 CCGGTTGAAC
1 CCGGTTGAAC
4593436 C
1 C
4593437 AGTGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.19
Consensus pattern (10 bp):
CCGGTTGAAC
Found at i:4595637 original size:20 final size:22
Alignment explanation
Indices: 4595572--4595642 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 22
4595562 ATTTAAAATT
*
4595572 GTATCGATACCGTA--ATA-GA
1 GTATCGATACCATAGTATAGGA
* *
4595591 GTATCGGTACCATAGTATAGTA
1 GTATCGATACCATAGTATAGGA
*
4595613 GTATCGATACCAT-G-GTAGGA
1 GTATCGATACCATAGTATAGGA
4595633 GTATCGATAC
1 GTATCGATAC
4595643 TATTGAGCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 12 0.28
20 14 0.33
21 4 0.09
22 13 0.30
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (22 bp):
GTATCGATACCATAGTATAGGA
Found at i:4596037 original size:56 final size:56
Alignment explanation
Indices: 4595946--4596335 Score: 505
Period size: 56 Copynumber: 7.0 Consensus size: 56
4595936 ATGTATGGTG
* *
4595946 ATTTCTGTATGAGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGA
1 ATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGA
**
4596002 ATTTTTGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGA
1 ATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGA
* * * * *
4596058 ATTTCCGTATGGGTACGTTGTGTTCAAAAATTAAGAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGA
* * * * *
4596114 ATTTCTGTATGGGTACTTTGTGAGAAAAAACTAGGAAATTCATAATGAGTTTATGA
1 ATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGA
* * * * *
4596170 ATTTCCATATGGGCACTTTTTGTGCAAAAACTAAGAAATTCATAATTAGTTTTTTTCA
1 ATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAG--TTTATGA
4596228 ATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGA
1 ATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGA
* * * * * ** *
4596284 ATTTTCATATGTGAACTTTATGTGCAAAATGTAAGAAATT-AT-ATGAATTTAT
1 ATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTAT
4596336 ATATTGGTAG
Statistics
Matches: 292, Mismatches: 40, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
54 9 0.03
55 2 0.01
56 230 0.79
58 51 0.17
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (56 bp):
ATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGA
Found at i:4604144 original size:54 final size:54
Alignment explanation
Indices: 4604062--4604266 Score: 308
Period size: 54 Copynumber: 3.8 Consensus size: 54
4604052 ACTATCGACG
* * *
4604062 CTATGTGTGTAACCCTC-AGAATTCATAATGAGTTTTTGAATTACCGTATCAACA
1 CTATGTGTGCAACCCACGA-AATTCATAATGAGTTTGTGAATTACCGTATCAACA
*
4604116 CTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCGTATCATCA
1 CTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCGTATCAACA
* * *
4604170 CTATGT-TGCAACCCACGAAATTCATAATGAGTTT-TTAAATACCGTATCGACA
1 CTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCGTATCAACA
*
4604222 CTATGTGTGCAACCCACAAAATTCATAATGAGTTTGTGAATTACC
1 CTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACC
4604267 ATACCGGCAC
Statistics
Matches: 137, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
52 20 0.15
53 55 0.40
54 61 0.45
