Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 51
Found at i:2328895 original size:164 final size:164
Alignment explanation
Indices: 2328715--2329030 Score: 461
Period size: 164 Copynumber: 1.9 Consensus size: 164
2328705 ATGTCGTTCA
* * *
2328715 CATTTTAGTTATGGCATCTTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
1 CATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTATGGCATCC
* * * * *
2328780 TTTCATGCCTTAGTGCATCTGTTCATGCACTTTAATTATGACGTCTTTTCATGCCTTAATACATT
66 TTTCATCCCTTAATGCATCCGTTCATGCACTTTAATTATGACATCTTTTCATGCCTTAATACATC
*
2328845 CGTTCATGCATTTTAGTTATGGCATCCTTTCATG
131 CGTTCATGCACTTTAGTTATGGCATCCTTTCATG
* * *
2328879 CATTTTAGTTATGGCATCCTTTCATGCCTTAGTGCATTCGTTCATGCACTTTAATTATGGCATCT
1 CATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTATGGCATCC
* * * * * * *
2328944 TTTCATCCCTTAATGCATCCGTTCATGGATTTTAGTTATGGCATCTTTTCATGTCTTAGTGCATC
66 TTTCATCCCTTAATGCATCCGTTCATGCACTTTAATTATGACATCTTTTCATGCCTTAATACATC
2329009 CGTTCATGCACTTTAGTTATGG
131 CGTTCATGCACTTTAGTTATGG
2329031 ATTCGGTTTA
Statistics
Matches: 133, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
164 133 1.00
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.44
Consensus pattern (164 bp):
CATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTATGGCATCC
TTTCATCCCTTAATGCATCCGTTCATGCACTTTAATTATGACATCTTTTCATGCCTTAATACATC
CGTTCATGCACTTTAGTTATGGCATCCTTTCATG
Found at i:2328923 original size:46 final size:46
Alignment explanation
Indices: 2328866--2329030 Score: 240
Period size: 46 Copynumber: 3.6 Consensus size: 46
2328856 TTTAGTTATG
* * *
2328866 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAGT
1 GCATCCGTTCATGCACTTTAGTTATGGCATCTTTTCATGCCTTAGT
* * * *
2328912 GCATTCGTTCATGCACTTTAATTATGGCATCTTTTCATCCCTTAAT
1 GCATCCGTTCATGCACTTTAGTTATGGCATCTTTTCATGCCTTAGT
* * *
2328958 GCATCCGTTCATGGATTTTAGTTATGGCATCTTTTCATGTCTTAGT
1 GCATCCGTTCATGCACTTTAGTTATGGCATCTTTTCATGCCTTAGT
2329004 GCATCCGTTCATGCACTTTAGTTATGG
1 GCATCCGTTCATGCACTTTAGTTATGG
2329031 ATTCGGTTTA
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 103 1.00
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (46 bp):
GCATCCGTTCATGCACTTTAGTTATGGCATCTTTTCATGCCTTAGT
Found at i:2328923 original size:92 final size:92
Alignment explanation
Indices: 2328735--2329017 Score: 200
Period size: 92 Copynumber: 3.1 Consensus size: 92
2328725 ATGGCATCTT
* * *
2328735 TTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGC--CTTAG---T-
1 TTCATGCCTTAATACATTCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCATTTTAGTTATG
* * *
2328794 GCAT-CTGTTCATGCACTTTAATTATG-ACGTCTT
66 GCATCCT-TTCATGC-C-TT-A--GTGCA-TTC-G
2328827 TTCATGCCTTAATACATTCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCATTTTAGTTATG
1 TTCATGCCTTAATACATTCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCATTTTAGTTATG
2328892 GCATCCTTTCATGCCTTAGTGCATTCG
66 GCATCCTTTCATGCCTTAGTGCATTCG
* * * * *
2328919 TTCATGCACTT--TA-ATT-ATGGCAT-C-TTTTCATCCCTTAAT-GCATCCGTTCATGGATTTT
1 TTCATGC-CTTAATACATTCGT-TCATGCATTTT-A---GTT-ATGGCATCCTTTCATGCATTTT
* * *
2328977 AGTTATGGCATCTTTTCATGTCTTAGTGCATCCG
59 AGTTATGGCATCCTTTCATGCCTTAGTGCATTCG
2329011 TTCATGC
1 TTCATGC
2329018 ACTTTAGTTA
Statistics
Matches: 162, Mismatches: 14, Indels: 30
0.79 0.07 0.15
Matches are distributed among these distances:
88 4 0.02
89 3 0.02
90 6 0.04
91 2 0.01
92 115 0.71
93 9 0.06
94 5 0.03
95 1 0.01
96 2 0.01
97 2 0.01
98 11 0.07
99 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.43
Consensus pattern (92 bp):
TTCATGCCTTAATACATTCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCATTTTAGTTATG
GCATCCTTTCATGCCTTAGTGCATTCG
Found at i:2329564 original size:94 final size:94
Alignment explanation
Indices: 2329439--2329615 Score: 261
Period size: 94 Copynumber: 1.9 Consensus size: 94
2329429 ACTACCTTGG
* *
2329439 TATCGATACTTCTATACTATGATACTGATA-CCCCTTTCAATATCGATACCATTTCT-ATATTCT
1 TATCGATACTTCTATACTATGATACCGATACCCCCTTTCAATATCAATACCATTT-TGATATTCT
* *
2329502 GTGTTGCATGGTATCGATACCCTTCTCTCAA
65 G-GATCCATGGTATCGATACCCTTCTCTCAA
*
2329533 TATCGATACTAT-TATACTATGGTACCGATACCCCCTTTCAATATCAATACCATTTTGATATTCT
1 TATCGATACT-TCTATACTATGATACCGATACCCCCTTTCAATATCAATACCATTTTGATATTCT
2329597 GGATCCATGGTATCGATAC
65 GGATCCATGGTATCGATAC
2329616 TTCCCTTTGT
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
94 43 0.57
95 32 0.43
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (94 bp):
TATCGATACTTCTATACTATGATACCGATACCCCCTTTCAATATCAATACCATTTTGATATTCTG
GATCCATGGTATCGATACCCTTCTCTCAA
Found at i:2330425 original size:8 final size:7
Alignment explanation
Indices: 2330397--2330426 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
2330387 CTTATTCAAA
2330397 TAAATCT
1 TAAATCT
2330404 TAAATCT
1 TAAATCT
2330411 TAAATCT
1 TAAATCT
2330418 TCAAATCT
1 T-AAATCT
2330426 T
1 T
2330427 TTCAATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (7 bp):
TAAATCT
Found at i:2332842 original size:16 final size:15
Alignment explanation
Indices: 2332792--2332844 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
2332782 GGTATTACCC
2332792 GACCTGTTTTCAACCT
1 GACCT-TTTTCAACCT
* *
2332808 GACCTTTTATGAACGT
1 GACCTTTT-TCAACCT
2332824 GACCTATTTTCAACCT
1 GACCT-TTTTCAACCT
2332840 GACCT
1 GACCT
2332845 GTAAATGATC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 3 0.10
16 25 0.81
17 3 0.10
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (15 bp):
GACCTTTTTCAACCT
Found at i:2334519 original size:2 final size:2
Alignment explanation
Indices: 2334512--2334541 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2334502 TGTGCACATG
2334512 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2334542 GTAACACAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2335661 original size:40 final size:40
Alignment explanation
Indices: 2335605--2335740 Score: 175
Period size: 40 Copynumber: 3.4 Consensus size: 40
2335595 GCGATTTTCC
* *
2335605 GACTATCGCAATGCGAATATGTAAATCGCAATGCGAGTAT
1 GACTATCGCAACGCGAATATGTAAATCGCAATGCGATTAT
*
2335645 GGCTATCGCAACGCGAATATGTAAATCGCAATGCGATTAT
1 GACTATCGCAACGCGAATATGTAAATCGCAATGCGATTAT
* * * * * *
2335685 TACTATCGCAATGCGATTCTG-ACTATCGCAATGCGATTCT
1 GACTATCGCAACGCGAATATGTA-AATCGCAATGCGATTAT
2335725 GACTATCGCAACGCGA
1 GACTATCGCAACGCGA
2335741 TTCTGACTGT
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 82 0.99
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (40 bp):
GACTATCGCAACGCGAATATGTAAATCGCAATGCGATTAT
Found at i:2335701 original size:20 final size:20
