Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007952.1 Hibiscus syriacus cultivar Beakdansim tig00110377_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: 3169409
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 16
Found at i:2649386 original size:18 final size:18
Alignment explanation
Indices: 2649363--2649401 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
2649353 TGAAATTTAT
2649363 AAATTTTAAAATTATAAA
1 AAATTTTAAAATTATAAA
**
2649381 AAA-TTTATTATTATAAA
1 AAATTTTAAAATTATAAA
2649398 AAAT
1 AAAT
2649402 AAACTTGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTTTAAAATTATAAA
Found at i:2651945 original size:46 final size:46
Alignment explanation
Indices: 2651873--2651966 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
2651863 AAAGTATCTC
2651873 AATACTACAAGAAAAGCATATGAAGATAAGAGTAAACTAATAGCAT
1 AATACTACAAGAAAAGCATATGAAGATAAGAGTAAACTAATAGCAT
* *
2651919 AATATTACAAGAAAAGCTTATGAAGATAAGAGTAAACTAATAGCAT
1 AATACTACAAGAAAAGCATATGAAGATAAGAGTAAACTAATAGCAT
2651965 AA
1 AA
2651967 GCAGTATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (46 bp):
AATACTACAAGAAAAGCATATGAAGATAAGAGTAAACTAATAGCAT
Found at i:2652363 original size:23 final size:23
Alignment explanation
Indices: 2652337--2652384 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2652327 AACATTGAAA
2652337 AAAAATATACTATTA-AAATAGAC
1 AAAAATATACTA-TAGAAATAGAC
*
2652360 AAAAATATATTATAGAAATAGAC
1 AAAAATATACTATAGAAATAGAC
2652383 AA
1 AA
2652385 CCTTTTACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (23 bp):
AAAAATATACTATAGAAATAGAC
Found at i:2652632 original size:22 final size:23
Alignment explanation
Indices: 2652592--2652634 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2652582 TTATTATTAT
2652592 TTTAGAAAAAATAAATGAATAGA
1 TTTAGAAAAAATAAATGAATAGA
* *
2652615 TTTAGTAAAAA-AATTGAATA
1 TTTAGAAAAAATAAATGAATA
2652635 AGTAAACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (23 bp):
TTTAGAAAAAATAAATGAATAGA
Found at i:2653872 original size:23 final size:23
Alignment explanation
Indices: 2653845--2653903 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
2653835 ATTTTTTGTT
*
2653845 TTTATTTATTTTTATATTATATA
1 TTTATTTATTTTTATATCATATA
* *
2653868 TTTATTTATCTTTATATCATATC
1 TTTATTTATTTTTATATCATATA
2653891 TTTATTTTATTTT
1 TTTA-TTTATTTT
2653904 AAAATTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 24 0.77
24 7 0.23
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTATTTATTTTTATATCATATA
Found at i:2654361 original size:27 final size:27
Alignment explanation
Indices: 2654322--2654387 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
2654312 TAATATAACT
2654322 CTGAATCATTCAGAATGTACTTTGATG
1 CTGAATCATTCAGAATGTACTTTGATG
*
2654349 TTGAATCATTCAGAATGTACTTTGATG
1 CTGAATCATTCAGAATGTACTTTGATG
2654376 CTGAATCATTCA
1 CTGAATCATTCA
2654388 ATACTGTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTTGATG
Found at i:2655824 original size:23 final size:22
Alignment explanation
Indices: 2655774--2655833 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
2655764 TAAAAAAATA
*
2655774 AAAAATTTATTTATATATATTT
1 AAAAATTTATTTAAATATATTT
2655796 ATAAAATTTATATTAAAT-TATTCT
1 A-AAAATTTAT-TTAAATATATT-T
*
2655820 AAAAAGTATATTTA
1 AAAAA-TTTATTTA
2655834 TAATCTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 1 0.03
23 20 0.62
24 11 0.34
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAAATTTATTTAAATATATTT
Found at i:2655832 original size:47 final size:44
Alignment explanation
Indices: 2655772--2655860 Score: 106
Period size: 47 Copynumber: 2.0 Consensus size: 44
2655762 AATAAAAAAA
* * *
2655772 TAAAAAATTTATTTATATATATTTATAAAATTTATATTAAATTATTC
1 TAAAAAATATATTTATA-AT-CTTATAAAA-ATATATTAAATTATTC
* *
2655819 TAAAAAGTATATTTATAATCTTATAAAAATATTTTAAATTAT
1 TAAAAAATATATTTATAATCTTATAAAAATATATTAAATTAT
2655861 CTATTTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 12 0.32
45 8 0.22
46 2 0.05
47 15 0.41
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (44 bp):
TAAAAAATATATTTATAATCTTATAAAAATATATTAAATTATTC
Found at i:2664028 original size:16 final size:16
Alignment explanation
Indices: 2663988--2664029 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2663978 TCATTTTTTA
2663988 ATAAATATAAATTAAAC
1 ATAAATA-AAATTAAAC
*
2664005 ATAGATAAAATTAAA-
1 ATAAATAAAATTAAAC
2664020 ATTAAATAAA
1 A-TAAATAAA
2664030 TAAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 1 0.05
16 15 0.68
17 6 0.27
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
ATAAATAAAATTAAAC
Found at i:2665348 original size:24 final size:24
Alignment explanation
Indices: 2665321--2665367 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
2665311 ACTTTAGCGA
2665321 TTGAAGCCTAAAATTTGAGCTCAT
1 TTGAAGCCTAAAATTTGAGCTCAT
2665345 TTGAAGCCTAAAATTTGAGCTCA
1 TTGAAGCCTAAAATTTGAGCTCA
2665368 ATTAAAGCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (24 bp):
TTGAAGCCTAAAATTTGAGCTCAT
Found at i:2665375 original size:24 final size:24
Alignment explanation
Indices: 2665324--2665375 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
2665314 TTAGCGATTG
* *
2665324 AAGCCTAAAATTTGAGCTCATTTG
1 AAGCCTAAAATTTGAGCTCAATTA
2665348 AAGCCTAAAATTTGAGCTCAATTA
1 AAGCCTAAAATTTGAGCTCAATTA
2665372 AAGC
1 AAGC
2665376 GAAAGAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (24 bp):
AAGCCTAAAATTTGAGCTCAATTA
Found at i:2665911 original size:8 final size:8
Alignment explanation
Indices: 2665898--2665922 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2665888 TGAACCCGGT
2665898 TGAACCAG
1 TGAACCAG
2665906 TGAACCAG
1 TGAACCAG
2665914 TGAACCAG
1 TGAACCAG
2665922 T
1 T
2665923 ACCTTCACCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (8 bp):
TGAACCAG
Found at i:2666353 original size:50 final size:51
Alignment explanation
Indices: 2666231--2666358 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 51
2666221 TTAGCAGTAA
* ** *
2666231 AGCGCGCCCCCTGCACCGCGCTATATGATGATTTGGTGCCACGTGGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
** *
2666282 AGCGCGCCCCCTGCATTGCGCTATACGGTGAGCTGGCGCCACGT-GGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
* * *
2666332 AGCGCGGCCCCTACAGCGCGCTATACG
1 AGCGCGCCCCCTGCACCGCGCTATACG
2666359 CCACGTAAGG
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 29 0.44
51 37 0.56
ACGTcount: A:0.16, C:0.33, G:0.32, T:0.20
Consensus pattern (51 bp):
AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
Found at i:2666448 original size:49 final size:49
Alignment explanation
Indices: 2666382--2666490 Score: 177
Period size: 49 Copynumber: 2.2 Consensus size: 49
2666372 TAACGCGGAT
2666382 CAGGTACCGCGCTATACCTTTACTCCTA-ATAATTTTATATAGCGCGGGA
1 CAGGTACCGCGCTATACCTTTACTCC-ACATAATTTTATATAGCGCGGGA
*
2666431 CAGGTACCGCGAC-ATACCTTTACTCCACATAATTTTATATAGCGCGGGG
1 CAGGTACCGCG-CTATACCTTTACTCCACATAATTTTATATAGCGCGGGA
2666480 CAGGTACCGCG
1 CAGGTACCGCG
2666491 TTTTGTATAA
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
48 1 0.02
49 55 0.96
50 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (49 bp):
CAGGTACCGCGCTATACCTTTACTCCACATAATTTTATATAGCGCGGGA
Found at i:2670615 original size:18 final size:18
Alignment explanation
Indices: 2670592--2670628 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2670582 GGCGATGACT
*
2670592 GCATCATATATGGTTGCG
1 GCATCATATATGGCTGCG
2670610 GCATCATATATGGCTGCG
1 GCATCATATATGGCTGCG
2670628 G
1 G
2670629 TGGCTGCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (18 bp):
GCATCATATATGGCTGCG
Found at i:2672330 original size:110 final size:111
Alignment explanation
Indices: 2672136--2672356 Score: 372
Period size: 110 Copynumber: 2.0 Consensus size: 111
2672126 ATTACAAAAA
* * *
2672136 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTAATAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
* *
2672201 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTATAGAGATAT
*
2672247 TTAATTATTAATATAATAATCATGCATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
*
2672311 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTATAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTATAGAGATAT
2672357 ATGATTTCCA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 69 0.67
111 34 0.33
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (111 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTATAGAGATAT
Found at i:2674133 original size:29 final size:29
Alignment explanation
Indices: 2674098--2674179 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
2674088 AAACTAAATT
*
2674098 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTACTTACATCATTTAAGTAAA
*
2674127 GATGTCATTACTTACATCATTTAAGTAAT
1 GATGTCATTACTTACATCATTTAAGTAAA
*
2674156 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTACTTACATC-ATTTA
2674180 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (29 bp):
GATGTCATTACTTACATCATTTAAGTAAA
Found at i:2678892 original size:29 final size:29
Alignment explanation
Indices: 2678857--2678938 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
2678847 AAACTAAATT
* *
2678857 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
2678886 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
2678915 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
2678939 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:2691485 original size:6 final size:6
Alignment explanation
Indices: 2691466--2691627 Score: 96
Period size: 6 Copynumber: 26.2 Consensus size: 6
2691456 ATCGATACCT
* * * **
2691466 TTTGCA TTTACA TTTGCA TTTGCA TCTTTGCA TTTGTACA CTTGTA TTTATA
1 TTTGCA TTTGCA TTTGCA TTTGCA --TTTGCA TTTG--CA TTTGCA TTTGCA
* * **
2691518 TTTTCA TTT-C- TTTGCA TTTACA TTTGCA TTTGCA TCTTTGCA TTTTTA
1 TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA --TTTGCA TTTGCA
* * * * **
2691566 TGCTTGTA TTTACA TTTTCA TTTTCA TTT-TT TTTGCA TTTGCA TTTGCA
1 T--TTGCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA
2691615 TTTGCA TTTGCA T
1 TTTGCA TTTGCA T
2691628 CTTTGCATAA
Statistics
Matches: 125, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
4 3 0.02
5 5 0.04
6 95 0.76
8 22 0.18
ACGTcount: A:0.18, C:0.15, G:0.10, T:0.56
Consensus pattern (6 bp):
TTTGCA
Found at i:2691542 original size:62 final size:64
Alignment explanation
Indices: 2691466--2691624 Score: 220
Period size: 62 Copynumber: 2.6 Consensus size: 64
2691456 ATCGATACCT
*
2691466 TTTGCATTTACATTTGCATTTGCATCTTTGCATTTGTACACTTGTATTTATATTTTCA-TTTC-
1 TTTGCATTTACATTTGCATTTGCATCTTTGCATTTGTACACTTGTATTTACATTTTCATTTTCA
* **
2691528 TTTGCATTTACATTTGCATTTGCATCTTTGCATTTTTATGCTTGTATTTACATTTTCATTTTCA
1 TTTGCATTTACATTTGCATTTGCATCTTTGCATTTGTACACTTGTATTTACATTTTCATTTTCA
** *
2691592 TTT-TTTTTGCATTTGCATTTGCA--TTTGCATTTG