55 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (54 bp):
CTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCGTATCAACA
Found at i:4604286 original size:106 final size:107
Alignment explanation
Indices: 4604081--4604287 Score: 319
Period size: 106 Copynumber: 1.9 Consensus size: 107
4604071 TAACCCTCAG
* *
4604081 AATTCATAATGAGTTTTTGAATTACCGTATCAACACTATGTGTGCAACCCACGAAATTCATAATG
1 AATTCATAATGAGTTTTTGAAATACCGTATCAACACTATGTGTGCAACCCACAAAATTCATAATG
* * * *
4604146 AGTTTGTGAATTACCGTATCATCACTATGTTGCAACCCACGA
66 AGTTTGTGAATTACCATACCAGCACTATGGTGCAACCCACGA
*
4604188 AATTCATAATGAGTTTTT-AAATACCGTATCGACACTATGTGTGCAACCCACAAAATTCATAATG
1 AATTCATAATGAGTTTTTGAAATACCGTATCAACACTATGTGTGCAACCCACAAAATTCATAATG
*
4604252 AGTTTGTGAATTACCATACCGGCACT-TAGGTGCAAC
66 AGTTTGTGAATTACCATACCAGCACTAT-GGTGCAAC
4604288 TCATGTACCA
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
105 1 0.01
106 72 0.79
107 18 0.20
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (107 bp):
AATTCATAATGAGTTTTTGAAATACCGTATCAACACTATGTGTGCAACCCACAAAATTCATAATG
AGTTTGTGAATTACCATACCAGCACTATGGTGCAACCCACGA
Found at i:4606307 original size:14 final size:14
Alignment explanation
Indices: 4606288--4606319 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4606278 AGGAGTTGAG
4606288 ATGAATAAGATTCC
1 ATGAATAAGATTCC
*
4606302 ATGAATATGATTCC
1 ATGAATAAGATTCC
4606316 ATGA
1 ATGA
4606320 GGGACTAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (14 bp):
ATGAATAAGATTCC
Found at i:4608314 original size:31 final size:29
Alignment explanation
Indices: 4608279--4608355 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 29
4608269 AAATTTAAAA
* *
4608279 AAATATCTCTTTATTTTTGTTTTAACTTATT
1 AAATAT-T-TTTATTTTTGTCTTAACTTAGT
*
4608310 AAATATTTTTATTTTTGTCTTAATTTAGT
1 AAATATTTTTATTTTTGTCTTAACTTAGT
4608339 AAATATATTTTTATTTT
1 -AA-ATATTTTTATTTT
4608356 AGGGTAAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
29 19 0.46
30 3 0.07
31 19 0.46
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (29 bp):
AAATATTTTTATTTTTGTCTTAACTTAGT
Found at i:4608322 original size:29 final size:30
Alignment explanation
Indices: 4608278--4608355 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 30
4608268 AAAATTTAAA
*
4608278 AAAATATCTCTTTATTTTTGTTTTAACTTA-T
1 AAAATAT-T-TTTATTTTTGTCTTAACTTAGT
* *
4608309 TAAATATTTTTATTTTTGTCTTAATTTAGT
1 AAAATATTTTTATTTTTGTCTTAACTTAGT
4608339 AAATATATTTTTATTTT
1 AAA-ATATTTTTATTTT
4608356 AGGGTAAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 18 0.44
30 4 0.10
31 19 0.46
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (30 bp):
AAAATATTTTTATTTTTGTCTTAACTTAGT
Found at i:4608619 original size:35 final size:35
Alignment explanation
Indices: 4608578--4608657 Score: 151
Period size: 35 Copynumber: 2.3 Consensus size: 35
4608568 AACACAATCA
*
4608578 TCAATTACATTTTAAACCTCAAATTCCAAAATACT
1 TCAATTACATTCTAAACCTCAAATTCCAAAATACT
4608613 TCAATTACATTCTAAACCTCAAATTCCAAAATACT
1 TCAATTACATTCTAAACCTCAAATTCCAAAATACT
4608648 TCAATTACAT
1 TCAATTACAT
4608658 GCCCAAGCCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (35 bp):