Alignment explanation
Indices: 2335605--2335758 Score: 159
Period size: 20 Copynumber: 7.7 Consensus size: 20
2335595 GCGATTTTCC
*
2335605 GACTATCGCAATGCGAATAT
1 GACTATCGCAATGCGATTAT
* *
2335625 GTA-AATCGCAATGCGAGTAT
1 G-ACTATCGCAATGCGATTAT
* * *
2335645 GGCTATCGCAACGCGAATAT
1 GACTATCGCAATGCGATTAT
*
2335665 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAATGCGATTAT
* *
2335685 TACTATCGCAATGCGATTCT
1 GACTATCGCAATGCGATTAT
*
2335705 GACTATCGCAATGCGATTCT
1 GACTATCGCAATGCGATTAT
* *
2335725 GACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTAT
*
2335745 GACTGTCGCAATGC
1 GACTATCGCAATGC
2335759 TGAATTTCAA
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.01
20 111 0.98
21 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (20 bp):
GACTATCGCAATGCGATTAT
Found at i:2336573 original size:24 final size:24
Alignment explanation
Indices: 2336541--2336594 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
2336531 GTATTCGAAA
2336541 TTTGATCTTGGTCAATA-TCCGGAC
1 TTTGATCTTGGTCAATACT-CGGAC
*
2336565 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
2336589 TTTGAT
1 TTTGAT
2336595 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:2338706 original size:18 final size:18
Alignment explanation
Indices: 2338683--2338717 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2338673 AGCAAAAGGC
*
2338683 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
2338701 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
2338718 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:2338918 original size:20 final size:20
Alignment explanation
Indices: 2338893--2339242 Score: 230
Period size: 20 Copynumber: 18.7 Consensus size: 20
2338883 CACATTCATT
2338893 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
2338913 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
* *
2338933 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
2338953 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
2338970 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
2338987 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
2339007 TGACTATCGCAATG-G--GA
1 TGACTATCGCAACGCGAATA
* * *
2339024 T-A--ATCACAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
2339041 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
2339061 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
2339078 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
2339095 TGACTATCGCAATGCGAATA
1 TGACTATCGCAACGCGAATA
* *
2339115 TGACTATCGCAACGCAAATT
1 TGACTATCGCAACGCGAATA
* * * *
2339135 TAACCTA-CAGGATCGCGAATT
1 TGA-CTATC-GCAACGCGAATA
* *
2339156 TGACTATTGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
2339173 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
*
2339189 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * * *
2339209 TGATTATTGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
2339229 TGACTATCGCAACG
1 TGACTATCGCAACG
2339243 AGAAAATCGC
Statistics
Matches: 258, Mismatches: 44, Indels: 56
0.72 0.12 0.16
Matches are distributed among these distances:
14 30 0.12
15 3 0.01
16 8 0.03
17 13 0.05
18 5 0.02
19 16 0.06
20 169 0.66
21 14 0.05
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:2338995 original size:34 final size:35
Alignment explanation
Indices: 2338898--2339106 Score: 111
Period size: 34 Copynumber: 5.8 Consensus size: 35
2338888 TCATTTGACT
* * *
2338898 ATCGCAACGCGAATATGACTATCGCAACGCGAATATGA
1 ATCGCAATGCGAAAATGACTATCGCAACG-GGAT-T-A
* * ** *
2338936 CTATCGCAACGTGAATTTGAATATCGCAACGGGA-TA
1 --ATCGCAATGCGAAAATGACTATCGCAACGGGATTA
*
2338972 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGA
1 ATCGCAATGCGAAAATGACTATCGCAACG-GGA-TT-A
* * * * *** *
2339010 CTATCGCAATGGGATAATCACAAT-GCGAAAATGACT-
1 --ATCGCAATGCGAAAATGACTATCGC-AACGGGATTA
* **
2339046 ATCGCAACGCGAATTTGACTATCGCAACGGGA-TA
1 ATCGCAATGCGAAAATGACTATCGCAACGGGATTA
2339080 ATCGCAATGCGAAAATGACTATCGCAA
1 ATCGCAATGCGAAAATGACTATCGCAA
2339107 TGCGAATATG
Statistics
Matches: 128, Mismatches: 32, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
33 1 0.01
34 67 0.52
35 4 0.03
36 1 0.01
37 2 0.02
38 2 0.02
39 5 0.04
40 46 0.36
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (35 bp):
ATCGCAATGCGAAAATGACTATCGCAACGGGATTA
Found at i:2339000 original size:54 final size:54
Alignment explanation
Indices: 2338918--2339128 Score: 350
Period size: 54 Copynumber: 3.9 Consensus size: 54
2338908 GAATATGACT
* * * *
2338918 ATCGCAACGCGAATATGACTATCGCAACGTGAATTTGAATATCGCAACGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
*
2338972 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAATGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
*
2339026 ATCACAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
* *
2339080 ATCGCAATGCGAAAATGACTATCGCAATGCGAATATGACTATCGCAACG
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACG
2339129 CAAATTTAAC
Statistics
Matches: 147, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 147 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
Found at i:2339050 original size:74 final size:73
Alignment explanation
Indices: 2338893--2339280 Score: 272
Period size: 74 Copynumber: 5.3 Consensus size: 73
2338883 CACATTCATT
* * * *
2338893 TGACTATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCGCAACGTGA-ATTTGA-
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACG-GATA-ATCAC
**
2338956 ATAT-CGCAACG
64 A-ATGCG-AAAA
* * ** *
2338967 GGA-TAATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAATGGGATAATCAC
1 TGACT-ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAA-CGGATAATCAC
2339031 AATGCGAAAA
64 AATGCGAAAA
* * * * * ** *
2339041 TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCG-CAATGCGAAAATGACT-ATCG
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGCGA-ATTTGACTAT-CGCAACGGA-TAATCA
*
2339104 CAATGCGAATA
63 CAATGCGAAAA
* * * * * *
2339115 TGACTATCGCAACGCAAATTTAACCTA-CAGGATCGCGAATTTGACTATTGCAACGAGATAATCG
1 TGACTATCGCAACGCGAATTTGA-CTATC-GCAACGCGAATTTGACTATCGCAACG-GATAATCA
*
2339179 CAACGCG-AAA
63 CAATGCGAAAA
* * * * *
2339189 TGACTATCGCAACGCGAATTTGATTATTGCAACGGGAATTTGACTATCGCAACGAGAAAATCGCA
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACG-GATAATCACA
* * * *
2339254 AAGTG-TAT
65 ATGCGAAAA
2339262 TGACTATCGCAACGCGAAT
1 TGACTATCGCAACGCGAAT
2339281 ATGATGCAGA
Statistics
Matches: 250, Mismatches: 49, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
73 58 0.23
74 154 0.62
75 38 0.15
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (73 bp):
TGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGGATAATCACAA
TGCGAAAA
Found at i:2339414 original size:33 final size:30
Alignment explanation
Indices: 2339375--2339450 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 30
2339365 ATCAACTTTT
* *
2339375 ATCAATTAAACAAGCACAAATAATTATTTGCAC
1 ATCAATTAAACAA--A-AAAGAATTATTTACAC
*
2339408 ATCAATTAAAC-AATAAGAATTATTTACAC
1 ATCAATTAAACAAAAAAGAATTATTTACAC
2339437 ATCAATTAAACAAA
1 ATCAATTAAACAAA
2339451 TCAACTCTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 24 0.62
30 3 0.08
32 1 0.03
33 11 0.28
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.28
Consensus pattern (30 bp):
ATCAATTAAACAAAAAAGAATTATTTACAC
Found at i:2340942 original size:42 final size:42
Alignment explanation
Indices: 2340835--2340943 Score: 98
Period size: 42 Copynumber: 2.6 Consensus size: 42
2340825 TCTAGAATGT
* *
2340835 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACAG
1 TGGGAGAGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACAG
* * ** * *
2340877 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGGAC-G
1 TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACAG
2340918 ATAGGG-GAGGCCTCTTGAACGATGAC
1 -T-GGGAGAGGCCTCTTGAACGATGAC
2340944 TGGTGAGTCG
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
41 1 0.02
42 46 0.88
43 5 0.10
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACAG
Found at i:2341455 original size:18 final size:19
Alignment explanation
Indices: 2341432--2341498 Score: 100
Period size: 20 Copynumber: 3.5 Consensus size: 19
2341422 AAAACTTAAA
*
2341432 ATCGCAACACG-AATGACT
1 ATCGCAACGCGAAATGACT
2341450 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
2341470 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
2341490 ATCGCAACG
1 ATCGCAACG
2341499 AGAGAATGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
18 10 0.22
20 36 0.78
ACGTcount: A:0.39, C:0.27, G:0.19, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:2341507 original size:20 final size:20
Alignment explanation
Indices: 2341443--2341498 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
2341433 TCGCAACACG
2341443 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
2341463 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
2341483 AATGACTATCGCAACG
1 AATGACTATCGCAACG
2341499 AGAGAATGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:2343188 original size:20 final size:20
Alignment explanation
Indices: 2343144--2343237 Score: 100
Period size: 20 Copynumber: 4.8 Consensus size: 20
2343134 TGAAACTTAA
* * *
2343144 AATCACAACACGAAAATAAA
1 AATCGCAACACGAAAATGAC
2343164 AATCGCAACACGAAAATGAC
1 AATCGCAACACGAAAATGAC
* **
2343184 TATCGCAACACGAATTTGAC
1 AATCGCAACACGAAAATGAC
* *
2343204 TATCGCAACGCG-AAATGAC
1 AATCGCAACACGAAAATGAC
*
2343223 AATCGCAACGCGAAA
1 AATCGCAACACGAAA
2343238 CTAAAATCGC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
19 16 0.25
20 47 0.75
ACGTcount: A:0.47, C:0.24, G:0.15, T:0.14
Consensus pattern (20 bp):
AATCGCAACACGAAAATGAC
Found at i:2343245 original size:19 final size:19
Alignment explanation
Indices: 2343142--2343248 Score: 72
Period size: 20 Copynumber: 5.5 Consensus size: 19
2343132 TCTGAAACTT
* * *
2343142 AAAATCACAACACGAAAATA
1 AAAATCGCAACGCG-AAATG
*
2343162 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
** * *
2343182 ACTATCGCAACACGAATTTG
1 AAAATCGCAACGCGAA-ATG
**
2343202 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
2343221 ACAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAA-TG
2343240 AAAATCGCA
1 AAAATCGCA
2343249 TTGCCATTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
19 28 0.37
20 48 0.63
ACGTcount: A:0.48, C:0.24, G:0.14, T:0.14
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:2343634 original size:20 final size:21
Alignment explanation
Indices: 2343609--2343656 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
2343599 TCTGAGAGAT
2343609 GGAGAT-AGATGGATTTCGTC
1 GGAGATAAGATGGATTTCGTC
* *
2343629 GGAGATAGAGATTGATTTCTTC
1 GGAGATA-AGATGGATTTCGTC
2343651 GGAGAT
1 GGAGAT
2343657 GGGGATTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
22 18 0.75
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
GGAGATAAGATGGATTTCGTC
Found at i:2343688 original size:26 final size:22
Alignment explanation
Indices: 2343620--2343683 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
2343610 GAGATAGATG
* * *
2343620 GATTTCGTCGGAGATAGAGATT
1 GATTTCTTCGGAGATGGGGATT
2343642 GATTTCTTCGGAGATGGGGATT
1 GATTTCTTCGGAGATGGGGATT
2343664 GATTTCTTCGGAGATGGGGA
1 GATTTCTTCGGAGATGGGGA
2343684 CGGATGTCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.22, C:0.09, G:0.36, T:0.33
Consensus pattern (22 bp):
GATTTCTTCGGAGATGGGGATT
Found at i:2343946 original size:20 final size:20
Alignment explanation
Indices: 2343859--2344016 Score: 131
Period size: 20 Copynumber: 7.9 Consensus size: 20
2343849 GCGCTTTGAA
* *
2343859 AATCGCATTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAT
* * *
2343879 AATCACGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAT
** *
2343899 AATCGTGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAT
* *
2343919 AATTGCATTGCGATAGTAAT
1 AATCGCATTGCGATAGTCAT
*
2343939 AATCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAT
* * *
2343959 ATTCGCGTTGCGATAGCCAT
1 AATCGCATTGCGATAGTCAT
* *
2343979 ACTCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAT
*
2343999 ATTCGCATTGCGATAGTC
1 AATCGCATTGCGATAGTC
2344017 GAAAAATCGC
Statistics
Matches: 111, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
19 1 0.01
20 109 0.98
21 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAT
Found at i:2343970 original size:40 final size:40
Alignment explanation
Indices: 2343923--2344015 Score: 150
Period size: 40 Copynumber: 2.3 Consensus size: 40
2343913 AGTCAGAATT
2343923 GCATTGCGATAGTAATAATCGCATTGCGATTTACATATTC
1 GCATTGCGATAGTAATAATCGCATTGCGATTTACATATTC
* ** *
2343963 GCGTTGCGATAGCCATACTCGCATTGCGATTTACATATTC
1 GCATTGCGATAGTAATAATCGCATTGCGATTTACATATTC
2344003 GCATTGCGATAGT
1 GCATTGCGATAGT
2344016 CGAAAAATCG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (40 bp):
GCATTGCGATAGTAATAATCGCATTGCGATTTACATATTC
Found at i:2344033 original size:22 final size:22
Alignment explanation
Indices: 2344008--2344059 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
2343998 TATTCGCATT
2344008 GCGATAGTCGAAAAATCGCAAC
1 GCGATAGTCGAAAAATCGCAAC
* * * *
2344030 GCGA-ATTTGGAAAATCGCAAT