1 TTTGCATTTACATTTGCATTTGCATCTTTGCATTTG
2691625 CATCTTTGCA
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
61 9 0.10
62 54 0.62
63 21 0.24
64 3 0.03
ACGTcount: A:0.18, C:0.15, G:0.11, T:0.57
Consensus pattern (64 bp):
TTTGCATTTACATTTGCATTTGCATCTTTGCATTTGTACACTTGTATTTACATTTTCATTTTCA
Found at i:2696664 original size:21 final size:20
Alignment explanation
Indices: 2696640--2696703 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
2696630 ATACGGAAGA
2696640 TTTTATCTCATTCAAGATTG
1 TTTTATCTCATTCAAGATTG
* * * *
2696660 TTTT-TC-CCTTAAACATAAG
1 TTTTATCTCATTCAAGAT-TG
2696679 ATTTTATCTCATTCAAGATTG
1 -TTTTATCTCATTCAAGATTG
2696700 TTTT
1 TTTT
2696704 TCCTTGAAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 7 0.22
19 3 0.09
20 12 0.38
21 3 0.09
22 7 0.22
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTTATCTCATTCAAGATTG
Found at i:2696759 original size:39 final size:39
Alignment explanation
Indices: 2696635--2697058 Score: 350
Period size: 39 Copynumber: 11.0 Consensus size: 39
2696625 ATTTAATACG
* *
2696635 GAAGATTTTATCTCATTCAAGATTGTTTTTCCCTT-AAACA
1 GAAGATTTTATCTCACTCAAGATAG--TTTCCCTTGAAACA
* * * *
2696675 TAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACA
1 GAAGATTTTATCTCACTCAAGATAG-TTTCCCTTGAAACA
*
2696715 GAAGATTTTATATCACTCAAGATAGTTTCCCTTGAAACA
1 GAAGATTTTATCTCACTCAAGATAGTTTCCCTTGAAACA
* * **
2696754 GAAGATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACA
1 GAAGATTTTATCTCACTCAAGATAGTTTCCCTTGAAACA
* * **
2696793 GAAGATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
1 GAAGATTTTATCTCACTCAAGATAGTTTCCCTTGAAACA
* * ** *
2696832 GAAGATTTTGTCTCTCTTGAGATAGTTTCACTTGAAACA
1 GAAGATTTTATCTCACTCAAGATAGTTTCCCTTGAAACA
* * *
2696871 GAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAATA
1 GAAGATTTTATCTCACTCAAGATAG-TTTCCCTTGAAACA
**
2696911 GAAGATTTTATCTCACTCAAGA-ATGTTTTTTCTTGAAAC-
1 GAAGATTTTATCTCACTCAAGATA-G-TTTCCCTTGAAACA
* ** * * *
2696950 -AA-ATTTTGTCTCACTTGAGACAGTTTCCTTTTAAAC-
1 GAAGATTTTATCTCACTCAAGATAGTTTCCCTTGAAACA
* * ** *
2696986 -AA-ATTTTGTCTCTCTTTAGACAGTTTCCCTTGAAAC-
1 GAAGATTTTATCTCACTCAAGATAGTTTCCCTTGAAACA
* * *
2697022 --ATATTTTATCTCTCTTGAA-ATAGTTTCCCTTGAAACA
1 GAAGATTTTATCTCAC-TCAAGATAGTTTCCCTTGAAACA
2697059 CAGAATTTTG
Statistics
Matches: 337, Mismatches: 40, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
35 1 0.00
36 68 0.20
37 18 0.05
38 3 0.01
39 151 0.45
40 96 0.28
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (39 bp):
GAAGATTTTATCTCACTCAAGATAGTTTCCCTTGAAACA
Found at i:2696792 original size:78 final size:79
Alignment explanation
Indices: 2696600--2696924 Score: 356
Period size: 78 Copynumber: 4.1 Consensus size: 79
2696590 TTTCAAACAA
* * * * * *
2696600 ATTTTGTTTCGCTTGAGACAG--TCCCATTTAATACGGAAGATTTTATCTCATTCAAGATTGTTT
1 ATTTTGTCTCGCTTGAGATAGTTTCCC-TTGAA-ACAGAAGATTTTATCTCACTCAAGATAG-TT
*
2696663 TTCCCTT-AAACATAAG
63 TTCCCTTGAAACAGAAG
* * * * * *
2696679 ATTTTATCTC-ATTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATATCACTCAAGATAG-TT
1 ATTTTGTCTCGCTT-GAGATAG-TTTCCCTTGAAACAGAAGATTTTATCTCACTCAAGATAGTTT
2696742 TCCCTTGAAACAGAAG
64 TCCCTTGAAACAGAAG
* * **
2696758 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCTCTTGAGATAG-TTTC
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCACTCAAGATAGTTTTC
2696822 CCTTGAAACAGAAG
66 CCTTGAAACAGAAG
* * * *
2696836 ATTTTGTCTCTCTTGAGATAGTTTCACTTGAAACAGAAGATTTTATCTCACTCAAGATTGTTTTT
1 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCACTCAAGATAGTTTTC
*
2696901 CCTTGAAATAGAAG
66 CCTTGAAACAGAAG
*
2696915 ATTTTATCTC
1 ATTTTGTCTC
2696925 ACTCAAGAAT
Statistics
Matches: 206, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
78 114 0.55
79 59 0.29
80 26 0.13
81 4 0.02
82 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.40
Consensus pattern (79 bp):
ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATCTCACTCAAGATAGTTTTC
CCTTGAAACAGAAG
Found at i:2697730 original size:136 final size:135
Alignment explanation
Indices: 2697499--2697832 Score: 446
Period size: 136 Copynumber: 2.5 Consensus size: 135
2697489 TTTCCAGTAC
* * * *
2697499 AGAGTTCGTAATGAGAATAACTCATCTGACAAAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGAC-AAGGGAGAAGAAGTTCATAATGAGAAGAGATTGT
* * * *
2697564 TCGACCTCTCACTCGATTCATGGCATTTCGAATCAGTGACACCTTGCTTGAGGGATTGACATTTC
65 TCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGGGATTGACATTTC
* *
2697629 CAATTG
130 AAATGG
2697635 AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGATTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGACA-AGGGAGAAGAAGTTCATAATGAGAAGAGATTGT
* **
2697700 TCGACCTATCACTCGATTCACGATATTTCGAATCAGTGATGCCTCGCTTGAGGGATTGACATTTC
65 TCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGGGATTGACATTTC
2697765 AAATGG
130 AAATGG
* * *
2697771 AGAGTCCATAATGAGAAGAGCT-AGTCCTA-AA-GGAG-A-AAGTTCATAATGAGAAGA-ACTTG
1 AGAGTTCATAATGAGAAGAACTCA-TCCGACAAGGGAGAAGAAGTTCATAATGAGAAGAGA-TTG
2697830 TTC
64 TTC
2697833 CTTTCAAAGT
Statistics
Matches: 179, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
130 1 0.01
131 24 0.13
132 1 0.01
133 4 0.02
134 1 0.01
135 3 0.02
136 145 0.81
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (135 bp):
AGAGTTCATAATGAGAAGAACTCATCCGACAAGGGAGAAGAAGTTCATAATGAGAAGAGATTGTT
CGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGGGATTGACATTTCA
AATGG
Found at i:2700549 original size:3 final size:3
Alignment explanation
Indices: 2700534--2700568 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
2700524 ATTAAAAAAT
*
2700534 TAA TAA TAT TAA TAA TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2700569 ATATTTTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:2701108 original size:130 final size:130
Alignment explanation
Indices: 2700776--2701115 Score: 328
Period size: 130 Copynumber: 2.6 Consensus size: 130
2700766 AGTGGTACGA
* * * * * * *
2700776 CTCCTACGTGATAAGGAGATATGGTCGGTGGATGACACGGCTCATACGTGATGAAGA-GTTCTGG
1 CTCCTACGTGATGAGGAGGTCTGGTTGGGGGATGACACGGTTC-TACGTGATGAAGACG-TAT-G
* * * * *
2700840 CCATCTTTAGGAGGGGTGATAACATGGTTTCTACATAATAAGGATAACTGGTTATCTAGGCGGTG
63 CCATCTTT---AGGGGTGATAACACGATTCCTACATAATAAGGACAACTGGTTATCTAAGCGGTG
2700905 ACACAG
125 ACACAG
* * * * * * *
2700911 CTCTTACATGATGATGAGGTCTGG-TCGGGGATGACACGATTCCTACGTGATGAGGACGTCATAC
1 CTCCTACGTGATGAGGAGGTCTGGTTGGGGGATGACACGGTT-CTACGTGATGAAGACGT-ATGC
* * * **
2700975 CATCTTTAGGGGTGATAACACGATTCCTACGTGATGAGGACGGCTGGTTATC-AAG-GGTGACAC
64 CATCTTTAGGGGTGATAACACGATTCCTACATAATAAGGACAACTGGTTATCTAAGCGGTGACAC
*
2701038 TG
129 AG
*
2701040 CTCCTACGTGATGAGGAGGTCTGGTTGGGGGATGACACGGTTGCTACGTGATGACGACGATATGC
1 CTCCTACGTGATGAGGAGGTCTGGTTGGGGGATGACACGGTT-CTACGTGATGAAGACG-TATGC
2701105 CATCTTTAGGG
64 CATCTTTAGGG
2701116 ATAATGGTTT
Statistics
Matches: 167, Mismatches: 33, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
129 30 0.18
130 46 0.28
131 37 0.22
134 33 0.20
135 21 0.13
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.26
Consensus pattern (130 bp):
CTCCTACGTGATGAGGAGGTCTGGTTGGGGGATGACACGGTTCTACGTGATGAAGACGTATGCCA
TCTTTAGGGGTGATAACACGATTCCTACATAATAAGGACAACTGGTTATCTAAGCGGTGACACAG
Found at i:2701428 original size:63 final size:64
Alignment explanation
Indices: 2701214--2701489 Score: 226
Period size: 65 Copynumber: 4.2 Consensus size: 64
2701204 CAAAGATGTT
* * * * * *
2701214 TTTGTTT-CAAGAGAAACAGACTCAAAGATTTTGTTTTTACAGAGAAACT-ACTTCAAGGGAAAC
1 TTTGTTTCCAA-AGAAACAGACTCAAAGATTTT-TTCTCA-AAAGAAAATGTC-TCAAGAGAAA-
*
2701277 AAAG
61 AAAC
* * ** *
2701281 TTTGTTT-CAATGGAAACA-ATCTCAAAGGTTGGTT-TCAAAAGAAAATGTCTTAAGAGAGACAA
1 TTTGTTTCCAA-AGAAACAGA-CTCAAAGATTTTTTCTCAAAAGAAAATGTCTCAAGAGA-A-AA
2701343 AAC
62 AAC
* *
2701346 TTTGTTTCCAGAGAAACAGACTCAAAGA-TTTTTCTCAAAAGAAATTGTCTCAAGAGAAAAAAC
1 TTTGTTTCCAAAGAAACAGACTCAAAGATTTTTTCTCAAAAGAAAATGTCTCAAGAGAAAAAAC
* * * *
2701409 ATTGTTTCCAAAGAAACAGACTCAAAGATTTTTTTTTTCAAAAGAAAATGTCTCGAGAGACAAAA
1 TTTGTTTCCAAAGAAACAGACTCAAAGA--TTTTTTCTCAAAAGAAAATGTCTCAAGAGAAAAAA
2701474 -
64 C
2701474 TTTGTTT-CAAGAGAAA
1 TTTGTTTCCAA-AGAAA
2701490 TAATTCAAAG
Statistics
Matches: 172, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
63 31 0.18
64 20 0.12
65 59 0.34
66 37 0.22
67 25 0.15
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (64 bp):
TTTGTTTCCAAAGAAACAGACTCAAAGATTTTTTCTCAAAAGAAAATGTCTCAAGAGAAAAAAC
Found at i:2701627 original size:33 final size:32
Alignment explanation
Indices: 2701569--2701632 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
2701559 TTCACATCAG
*
2701569 GATGTTGAATCTCCAAAGATTCCCCAACATTC
1 GATGTTGAATCTCCAAAGATGCCCCAACATTC
* * *
2701601 GATGTTGATTGCTTCAAAGATGCCCCATCATT
1 GATGTTGAAT-CTCCAAAGATGCCCCAACATT
2701633 AATTGTTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCCCAACATTC
Found at i:2702715 original size:12 final size:12
Alignment explanation
Indices: 2702700--2702727 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2702690 TTTGTTCCTT
2702700 TTTTTTCTTTGA
1 TTTTTTCTTTGA
2702712 TTTTTTCTTTGA
1 TTTTTTCTTTGA
2702724 TTTT
1 TTTT
2702728 CCTTTTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTTTCTTTGA
Found at i:2702747 original size:31 final size:32
Alignment explanation
Indices: 2702694--2702756 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
2702684 TTAGCTTTTG
**
2702694 TTCCTTTTTTTTCTTTGATTTTTTCTTTGATT
1 TTCCTTTTTGCTCTTTGATTTTTTCTTTGATT
2702726 TTCCTTTTTGCTCTTTG-TTTTTTCTTTGATT
1 TTCCTTTTTGCTCTTTGATTTTTTCTTTGATT
2702757 CTTGTCTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.05, C:0.14, G:0.08, T:0.73
Consensus pattern (32 bp):
TTCCTTTTTGCTCTTTGATTTTTTCTTTGATT
Found at i:2705229 original size:21 final size:22
Alignment explanation
Indices: 2705177--2705243 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 22
2705167 TGGCATGTGA
* *
2705177 AATATGTCCCTAAGGACCTGTG
1 AATATGTCCCGAAGGACCTATG
2705199 AATATGTCCCGAAGGACCTATG
1 AATATGTCCCGAAGGACCTATG
*
2705221 AGT-TGTCCCGAAGGACCTATG
1 AATATGTCCCGAAGGACCTATG
2705242 AA
1 AA
2705244 ATCCTCGACT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 19 0.46
22 22 0.54
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (22 bp):
AATATGTCCCGAAGGACCTATG
Found at i:2709587 original size:29 final size:30
Alignment explanation
Indices: 2709515--2709747 Score: 154
Period size: 30 Copynumber: 7.8 Consensus size: 30
2709505 CCAGAATGGG
* * *
2709515 AAAAATAGAAACTTAAAGGACCAAAATAGTAC
1 AAAAATAGACATTTAAAGGACTAAAATA--AC
* * *
2709547 AAACAT-GA-ATTTAAGGGACT-AAATGAC
1 AAAAATAGACATTTAAAGGACTAAAATAAC
**
2709574 AAAAATAGACATTTAAAGGACTAAAATATG
1 AAAAATAGACATTTAAAGGACTAAAATAAC
* * *
2709604 AAAAATAGAAACTTAAGGGACT-AAATAAC
1 AAAAATAGACATTTAAAGGACTAAAATAAC
* * *
2709633 AAATACAGACATTTAAAGGACTAAAATAAT