TCAATTACATTCTAAACCTCAAATTCCAAAATACT
Found at i:4608671 original size:35 final size:35
Alignment explanation
Indices: 4608591--4608673 Score: 123
Period size: 35 Copynumber: 2.4 Consensus size: 35
4608581 ATTACATTTT
* *
4608591 AAACCTCAAATTCCAAAATACTTCAATTACATTCT
1 AAACCTCAAATTCCAAAATACTTCAATTACATCCC
4608626 AAACCTCAAATTCCAAAATACTTCAATTACATGCCC
1 AAACCTCAAATTCCAAAATACTTCAATTACAT-CCC
*
4608662 AAGCC-CAAATTC
1 AAACCTCAAATTC
4608674 ATAATCCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 39 0.89
36 5 0.11
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (35 bp):
AAACCTCAAATTCCAAAATACTTCAATTACATCCC
Found at i:4609109 original size:148 final size:151
Alignment explanation
Indices: 4608834--4609126 Score: 484
Period size: 148 Copynumber: 1.9 Consensus size: 151
4608824 CTCAATTCAA
*
4608834 TTTATTAAATAGTTGACTCAAAATTTTTTCGATTCAAGTTTATAAAATTTAAATCAAGTCGAATT
1 TTTATAAAATAGTTGACTCAAAATTTTTTCGATTCAAGTTTATAAAATTTAAATCAAGTCGAATT
* *
4608899 GAATTGAATAGAATTTTTGAGTTTCTGTTTAAATTTAATTATAAATATTTATCATATTATAATAT
66 GAATT--ATAGAATTTTTGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATAT
4608964 TATTTGATTCTAATTCAGTTTAG
129 TATTTGATTCTAATTCAGTTTAG
* * **
4608987 TTTATAAAATAGTTGACTTAAATTTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGAATT
1 TTTATAAAATAGTTGACTCAAAATTTTTTCGATTCAAGTTTATAAAATTTAAATCAAGTCGAATT
4609052 GAA-T-T-GAATTTTTGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTA
66 GAATTATAGAATTTTTGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTA
4609114 TTTGATTCTAATT
131 TTTGATTCTAATT
4609127 TAAATAGTTT
Statistics
Matches: 133, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
148 68 0.51
149 1 0.01
152 1 0.01
153 63 0.47
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (151 bp):
TTTATAAAATAGTTGACTCAAAATTTTTTCGATTCAAGTTTATAAAATTTAAATCAAGTCGAATT
GAATTATAGAATTTTTGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTA
TTTGATTCTAATTCAGTTTAG
Found at i:4609951 original size:31 final size:31
Alignment explanation
Indices: 4609913--4609974 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
4609903 ATATATTTAA
4609913 ATATTTTACTATTA-ATTTAATATAAAAATAT
1 ATATTTTACTATTATATTTAATA-AAAAATAT
* *
4609944 ATATTTTACTCTTATTTTTAATAAAAAATAT
1 ATATTTTACTATTATATTTAATAAAAAATAT
4609975 TTAATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (31 bp):
ATATTTTACTATTATATTTAATAAAAAATAT
Found at i:4610038 original size:29 final size:29
Alignment explanation
Indices: 4609985--4610234 Score: 115
Period size: 29 Copynumber: 8.4 Consensus size: 29
4609975 TTAATATTTT
* *
4609985 AATATATTTTTAAAAGTTAAGATAATAATAA
1 AATATATTTTT--AATTTAAAATAATAATAA
* *
4610016 AATATATTCTTAATTTAAAATAAGAATAA
1 AATATATTTTTAATTTAAAATAATAATAA
* * *
4610045 AATATA-TTTTAA-AT-AAA-GATAAGAA
1 AATATATTTTTAATTTAAAATAATAATAA
* * *
4610070 AA-ATA---TTAATTAAAAATATTTAATATTTT
1 AATATATTTTTAATTTAAAATA-ATAATA---A
* ** *
4610099 CATATATTTTTAAAAGGTAAGATAATAATAA
1 AATATATTTTT--AATTTAAAATAATAATAA
*
4610130 AATATATTTTTAATTTAAAATAAGAATAA