1 GCGATAGTCGAAAAATCGCAAC
2344051 GCGATAGTC
1 GCGATAGTC
2344060 AGAATCGCGT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (22 bp):
GCGATAGTCGAAAAATCGCAAC
Found at i:2345216 original size:12 final size:10
Alignment explanation
Indices: 2345197--2345230 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
2345187 TGTAATATAT
2345197 AAATAAATAA
1 AAATAAATAA
2345207 AAATTAAAATAA
1 AAA-T-AAATAA
2345219 AAATAAATAA
1 AAATAAATAA
2345229 AA
1 AA
2345231 TATTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 11 0.50
11 2 0.09
12 9 0.41
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATAAATAA
Found at i:2353961 original size:23 final size:25
Alignment explanation
Indices: 2353931--2353984 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
2353921 ATAAAACCAT
*
2353931 TAATAATAATATTA-AATA-CTATA
1 TAATAATAATAATACAATATCTATA
2353954 TAATAATAATAATACAATATCTATA
1 TAATAATAATAATACAATATCTATA
2353979 T-ATAAT
1 TAATAAT
2353985 GTAATGTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 13 0.46
24 9 0.32
25 6 0.21
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (25 bp):
TAATAATAATAATACAATATCTATA
Found at i:2353989 original size:5 final size:5
Alignment explanation
Indices: 2353981--2354024 Score: 70
Period size: 5 Copynumber: 8.8 Consensus size: 5
2353971 TATCTATATA
* *
2353981 TAATG TAATG TAATG TAATG TAATG TAATG TAATA TAATA TAAT
1 TAATG TAATG TAATG TAATG TAATG TAATG TAATG TAATG TAAT
2354025 ATATATTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (5 bp):
TAATG
Found at i:2355677 original size:15 final size:16
Alignment explanation
Indices: 2355657--2355697 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
2355647 TAACATAAGT
*
2355657 TATGTGATAAT-GGTC
1 TATGTGAAAATAGGTC
*
2355672 TATGTGAAAATATGTC
1 TATGTGAAAATAGGTC
2355688 TATGTGAAAA
1 TATGTGAAAA
2355698 GCTATTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.37
Consensus pattern (16 bp):
TATGTGAAAATAGGTC
Found at i:2355810 original size:23 final size:23
Alignment explanation
Indices: 2355783--2355861 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
2355773 GAGTCGAGGG
* *
2355783 TTCTACGCGGTCCTTCGAGACAT
1 TTCTACGTGGTCCTTCGGGACAT
* *
2355806 TTCTACATGGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGACAT
* *
2355829 TACTATGTGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAT
*
2355852 TTCTATGTGG
1 TTCTACGTGG
2355862 CATTTTGATG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAT
Found at i:2367069 original size:22 final size:23
Alignment explanation
Indices: 2367041--2367090 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
2367031 GAAATTGATA
*
2367041 CCCCCTTA-AAGGGGAACCGATT
1 CCCCCTTAGAAAGGGAACCGATT
2367063 CCCCCTTAGAAAGGGAACCGATT
1 CCCCCTTAGAAAGGGAACCGATT
2367086 CCCCC
1 CCCCC
2367091 CTTGGAGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.26, C:0.38, G:0.20, T:0.16
Consensus pattern (23 bp):
CCCCCTTAGAAAGGGAACCGATT
Found at i:2379859 original size:23 final size:23
Alignment explanation
Indices: 2379833--2379933 Score: 103
Period size: 23 Copynumber: 4.4 Consensus size: 23
2379823 TTGAGGATAA
* *
2379833 TTCTATGTAGTCCTTCAGGACAT
1 TTCTATGTGGTCCTTCGGGACAT
* *
2379856 TTCTACGCGGTCCTTCGGGACAT
1 TTCTATGTGGTCCTTCGGGACAT
* * * *
2379879 TTCTACGCGGTCCTTTGGGACAA
1 TTCTATGTGGTCCTTCGGGACAT
* * *
2379902 TACTATATGGTCCTTCGGAACAT
1 TTCTATGTGGTCCTTCGGGACAT
2379925 TTCTATGTG
1 TTCTATGTG
2379934 CCATTTTGAT
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (23 bp):
TTCTATGTGGTCCTTCGGGACAT
Found at i:2379900 original size:46 final size:46
Alignment explanation
Indices: 2379809--2379929 Score: 107
Period size: 46 Copynumber: 2.6 Consensus size: 46
2379799 GAGTCGAGAG
* * * * * *
2379809 TTCTACGCGGTCCTTTGAGGATAATTCTATGTAGTCCTTCAGGACAT
1 TTCTACGCGGTCCTTCG-GGACATTTCTACGCAGTCCTTCAGGACAA
* **
2379856 TTCTACGCGGTCCTTCGGGACATTTCTACGCGGTCCTTTGGGACAA
1 TTCTACGCGGTCCTTCGGGACATTTCTACGCAGTCCTTCAGGACAA
* *** *
2379902 TACTATATGGTCCTTCGGAACATTTCTA
1 TTCTACGCGGTCCTTCGGGACATTTCTA
2379930 TGTGCCATTT
Statistics
Matches: 60, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
46 44 0.73
47 16 0.27
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (46 bp):
TTCTACGCGGTCCTTCGGGACATTTCTACGCAGTCCTTCAGGACAA
Found at i:2379970 original size:24 final size:24
Alignment explanation
Indices: 2379943--2380003 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
2379933 GCCATTTTGA
* * *
2379943 TGCAATTTCTACGTGGTACTTCAG
1 TGCAATTTATACGCGGCACTTCAG
*
2379967 TGCAATTTATACGCGGCACTTCGG
1 TGCAATTTATACGCGGCACTTCAG
2379991 TGCAATTTATACG
1 TGCAATTTATACG
2380004 AGCTGTGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (24 bp):
TGCAATTTATACGCGGCACTTCAG
Found at i:2384869 original size:36 final size:36
Alignment explanation
Indices: 2384822--2384901 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
2384812 AACCTCTTTC
2384822 TTTTCTTCTTCAAACCCCAAATTCAAAACTTTAATA
1 TTTTCTTCTTCAAACCCCAAATTCAAAACTTTAATA
* *
2384858 TTTTCTTCTTCAGACCCCAAATTCAAAACTTTAATC
1 TTTTCTTCTTCAAACCCCAAATTCAAAACTTTAATA
2384894 TTTTCTTC
1 TTTTCTTC
2384902 ATGATGCATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.30, C:0.26, G:0.01, T:0.42
Consensus pattern (36 bp):
TTTTCTTCTTCAAACCCCAAATTCAAAACTTTAATA
Found at i:2387389 original size:42 final size:41
Alignment explanation
Indices: 2387304--2387389 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 41
2387294 GTGGCATTTG
* * * *
2387304 TTCCCAAAAATGTCGCTTAATGTTCTGACATTTAGTAGCATT
1 TTCCCAAAAATGCCACTAAATGTTCTGACATTAAGTA-CATT
2387346 TTCCCAAAAATGCCACTAAATGTTCTGACATATAATGTA-ATT
1 TTCCCAAAAATGCCACTAAATGTTCTGACAT-TAA-GTACATT
2387388 TT
1 TT
2387390 TTTGTAGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 33 0.87
43 2 0.05
44 3 0.08
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (41 bp):
TTCCCAAAAATGCCACTAAATGTTCTGACATTAAGTACATT
Found at i:2387599 original size:21 final size:21
Alignment explanation
Indices: 2387575--2387615 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2387565 ATTATCCAAT
*
2387575 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
2387596 AAACTTGAAATCCATAACAA
1 AAACTTGAAATCCATAACAA
2387616 TAAATCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.24, G:0.05, T:0.20
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:2393967 original size:12 final size:11
Alignment explanation
Indices: 2393951--2394006 Score: 53
Period size: 10 Copynumber: 5.0 Consensus size: 11
2393941 TTAACTTTCC
2393951 TTTTTTATATA
1 TTTTTTATATA