1 AAAAATAGACATTTAAAGGACTAAAATAAC
* * * *
2709663 AAAAATAGAAACTCAAAGGGA-TAAAACAAC
1 AAAAATAGACATTTAAA-GGACTAAAATAAC
* * * * * *
2709693 AATAACAAAAAGTTAAGGGACTAAAATAA-
1 AAAAATAGACATTTAAAGGACTAAAATAAC
* *
2709722 AAATAATAGAAACTTAAAGGACTAAA
1 AAA-AATAGACATTTAAAGGACTAAA
2709748 CTGAAAAAAG
Statistics
Matches: 154, Mismatches: 40, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
27 7 0.05
28 2 0.01
29 42 0.27
30 93 0.60
31 5 0.03
32 5 0.03
ACGTcount: A:0.58, C:0.10, G:0.13, T:0.18
Consensus pattern (30 bp):
AAAAATAGACATTTAAAGGACTAAAATAAC
Found at i:2709590 original size:59 final size:59
Alignment explanation
Indices: 2709515--2709747 Score: 208
Period size: 59 Copynumber: 3.9 Consensus size: 59
2709505 CCAGAATGGG
* * * * *
2709515 AAAAATAGAAACTTAAAGGACCAAAATA-GTACAAACAT-G-AATTTAAGGGACTAAATGAC
1 AAAAATAGACATTTAAAGGACTAAAATATG-A-AAA-ATAGAAACTTAAGGGACTAAATAAC
2709574 AAAAATAGACATTTAAAGGACTAAAATATGAAAAATAGAAACTTAAGGGACTAAATAAC
1 AAAAATAGACATTTAAAGGACTAAAATATGAAAAATAGAAACTTAAGGGACTAAATAAC
* * * *
2709633 AAATACAGACATTTAAAGGACTAAAATAAT-AAAAATAGAAACTCAAAGGGA-TAAAACAAC
1 AAAAATAGACATTTAAAGGACTAAAAT-ATGAAAAATAGAAACT-TAAGGGACT-AAATAAC
* * * * * * * *
2709693 AATAACAAAAAGTTAAGGGACTAAAATA-AAAATAATAGAAACTTAAAGGACTAAA
1 AAAAATAGACATTTAAAGGACTAAAATATGAAA-AATAGAAACTTAAGGGACTAAA
2709748 CTGAAAAAAG
Statistics
Matches: 148, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
57 2 0.01
58 4 0.03
59 95 0.64
60 47 0.32
ACGTcount: A:0.58, C:0.10, G:0.13, T:0.18
Consensus pattern (59 bp):
AAAAATAGACATTTAAAGGACTAAAATATGAAAAATAGAAACTTAAGGGACTAAATAAC
Found at i:2709681 original size:89 final size:88
Alignment explanation
Indices: 2709514--2709747 Score: 199
Period size: 89 Copynumber: 2.6 Consensus size: 88
2709504 ACCAGAATGG
* * * *
2709514 GAAAAATAGAAACTTAAAGGACCAAAATAGTAC-AA-ACATGAATTTAAGGGACT-AAATGACAA
1 GAAAAATAGAAACTTAAGGGA-CTAAATA--ACAAATACA-GAATTTAAAGGACTAAAATAACAA
* * * * *
2709576 AAATAGACATTTAAA-GGACTAAAATAT
62 AAATAGAAACTCAAAGGGA-TAAAACAA
*
2709603 GAAAAATAGAAACTTAAGGGACTAAATAACAAATACAGACATTTAAAGGACTAAAATAATAAAAA
1 GAAAAATAGAAACTTAAGGGACTAAATAACAAATACAGA-ATTTAAAGGACTAAAATAACAAAAA
2709668 TAGAAACTCAAAGGGATAAAACAA
65 TAGAAACTCAAAGGGATAAAACAA
* * * * * * *
2709692 CAATAACAAAAAGTTAAGGGACTAAAATAA-AAATAATAGAAACTTAAAGGACTAAA
1 GAAAAATAGAAACTTAAGGGACT-AAATAACAAAT-ACAG-AATTTAAAGGACTAAA
2709748 CTGAAAAAAG
Statistics
Matches: 120, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
86 2 0.02
87 4 0.03
88 20 0.17
89 67 0.56
90 26 0.22
91 1 0.01
ACGTcount: A:0.58, C:0.10, G:0.14, T:0.18
Consensus pattern (88 bp):
GAAAAATAGAAACTTAAGGGACTAAATAACAAATACAGAATTTAAAGGACTAAAATAACAAAAAT
AGAAACTCAAAGGGATAAAACAA
Found at i:2709717 original size:60 final size:59
Alignment explanation
Indices: 2709586--2709771 Score: 188
Period size: 60 Copynumber: 3.1 Consensus size: 59
2709576 AAATAGACAT
* * * * *
2709586 TTAAAGGACTAAAAT-ATGAAAAATAGAAACTTAAGGGACTAAATAACAAATACAGACAT
1 TTAAAGGACTAAAATAAT-AAAAATAGAAACTAAAGGGACTAAACAACAAATACAAAAAG
2709645 TTAAAGGACTAAAATAATAAAAATAGAAACTCAAAGGGA-TAAAACAAC-AATAACAAAAAG
1 TTAAAGGACTAAAATAATAAAAATAGAAACT-AAAGGGACT-AAACAACAAAT-ACAAAAAG
*
2709705 TTAAGGGACTAAAATAA-AAATAATAGAAACTTAAA-GGACTAAACTGAA-AAA-AGCAAAAAG
1 TTAAAGGACTAAAATAATAAA-AATAGAAAC-TAAAGGGACTAAAC--AACAAATA-CAAAAAG
2709765 TTAAAGG
1 TTAAAGG
2709772 GTTGAACTAC
Statistics
Matches: 109, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
59 43 0.39
60 61 0.56
61 5 0.05
ACGTcount: A:0.59, C:0.09, G:0.14, T:0.18
Consensus pattern (59 bp):
TTAAAGGACTAAAATAATAAAAATAGAAACTAAAGGGACTAAACAACAAATACAAAAAG
Found at i:2709769 original size:30 final size:30
Alignment explanation
Indices: 2709586--2709771 Score: 105
Period size: 30 Copynumber: 6.2 Consensus size: 30
2709576 AAATAGACAT
* * * *
2709586 TTAAAGGACTAAAATATGAAA-AATAGAAAC
1 TTAAAGGACTAAAATA-AAAATAACAAAAAG
* * * *
2709616 TTAAGGGACT-AAATAACAAAT-ACAGACAT
1 TTAAAGGACTAAAATAA-AAATAACAAAAAG
* * *
2709645 TTAAAGGACTAAAATAATAAA-AATAGAAAC
1 TTAAAGGACTAAAATAA-AAATAACAAAAAG
* * *
2709675 TCAAAGGGA-TAAAACAACAATAACAAAAAG
1 TTAAA-GGACTAAAATAAAAATAACAAAAAG
* * * *
2709705 TTAAGGGACTAAAATAAAAATAATAGAAAC
1 TTAAAGGACTAAAATAAAAATAACAAAAAG
* *
2709735 TTAAAGGACTAAACTGAAAAA-AGCAAAAAG
1 TTAAAGGACTAAAAT-AAAAATAACAAAAAG
2709765 TTAAAGG
1 TTAAAGG
2709772 GTTGAACTAC
Statistics
Matches: 119, Mismatches: 29, Indels: 16
0.73 0.18 0.10
Matches are distributed among these distances:
29 27 0.23
30 84 0.71
31 8 0.07
ACGTcount: A:0.59, C:0.09, G:0.14, T:0.18
Consensus pattern (30 bp):
TTAAAGGACTAAAATAAAAATAACAAAAAG
Found at i:2717850 original size:63 final size:62
Alignment explanation
Indices: 2717735--2717896 Score: 245
Period size: 63 Copynumber: 2.6 Consensus size: 62
2717725 ATTGAGAACC
* *
2717735 GCCCTTGTTTGAAATATCTGCACATTCTCTTTAGGGTACGGAATTAGTGGCCACTTGCCAAT
1 GCCCTTGTTTGAAATATCTGCACATTGTCTTTAGGGTACGGAATCAGTGGCCACTTGCCAAT
* ** *
2717797 GCCCGTT-TTTGAAATATCCGCACATTTGTCTTTAGGGTGTGTAATCAGTGGCCACTTGCCAAT
1 GCCC-TTGTTTGAAATATCTGCACA-TTGTCTTTAGGGTACGGAATCAGTGGCCACTTGCCAAT
2717860 GCCCTTGTTTGAAATATCTGCACATTGTCTTTAGGGT
1 GCCCTTGTTTGAAATATCTGCACATTGTCTTTAGGGT
2717897 CTAGGGTACA
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
62 35 0.39
63 55 0.61
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (62 bp):
GCCCTTGTTTGAAATATCTGCACATTGTCTTTAGGGTACGGAATCAGTGGCCACTTGCCAAT
Found at i:2722459 original size:25 final size:25
Alignment explanation
Indices: 2722425--2722483 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
2722415 ACAGGTACAA
2722425 AAACACGAGCCAAAGTGTTTAGTAG
1 AAACACGAGCCAAAGTGTTTAGTAG
2722450 AAACACGAGCCAAAGTGTTTAGTAG
1 AAACACGAGCCAAAGTGTTTAGTAG
*
2722475 TAACACGAG
1 AAACACGAG
2722484 GAAAGAACCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.19
Consensus pattern (25 bp):
AAACACGAGCCAAAGTGTTTAGTAG
Found at i:2723199 original size:23 final size:23
Alignment explanation
Indices: 2723173--2723220 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
2723163 ATAAAGTACA
*
2723173 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
*
2723196 ATAATATAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2723219 AT
1 AT
2723221 TTACGTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2723860 original size:328 final size:331
Alignment explanation
Indices: 2723258--2723919 Score: 1190
Period size: 328 Copynumber: 2.0 Consensus size: 331
2723248 ATTTACCGAT
*
2723258 AGCATTGCAAATTTACCTATTACATTATATTATATAAAGTGTCCATACTTTTTATAAAAAGGATC
1 AGCATTGCAAATTTACCTATTACATTATATTATATAAAGTGTCCATACTTTTAATAAAAAGGATC
* *
2723323 GATATTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTTCA
66 GATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCA
*
2723388 CCTACAATATTAATTTAATAATTTCATTTGTACAAAAAATTATTTGATTGTTTTGATATTTTATA
130 CCTACAATATTAATTT-ATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
*
2723453 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAG
194 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGAAAAAAATAAATCATTAG
*
2723518 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
259 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAGATAACCTTAAATTAATGTTTT
*
2723583 CCATAGTG
324 CCACAGTG
2723591 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTAATAAAAAGGA
1 AGCATTGCAAATTTACCTATTACATTATATTATA-T-AAAGTGTCCATACTTTTAATAAAAAGGA
2723656 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTAATAGTGTTTCATGTTTTCC
64 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
2723720 ACCTACAATATTAA-TT-TAATTTCATTTGCACAAAAAA-TATTTGATTGTTTTGATATTTTAT-
129 ACCTACAATATTAATTTATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
2723781 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGAAAAAAATAAATCATTAG
194 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGAAAAAAATAAATCATTAG
2723846 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAGATAACCTTAAATTAATGTTTT
259 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAGATAACCTTAAATTAATGTTTT
2723911 CCACAGTG
324 CCACAGTG
2723919 A
1 A
2723920 AAAAAGTGTG
Statistics
Matches: 320, Mismatches: 7, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
328 136 0.43
329 24 0.08
330 20 0.06
332 2 0.01
333 73 0.23
334 1 0.00
335 64 0.20
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (331 bp):
AGCATTGCAAATTTACCTATTACATTATATTATATAAAGTGTCCATACTTTTAATAAAAAGGATC
GATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCAC
CTACAATATTAATTTATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAA
ATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGAAAAAAATAAATCATTAGAC
GCCTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAGATAACCTTAAATTAATGTTTTCC
ACAGTG
Found at i:2724024 original size:23 final size:23
Alignment explanation
Indices: 2723962--2724026 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
2723952 ACACTTTACA
*
2723962 ATATAACCACTACCTATTACATT
1 ATATAAACACTACCTATTACATT
*
2723985 ATATAAACGA-TATCTATTACATT
1 ATATAAAC-ACTACCTATTACATT
* *
2724008 ATATAAGCTCTACCTATTA
1 ATATAAACACTACCTATTA
2724027 TATCATATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.37
Consensus pattern (23 bp):
ATATAAACACTACCTATTACATT
Found at i:2724486 original size:39 final size:39
Alignment explanation
Indices: 2724432--2724518 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
2724422 TCAAGTTGTA
*
2724432 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
2724471 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
2724510 GATTTTGAT
1 GATTTTGAT
2724519 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:2724796 original size:18 final size:18
Alignment explanation
Indices: 2724773--2724809 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2724763 GCCGAAATAT
2724773 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
2724791 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
2724809 A
1 A
2724810 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:2725232 original size:25 final size:25
Alignment explanation
Indices: 2725198--2725248 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
2725188 TTTTTCCAAA
*
2725198 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
2725223 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
2725248 T
1 T
2725249 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:2725459 original size:21 final size:22
Alignment explanation
Indices: 2725434--2725485 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
2725424 ACACTTTACA
*
2725434 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
2725457 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
2725480 ATATAA
1 ATATAA
2725486 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:2725470 original size:23 final size:23