1 AATATATTTTTAATTTAAAATAATAATAA
*
4610159 AATATATTTTTAAGTAAATATAAGAA-AAAAATATTA
1 AATATATTTTTAA-T---T-TAA-AATAATAATA--A
* * *
4610195 AATAT-TTTTTAATTAAAAATAAGAGTAA
1 AATATATTTTTAATTTAAAATAATAATAA
4610223 AATATATTTTTA
1 AATATATTTTTA
4610235 TATTAAATTA
Statistics
Matches: 165, Mismatches: 31, Indels: 48
0.68 0.13 0.20
Matches are distributed among these distances:
22 4 0.02
24 6 0.04
25 7 0.04
26 7 0.04
27 1 0.01
28 11 0.07
29 57 0.35
30 11 0.07
31 21 0.13
33 3 0.02
34 15 0.09
35 16 0.10
36 6 0.04
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (29 bp):
AATATATTTTTAATTTAAAATAATAATAA
Found at i:4610079 original size:114 final size:115
Alignment explanation
Indices: 4609961--4610187 Score: 393
Period size: 114 Copynumber: 2.0 Consensus size: 115
4609951 ACTCTTATTT
*
4609961 TTAATAAAAAATATTTAATATTTTAATATATTTTTAAAAGTTAAGATAATAATAAAATATATTCT
1 TTAATAAAAAATATTTAATATTTTAATATATTTTTAAAAGGTAAGATAATAATAAAATATATTCT
4610026 TAATTTAAAATAAGAATAAAATATA-TTTTAAATAAAGATAAGAAAAATA
66 TAATTTAAAATAAGAATAAAATATATTTTTAAATAAAGATAAGAAAAATA
* * *
4610075 TTAATTAAAAATATTTAATATTTTCATATATTTTTAAAAGGTAAGATAATAATAAAATATATTTT
1 TTAATAAAAAATATTTAATATTTTAATATATTTTTAAAAGGTAAGATAATAATAAAATATATTCT
* *
4610140 TAATTTAAAATAAGAATAAAATATATTTTTAAGTAAATATAAGAAAAA
66 TAATTTAAAATAAGAATAAAATATATTTTTAAATAAAGATAAGAAAAA
4610188 AATATTAAAT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
114 86 0.81
115 20 0.19
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.40
Consensus pattern (115 bp):
TTAATAAAAAATATTTAATATTTTAATATATTTTTAAAAGGTAAGATAATAATAAAATATATTCT
TAATTTAAAATAAGAATAAAATATATTTTTAAATAAAGATAAGAAAAATA
Found at i:4610230 original size:37 final size:36
Alignment explanation
Indices: 4610158--4610227 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
4610148 AATAAGAATA
*
4610158 AAATATATTTTTAAGTAAATATAAGAAAAAAATATT
1 AAATATATTTTTAAGTAAAAATAAGAAAAAAATATT
* **
4610194 AAATAT-TTTTTAATTAAAAATAAGAGTAAAATAT
1 AAATATATTTTTAAGTAAAAATAAGAAAAAAATAT
4610228 ATTTTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 24 0.80
36 6 0.20
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (36 bp):
AAATATATTTTTAAGTAAAAATAAGAAAAAAATATT
Found at i:4611295 original size:44 final size:43
Alignment explanation
Indices: 4611223--4611346 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 43
4611213 GTTTAGTGTT
*
4611223 AACCCTAATTCCATTGATTTCTAAGCATCTTCAGGCTTAAT-GG
1 AACCCTAATTCCATTGATTTCTAAGCATCTTCA-GCTTAATCGA
* *
4611266 AACCCTAATTCCATTTGATTTCTAGGCATCTTTAGCTTAATCGA
1 AACCCTAATTCCA-TTGATTTCTAAGCATCTTCAGCTTAATCGA
* * * **
4611310 AACCCTAAATCCTATGGATTTCTCAGTGTCTTCAGCT
1 AACCCTAATTCC-ATTGATTTCTAAGCATCTTCAGCT
4611347 GTGCATTTTC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
43 20 0.29
44 47 0.69
45 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (43 bp):
AACCCTAATTCCATTGATTTCTAAGCATCTTCAGCTTAATCGA
Found at i:4611304 original size:43 final size:44
Alignment explanation
Indices: 4611223--4611332 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 44
4611213 GTTTAGTGTT