*
2393962 TATTTTATAGTA
1 TTTTTTATA-TA
*
2393974 TTATTATTAT-TC
1 TT-TT-TTATATA
2393986 TTTTTTATAT-
1 TTTTTTATATA
2393996 TTTTTTATATA
1 TTTTTTATATA
2394007 CATGTGTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
10 14 0.38
11 11 0.30
12 6 0.16
13 2 0.05
14 4 0.11
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:2394038 original size:45 final size:44
Alignment explanation
Indices: 2393951--2394049 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 44
2393941 TTAACTTTCC
* *
2393951 TTTTTTATATATATTTTATAGTATTATTATTATTCTTTTTTATAT
1 TTTTTTATATACATTTTATAGTATTATTATTATTCTTATTTAT-T
2393996 TTTTTTATATACATGTGTTATTAGTATT-TTATTA-T-TTATTTATT
1 TTTTTTATATACAT-T-TTA-TAGTATTATTATTATTCTTATTTATT
*
2394040 TTATTTATAT
1 TTTTTTATAT
2394050 GTTAAATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
44 10 0.21
45 20 0.42
46 2 0.04
47 9 0.19
48 7 0.15
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (44 bp):
TTTTTTATATACATTTTATAGTATTATTATTATTCTTATTTATT
Found at i:2394228 original size:20 final size:20
Alignment explanation
Indices: 2394199--2394238 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2394189 TTACTTTTTA
*
2394199 TTTTATTATTTGATTTATTT
1 TTTTAGTATTTGATTTATTT
*
2394219 TTTTAGTATTTTATTTATTT
1 TTTTAGTATTTGATTTATTT
2394239 GCCTTTGTTT
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:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (20 bp):
TTTTAGTATTTGATTTATTT
Found at i:2406512 original size:20 final size:20
Alignment explanation
Indices: 2406489--2406531 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2406479 AATCCACCAC
*
2406489 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
2406509 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
2406529 ATG
1 ATG
2406532 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:2412626 original size:110 final size:110
Alignment explanation
Indices: 2412470--2412668 Score: 301
Period size: 110 Copynumber: 1.8 Consensus size: 110
2412460 ATTTTAAAAC
* * *
2412470 CAATTTCAACTTCACAACGAAGGATATTGGACCCAAGATAACACAAGCTCAACTTCAC-GACGAA
1 CAATTTCAACTCCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCACAG-CGAA
* *
2412534 GGGGCGGTTGATTGTCAACAAATAACTTTTCAATTTCATTCAGAGT
65 GGGGCGGCTGACTGTCAACAAATAACTTTTCAATTTCATTCAGAGT
** * *
2412580 CAATTTCAACTCCACAACGAAGGATATTAGACTTAAGACAGCACAAGCTCAACTTTACAGCGAAG
1 CAATTTCAACTCCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCACAGCGAAG
2412645 GGGCGGCTGACTGTCAACAAATAA
66 GGGCGGCTGACTGTCAACAAATAA
2412669 TTTCCCAGTT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
110 78 0.99
111 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (110 bp):
CAATTTCAACTCCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCACAGCGAAG
GGGCGGCTGACTGTCAACAAATAACTTTTCAATTTCATTCAGAGT
Found at i:2414625 original size:20 final size:20
Alignment explanation
Indices: 2414600--2414637 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2414590 CCTTTTTTTT
2414600 ATTTTAATTTTAACTTTCGG
1 ATTTTAATTTTAACTTTCGG
2414620 ATTTTAATTTTAACTTTC
1 ATTTTAATTTTAACTTTC
2414638 CTTTTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (20 bp):
ATTTTAATTTTAACTTTCGG
Found at i:2414927 original size:19 final size:19
Alignment explanation
Indices: 2414887--2414943 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
2414877 TTTATTTTAC
2414887 TTTTATT-TTTAATTT-TT
1 TTTTATTATTTAATTTATT
*
2414904 ATTTTATTATTTGATTTATT
1 -TTTTATTATTTAATTTATT
** *
2414924 TTTTCGTATTTTATTTATT
1 TTTTATTATTTAATTTATT
2414943 T
1 T
2414944 GCCTTTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 7 0.21
19 24 0.73
20 2 0.06
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTTATTATTTAATTTATT
Found at i:2415088 original size:14 final size:15
Alignment explanation
Indices: 2415059--2415095 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
2415049 TTGTTAGTTA
*
2415059 TTTATTTTTCTCTTC
1 TTTATTTTACTCTTC
2415074 TTTATTTTACT-TTC
1 TTTATTTTACTCTTC
2415088 TTTATTTT
1 TTTATTTT
2415096 CAATTTGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTACTCTTC
Found at i:2417325 original size:122 final size:123
Alignment explanation
Indices: 2417172--2417440 Score: 380
Period size: 122 Copynumber: 2.2 Consensus size: 123
2417162 TTTAGTGGCG
* * * * *
2417172 TTTGTTTCAAAAACGCCACTAAATAATGATTCTTTTGCGGTGTTTGTTTAGAAACACCACTAATG
1 TTTGTTT-AAAAACGCCACTAAAGAACGATTCTTTTGCGGCGTTTGTTTAGAAACACAACTAAAG
* *
2417237 TACTAGGTTTTAGCGGC-GTTTGTCTAAAAACGCCATAATATATGTA-CCTATTGCGCCA
65 TACTAGGTTTTAGCGGCACTTT-TCTAAAAACGCCACAATATATGTACCCTATTGCGCCA
**
2417295 TTTGTTTAAAAACGCCACTAAAGAACGATTCTTTTGCGGCGTTTGTTTAGAAATTCAACTAAAGT
1 TTTGTTTAAAAACGCCACTAAAGAACGATTCTTTTGCGGCGTTTGTTTAGAAACACAACTAAAGT
* * * *
2417360 ACTAGGTTTTAGTGGCACTTTTCTAAAAACGCCACAATATATGTACCCTATTGTGGCT
66 ACTAGGTTTTAGCGGCACTTTTCTAAAAACGCCACAATATATGTACCCTATTGCGCCA
*
2417418 TTTATTTAAAAACGCCACTAAAG
1 TTTGTTTAAAAACGCCACTAAAG
2417441 TACTTATATG
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
122 89 0.68
123 41 0.32
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (123 bp):
TTTGTTTAAAAACGCCACTAAAGAACGATTCTTTTGCGGCGTTTGTTTAGAAACACAACTAAAGT
ACTAGGTTTTAGCGGCACTTTTCTAAAAACGCCACAATATATGTACCCTATTGCGCCA
Found at i:2417341 original size:41 final size:41
Alignment explanation
Indices: 2417168--2417343 Score: 135
Period size: 41 Copynumber: 4.3 Consensus size: 41
2417158 TAAATTTAGT
* *
2417168 GGCGTTTGTTTCAAAAACGCCACTAAATAATGATTCTTTTGC
1 GGCGTTTGTTT-AAAAACGCCACTAAAGAACGATTCTTTTGC
* * * * * * * *
2417210 GGTGTTTGTTTAGAAACACCACTAATGTACTAGGT-TTTAGC
1 GGCGTTTGTTTAAAAACGCCACTAAAGAACGA-TTCTTTTGC
* * * * *
2417251 GGCGTTTGTCTAAAAACGCCA-TAATA-TATG-TACCTATTGC
1 GGCGTTTGTTTAAAAACGCCACTAA-AGAACGAT-TCTTTTGC
* *
2417291 GCCATTTGTTTAAAAACGCCACTAAAGAACGATTCTTTTGC
1 GGCGTTTGTTTAAAAACGCCACTAAAGAACGATTCTTTTGC
2417332 GGCGTTTGTTTA
1 GGCGTTTGTTTA
2417344 GAAATTCAAC
Statistics
Matches: 97, Mismatches: 30, Indels: 15
0.68 0.21 0.11
Matches are distributed among these distances:
40 28 0.29
41 57 0.59
42 12 0.12
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (41 bp):
GGCGTTTGTTTAAAAACGCCACTAAAGAACGATTCTTTTGC
Found at i:2417493 original size:123 final size:121
Alignment explanation
Indices: 2417180--2417498 Score: 302
Period size: 122 Copynumber: 2.6 Consensus size: 121
2417170 CGTTTGTTTC
* * * * ** ** *
2417180 AAAAACGCCACTAAATAATGATTCTTTTGCGGTGTTTGTTTAGAAACACCACTAATGTACTAGGT
1 AAAAACGCCACTAAAGAA-CATTATTCTGCGACGTTTGTAAAGAAACACCACTAAAGTACTAGGT
* * *