Alignment explanation
Indices: 2725444--2725506 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2725434 ATATAACCAC
2725444 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
2725467 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
2725490 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2725507 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2727924 original size:20 final size:20
Alignment explanation
Indices: 2727898--2727943 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
2727888 CACTTTTAAA
2727898 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
2727917 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
2727938 TTTACC
1 TTTACC
2727944 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:2729409 original size:18 final size:17
Alignment explanation
Indices: 2729375--2729453 Score: 70
Period size: 18 Copynumber: 4.4 Consensus size: 17
2729365 TTACTTTTGA
*
2729375 AATTTAGTTTTTATATT
1 AATTTAATTTTTATATT
*
2729392 AATTATAATTTGTATATTATA
1 AATT-TAATTT-T-TA-TATT
*
2729413 AATTTGATTTTTATATT
1 AATTTAATTTTTATATT
2729430 AATTTCAATTCTTTATATT
1 AATTT-AATT-TTTATATT
2729449 -ATTTA
1 AATTTA
2729454 TAATTCTTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
17 13 0.25
18 14 0.27
19 10 0.20
20 7 0.14
21 7 0.14
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (17 bp):
AATTTAATTTTTATATT
Found at i:2729416 original size:38 final size:39
Alignment explanation
Indices: 2729374--2729450 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 39
2729364 ATTACTTTTG
2729374 AAATTT-AGTTTTTATATTAATTAT-AATT-TGTATATTAT
1 AAATTTGA-TTTTTATATTAATT-TCAATTCTGTATATTAT
*
2729412 AAATTTGATTTTTATATTAATTTCAATTCTTTATATTAT
1 AAATTTGATTTTTATATTAATTTCAATTCTGTATATTAT
2729451 TTATAATTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
37 1 0.03
38 24 0.69
39 10 0.29
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (39 bp):
AAATTTGATTTTTATATTAATTTCAATTCTGTATATTAT
Found at i:2729749 original size:21 final size:21
Alignment explanation
Indices: 2729716--2729757 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2729706 AGTTAATTTT
2729716 ATTACAATTAAAAAC-ACTAAA
1 ATTACAA-TAAAAACAACTAAA
*
2729737 ATTATAATAAAAACAACTAAA
1 ATTACAATAAAAACAACTAAA
2729758 CAAAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (21 bp):
ATTACAATAAAAACAACTAAA
Found at i:2730087 original size:23 final size:23
Alignment explanation
Indices: 2730061--2730113 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
2730051 ATAATTTACA
2730061 AAGCATCAATGCATCAATTCAAC
1 AAGCATCAATGCATCAATTCAAC
* *
2730084 AAGCATCATTGCATCAATTCAGC
1 AAGCATCAATGCATCAATTCAAC
2730107 AAGCATC
1 AAGCATC
2730114 CTGCATTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (23 bp):
AAGCATCAATGCATCAATTCAAC
Found at i:2732583 original size:6 final size:6
Alignment explanation
Indices: 2732526--2732608 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
2732516 TATAAAATTT
* *
2732526 ATATTA ATA-AA ATATTT ATAATTA ATATTAAA ATAATTA TATATT- ATAATTA
1 ATATTA ATATTA ATATTA AT-ATTA ATATT--A AT-ATTA -ATATTA AT-ATTA
*
2732578 ATATTA ATATTA A-CTT- ATATTA ATA-TA ATAT
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATAT
2732609 AGTTTATAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 22
0.68 0.07 0.25
Matches are distributed among these distances:
4 1 0.02
5 15 0.25
6 25 0.42
7 11 0.18
8 5 0.08
9 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (6 bp):
ATATTA
Found at i:2732596 original size:28 final size:28
Alignment explanation
Indices: 2732537--2732599 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
2732527 TATTAATAAA
*
2732537 ATAT-TTATAATTAATATTAAAATAATT
1 ATATATTATAATTAATATTAAAATAACT
*
2732564 ATATATTATAATTAATATTAATATTAACT
1 ATATATTATAATTAATATTAA-AATAACT
2732593 -TATATTA
1 ATATATTA
2732600 ATATAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 4 0.12
28 23 0.72
29 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
ATATATTATAATTAATATTAAAATAACT
Found at i:2732599 original size:16 final size:16
Alignment explanation
Indices: 2732541--2732603 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
2732531 AATAAAATAT
2732541 TTATAATTAATATTAAA
1 TTAT-ATTAATATTAAA
*
2732558 ATA-ATTATATATTATAA
1 TTATATTA-ATATTA-AA
*
2732575 TTAATATTAATATTAAC
1 TT-ATATTAATATTAAA
2732592 TTATATTAATAT
1 TTATATTAATAT
2732604 AATATAGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.10
16 16 0.41
17 8 0.21
18 7 0.18
19 4 0.10
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATATTAATATTAAA
Found at i:2732661 original size:31 final size:30
Alignment explanation
Indices: 2732623--2732807 Score: 135
Period size: 31 Copynumber: 5.8 Consensus size: 30
2732613 TATAATTTGT
2732623 AATTAATATTAATATAAAATATAGTCTATAA
1 AATTAATATTAATATAAAATATAGT-TATAA
*
2732654 AATTAATATTAATATAAACTATATGTTAT-A
1 AATTAATATTAATATAAAATATA-GTTATAA
* * *
2732684 AATTATATAGTATAGTTTATAAATTATAGTTAATAT
1 AATTA-ATA-T-TA--ATATAAAATATAGTT-ATAA
2732720 AATTAATATTAATAT--AATATAGTTTATAA
1 AATTAATATTAATATAAAATATAG-TTATAA
* *
2732749 ACTATATACTATATTAATATAAATTATAATTA-AGA
1 A--AT-TA--ATATTAATATAAAATATAGTTATA-A
*
2732784 TAATTAACATTAATATAAAATATA
1 -AATTAATATTAATATAAAATATA
2732808 TAGTAAATTA
Statistics
Matches: 125, Mismatches: 11, Indels: 36
0.73 0.06 0.21
Matches are distributed among these distances:
29 10 0.08
30 8 0.06
31 49 0.39
32 5 0.04
33 6 0.05
34 17 0.14
35 19 0.15
36 11 0.09
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (30 bp):
AATTAATATTAATATAAAATATAGTTATAA
Found at i:2732675 original size:24 final size:25
Alignment explanation
Indices: 2732630--2732676 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
2732620 TGTAATTAAT
**
2732630 ATTAATATAAAATATAGTCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
2732655 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
2732677 TGTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:2732703 original size:14 final size:14
Alignment explanation
Indices: 2732686--2732747 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
2732676 ATGTTATAAA
*
2732686 TTATATAGTATAGT
1 TTATATATTATAGT
*
2732700 TTATAAATTATAGT
1 TTATATATTATAGT
*
2732714 TAATATAATTAATA-T
1 TTATAT-ATT-ATAGT
* *
2732729 TAATATAATATAGT
1 TTATATATTATAGT
2732743 TTATA
1 TTATA
2732748 AACTATATAC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 3 0.08
14 23 0.59
15 10 0.26
16 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (14 bp):
TTATATATTATAGT
Found at i:2732713 original size:66 final size:63
Alignment explanation
Indices: 2732635--2732843 Score: 192
Period size: 65 Copynumber: 3.2 Consensus size: 63
2732625 TTAATATTAA
* *
2732635 TATAAAATATAGTCTATAAAATTAATATTAATATAAACTATATGTTATAAATTATATAGTATAGT
1 TATAAATTATAGT-TATAAAATTAATATTAATATAAA-TATATGTTATAAA-TATATAATATAGT
2732700 T
63 T
* *
2732701 TATAAATTATAGTTAATATAATTAATATTAATAT-AATATA-GTTTATAAACTATATACTATA-T
1 TATAAATTATAGTT-ATAAAATTAATATTAATATAAATATATG-TTATAAA-TATATAATATAGT
2732763 T
63 T
* * * * *
2732764 AATATAAATTATAATTA-AGATAATTAACATTAATATAAAATATATAGTAAATTAATATAAAATA
1 --TATAAATTATAGTTATA-A-AATTAATATTAATAT-AAATATAT-GT-TATAAATATATAATA
2732828 TAGTT
59 TAGTT
2732833 TATAAATTATA
1 TATAAATTATA
2732844 AACTATAGGT
Statistics
Matches: 120, Mismatches: 11, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
63 4 0.03
64 22 0.18
65 30 0.25
66 30 0.25
67 17 0.14
68 10 0.08
69 7 0.06
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (63 bp):
TATAAATTATAGTTATAAAATTAATATTAATATAAATATATGTTATAAATATATAATATAGTT
Found at i:2732731 original size:15 final size:15
Alignment explanation
Indices: 2732713--2732821 Score: 57
Period size: 15 Copynumber: 7.1 Consensus size: 15
2732703 TAAATTATAG
2732713 TTAATATAATTAATA
1 TTAATATAATTAATA
*
2732728 TTAATATAATATAGTTTA
1 TTAATATAAT-TA--ATA
* *
2732746 TAAACTATATACT-ATA
1 TTAA-TATA-ATTAATA
2732762 TTAATATAAATT-ATAA
1 TTAATAT-AATTAAT-A
* *
2732778 TTAAGATAATTAACA
1 TTAATATAATTAATA
2732793 TTAATATAA--AATA
1 TTAATATAATTAATA
*
2732806 TATAGTA-AATTAATA
1 T-TAATATAATTAATA
2732821 T
1 T
2732822 AAAATATAGT
Statistics
Matches: 72, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
13 6 0.08
14 4 0.06
15 35 0.49
16 16 0.22
18 5 0.07
19 5 0.07
20 1 0.01
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:2732761 original size:21 final size:21
Alignment explanation
Indices: 2732666--2732908 Score: 88
Period size: 21 Copynumber: 11.2 Consensus size: 21
2732656 TTAATATTAA
*
2732666 TATAAACTATA-TGTTATAAAT
1 TATATACTATAGT-TTATAAAT
*
2732687 TATATAGTATAGTTTATAAAT
1 TATATACTATAGTTTATAAAT
* * *
2732708 TATAGTTAATATA-ATTA-ATAT
1 TATA--TACTATAGTTTATAAAT
* *
2732729 TAATATAATATAGTTTATAAAC
1 T-ATATACTATAGTTTATAAAT
2732751 TATATACTATA-TTAATATAAAT
1 TATATACTATAGTT--TATAAAT
* * *
2732773 TATA-ATTA-AGATAATTAACAT
1 TATATACTATAGTTTA-TAA-AT
** *
2732794 TAATATAAAATA-TATAGTAAAT
1 T-ATATACTATAGTTTA-TAAAT
*
2732816 TAATATAAAATATAGTTTATAAAT
1 T-ATAT--ACTATAGTTTATAAAT
* * *
2732840 TATAAACTATAGGTTATAAAG
1 TATATACTATAGTTTATAAAT
* ** *
2732861 TATAAACTATATAGTACATTAA-
1 TATATAC--TATAGTTTATAAAT
* *
2732883 TATAAACTATTGTTTATAAAT
1 TATATACTATAGTTTATAAAT
2732904 TATAT
1 TATAT
2732909 GTTACATATA
Statistics
Matches: 168, Mismatches: 34, Indels: 40
0.69 0.14 0.17
Matches are distributed among these distances:
19 1 0.01
20 22 0.13
21 68 0.40
22 38 0.23
23 24 0.14
24 12 0.07
25 3 0.02
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
TATATACTATAGTTTATAAAT
Found at i:2732763 original size:131 final size:132
Alignment explanation
Indices: 2732569--2732843 Score: 321
Period size: 131 Copynumber: 2.1 Consensus size: 132
2732559 TAATTATATA
* ** * *
2732569 TTAT-AATTAATATTAATATTAACTTATATTAATATAATATAGTTTATAATTTGTAATTAATATT
1 TTATAAATT-ATATTAATATTAACTAATATTAATATAATATAGTTTATAAACTATAACTAATATT
* * * * * *
2732633 AATATAAAATATAGTCTATA-A-AATTAATATTAATATAAACTATAT-GT-TATAAATTATATAG
65 AATATAAAATATAAT-TA-AGATAATTAACATTAATATAAAATATATAGTAAATAAA-TATAAAA
2732694 TATAGT
127 TATAGT
*
2732700 TTATAAATTATAGTTAATA-TAATTAATATTAATATAATATAGTTTATAAACTATATACT-ATAT
1 TTATAAATTATA-TTAATATTAACTAATATTAATATAATATAGTTTATAAACTATA-ACTAATAT
* *
2732763 TAATATAAATTATAATTAAGATAATTAACATTAATATAAAATATATAGTAAATTAATATAAAATA
64 TAATATAAAATATAATTAAGATAATTAACATTAATATAAAATATATAGTAAATAAATATAAAATA
2732828 TAGT
129 TAGT
2732832 TTATAAATTATA
1 TTATAAATTATA
2732844 AACTATAGGT
Statistics
Matches: 123, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
129 1 0.01
130 3 0.02
131 78 0.63
132 37 0.30
133 4 0.03
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (132 bp):
TTATAAATTATATTAATATTAACTAATATTAATATAATATAGTTTATAAACTATAACTAATATTA
ATATAAAATATAATTAAGATAATTAACATTAATATAAAATATATAGTAAATAAATATAAAATATA