*
4611223 AACCCTAATTCCATTGATTTCTAAGCATCTTCAGGCTTAAT-GG
1 AACCCTAATTCCATTGATTTCTAAGCATCTTCAGGCTTAATCGA
* *
4611266 AACCCTAATTCCATTTGATTTCTAGGCATCTTTA-GCTTAATCGA
1 AACCCTAATTCCA-TTGATTTCTAAGCATCTTCAGGCTTAATCGA
* *
4611310 AACCCTAAATCCTATGGATTTCT
1 AACCCTAATTCC-ATTGATTTCT
4611333 CAGTGTCTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
43 20 0.34
44 38 0.64
45 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (44 bp):
AACCCTAATTCCATTGATTTCTAAGCATCTTCAGGCTTAATCGA
Found at i:4612077 original size:38 final size:38
Alignment explanation
Indices: 4612025--4612108 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
4612015 ATTTAAGCAT
4612025 TAATTATCCGTTAAT-AATATCAATAGGTTGGTGGTTAA
1 TAATTATCCGTTAATAAAT-TCAATAGGTTGGTGGTTAA
* * * *
4612063 TAATTATCCTTTAATAAATTGAGTAGGTTGGTGGTTAT
1 TAATTATCCGTTAATAAATTCAATAGGTTGGTGGTTAA
4612101 TAATTATC
1 TAATTATC
4612109 TATTAACATC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 38 0.93
39 3 0.07
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (38 bp):
TAATTATCCGTTAATAAATTCAATAGGTTGGTGGTTAA
Found at i:4615123 original size:24 final size:24
Alignment explanation
Indices: 4615091--4615327 Score: 106
Period size: 24 Copynumber: 10.0 Consensus size: 24
4615081 TTCATGAATT
*
4615091 TAATTATTTAATAATAATTACTAA
1 TAATGATTTAATAATAATTACTAA
* *
4615115 TAATGATTTAATACT-A--A-TGA
1 TAATGATTTAATAATAATTACTAA
* * *
4615135 T-ATGATTTATTAATAATGA-T-T
1 TAATGATTTAATAATAATTACTAA
4615156 TAAT-ATTTAATAATAA-T--T--
1 TAATGATTTAATAATAATTACTAA
* * * *
4615174 TAATGAGTTGATACTAATTATTTAA
1 TAATGATTTAATAATAATTA-CTAA
*
4615199 TAATGATTACTAATAATGATTACTACTAA
1 TAATGATT--TAATAAT-A--ATTACTAA
* * *
4615228 TAATGAAATT-ATAATATTTACTAC
1 TAATG-ATTTAATAATAATTACTAA
* *
4615252 TAATGATTTAATAATGATTACTAC
1 TAATGATTTAATAATAATTACTAA
* **
4615276 TAATAATGAAAATAGAATAATTACTAA
1 TAATGAT-TTAAT--AATAATTACTAA
*
4615303 TAATGATTTAATAATGATTACTAA
1 TAATGATTTAATAATAATTACTAA
4615327 T
1 T
4615328 TTAATAATAT
Statistics
Matches: 160, Mismatches: 32, Indels: 42
0.68 0.14 0.18
Matches are distributed among these distances:
18 4 0.03
19 21 0.13
20 5 0.03
21 13 0.08
22 4 0.03
23 5 0.03
24 53 0.33
25 10 0.06
26 4 0.03
27 26 0.16
28 2 0.01
29 8 0.05
30 5 0.03
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (24 bp):
TAATGATTTAATAATAATTACTAA
Found at i:4615141 original size:19 final size:19
Alignment explanation
Indices: 4615109--4615154 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
4615099 TAATAATAAT
4615109 TACTAAT-A-ATGATTTAA
1 TACTAATGATATGATTTAA
*
4615126 TACTAATGATATGATTTAT
1 TACTAATGATATGATTTAA
*
4615145 TAATAATGAT
1 TACTAATGAT
4615155 TTAATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 1 0.04
19 17 0.68
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (19 bp):
TACTAATGATATGATTTAA
Found at i:4615153 original size:14 final size:14
Alignment explanation
Indices: 4615098--4615157 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
4615088 ATTTAATTAT
*
4615098 TTAATAAT-AATTA
1 TTAATAATGATTTA
*
4615111 CTAATAATGATTTAA