2417245 TTTAGCGGCGTTTGTCTAAAAACGCCATAATATATGTACCTATTGCGCCATTTGTTT
65 TTTAGCGGCCTTTGTCTAAAAACGCCACAATATATGTACCTATTGCGCCATTTATTT
* * * ** ** *
2417302 AAAAACGCCACTAAAGAACGATTCTTTTGCGGCGTTTGTTTAGAAATTCAACTAAAGTACTAGGT
1 AAAAACGCCACTAAAGAAC-ATTATTCTGCGACGTTTGTAAAGAAACACCACTAAAGTACTAGGT
* * * *
2417367 TTTAGTGGCACTTT-TCTAAAAACGCCACAATATATGTACCCTATTGTGGCTTTTATTT
65 TTTAGCGGC-CTTTGTCTAAAAACGCCACAATATATGTA-CCTATTGCGCCATTTATTT
* * * *
2417425 AAAAACGCCACTAAAGTAC-TTATATGCTGCGACGTTTGTGAAATAAACACCGCTAAAGTACGA-
1 AAAAACGCCACTAAAGAACATTAT-T-CTGCGACGTTTGT-AAAGAAACACCACTAAAGTACTAG
2417488 GTTTTAGCGGC
63 GTTTTAGCGGC
2417499 GTTTATGGAA
Statistics
Matches: 164, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
121 3 0.02
122 89 0.54
123 57 0.35
124 15 0.09
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (121 bp):
AAAAACGCCACTAAAGAACATTATTCTGCGACGTTTGTAAAGAAACACCACTAAAGTACTAGGTT
TTAGCGGCCTTTGTCTAAAAACGCCACAATATATGTACCTATTGCGCCATTTATTT
Found at i:2419749 original size:16 final size:17
Alignment explanation
Indices: 2419724--2419762 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2419714 TACATGAACC
2419724 AAAA-TATATTAAA-AT
1 AAAATTATATTAAATAT
2419739 AAAATTATATTAAATAT
1 AAAATTATATTAAATAT
2419756 ATAAATT
1 A-AAATT
2419763 TTAACAGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 9 0.43
17 3 0.14
18 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTATATTAAATAT
Found at i:2419935 original size:2 final size:2
Alignment explanation
Indices: 2419930--2419960 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2419920 CTCCACATTG
*
2419930 AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2419961 CTCTCTCTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2424707 original size:58 final size:58
Alignment explanation
Indices: 2424597--2424772 Score: 239
Period size: 58 Copynumber: 3.0 Consensus size: 58
2424587 ATACTTATTT
* * *
2424597 TAAATTGGTCCTTAAATTTTTGAATATTTCAATTCATCCCCAAATTACGACTCTCATTA
1 TAAATTAGTCCTTAAATTTTT-AATATTTCAATTCATCCCCAAACTATGACTCTCATTA
* *
2424656 TAAATTAGTCCTTAAATTTTTAATATTTCAATTCATCCCAAAAGTATGACTCTCATTA
1 TAAATTAGTCCTTAAATTTTTAATATTTCAATTCATCCCCAAACTATGACTCTCATTA
*
2424714 TAAATTAGTCCTTACAATTTTAAATA-TTCTAATTTCATCCCCAAACTATGA-TCTTCATT
1 TAAATTAGTCCTTA-AATTTTTAATATTTC-AA-TTCATCCCCAAACTATGACTC-TCATT
2424773 TTTAAATTGG
Statistics
Matches: 106, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
58 51 0.48
59 34 0.32
60 21 0.20
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.41
Consensus pattern (58 bp):
TAAATTAGTCCTTAAATTTTTAATATTTCAATTCATCCCCAAACTATGACTCTCATTA
Found at i:2425034 original size:60 final size:60
Alignment explanation
Indices: 2424953--2425068 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 60
2424943 TTTTTATGAA
* * *
2424953 ATTGAAATGTTCAAAAAGTTTAAGGACTAATTTAGAATGAAATTCATAGTTTGAAGATGGG
1 ATTGAAATGTTCAAAAAGTTTAAGGACTAATTTAGAATAAAAATCATAATTT-AAGATGGG
*
2425014 ATTGAAATGTTC-AAAAGTTTAAGGATTAATTTAGAATAAAAATCATAATTTAAGA
1 ATTGAAATGTTCAAAAAGTTTAAGGACTAATTTAGAATAAAAATCATAATTTAAGA
2425069 ATAAAATTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 4 0.08
60 35 0.69
61 12 0.24
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (60 bp):
ATTGAAATGTTCAAAAAGTTTAAGGACTAATTTAGAATAAAAATCATAATTTAAGATGGG
Found at i:2425078 original size:60 final size:61
Alignment explanation
Indices: 2424951--2425081 Score: 176
Period size: 60 Copynumber: 2.2 Consensus size: 61
2424941 GTTTTTTATG
* * * *
2424951 AAATTGAAATGTTCAAAAAGTTTAAGGACTAATTTAGAATGAAATTCATAGTTTGAAGATG
1 AAATTGAAATGTTCAAAAAGTTTAAGGACTAATTTAGAATAAAAATCATAATTTGAAGATA
** *
2425012 GGATTGAAATGTTC-AAAAGTTTAAGGATTAATTTAGAATAAAAATCATAATTT-AAGAATA
1 AAATTGAAATGTTCAAAAAGTTTAAGGACTAATTTAGAATAAAAATCATAATTTGAAG-ATA
2425072 AAATTGAAAT
1 AAATTGAAAT
2425082 ATTTAATAGA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
59 3 0.05
60 45 0.75
61 12 0.20
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (61 bp):
AAATTGAAATGTTCAAAAAGTTTAAGGACTAATTTAGAATAAAAATCATAATTTGAAGATA
Found at i:2426120 original size:24 final size:24
Alignment explanation
Indices: 2426088--2426137 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
2426078 TGCAGGTGTA
2426088 TGTACATTATCGATGGGTAGTGAG
1 TGTACATTATCGATGGGTAGTGAG
2426112 TGTACATTATCGATGGGTAGTGAG
1 TGTACATTATCGATGGGTAGTGAG
2426136 TG
1 TG
2426138 GGACCAAATT
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:0.24, C:0.08, G:0.34, T:0.34
Consensus pattern (24 bp):
TGTACATTATCGATGGGTAGTGAG
Found at i:2426679 original size:18 final size:18
Alignment explanation
Indices: 2426656--2426720 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 18
2426646 GCAAATGTAT
2426656 ATATTATTAATAAAATTA
1 ATATTATTAATAAAATTA
2426674 ATATTATATATATACTAAAAATGTA
1 ATA-T-TAT-TA-A-T-AAAAT-TA
2426699 CATATTATTAATAAAATTA
1 -ATATTATTAATAAAATTA
2426718 ATA
1 ATA
2426721 AATCCTTGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
18 6 0.15
19 3 0.08
20 8 0.21
21 3 0.08
22 2 0.05
23 3 0.08
24 8 0.21
25 3 0.08
26 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (18 bp):
ATATTATTAATAAAATTA
Found at i:2430032 original size:36 final size:37
Alignment explanation
Indices: 2429976--2430046 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
2429966 TGTTATATTG
* * * *
2429976 ATATTTTTTTAATCGGGGAGCCGCTTTTTTACAATCA
1 ATATTTTTTGAATCGAGGAGCCCCCTTTTTACAATCA
2430013 ATATTTTTTGAAT-GAGGAGCCCCCTTTTTACAAT
1 ATATTTTTTGAATCGAGGAGCCCCCTTTTTACAAT
2430047 TTGTTGTGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 18 0.60
37 12 0.40
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (37 bp):
ATATTTTTTGAATCGAGGAGCCCCCTTTTTACAATCA
Found at i:2430422 original size:3 final size:3
Alignment explanation
Indices: 2430414--2430472 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
2430404 AAATGTATAC
2430414 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2430462 TAA TAA TAA TA
1 TAA TAA TAA TA
2430473 TATGTAACCC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2431365 original size:203 final size:203
Alignment explanation
Indices: 2430724--2431412 Score: 910
Period size: 203 Copynumber: 3.4 Consensus size: 203
2430714 CCTTCTTTTT
** * * * * **
2430724 TGATGGAATCGAGAAAAGATTGAGA-AAATTATTCTCATTATGAATTTCTTCTCCCTCATTGGAT
1 TGATGGAATCGAGCTAAGGTTGA-ACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAGAT
* * * * * *
2430788 GAGTTCTTCTTATTATGAACTCTCCATTGAAAATGTTGATTCA-CTTCCTTCAGTGATGGAATTG
65 GAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTT-CTTCTGTGATGGAATCG