GT
Found at i:2732788 original size:65 final size:64
Alignment explanation
Indices: 2732594--2732801 Score: 228
Period size: 65 Copynumber: 3.2 Consensus size: 64
2732584 ATATTAACTT
* * * *
2732594 ATATTAATATAATATAGTTTATAATTTGTA-ATTAATATTAATATAAAATATAGTCTATAA-AAT
1 ATATTAATATAATATAGTTTATAAATTATATACT-ATATTAATATAAATTATAGT-TA-AATAAT
2732657 TA
63 TA
*
2732659 ATATTAATATAAACTATA-TGTTATAAATTATATAGTATAGTT--TATAAATTATAGTTAATATA
1 ATATTAATAT-AA-TATAGT-TTATAAATTATATACTATA-TTAATATAAATTATAGTTAA-ATA
2732721 ATTA
61 ATTA
* *
2732725 ATATTAATATAATATAGTTTATAAACTATATACTATATTAATATAAATTATAATTAAGATAATTA
1 ATATTAATATAATATAGTTTATAAATTATATACTATATTAATATAAATTATAGTTAA-ATAATTA
*
2732790 ACATTAATATAA
1 ATATTAATATAA
2732802 AATATATAGT
Statistics
Matches: 124, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
63 2 0.02
64 22 0.18
65 49 0.40
66 30 0.24
67 17 0.14
68 4 0.03
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (64 bp):
ATATTAATATAATATAGTTTATAAATTATATACTATATTAATATAAATTATAGTTAAATAATTA
Found at i:2732887 original size:22 final size:22
Alignment explanation
Indices: 2732790--2732892 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
2732780 AAGATAATTA
*
2732790 ACATTAATATAAAATATATAGT
1 ACATTAATATAAACTATATAGT
*
2732812 AAATTAATATAAA--ATATAGT
1 ACATTAATATAAACTATATAGT
** * *
2732832 TTATAAATTATAAACTATA-GGT
1 ACATTAA-TATAAACTATATAGT
* *
2732854 -TATAAAGTATAAACTATATAGT
1 ACATTAA-TATAAACTATATAGT
2732876 ACATTAATATAAACTAT
1 ACATTAATATAAACTAT
2732893 TGTTTATAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
20 11 0.16
21 23 0.34
22 26 0.39
23 7 0.10
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (22 bp):
ACATTAATATAAACTATATAGT
Found at i:2732972 original size:22 final size:21
Alignment explanation
Indices: 2732914--2733016 Score: 104
Period size: 22 Copynumber: 4.9 Consensus size: 21
2732904 TATATGTTAC
*
2732914 ATATATAGTTTATATA-ACAT
1 ATATATAGGTTATATATACAT
* *
2732934 ATAAATAGATTGCATATATACAT
1 ATATATAGGTT--ATATATACAT
*
2732957 ATACTATAGGCTATATAT--AT
1 ATA-TATAGGTTATATATACAT
*
2732977 ATATATAGTTTATATATACAT
1 ATATATAGGTTATATATACAT
2732998 ATAATATAGGTTATATATA
1 AT-ATATAGGTTATATATA
2733017 TAGTTTATGA
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
19 12 0.18
20 14 0.21
21 4 0.06
22 26 0.38
23 7 0.10
24 5 0.07
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (21 bp):
ATATATAGGTTATATATACAT
Found at i:2732977 original size:41 final size:41
Alignment explanation
Indices: 2732932--2733018 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
2732922 TTTATATAAC
* *
2732932 ATATAAATAGATTGCATATATACATATACTATAGGCTATATAT
1 ATATATATAG-TT-CATATATACATATAATATAGGCTATATAT
* *
2732975 ATATATATAGTTTATATATACATATAATATAGGTTATATAT
1 ATATATATAGTTCATATATACATATAATATAGGCTATATAT
2733016 ATA
1 ATA
2733019 GTTTATGAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 29 0.73
42 2 0.05
43 9 0.22
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (41 bp):
ATATATATAGTTCATATATACATATAATATAGGCTATATAT
Found at i:2732990 original size:13 final size:13
Alignment explanation
Indices: 2732974--2733024 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
2732964 AGGCTATATA
2732974 TATATATATAGTT
1 TATATATATAGTT
*
2732987 TATATATACA---
1 TATATATATAGTT
*
2732997 TATA-ATATAGGT
1 TATATATATAGTT
2733009 TATATATATAGTT
1 TATATATATAGTT
2733022 TAT
1 TAT
2733025 GAGTTTAGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
9 4 0.13
10 4 0.13
12 4 0.13
13 19 0.61
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (13 bp):
TATATATATAGTT
Found at i:2733125 original size:18 final size:19
Alignment explanation
Indices: 2733076--2733125 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
2733066 AGGGATTATG
*
2733076 GTTAGGGTTAGAGTTTAGGA
1 GTTAGGGTT-TAGTTTAGGA
*
2733096 TTTA-GGTGTTAG-TTAGGA
1 GTTAGGGT-TTAGTTTAGGA
2733114 GTTAGGGTTTAG
1 GTTAGGGTTTAG
2733126 GATTTTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
18 13 0.52
19 8 0.32
20 4 0.16
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.40
Consensus pattern (19 bp):
GTTAGGGTTTAGTTTAGGA
Found at i:2733196 original size:2 final size:2
Alignment explanation
Indices: 2733189--2733315 Score: 167
Period size: 2 Copynumber: 65.5 Consensus size: 2
2733179 TTCTATAAAT
2733189 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
2733231 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TC TA TA GA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2733271 TA CT- TA TA T- TA GT- TA TA TA TA CA 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 TA TA TA TA
2733311 TA TA T
1 TA TA T
2733316 TAATATAAAT
Statistics
Matches: 112, Mismatches: 5, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
1 6 0.05
2 104 0.93
3 2 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2733370 original size:13 final size:13
Alignment explanation
Indices: 2733356--2733404 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
2733346 TTTTATATAG
*
2733356 TTTATATACATAG
1 TTTATATACATAA
*
2733369 TTTATATATATAA
1 TTTATATACATAA
*
2733382 TTCATATAAACATAA
1 TT--TATATACATAA
2733397 TTTATATA
1 TTTATATA
2733405 TGAGAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
13 18 0.62
15 11 0.38
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (13 bp):
TTTATATACATAA
Found at i:2733378 original size:15 final size:15
Alignment explanation
Indices: 2733358--2733405 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
2733348 TTATATAGTT
*
2733358 TATATACATAGTTTA
1 TATATACATAATTTA
*
2733373 TATAT--ATAATTCA
1 TATATACATAATTTA
*
2733386 TATAAACATAATTTA
1 TATATACATAATTTA
2733401 TATAT
1 TATAT
2733406 GAGAAAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 10 0.38
15 16 0.62
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (15 bp):
TATATACATAATTTA
Found at i:2733598 original size:20 final size:19
Alignment explanation
Indices: 2733551--2733599 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 19
2733541 GCGAATCTGT
2733551 AAATCGCAACACAGAAGTC
1 AAATCGCAACACAGAAGTC
*
2733570 AAATCGCAACACATAAGTC
1 AAATCGCAACACAGAAGTC
2733589 AAATTCGCAAC
1 AAA-TCGCAAC
2733600 GCGAAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.47, C:0.27, G:0.12, T:0.14
Consensus pattern (19 bp):
AAATCGCAACACAGAAGTC
Found at i:2733736 original size:22 final size:22
Alignment explanation
Indices: 2733711--2733796 Score: 145
Period size: 22 Copynumber: 3.9 Consensus size: 22
2733701 CTCTCTACGG
2733711 CGACATCCATCCCCATCTCCGA
1 CGACATCCATCCCCATCTCCGA
2733733 CGACATCCATCCCCATCTCCGA
1 CGACATCCATCCCCATCTCCGA
* *
2733755 CAACATCCATCCCCATCTCCGT
1 CGACATCCATCCCCATCTCCGA
*
2733777 CGAAATCCATCCCCATCTCC
1 CGACATCCATCCCCATCTCC
2733797 AGCAAAATCC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 60 1.00
ACGTcount: A:0.23, C:0.50, G:0.07, T:0.20
Consensus pattern (22 bp):
CGACATCCATCCCCATCTCCGA
Found at i:2733804 original size:22 final size:22
Alignment explanation
Indices: 2733715--2733806 Score: 123
Period size: 22 Copynumber: 4.2 Consensus size: 22
2733705 CTACGGCGAC
* *
2733715 ATCCATCCCCATCTCCGACGAC
1 ATCCATCCCCATCTCCGACAAA
*
2733737 ATCCATCCCCATCTCCGACAAC
1 ATCCATCCCCATCTCCGACAAA
* *
2733759 ATCCATCCCCATCTCCGTCGAA
1 ATCCATCCCCATCTCCGACAAA
2733781 ATCCATCCCCATCTCC-AGCAAA
1 ATCCATCCCCATCTCCGA-CAAA
2733803 ATCC
1 ATCC
2733807 GTCTATCTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 63 1.00
ACGTcount: A:0.26, C:0.48, G:0.07, T:0.20
Consensus pattern (22 bp):
ATCCATCCCCATCTCCGACAAA
Found at i:2734506 original size:15 final size:15
Alignment explanation
Indices: 2734488--2734516 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2734478 GACCACTACA
2734488 TCCCGAAGGACTATG
1 TCCCGAAGGACTATG
2734503 TCCCGAAGGACTAT
1 TCCCGAAGGACTAT
2734517 TATACCCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (15 bp):
TCCCGAAGGACTATG
Found at i:2734644 original size:26 final size:26
Alignment explanation
Indices: 2734598--2734667 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
2734588 TTCCATATGT
*
2734598 TCATGTA-CTCATGTCATTTCTTGTGC
1 TCATGTAGCTCATGTCA-TTCTTGTGA
2734624 TCATGTAGCTCATGTCATTCTTGTGA
1 TCATGTAGCTCATGTCATTCTTGTGA
2734650 TCATGTAGCTCATGTCAT
1 TCATGTAGCTCATGTCAT
2734668 GTTCTCATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
26 33 0.79
27 9 0.21
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (26 bp):
TCATGTAGCTCATGTCATTCTTGTGA
Found at i:2739209 original size:41 final size:43
Alignment explanation
Indices: 2739164--2739247 Score: 154
Period size: 41 Copynumber: 2.0 Consensus size: 43
2739154 GACACCCTCG
2739164 GCTCACCAAATTTATCCGGGCACTGTGCCCT-AT-GGTTCGTC
1 GCTCACCAAATTTATCCGGGCACTGTGCCCTAATGGGTTCGTC
2739205 GCTCACCAAATTTATCCGGGCACTGTGCCCTAATGGGTTCGTC
1 GCTCACCAAATTTATCCGGGCACTGTGCCCTAATGGGTTCGTC
2739248 ACTATCACCT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 31 0.76
42 2 0.05
43 8 0.20
ACGTcount: A:0.18, C:0.31, G:0.23, T:0.29
Consensus pattern (43 bp):
GCTCACCAAATTTATCCGGGCACTGTGCCCTAATGGGTTCGTC
Found at i:2741233 original size:15 final size:15
Alignment explanation
Indices: 2741213--2741246 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2741203 CCGTAGGACC
2741213 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
2741228 ACTACATCCCGAATG
1 ACTACATCCCGAAGG
2741243 ACTA
1 ACTA
2741247 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.32, G:0.15, T:0.18
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:2741373 original size:29 final size:29
Alignment explanation
Indices: 2741331--2741440 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
2741321 TTCCATATGT
2741331 TCATGTA-CTCATGTCATTTCTCTTGTGC
1 TCATGTAGCTCATGTCATTTCTCTTGTGC
2741359 TCATGTAGCTCATGTCATTTCTCTTGTGC
1 TCATGTAGCTCATGTCATTTCTCTTGTGC
*
2741388 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGC
2741417 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
2741441 ATATCACATA
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
28 7 0.09
29 67 0.85
30 5 0.06
ACGTcount: A:0.15, C:0.24, G:0.16, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGC
Found at i:2741865 original size:19 final size:19
Alignment explanation
Indices: 2741816--2741859 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
2741806 AATGAAGGTA
* *
2741816 TGCATCGATACATTACTTG
1 TGCATCGATGCACTACTTG
2741835 TGCATCGATGCACTACTTG
1 TGCATCGATGCACTACTTG
2741854 TGCATC
1 TGCATC
2741860 AGTGCATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (19 bp):
TGCATCGATGCACTACTTG
Found at i:2741986 original size:64 final size:63
Alignment explanation
Indices: 2741834--2741988 Score: 165
Period size: 64 Copynumber: 2.4 Consensus size: 63
2741824 TACATTACTT
* * *
2741834 GTGCATCGATGCACTACTTGTGCATCAGTGCATAAAATGCATTCGATGTTTTATTATTAATGG