1 TTAATAATGATTT-A
4615126 TACTAATGATATGATTTA
1 T--TAAT-A-ATGATTTA
4615144 TTAATAATGATTTA
1 TTAATAATGATTTA
4615158 ATATTTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
13 7 0.18
14 11 0.29
15 2 0.05
16 4 0.11
17 4 0.11
18 3 0.08
19 7 0.18
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (14 bp):
TTAATAATGATTTA
Found at i:4615213 original size:64 final size:63
Alignment explanation
Indices: 4615136--4615279 Score: 159
Period size: 64 Copynumber: 2.2 Consensus size: 63
4615126 TACTAATGAT
* * *
4615136 ATGATTTATTAATAATGATTTAATATTTAATAAT-AATT-TAATGAGTTGA-TACTAATTATTTA
1 ATGA-TTACTAATAATGA-TTAATA-CTAATAATAAATTATAAT-A-TTGACTACTAATGATTTA
4615198 ATA
61 ATA
* *
4615201 ATGATTACTAATAATGATTACTACTAATAATGAAATTATAATATTTACTACTAATGATTTAATA
1 ATGATTACTAATAATGATTAATACTAATAAT-AAATTATAATATTGACTACTAATGATTTAATA
*
4615265 ATGATTACTACTAAT
1 ATGATTACTAATAAT
4615280 AATGAAAATA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
62 7 0.10
63 8 0.12
64 46 0.67
65 8 0.12
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.44
Consensus pattern (63 bp):
ATGATTACTAATAATGATTAATACTAATAATAAATTATAATATTGACTACTAATGATTTAATA
Found at i:4615241 original size:27 final size:27
Alignment explanation
Indices: 4615209--4615325 Score: 115
Period size: 24 Copynumber: 4.6 Consensus size: 27
4615199 TAATGATTAC
4615209 TAATAATGATTACTACTAATAATGAAAT
1 TAATAATGATTACTACTAATAATG-AAT
* *
4615237 T-ATAAT-ATT--TACTACTAATGATT
1 TAATAATGATTACTACTAATAATGAAT
4615260 TAATAATGATTACTACTAATAATGAA-
1 TAATAATGATTACTACTAATAATGAAT
* * *
4615286 -AAT-A-GAATAATTACTAATAATGATT
1 TAATAATG-ATTACTACTAATAATGAAT
4615311 TAATAATGATTACTA
1 TAATAATGATTACTA
4615326 ATTTAATAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
23 4 0.06
24 31 0.44
25 6 0.08
26 6 0.08
27 22 0.31
28 2 0.03
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (27 bp):
TAATAATGATTACTACTAATAATGAAT
Found at i:4615347 original size:18 final size:17
Alignment explanation
Indices: 4615303--4615354 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
4615293 TAATTACTAA
4615303 TAATGATTTAATAATGAT
1 TAATGATTTAATAAT-AT
* *
4615321 TACTAATTTAATAATATT
1 TAATGATTTAATAATA-T
*
4615339 TAATGATTTGATAATA
1 TAATGATTTAATAATA
4615355 ATGATTACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 1 0.04
18 27 0.96
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (17 bp):
TAATGATTTAATAATAT
Found at i:4615871 original size:22 final size:22
Alignment explanation
Indices: 4615835--4615895 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
4615825 GCGACTCTAT
* *
4615835 TGATTTAATAATAATAATTTAA
1 TGATTTGATACTAATAATTTAA
*
4615857 TGATTTGATACTAATGATTTAA
1 TGATTTGATACTAATAATTTAA
*
4615879 T-A-ATGATTACTAATAAT
1 TGATTTGA-TACTAATAAT
4615896 GAAATTATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 3 0.09
21 10 0.30
22 20 0.61
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (22 bp):
TGATTTGATACTAATAATTTAA
Found at i:4615919 original size:27 final size:26
Alignment explanation