* * * * *
2430852 AAC-AA---A-G-TGATGATCCCACTCTATTTGCGATGGATAAGCCAAGTGTTAGTGTTGTTCCA
129 AACAAAGTGATGATGATGATCCAACTCCATTTGCGATGGATGAGCCAAGTATTGGTGTTGTTCCA
*
2430911 ACTACTTATG
194 ACTCCTTATG
* *
2430921 TGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATG
1 TGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAGATG
* * * * * *
2430986 AGTTCTTCTCATAATGAACTCTCCACTGGAAATGTAGATCCACCTCCTTCTTATGATGAAATCAA
66 AGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTTCTTC-TGTGATGGAATCGA
* * *
2431051 ACAAAGTGATGATG-TAGATCCAACTCCATTTGTGATGGAGGATCCAAGTATTGGTGTTGTTCCA
130 ACAAAGTGATGATGAT-GATCCAACTCCATTTGCGATGGATGAGCCAAGTATTGGTGTTGTTCCA
*
2431115 ACTCCTTATA
194 ACTCCTTATG
* *
2431125 TGATGGAATTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAGATA
1 TGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAGATG
* * *
2431190 AGTTCTTCTCATTAGGAACTCTCTACTGGAAATGTTGATCCACCTTATTCTGTGATGGAATCGAA
66 AGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTTCTTCTGTGATGGAATCGAA
*
2431255 CAAAGTGATGATGATGATCCAACTCCATATGCGATGGATGAGCCAAGTATTGGTGTTGTTCCAAC
131 CAAAGTGATGATGATGATCCAACTCCATTTGCGATGGATGAGCCAAGTATTGGTGTTGTTCCAAC
2431320 TCCTTATG
196 TCCTTATG
* * *
2431328 TGATGAAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCAGACG
1 TGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAGATG
2431393 AGTTCTTCTCATTATGAACT
66 AGTTCTTCTCATTATGAACT
2431413 TATTCTCCCT
Statistics
Matches: 427, Mismatches: 54, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
196 1 0.00
197 95 0.22
198 13 0.03
199 2 0.00
202 1 0.00
203 159 0.37
204 156 0.37
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (203 bp):
TGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAGATG
AGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTTCTTCTGTGATGGAATCGAA
CAAAGTGATGATGATGATCCAACTCCATTTGCGATGGATGAGCCAAGTATTGGTGTTGTTCCAAC
TCCTTATG
Found at i:2431397 original size:39 final size:39
Alignment explanation
Indices: 2431354--2431451 Score: 178
Period size: 39 Copynumber: 2.5 Consensus size: 39
2431344 AGGTTGAACA
2431354 AGTTCTTCTCATTATGAACTTATTCTCCCTCATCAGACG
1 AGTTCTTCTCATTATGAACTTATTCTCCCTCATCAGACG
*
2431393 AGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGACG
1 AGTTCTTCTCATTATGAACTTATTCTCCCTCATCAGACG
*
2431432 AGTTCTTCTCATTATAAACT
1 AGTTCTTCTCATTATGAACT
2431452 CTCCACTGGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.40
Consensus pattern (39 bp):
AGTTCTTCTCATTATGAACTTATTCTCCCTCATCAGACG
Found at i:2433256 original size:53 final size:52
Alignment explanation
Indices: 2433191--2433343 Score: 191
Period size: 54 Copynumber: 2.8 Consensus size: 52
2433181 ATCATCAATA
*
2433191 AAACCCTAAAAATTAGGCTTAGCTTATTTAAAAATT-ATTTGAATACATCAAG
1 AAACCCT-AAAATTAGGCTTAGCTTATTTAAAAATTCATTTGAAAACATCAAG
* * *
2433243 AAACCCATGAAAATTAGGCTTAGCTTCTTTCAAAATTCCTTTGAAAACATCAAG
1 AAACCC-T-AAAATTAGGCTTAGCTTATTTAAAAATTCATTTGAAAACATCAAG
* *
2433297 AAACCCCTAAATATTAGGCTTAGCTTCTTTTAAAAATTCTTTTGAAA
1 AAA-CCCTAAA-ATTAGGCTTAGCTT-ATTTAAAAATTCATTTGAAA
2433344 CACCATGTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
52 6 0.07
53 30 0.34
54 32 0.36
55 20 0.23
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (52 bp):
AAACCCTAAAATTAGGCTTAGCTTATTTAAAAATTCATTTGAAAACATCAAG
Found at i:2433313 original size:54 final size:53
Alignment explanation
Indices: 2433183--2433343 Score: 207
Period size: 53 Copynumber: 3.0 Consensus size: 53
2433173 TTACAGTTAT
* * * *
2433183 CATCAATAAAACCCTAAAAATTAGGCTTAGCTTATTTAAAAATT-ATTTGAATA
1 CATCAAGAAACCCCT-AAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAA
* * *
2433236 CATCAAGAAACCCATGAAAATTAGGCTTAGCTTCTTTCAAAATTCCTTTGAAAA
1 CATCAAGAAACCCCT-AAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAA
*
2433290 CATCAAGAAACCCCTAAATATTAGGCTTAGCTTCTTTTAAAAATTCTTTTGAAA
1 CATCAAGAAACCCCTAAA-ATTAGGCTTAGCTTC-TTTAAAAATTCATTTGAAA
2433344 CACCATGTTA
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 41 0.44
54 36 0.38
55 17 0.18
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.33
Consensus pattern (53 bp):
CATCAAGAAACCCCTAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAA
Found at i:2435567 original size:22 final size:21
Alignment explanation
Indices: 2435546--2435635 Score: 85
Period size: 22 Copynumber: 4.2 Consensus size: 21
2435536 GAAGTTTTTC
*
2435546 CTTTTTTCTTTTATTTTCTTT
1 CTTTTCTCTTTTATTTTCTTT
*
2435567 CTTTTCTCTCTCTATTTTCTTT
1 CTTTTCTCT-TTTATTTTCTTT
*
2435589 CTTTTCTCTTCTTTTTTTCTTT
1 CTTTTCTCTT-TTATTTTCTTT
* * *
2435611 -TATCTCTTTTTTATGTT-TTT
1 CT-TTTCTCTTTTATTTTCTTT
2435631 CTTTT
1 CTTTT
2435636 TTTCTATATC
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
20 5 0.09
21 16 0.29
22 35 0.62
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (21 bp):
CTTTTCTCTTTTATTTTCTTT
Found at i:2435585 original size:40 final size:40
Alignment explanation
Indices: 2435541--2435617 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
2435531 ATCTTGAAGT
* *
2435541 TTTTCCTT-TTTTCTTTTATTTTCTTTCTTTTCTCTCTCTA
1 TTTTCCTTCTTTTCTCTTATTTT-TTTCTTTTATCTCTCTA
* *
2435581 TTTTCTTTCTTTTCTCTTCTTTTTTTCTTTTATCTCT
1 TTTTCCTTCTTTTCTCTTATTTTTTTCTTTTATCTCT
2435618 TTTTTATGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (40 bp):
TTTTCCTTCTTTTCTCTTATTTTTTTCTTTTATCTCTCTA
Found at i:2435621 original size:18 final size:18
Alignment explanation
Indices: 2435547--2435622 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 18
2435537 AAGTTTTTCC
*
2435547 TTTTTTCTTTTATTTTCTT
1 TTTTTTCTTTTA-TCTCTT
* * * *
2435566 TCTTTTC-TCTCTCTATT
1 TTTTTTCTTTTATCTCTT
* *
2435583 TTCTTTCTTTTCTCT-TCT
1 TTTTTTCTTTTATCTCT-T
2435601 TTTTTTCTTTTATCTCTT
1 TTTTTTCTTTTATCTCTT
2435619 TTTT
1 TTTT
2435623 ATGTTTTTCT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
17 10 0.23
18 27 0.61
19 7 0.16
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTCTTTTATCTCTT
Found at i:2435648 original size:46 final size:46
Alignment explanation
Indices: 2435581--2435670 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
2435571 TCTCTCTCTA
* * *
2435581 TTTTCTTTCTTTTCTCTTCTTT-TTTTCTTTTATCTCTTTTTTATGT
1 TTTTCTTTCTTTTCTATTCTTTCATTT-TTTTATCTCTGTTTTATGT
*
2435627 TTTTCTTT-TTTTCTATATCTTTCATTTTTTTCTCTCTGTTTTAT
1 TTTTCTTTCTTTTCTAT-TCTTTCATTTTTTTATCTCTGTTTTAT
2435671 CAACTTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 7 0.18
46 28 0.74
47 3 0.08
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (46 bp):
TTTTCTTTCTTTTCTATTCTTTCATTTTTTTATCTCTGTTTTATGT
Found at i:2438346 original size:9 final size:9