1 GTGCATCGATGCACTACCTGTGCATCAGTGCATAAAATGCATTCGATGTTTTATTATTAAAGA
* * * *
2741897 GATGCATCGATGCA-TGCCTTATGCATC-GATGCACT-AATTGCATTCGATCTTTTTATT-TTAA
1 G-TGCATCGATGCACTACC-TGTGCATCAG-TGCA-TAAAATGCATTCGAT-GTTTTATTATT-A
2741958 AAGA
60 AAGA
2741962 GTGCATCGATGCACTACCTGTGCATCA
1 GTGCATCGATGCACTACCTGTGCATCA
2741989 ATACACCTTC
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
63 4 0.05
64 56 0.75
65 15 0.20
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (63 bp):
GTGCATCGATGCACTACCTGTGCATCAGTGCATAAAATGCATTCGATGTTTTATTATTAAAGA
Found at i:2743188 original size:20 final size:20
Alignment explanation
Indices: 2743163--2743229 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
2743153 GTGATTTTAG
2743163 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
*
2743183 TTTCGCTTTGCGATTTTC--
1 TTTCGCGTTGCGATTTTCAT
2743201 --T--CGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
2743217 TTTCGCGTTGCGA
1 TTTCGCGTTGCGA
2743230 ATTTAAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
14 12 0.31
16 1 0.03
18 1 0.03
20 25 0.64
ACGTcount: A:0.09, C:0.21, G:0.21, T:0.49
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:2743198 original size:14 final size:14
Alignment explanation
Indices: 2743181--2743214 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2743171 TGCGATTTTC
*
2743181 ATTTTCGCTTTGCG
1 ATTTTCGCGTTGCG
*
2743195 ATTTTCTCGTTGCG
1 ATTTTCGCGTTGCG
2743209 ATTTTC
1 ATTTTC
2743215 ATTTTCGCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.09, C:0.21, G:0.18, T:0.53
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:2743211 original size:34 final size:34
Alignment explanation
Indices: 2743163--2743229 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
2743153 GTGATTTTAG
*
2743163 TTTCGCGTTGCGATTTTCATTTTCGCTTTGCGAT
1 TTTCGCGTTGCGATTTTCATTTTCGCGTTGCGAT
*
2743197 TTTCTCGTTGCGATTTTCATTTTCGCGTTGCGA
1 TTTCGCGTTGCGATTTTCATTTTCGCGTTGCGA
2743230 ATTTAAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.09, C:0.21, G:0.21, T:0.49
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTTCATTTTCGCGTTGCGAT
Found at i:2743743 original size:25 final size:25
Alignment explanation
Indices: 2743709--2743758 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2743699 AATTATTTTC
*
2743709 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
2743734 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
2743759 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:2743897 original size:34 final size:34
Alignment explanation
Indices: 2743847--2743932 Score: 136
Period size: 34 Copynumber: 2.5 Consensus size: 34
2743837 CGCGAAAGGT
**
2743847 AAATTCGCAATACGAAAGAAGCGTTGCGATAGTC
1 AAATTCGCAACGCGAAAGAAGCGTTGCGATAGTC
* *
2743881 AAATTTGCAACGCGAAATAAGCGTTGCGATAGTC
1 AAATTCGCAACGCGAAAGAAGCGTTGCGATAGTC
2743915 AAATTCGCAACGCGAAAG
1 AAATTCGCAACGCGAAAG
2743933 TCAAATTCGC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (34 bp):
AAATTCGCAACGCGAAAGAAGCGTTGCGATAGTC
Found at i:2743949 original size:20 final size:20
Alignment explanation
Indices: 2743901--2743949 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
2743891 CGCGAAATAA
*
2743901 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGAAAGTCAAATTC
***
2743921 GCAACGCGAAAGTCAAATTC
1 GCGTTGCGAAAGTCAAATTC
2743941 GCGTTGCGA
1 GCGTTGCGA
2743950 TTTTCGATTT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (20 bp):
GCGTTGCGAAAGTCAAATTC
Found at i:2746640 original size:12 final size:12
Alignment explanation
Indices: 2746619--2746652 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2746609 GGTTGTGAGT
*
2746619 TTTGAGATTGTG
1 TTTGATATTGTG
2746631 TTTGATATTGTG
1 TTTGATATTGTG
*
2746643 TTTGGTATTG
1 TTTGATATTG
2746653 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:2747286 original size:16 final size:16
Alignment explanation
Indices: 2747248--2747278 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2747238 AAATCATTGA
2747248 AAAATTATATAAAAAT
1 AAAATTATATAAAAAT
*
2747264 AAAATTATGTAAAAA
1 AAAATTATATAAAAA
2747279 ACAAATTAGA
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:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAATTATATAAAAAT
Found at i:2747390 original size:20 final size:20
Alignment explanation
Indices: 2747303--2747378 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
2747293 TACAAATAAA
* *
2747303 CGTTGCGAATTTGACTTTTG
1 CGTTGCGAATTTGACTATCG
* * *
2747323 TGATGAGAATTTGACTATCG
1 CGTTGCGAATTTGACTATCG
2747343 CGTTGCGAATTTGACTATCG
1 CGTTGCGAATTTGACTATCG
*
2747363 CGTTGCGAAATTGACT
1 CGTTGCGAATTTGACT
2747379 TCTGTGTTGC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (20 bp):
CGTTGCGAATTTGACTATCG
Found at i:2747407 original size:20 final size:20
Alignment explanation
Indices: 2747384--2747451 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
2747374 TGACTTCTGT
*
2747384 GTTGCGATTTACAAATTCAC
1 GTTGCGATTTACAAATTCGC
** *
2747404 GTTGCGAATTTGGAAAATCGC
1 GTTGCG-ATTTACAAATTCGC
** *
2747425 AATGCGATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
2747445 GTTGCGA
1 GTTGCGA
2747452 AATTGGAAAC
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
20 21 0.60
21 14 0.40
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:2747488 original size:20 final size:19
Alignment explanation
Indices: 2747439--2747492 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
2747429 CGATTTACAT
2747439 ATTCGCGTTGCGAAATTGG
1 ATTCGCGTTGCGAAATTGG
** *
2747458 AAACTGGGTTGCGAAATTGG
1 ATTC-GCGTTGCGAAATTGG
2747478 AGTTCGCGTTGCGAA
1 A-TTCGCGTTGCGAA
2747493 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (19 bp):
ATTCGCGTTGCGAAATTGG
Found at i:2747632 original size:2 final size:2
Alignment explanation
Indices: 2747609--2747677 Score: 56
Period size: 2 Copynumber: 35.0 Consensus size: 2
2747599 TTATATAGTT
* *
2747609 TA TA -A TA TA AA TA TA GTA TA TA TA TA TA TA TA TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
*
2747652 TA TA AA CT- TA TA T- TA TA TA TA T- TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
2747678 CTTTTTTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
1 4 0.07
2 47 0.87
3 3 0.06
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2747663 original size:21 final size:19
Alignment explanation
Indices: 2747582--2747664 Score: 73
Period size: 18 Copynumber: 4.3 Consensus size: 19
2747572 TTTCTCTTTA
*
2747582 TATATAGCTTATAAT-AAT
1 TATATAGTTTATAATAAAT
2747600 TATATAGTTTATAATATAA-
1 TATATAGTTTATAATA-AAT
* *
2747619 -ATATAGTATATATATATAT
1 TATATAGTTTATA-ATAAAT
2747638 ATATATAGTTTATATATAAACT
1 -TATATAGTTTATA-ATAAA-T
2747660 TATAT
1 TATAT
2747665 TATATATATT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
18 26 0.49
19 3 0.06
20 2 0.04
21 21 0.40
22 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
TATATAGTTTATAATAAAT
Found at i:2747663 original size:23 final size:21
Alignment explanation
Indices: 2747609--2747673 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
2747599 TTATATAGTT
*
2747609 TATAATATAAATATAGTATATA
1 TATAA-ATATATATAGTATATA
* *
2747631 TATATATATATATAGTTTATA
1 TATAAATATATATAGTATATA
2747652 TATAAACT-TATAT--TATATA
1 TATAAA-TATATATAGTATATA
2747671 TAT
1 TAT
2747674 TATACTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 8 0.22
21 24 0.65
22 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (21 bp):
TATAAATATATATAGTATATA
Found at i:2747673 original size:21 final size:18
Alignment explanation
Indices: 2747591--2747672 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 18
2747581 ATATATAGCT
* *
2747591 TATA-ATAATTATATAGTT
1 TATATATAAATATATA-TA
2747609 TATAATATAAATATAGTATA
1 TAT-ATATAAATATA-TATA
* *
2747629 TATATATATATATATAGTT
1 TATATATAAATATATA-TA
2747648 TATATATAAACT-TATAT-
1 TATATATAAA-TATATATA
2747665 TATATATA
1 TATATATA
2747673 TTATACTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
17 8 0.15
18 6 0.11
19 25 0.46
20 13 0.24
21 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.48
Consensus pattern (18 bp):
TATATATAAATATATATA
Found at i:2748435 original size:424 final size:430
Alignment explanation
Indices: 2747815--2748700 Score: 1437
Period size: 424 Copynumber: 2.1 Consensus size: 430
2747805 TTTATATGTA
2747815 TTCAATTTAGTCCTTAAAATTATATTTGCATATGAAATTGGCCCATACTTATTACTTATTTATAT
1 TTCAATTTAGTCCTTAAAATTATATTTGCATATGAAATTGGCCCATACTTATTACTTATTTATAT
2747880 TTTTTAATTGGCCCATAAATTTTTAAATGGGTATAATTTAGTATTTTTTTGTATTAATTTCAACC
66 TTTTTAATTGGCCCATAAATTTTTAAATGGGTATAATTTAGTATTTTTTTGTATTAATTTCAACC
2747945 TCACAATTTAAAATTACTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAAATT
131 TCACAATTTAAAATTACTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAAATT
* *
2748010 TTTATTTATAATTTCATATTTGTTCAATTTAGTCCTTAAAATTATATTTGAATCTGAAATTG-GC
196 TTTATTTATAATTTCATATTTGTTAAATTTAGTCCTCAAAATTATATTTGAATCTGAAATTGAGC
*
2748074 ACATACTTATTACTTA-CT-TATATTTTTT-A-T-ATAACTTTTTAAATGGGTATAATTTAGTAC
261 -CATACTTATTACTTATCTCTATATTTTTTAATTCATAACTTTTAAAATGGGTATAATTTAGTAC
2748134 TTTTTTGTATTAATTTCAACCTCACAATTTAAAATCATTTCGATTTGATCACTCATCAATGTGTG
325 TTTTTTGTATTAATTTCAACCTCACAATTTAAAATCATTTCGATTTGATCACTCATCAATGTGTG
2748199 -ATTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTG
390 TATTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTG
* *
2748239 TTCAATTTAGTCCTTAAAATTATATTTGCATATGAAATTGGCGCATACTTATTATTTATTTATAT
1 TTCAATTTAGTCCTTAAAATTATATTTGCATATGAAATTGGCCCATACTTATTACTTATTTATAT
* *
2748304 TTTTTAATTGGTCCATAACTTTTTAAATGGGTATAATTTAGTATTTTTTTTGTATTAATTTCAAC
66 TTTTTAATTGGCCCATAAATTTTTAAATGGGTATAATTTAGTA-TTTTTTTGTATTAATTTCAAC
*
2748369 CTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTT-AAAT
130 CTCACAATTTAAAATTACTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAAAT
* * * *
2748433 TTTTATTTATAATTTCATATTTGTTAAATTTAGTCCTCCAAATTTTATTTGCATCTGAAATTGAT
195 TTTTATTTATAATTTCATATTTGTTAAATTTAGTCCTCAAAATTATATTTGAATCTGAAATTGAG
* * *
2748498 CCATACTTATTATTTATTTCTATTTTTTTTAATTGGCCCATAACTTTTAAAATGGGTATAATTTA
260 CCATACTTATTACTTATCTCTATATTTTTTAATT----CATAACTTTTAAAATGGGTATAATTTA
* * *
2748563 GTACTTTTTTGTATTAATTTGAACCTCACAATTTAAAATTATTTCGATTTGATCTCTCATCAATG
321 GTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATCATTTCGATTTGATCACTCATCAATG
* *
2748628 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTG
386 TGTG-TATTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTG
* * * *
2748674 TTCAATTTAATTCTTAAATTTGTATTT
1 TTCAATTTAGTCCTTAAAATTATATTT
2748701 TTCATAAAAT
Statistics
Matches: 425, Mismatches: 24, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
424 180 0.42
425 82 0.19
426 9 0.02
427 1 0.00
428 1 0.00
433 91 0.21
435 61 0.14
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (430 bp):