Indices: 4615889--4615973 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 26
4615879 TAATGATTAC
4615889 TAATAATGAAATTATAATATT--TAA
1 TAATAATGAAATTATAATATTAATAA
* * *
4615913 TAATAAT-AATTTAATAATGATTACTAC
1 TAATAATGAAATT-ATAAT-ATTAATAA
* *
4615940 TAATTATGAAATTATAATAATTATTAA
1 TAATAATGAAATTATAAT-ATTAATAA
4615967 TAATAAT
1 TAATAAT
4615974 TTAATAATGA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
23 4 0.08
24 12 0.25
25 3 0.06
27 25 0.52
28 4 0.08
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (26 bp):
TAATAATGAAATTATAATATTAATAA
Found at i:4615955 original size:51 final size:51
Alignment explanation
Indices: 4615850--4616044 Score: 190
Period size: 51 Copynumber: 3.9 Consensus size: 51
4615840 TAATAATAAT
* * * *
4615850 AATTTAATGATTTGATACTAATGATTTAATAATGA-T--TACTAATAATGA
1 AATTTAATGATTTAATAATAATAATTTAATAATGATTACTACTAATTATGA
4615898 AATTATAAT-ATTTAATAATAATAATTTAATAATGATTACTACTAATTATGA
1 AATT-TAATGATTTAATAATAATAATTTAATAATGATTACTACTAATTATGA
* * *
4615949 AATTATAAT-AATTATTAATAATAATTTAATAATGATTAC-A-TATTTAAT-A
1 AATT-TAATGATTTAATAATAATAATTTAATAATGATTACTACTAATT-ATGA
* * * * *
4615998 ATATTTAATGATTTGATCATAATGATTTAATAAAGATTACTAATAAT
1 A-ATTTAATGATTTAATAATAATAATTTAATAATGATTACTACTAAT
4616045 GATTTGATAA
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
48 27 0.22
49 15 0.12
50 30 0.24
51 49 0.40
52 3 0.02
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (51 bp):
AATTTAATGATTTAATAATAATAATTTAATAATGATTACTACTAATTATGA
Found at i:4616047 original size:24 final size:24
Alignment explanation
Indices: 4615868--4616055 Score: 118
Period size: 24 Copynumber: 7.6 Consensus size: 24
4615858 GATTTGATAC
4615868 TAATGATTTAATAATGATTACTAA
1 TAATGATTTAATAATGATTACTAA
* *
4615892 TAATGAAATT-ATAAT-ATTTAATAA
1 TAATG-ATTTAATAATGA-TTACTAA
*
4615916 TAATAATTTAATAATGATTACTACTAA
1 TAATGATTTAATAATGA-T--TACTAA
* * * *
4615943 TTATGAAATT-ATAATAATTATTAA
1 TAATG-ATTTAATAATGATTACTAA
* *
4615967 TAATAATTTAATAATGATTACATATT
1 TAATGATTTAATAATGATTAC-TA-A
* *
4615993 TAATAATATT--TAATGATTTGA-TCA
1 TAATGAT-TTAATAATGA-TT-ACTAA
*
4616017 TAATGATTTAATAAAGATTACTAA
1 TAATGATTTAATAATGATTACTAA
*
4616041 TAATGATTTGATAAT
1 TAATGATTTAATAAT
4616056 AATGATTTGA
Statistics
Matches: 125, Mismatches: 23, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
23 10 0.08
24 65 0.52
25 20 0.16
26 10 0.08
27 17 0.14
28 3 0.02
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (24 bp):
TAATGATTTAATAATGATTACTAA
Found at i:4616068 original size:11 final size:11
Alignment explanation
Indices: 4615854--4616055 Score: 58
Period size: 11 Copynumber: 18.4 Consensus size: 11
4615844 AATAATAATT
4615854 TAATGATTTGATA
1 TAATGATTT-A-A
4615867 CTAATGATTTAA
1 -TAATGATTTAA
4615879 TAATGATTACTAA
1 TAATGATT--TAA
*
4615892 TAATGAAATT-A
1 TAATG-ATTTAA
4615903 TAAT-ATTTAATAA
1 TAATGA-TT--TAA
*
4615916 TAATAATTTAA
1 TAATGATTTAA
*
4615927 TAATGA-TTAC
1 TAATGATTTAA
* *
4615937 TACT-AATT-A
1 TAATGATTTAA
4615946 TGAA--ATTATAA
1 T-AATGATT-TAA
*
4615957 TAATTA-TTAA
1 TAATGATTTAA
*
4615967 TAATAATTTAA
1 TAATGATTTAA
4615978 TAATGA-TT-A