TTCAATTTAGTCCTTAAAATTATATTTGCATATGAAATTGGCCCATACTTATTACTTATTTATAT
TTTTTAATTGGCCCATAAATTTTTAAATGGGTATAATTTAGTATTTTTTTGTATTAATTTCAACC
TCACAATTTAAAATTACTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAAATT
TTTATTTATAATTTCATATTTGTTAAATTTAGTCCTCAAAATTATATTTGAATCTGAAATTGAGC
CATACTTATTACTTATCTCTATATTTTTTAATTCATAACTTTTAAAATGGGTATAATTTAGTACT
TTTTTGTATTAATTTCAACCTCACAATTTAAAATCATTTCGATTTGATCACTCATCAATGTGTGT
ATTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTG
Found at i:2748650 original size:218 final size:216
Alignment explanation
Indices: 2747815--2748700 Score: 1369
Period size: 217 Copynumber: 4.1 Consensus size: 216
2747805 TTTATATGTA
*
2747815 TTCAATTTAGTCCTTAAAATTATATTTGCATATGAAATTGGCCCATACTTATTACTTATTTATAT
1 TTCAATTTAGTCCTTAAAATTATATTTGCATATGAAATTGGCACATACTTATTACTTATTTATAT
* *
2747880 TTTTTAATTGGCCCATAAATTTTTAAATGGGTATAATTTAGTATTTTTTTGTATTAATTTCAACC
66 TTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACC
*
2747945 TCACAATTTAAAATTACTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAAATT
131 TCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTT-AAATT
2748010 TTTATTTATAATTTCATATTTG
195 TTTATTTATAATTTCATATTTG
* * *
2748032 TTCAATTTAGTCCTTAAAATTATATTTGAATCTGAAATTGGCACATACTTATTACTTACTTATAT
1 TTCAATTTAGTCCTTAAAATTATATTTGCATATGAAATTGGCACATACTTATTACTTATTTATAT
2748097 TTTTT-A-T-----ATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACC
66 TTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACC
* * *
2748155 TCACAATTTAAAATCATTTCGATTTGATCACTCATCAATGTGTG--ATTTAATTTATTTAAATTT
131 TCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTT
* *
2748218 TAATTTGTAATTTCATATTTG
196 TTATTTATAATTTCATATTTG
* *
2748239 TTCAATTTAGTCCTTAAAATTATATTTGCATATGAAATTGGCGCATACTTATTATTTATTTATAT
1 TTCAATTTAGTCCTTAAAATTATATTTGCATATGAAATTGGCACATACTTATTACTTATTTATAT
* *
2748304 TTTTTAATTGGTCCATAACTTTTTAAATGGGTATAATTTAGTATTTTTTTTGTATTAATTTCAAC
66 TTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTA-CTTTTTTGTATTAATTTCAAC
2748369 CTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATT
130 CTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATT
2748434 TTTATTTATAATTTCATATTTG
195 TTTATTTATAATTTCATATTTG
* ** * * * *
2748456 TTAAATTTAGTCCTCCAAATTTTATTTGCATCTGAAATTGATC-CATACTTATTATTTATTTCTA
1 TTCAATTTAGTCCTTAAAATTATATTTGCATATGAAATTG-GCACATACTTATTACTTA-TT-TA
* * *
2748520 TTTTTTTTAATTGGCCCATAACTTTTAAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTGA
63 TATTTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCA
*
2748585 ACCTCACAATTTAAAATTATTTCGATTTGATCTCTCATCAATGTGTGTTGTTTAATTTATTTAAA
128 ACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAA
*
2748650 TTTTTATTTGTAATTTCATATTTG
193 TTTTTATTTATAATTTCATATTTG
* * * *
2748674 TTCAATTTAATTCTTAAATTTGTATTT
1 TTCAATTTAGTCCTTAAAATTATATTT
2748701 TTCATAAAAT
Statistics
Matches: 613, Mismatches: 43, Indels: 25
0.90 0.06 0.04
Matches are distributed among these distances:
207 90 0.15
208 13 0.02
209 1 0.00
210 90 0.15
214 29 0.05
215 64 0.10
216 1 0.00
217 153 0.25
218 127 0.21
219 45 0.07
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (216 bp):
TTCAATTTAGTCCTTAAAATTATATTTGCATATGAAATTGGCACATACTTATTACTTATTTATAT
TTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACC
TCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTT
TTATTTATAATTTCATATTTG
Found at i:2750739 original size:17 final size:18
Alignment explanation
Indices: 2750702--2750747 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
2750692 AACATTCCCA
* *
2750702 GTAATCTTATTCCCGCCG
1 GTAATCATATTCCCACCG
2750720 GTAATCATATT-CCACCG
1 GTAATCATATTCCCACCG
2750737 GTAATCATATT
1 GTAATCATATT
2750748 TCTACTAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (18 bp):
GTAATCATATTCCCACCG
Found at i:2751822 original size:21 final size:21
Alignment explanation
Indices: 2751796--2751840 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
2751786 TAAACTTGAA
2751796 TGTACATGTCATAGTTTTGTG
1 TGTACATGTCATAGTTTTGTG
2751817 TGTACATGTCATAGTTTTGTG
1 TGTACATGTCATAGTTTTGTG
2751838 TGT
1 TGT
2751841 GTTTCGATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.09, G:0.24, T:0.49
Consensus pattern (21 bp):
TGTACATGTCATAGTTTTGTG
Found at i:2752006 original size:4 final size:4
Alignment explanation
Indices: 2751997--2755360 Score: 6002
Period size: 4 Copynumber: 859.8 Consensus size: 4
2751987 GGATACATTT
2751997 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752045 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752093 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752141 TATC TATC TATC --TC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752187 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752235 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2752283 -A-C TATC TATC TATA TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752329 TATC TATC TATC TATC TATC TA-- TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2752375 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TCTC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752423 TATC TATC -ATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752470 TATC TATC TATC TATC TATC TATC TATC TATC TAT- TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752517 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752565 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752613 TATC TATC TA-- TATC TATC TATC TATC TATC TATC TATC TATC TA-C
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752658 TATC TATC -ATC TATC TATC TATC TATC TA-C TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752704 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752752 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752800 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752848 TATC TATC TATC TATC TATC TATC TATC TATC TATC -ATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752895 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752943 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2752991 TATC TATC TATC TATC TATC TA-C TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753038 TATC TA-- TATC TATC TATC TATC TATC TATC TATC TATC T-TC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753083 TATC TATC TATC TATC TATC TATC TATC TATC ATATC TATC TA-C TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC -TATC TATC TATC TATC
2753131 TATC TA-C TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753178 TA-C TATC TATC TATC TATC TATC TATC TATC TATC TATC TA-- TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753223 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753271 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753319 TATC TATC TATC TATC TATC TATC TATC TATC TATC --TC TATC TA-C
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753364 TATC TATC TATC TATC TATC TATC TATC TA-- TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753410 TATC TATC TATC TATC --TC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753456 TATC TATC TA-- TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2753502 TATC TAT- TATC TATC TAGC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
* * * *
2753549 TATC TATC TATC TATC TATC TATC TATC TATA TCTA TATC TATC TCTC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753597 TATC TATC TATC TATC TATC TATC TATC T-TC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2753644 TA-C TATC TATC TATC ATCTC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC -TATC TATC TATC TATC TATC TATC TATC TATC
2753692 TATC --TC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753738 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2753786 TATC TATC TATC TATC TCTC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753834 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753882 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753930 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2753978 TATC TATC TATC TATC --TC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2754024 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TAGC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754072 TATC -ATC TATC TATC TA-C TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2754118 TATC TATC TATC TATC TATC TATC CATC TATC TATC --TC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754164 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754212 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754260 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754308 TATC TATC TATC TATC TATC TATC TATC TATC TATC --TC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2754354 TATC TATC TATC TATC TATC TCTC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2754402 GATC TATC TATC TATC TATC TATC -ATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754449 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754497 TATC TATC TATC TATC TATC -ATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754544 TAT- TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2754591 TATC TATC TATC TATC TATC TATC TATC TATC TATC --TC TCTC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754637 TA-- TATC TATC TATC TATC -ATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754682 TA-- TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TA--
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754726 TATC TATC TATC TATC TATC TATC TATC TATC TATC --TC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2754772 GATC TATC TATC T-TC TATC TA-C TATC TATC --TC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754816 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2754864 TA-- TATC TATC TATA TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754910 TATC TATC TATC TATC TATC TATC T-TC TATC TATC TA-- TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2754955 TATC TATC -ATC TATC TA-- TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2755000 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2755048 TATC TATC TATC TATC TATC TATC TATC TATC TATC TAT- TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2755095 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2755143 TATC TATC TATC TATC TATC TATC TATC TATC TATC --TC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2755189 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
*
2755237 TATC TATC TATC TATC TATC TATC TATA TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2755285 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC -ATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
2755332 TATC TATC TATAC TA-- TATC TA-C TATC TAT