1 TAATGATTTAA
*
4615987 -CAT-ATTTAA
1 TAATGATTTAA
4615996 TAAT-A-TT--
1 TAATGATTTAA
4616003 TAATGATTTGATCA
1 TAATGATTT-A--A
4616017 TAATGATTTAA
1 TAATGATTTAA
*
4616028 TAAAGATTACTAA
1 TAATGATT--TAA
*
4616041 TAATGATTTGA
1 TAATGATTTAA
4616052 TAAT
1 TAAT
4616056 AATGATTTGA
Statistics
Matches: 146, Mismatches: 15, Indels: 57
0.67 0.07 0.26
Matches are distributed among these distances:
7 5 0.03
8 5 0.03
9 11 0.08
10 26 0.18
11 47 0.32
12 4 0.03
13 27 0.18
14 21 0.14
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (11 bp):
TAATGATTTAA
Found at i:4616078 original size:12 final size:14
Alignment explanation
Indices: 4616003--4616068 Score: 70
Period size: 14 Copynumber: 5.0 Consensus size: 14
4615993 TAATAATATT
*
4616003 TAATGATTTGATCA
1 TAATGATTTGATAA
4616017 TAATGA-TT--TAA
1 TAATGATTTGATAA
*
4616028 TAAAGA-TT-ACTAA
1 TAATGATTTGA-TAA
4616041 TAATGATTTGATAA
1 TAATGATTTGATAA
4616055 TAATGATTTGATAA
1 TAATGATTTGATAA
4616069 AATTTTTGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
11 9 0.20
13 10 0.22
14 25 0.56
15 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (14 bp):
TAATGATTTGATAA
Found at i:4618260 original size:24 final size:24
Alignment explanation
Indices: 4618233--4618279 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
4618223 AATGGTGAAA
*
4618233 TGGATGCATGAGATGAAGATGGAG
1 TGGATACATGAGATGAAGATGGAG
* * *
4618257 TGGATATATGTGATGAAGGTGGA
1 TGGATACATGAGATGAAGATGGA
4618280 ACAAATAATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.40, T:0.26
Consensus pattern (24 bp):
TGGATACATGAGATGAAGATGGAG
Found at i:4619062 original size:55 final size:52
Alignment explanation
Indices: 4618978--4619089 Score: 179
Period size: 55 Copynumber: 2.1 Consensus size: 52
4618968 ACGTAGTGAG
*
4618978 TTTTTGTTCTTTGTTTAATTGTTATGCTTATAGTACTTGTGTGTGTTCTTGA
1 TTTTTGTTCTTTGTTTAATTGTTATGCTTATAGTACTTGTGTATGTTCTTGA
*
4619030 TTTTTGTTCTTTGTTTGTTAATTGTTATGCTTATAGTGCTTGTGTATGTTCTTGA
1 TTTTTGTTCTTTG--T-TTAATTGTTATGCTTATAGTACTTGTGTATGTTCTTGA
4619085 TTTTT
1 TTTTT
4619090 TATATTGATT
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
52 13 0.24
54 1 0.02
55 41 0.75
ACGTcount: A:0.12, C:0.07, G:0.19, T:0.62
Consensus pattern (52 bp):
TTTTTGTTCTTTGTTTAATTGTTATGCTTATAGTACTTGTGTATGTTCTTGA
Found at i:4620439 original size:42 final size:42
Alignment explanation
Indices: 4620379--4620510 Score: 203
Period size: 42 Copynumber: 3.2 Consensus size: 42
4620369 TGATGTTGAT
* * * *
4620379 TTTA-TTTAGATTTATTGAGACTTATTAGTGTTATGGTTTTA
1 TTTATTTTAGACTTATTGAGACTTAATGGTGTTATGGTGTTA
* *
4620420 TTTATTTTAGACTTGTTGAGACTTAATGGTGCTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTAATGGTGTTATGGTGTTA
4620462 TTTATTTTAGACTTATTGAGACTTAATGGTGTTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTAATGGTGTTATGGTGTTA
4620504 TTTATTT
1 TTTATTT
4620511 ACTTGTTTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 4 0.05
42 78 0.95
ACGTcount: A:0.23, C:0.05, G:0.20, T:0.53
Consensus pattern (42 bp):
TTTATTTTAGACTTATTGAGACTTAATGGTGTTATGGTGTTA
Done.