1 TATC TATC TAT-C TATC TATC TATC TATC TAT
2755361 TTATTTATTT
Statistics
Matches: 3248, Mismatches: 31, Indels: 162
0.94 0.01 0.05
Matches are distributed among these distances:
2 49 0.02
3 86 0.03
4 3103 0.96
5 10 0.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:2760787 original size:2 final size:2
Alignment explanation
Indices: 2760780--2760805 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2760770 AGTTTATAAG
2760780 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2760806 AGTTTATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2762595 original size:44 final size:43
Alignment explanation
Indices: 2762502--2762613 Score: 145
Period size: 44 Copynumber: 2.6 Consensus size: 43
2762492 CGTTTATATA
* * *
2762502 AAAAATGCCGCTATATACAA-ACATTCAGCGGCGTTTGTTTCT
1 AAAAACGCCGCTATATACAAGACCTTCAGCGGCGTTTGTTCCT
* *
2762544 AAGAAACGCCGCTATATACAAGACCTTTAGCGGTGTTTGTATCCT
1 AA-AAACGCCGCTATATACAAGACCTTCAGCGGCGTTTGT-TCCT
*
2762589 AAAAACGCCGCTATATACCAGACCT
1 AAAAACGCCGCTATATACAAGACCT
2762614 ATCGTGACAT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 2 0.03
43 17 0.28
44 37 0.61
45 5 0.08
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
AAAAACGCCGCTATATACAAGACCTTCAGCGGCGTTTGTTCCT
Found at i:2770485 original size:20 final size:19
Alignment explanation
Indices: 2770452--2770490 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
2770442 CCGTTGCTGC
*
2770452 CAGGGGTATGGATACACTA
1 CAGGGGTATCGATACACTA
2770471 CAGGGTGTATCGATACACTA
1 CAGGG-GTATCGATACACTA
2770491 GTGTATGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (19 bp):
CAGGGGTATCGATACACTA
Found at i:2770567 original size:20 final size:20
Alignment explanation
Indices: 2770542--2770581 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2770532 GTTTGAGCAA
* *
2770542 TCATAGGTGTATGGATACAC
1 TCATAGGGGTATCGATACAC
2770562 TCATAGGGGTATCGATACAC
1 TCATAGGGGTATCGATACAC
2770582 ATTTGCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (20 bp):
TCATAGGGGTATCGATACAC
Found at i:2770840 original size:21 final size:21
Alignment explanation
Indices: 2770801--2770840 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2770791 AATGAAAAAA
* * *
2770801 ATATCAATTGTTAACAAAAGG
1 ATATCAATAGTAAAAAAAAGG
2770822 ATATCAATAGTAAAAAAAA
1 ATATCAATAGTAAAAAAAA
2770841 CCAATTGTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.25
Consensus pattern (21 bp):
ATATCAATAGTAAAAAAAAGG
Found at i:2775926 original size:20 final size:20
Alignment explanation
Indices: 2775901--2775942 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2775891 CCTACAACCA
* *
2775901 AATCAACCCAAATAAAAAAT
1 AATCAAACCAAACAAAAAAT
*
2775921 AATCAAATCAAACAAAAAAT
1 AATCAAACCAAACAAAAAAT
2775941 AA
1 AA
2775943 ATAAAACCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (20 bp):
AATCAAACCAAACAAAAAAT
Found at i:2778689 original size:28 final size:28
Alignment explanation
Indices: 2778649--2778706 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
2778639 TTGAGCTCCA
2778649 CTAATCTTTTCAAGTTTCAAAATCCCAT
1 CTAATCTTTTCAAGTTTCAAAATCCCAT
2778677 CTAATCTTTTCAAGTTTCAAAATCCCAT
1 CTAATCTTTTCAAGTTTCAAAATCCCAT
2778705 CT
1 CT
2778707 TCCAGAAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.40
Consensus pattern (28 bp):
CTAATCTTTTCAAGTTTCAAAATCCCAT
Found at i:2793236 original size:24 final size:24
Alignment explanation
Indices: 2793204--2793253 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
2793194 CCTCACTAAA
2793204 CTTTACTCTCCTATTTTACTTGTC
1 CTTTACTCTCCTATTTTACTTGTC
2793228 CTTTACTCTCCTATTTTACTTGTC
1 CTTTACTCTCCTATTTTACTTGTC
2793252 CT
1 CT
2793254 GCTTTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (24 bp):
CTTTACTCTCCTATTTTACTTGTC
Found at i:2796403 original size:20 final size:20
Alignment explanation
Indices: 2796351--2796418 Score: 93
Period size: 19 Copynumber: 3.4 Consensus size: 20
2796341 TATACTTTTA
2796351 GTAAATTTAGAGTAAATTTG
1 GTAAATTTAGAGTAAATTTG
* *
2796371 GT-AGTTTAAAGTAAATTTG
1 GTAAATTTAGAGTAAATTTG
*
2796390 GTAAATTTAGAGTAAATTTTA
1 GTAAATTTAGAGTAAA-TTTG
2796411 GTAAATTT
1 GTAAATTT
2796419 GGTAGTTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 17 0.41
20 13 0.32
21 11 0.27
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.43
Consensus pattern (20 bp):
GTAAATTTAGAGTAAATTTG
Found at i:2802748 original size:14 final size:13
Alignment explanation
Indices: 2802698--2802756 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 13
2802688 CAAACTAAAT
*
2802698 AATAAAAACAATTA
1 AATACAAAC-ATTA
* *
2802712 AAAAGAAACATTA
1 AATACAAACATTA
2802725 AATACAAACATTA
1 AATACAAACATTA
*
2802738 TAATTCAAACAATTA
1 -AATACAAAC-ATTA
2802753 AATA
1 AATA
2802757 ATAAAAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 15 0.41
14 18 0.49
15 4 0.11
ACGTcount: A:0.64, C:0.10, G:0.02, T:0.24
Consensus pattern (13 bp):
AATACAAACATTA
Found at i:2802797 original size:44 final size:45
Alignment explanation
Indices: 2802748--2802879 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 45
2802738 TAATTCAAAC
2802748 AATTAAATAATAAAAAATAAGAAAAAAATAAATAAAT-AGTCCAT
1 AATTAAATAATAAAAAATAAGAAAAAAATAAATAAATAAGTCCAT
2802792 AATTAAATAATAAAAACATTAAGAAAAATAAATAAATAAATAAAAAGTCCAT
1 AATTAAATAATAAAAA-A-TAAG-AAAA-AAATAAATAAAT---AAGTCCAT
* * *
2802844 AATTAAAT-ACAAACATTAAGAAACAAAATAAATAAA
1 AATTAAATAATAAAAAATAAGAAA-AAAATAAATAAA
2802880 AACAAGTCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
44 16 0.21
45 1 0.01
46 4 0.05
47 4 0.05
48 26 0.34
49 5 0.07
51 5 0.07
52 15 0.20
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.22
Consensus pattern (45 bp):
AATTAAATAATAAAAAATAAGAAAAAAATAAATAAATAAGTCCAT
Found at i:2802841 original size:52 final size:48
Alignment explanation
Indices: 2802769--2802887 Score: 152
Period size: 52 Copynumber: 2.4 Consensus size: 48
2802759 AAAAAATAAG
*
2802769 AAAA-AAATAAATAAATAGTCCATAATTAAATAATAAAAACATTAAGAAAA
1 AAAATAAATAAATAAAAAGTCCATAATT--A-AATAAAAACATTAAGAAAA
* *
2802819 ATAAATAAATAAATAAAAAGTCCATAATTAAATACAAACATTAAGAAAC
1 A-AAATAAATAAATAAAAAGTCCATAATTAAATAAAAACATTAAGAAAA
*
2802868 AAAATAAATAAA-AACAAGTC
1 AAAATAAATAAATAAAAAGTC
2802888 TATTGATGTT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
47 7 0.11
48 11 0.17
49 18 0.29
50 2 0.03
51 3 0.05
52 22 0.35
ACGTcount: A:0.66, C:0.08, G:0.04, T:0.21
Consensus pattern (48 bp):
AAAATAAATAAATAAAAAGTCCATAATTAAATAAAAACATTAAGAAAA
Found at i:2802880 original size:44 final size:45
Alignment explanation
Indices: 2802748--2802881 Score: 141
Period size: 44 Copynumber: 2.9 Consensus size: 45
2802738 TAATTCAAAC
*
2802748 AATTAAATAATAAAAA-A-TAAGAAAAAAATAAATAAATAGTCCAT
1 AATT-AATAATAAAAACATTAAGAAAAAAATAAATAAAAAGTCCAT
2802792 AATTAAATAATAAAAACATTAAGAAAAATAAATAAATAAATAAAAAGTCCAT
1 AATT-AATAATAAAAACATTAAG----A-AAA-AAATAAATAAAAAGTCCAT
*
2802844 AATT-A-AATACAAACATTAAGAAACAAAATAAATAAAAA
1 AATTAATAATAAAAACATTAAGAAA-AAAATAAATAAAAA
2802882 CAAGTCTATT
Statistics
Matches: 79, Mismatches: 2, Indels: 18
0.80 0.02 0.18
Matches are distributed among these distances:
44 31 0.39
45 3 0.04
46 4 0.05
49 14 0.18
50 2 0.03
51 3 0.04
52 22 0.28
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.22
Consensus pattern (45 bp):
AATTAATAATAAAAACATTAAGAAAAAAATAAATAAAAAGTCCAT
Found at i:2803694 original size:20 final size:21
Alignment explanation
Indices: 2803657--2803695 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
2803647 AAACTGAAAT
*
2803657 AAATAAATATAATTATTATCA
1 AAATAAATATAATAATTATCA
*
2803678 AAAT-AATATTATAATTAT
1 AAATAAATATAATAATTAT
2803696 ATAACGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATAAATATAATAATTATCA
Found at i:2811408 original size:3 final size:3
Alignment explanation
Indices: 2811400--2811434 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2811390 TGAGGCAATT
2811400 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2811435 GCAAGGAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2811698 original size:25 final size:25
Alignment explanation
Indices: 2811638--2811706 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 25
2811628 CATCACAACT
* *
2811638 CGTATAAA-TTGCACTGAAGTGCCA
1 CGTAGAAATTTGCACCGAAGTGCCA
** * *
2811662 CGTAGAGTTTTGCACCGAAGTGTCG
1 CGTAGAAATTTGCACCGAAGTGCCA
2811687 CGTAGAAATTTGTC-CCGAAG
1 CGTAGAAATTTG-CACCGAAG
2811707 GACCGCATAG
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
24 5 0.14
25 29 0.83
26 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (25 bp):
CGTAGAAATTTGCACCGAAGTGCCA
Found at i:2811726 original size:24 final size:24
Alignment explanation
Indices: 2811693--2811739 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2811683 GTCGCGTAGA
* *
2811693 AATTTGTCCCGAAGGACCGCATAG
1 AATTTATCCCGAAGGACCACATAG
*
2811717 AATTTATCCCGAATGACCACATA
1 AATTTATCCCGAAGGACCACATA
2811740 TAAACTCCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (24 bp):
AATTTATCCCGAAGGACCACATAG
Found at i:2811971 original size:29 final size:31
Alignment explanation
Indices: 2811929--2811998 Score: 99
Period size: 29 Copynumber: 2.3 Consensus size: 31
2811919 ACATAATTTA
* *
2811929 TATCGCATAGACATATCATTTT-CATACC-T
1 TATCACATAAACATATCATTTTCCATACCTT
*
2811958 TATCACATAAACATTTCATTTTCCATACCTT
1 TATCACATAAACATATCATTTTCCATACCTT
2811989 TATCACATAA
1 TATCACATAA
2811999 TTCATAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 19 0.53
30 6 0.17
31 11 0.31
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (31 bp):
TATCACATAAACATATCATTTTCCATACCTT
Found at i:2812468 original size:63 final size:63
Alignment explanation
Indices: 2812347--2812505 Score: 160
Period size: 63 Copynumber: 2.5 Consensus size: 63
2812337 TCCTTAATGT
* * * *
2812347 GTGCATCGATGCACTACCTGTGCATCGGTACACAAATGTCATTCGCTGTTTGTATTTAAGGGG
1 GTGCATCGATGCACTACCTGTGCATCGATACACAAATGTCATTCGATGTTTGTATTTAAAGGA
** * * **
2812410 GTGCATCGATGCACTACCTGTGCATCGATACACGGATAG-CATTTGATGTTT-TCTTTTAAATTA
1 GTGCATCGATGCACTACCTGTGCATCGATACACAAAT-GTCATTCGATGTTTGT-ATTTAAAGGA
* ***
2812473 ATGCATCGATGCACTTGATGTGCATCGATACAC
1 GTGCATCGATGCACTACCTGTGCATCGATACAC
2812506 CTAGCACAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
62 1 0.01
63 78 0.98
64 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCTGTGCATCGATACACAAATGTCATTCGATGTTTGTATTTAAAGGA
Found at i:2818538 original size:25 final size:25
Alignment explanation
Indices: 2818453--2818524 Score: 126
Period size: 25 Copynumber: 2.9 Consensus size: 25
2818443 CTCGTATAAA
*
2818453 TTGCACAGAAGTGCCGCGTAGAGTT
1 TTGCACCGAAGTGCCGCGTAGAGTT
2818478 TTGCACCGAAGTGCCGCGTAGAGTT
1 TTGCACCGAAGTGCCGCGTAGAGTT
*
2818503 TTGCACCGAAGTGTCGCGTAGA
1 TTGCACCGAAGTGCCGCGTAGA
2818525 AATTTACCCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (25 bp):
TTGCACCGAAGTGCCGCGTAGAGTT
Done.