Alignment explanation
Indices: 2438332--2438384 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
2438322 TTCGTCCTAC
2438332 TATCATTAT
1 TATCATTAT
2438341 TATCATTAT
1 TATCATTAT
* * *
2438350 CATTATAAT
1 TATCATTAT
* *
2438359 TATAATTAA
1 TATCATTAT
2438368 TATCATTAT
1 TATCATTAT
*
2438377 TATTATTA
1 TATCATTA
2438385 ATATTAATAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.53
Consensus pattern (9 bp):
TATCATTAT
Found at i:2438352 original size:15 final size:15
Alignment explanation
Indices: 2438332--2438384 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
2438322 TTCGTCCTAC
2438332 TATCATTATTATCAT
1 TATCATTATTATCAT
2438347 TATCATTA-TA--AT
1 TATCATTATTATCAT
* *
2438359 TATAATTAATATCAT
1 TATCATTATTATCAT
*
2438374 TATTATTATTA
1 TATCATTATTA
2438385 ATATTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 9 0.28
13 2 0.06
14 2 0.06
15 19 0.59
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.53
Consensus pattern (15 bp):
TATCATTATTATCAT
Found at i:2438378 original size:18 final size:18
Alignment explanation
Indices: 2438332--2438388 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
2438322 TTCGTCCTAC
*
2438332 TATCATTATTATCATT-A
1 TATCATTATTATAATTAA
* *
2438349 TCATTATAATTATAATTAA
1 T-ATCATTATTATAATTAA
*
2438368 TATCATTATTATTATTAA
1 TATCATTATTATAATTAA
2438386 TAT
1 TAT
2438389 TAATATAAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 1 0.03
18 29 0.91
19 2 0.06
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
TATCATTATTATAATTAA
Found at i:2447443 original size:889 final size:889
Alignment explanation
Indices: 2445685--2447466 Score: 3323
Period size: 889 Copynumber: 2.0 Consensus size: 889
2445675 ACAATTAAAT
2445685 ATCAAGGAAATTTGTTACAAAGCCAAGCAACACTTTTGCAAAGCCATAGTTCATCTCTCATAGCG
1 ATCAAGGAAATTTGTTACAAAGCCAAGCAACACTTTTGCAAAGCCATAGTTCATCTCTCATAGCG
* *
2445750 TTGGAGATTCAAGTGGGATAAATTGGTATGGCATTACATTCTCGTCCACATGGAAATCACCCTAG
66 TTGGAGATTCAAGTGGGATAAATTGCTATGGCATTACATTCTCGCCCACATGGAAATCACCCTAG
*
2445815 TGATACTGAAGTCACTAAGCACCATGGGAAGGAGCAATGAATGTACTTACGCTAAGGAATGCAAA
131 TGATACTGAAGTCACTAAGCACCATGGGAAGGAGCAATGAATGTACTTAAGCTAAGGAATGCAAA
* * *
2445880 ACATGTTTACCAAGATGACAAGTTTAGGGGAGAACAACTAAACAATCCTTGCCAAGGCGTAACAC
196 ACAAGTCTACCAAGATGACAAGTTTAGGGGAGAACAACTAAACAATCCTTGCCAAGGCGTAAAAC
2445945 AACTGGATAATCAATCTGAGAATGTTGAACGAGAGAAAGTGCCTGAAGAGAAGGAAAGAAGTGAA
261 AACTGGATAATCAATCTGAGAATGTTGAACGAGAGAAAGTGCCTGAAGAGAAGGAAAGAAGTGAA
2446010 AGATCAGAAGAGCATCAACCGAATAACAAGAAAGTCATGGTCAAGGCCAGAGATTTCTCAGCACC
326 AGATCAGAAGAGCATCAACCGAATAACAAGAAAGTCATGGTCAAGGCCAGAGATTTCTCAGCACC
*
2446075 ATCAACAGTCGATGTGAGACCTCCACCACCGTTTCCTCAACGGTTGAAGAAGCATGATGATGAAA
391 ATCAACAGTCGATGTGAGACCTCCACCACCGTTCCCTCAACGGTTGAAGAAGCATGATGATGAAA
2446140 TCCAGTTCAAGAAATTTGTTGATGTTCTGGATCAGTTGTGTATTAATGTGCCTTTACTTGAAGCC
456 TCCAGTTCAAGAAATTTGTTGATGTTCTGGATCAGTTGTGTATTAATGTGCCTTTACTTGAAGCC
* *
2446205 ATCGAGCAAATGCCTTCCTATTCCAAGTATCTTAAGGAAATTGTTACAAAGAAAAGGAAGGTAGA
521 ATCGAGCAAATGCCTTCCTATGCCAAGTATCTTAAGGAAATTGTTACAAAGAAAAGAAAGGTAGA
2446270 ACGTGTCACCACGACAACAGAAATCTGCTCAGCAGTGAGCAAACTCCCACCAAAGAAAAAAAAAC
586 ACGTGTCACCACGACAACAGAAATCTGCTCAGCAGTGAGCAAACTCCCACCAAAGAAAAAAAAAC
2446335 CCTGGAAGCTTTATAATACCAAACTCAATTGGTAATGACTTCATAGGACGAGCTCTTTTTGATTT
651 CCTGGAAGCTTTATAATACCAAACTCAATTGGTAATGACTTCATAGGACGAGCTCTTTTTGATTT
*
2446400 GGGATCAAGTGTAAACTTGATACCAAAGTCCATATTTATGAAACTAGACGGGTATCACGCCAATC
716 GGGATCAAGTGAAAACTTGATACCAAAGTCCATATTTATGAAACTAGACGGGTATCACGCCAATC
2446465 CCACCTCGGTCATCCTACAGTTGGCTGATCAGTCTTATGTGCGACCCGATGGTAAAACAGAAGAC
781 CCACCTCGGTCATCCTACAGTTGGCTGATCAGTCTTATGTGCGACCCGATGGTAAAACAGAAGAC
2446530 GTCTTAGTAAAGGTGGACAATTCATATTTCCAGTAGATTTTTTC
846 GTCTTAGTAAAGGTGGACAATTCATATTTCCAGTAGATTTTTTC
2446574 ATCAAGGAAATTTGTTACAAAGCCAAGCAACACTTTTGCAAAGCCATAGTTCATCTCTCATAGCG
1 ATCAAGGAAATTTGTTACAAAGCCAAGCAACACTTTTGCAAAGCCATAGTTCATCTCTCATAGCG
* *
2446639 TTGGAGATTCAATTGGGATAAATTGCTATGGCATTACATTCTCGCCCACATGGAAATCTCCCTAG
66 TTGGAGATTCAAGTGGGATAAATTGCTATGGCATTACATTCTCGCCCACATGGAAATCACCCTAG
*
2446704 TGATACTGAAGTCACTAAGCACCATGGGAAGGAGCAATGAATGTACTTAAGCTAAGGAATGGAAA
131 TGATACTGAAGTCACTAAGCACCATGGGAAGGAGCAATGAATGTACTTAAGCTAAGGAATGCAAA
2446769 ACAAGTCTACCAAGATGACAAGTTTAGGGGAGAACAACTAAACAATCCTTGCCAAGGCGTAAAAC
196 ACAAGTCTACCAAGATGACAAGTTTAGGGGAGAACAACTAAACAATCCTTGCCAAGGCGTAAAAC
* *
2446834 AATTGGATAATCAATCTGAGAATGTTGAACGAGAGAAAGTGCCTGAAGAGAATGAAAGAAGTGAA
261 AACTGGATAATCAATCTGAGAATGTTGAACGAGAGAAAGTGCCTGAAGAGAAGGAAAGAAGTGAA
*
2446899 AGATCAGAAGAGCATCAACCGAATAACAAGAAAGTCGTGGTCAAGGCCAGAGATTTCTCAGCACC
326 AGATCAGAAGAGCATCAACCGAATAACAAGAAAGTCATGGTCAAGGCCAGAGATTTCTCAGCACC
2446964 ATCAACAGTCGATGTGAGACCTCCACCACCGTTCCCTCAACGGTTGAAGAAGCATGATGATGAAA
391 ATCAACAGTCGATGTGAGACCTCCACCACCGTTCCCTCAACGGTTGAAGAAGCATGATGATGAAA
*
2447029 TCCAGTTCAAGAAATTTGTTGATGTTCTGGATCAGTTGTGTATTAATGTTCCTTTACTTGAAGCC
456 TCCAGTTCAAGAAATTTGTTGATGTTCTGGATCAGTTGTGTATTAATGTGCCTTTACTTGAAGCC
*
2447094 ATCGAGCACATGCCTTCCTATGCCAAGTATCTTAAGGAAATTGTTACAAAGAAAAGAAAGGTAGA
521 ATCGAGCAAATGCCTTCCTATGCCAAGTATCTTAAGGAAATTGTTACAAAGAAAAGAAAGGTAGA
* *
2447159 ACGTGTCACCGCGACAACAGAAATCTGCTCAGCAGTGAGCAAACTGCCACCAAAG-AAAAAAAAC
586 ACGTGTCACCACGACAACAGAAATCTGCTCAGCAGTGAGCAAACTCCCACCAAAGAAAAAAAAAC
** *
2447223 CCTGGAAGCTTTATAATACCATGCTCAATTGGTAATGACTTTATAGGACGAGCTCTTTTTGATTT
651 CCTGGAAGCTTTATAATACCAAACTCAATTGGTAATGACTTCATAGGACGAGCTCTTTTTGATTT
2447288 GGGATCAAGTGAAAACTTGATACCAAAGTCCATATTTATGAAACTAGACGGGTATCACGCCAATC
716 GGGATCAAGTGAAAACTTGATACCAAAGTCCATATTTATGAAACTAGACGGGTATCACGCCAATC
* *
2447353 CCACCTCGTTCATCCTACAGTTGGCTGATCGGTCTTATGTGCGACCCGATGGTAAAACAGAAGAC
781 CCACCTCGGTCATCCTACAGTTGGCTGATCAGTCTTATGTGCGACCCGATGGTAAAACAGAAGAC
2447418 GTCTTAGTAAAGGTGGACAAATTCATATTTCCAGTAGATTTTTTC
846 GTCTTAGTAAAGGTGGAC-AATTCATATTTCCAGTAGATTTTTTC
2447463 ATCA
1 ATCA
2447467 TGGATTGCGA
Statistics
Matches: 867, Mismatches: 25, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
888 216 0.25
889 651 0.75
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (889 bp):
ATCAAGGAAATTTGTTACAAAGCCAAGCAACACTTTTGCAAAGCCATAGTTCATCTCTCATAGCG
TTGGAGATTCAAGTGGGATAAATTGCTATGGCATTACATTCTCGCCCACATGGAAATCACCCTAG
TGATACTGAAGTCACTAAGCACCATGGGAAGGAGCAATGAATGTACTTAAGCTAAGGAATGCAAA
ACAAGTCTACCAAGATGACAAGTTTAGGGGAGAACAACTAAACAATCCTTGCCAAGGCGTAAAAC
AACTGGATAATCAATCTGAGAATGTTGAACGAGAGAAAGTGCCTGAAGAGAAGGAAAGAAGTGAA
AGATCAGAAGAGCATCAACCGAATAACAAGAAAGTCATGGTCAAGGCCAGAGATTTCTCAGCACC
ATCAACAGTCGATGTGAGACCTCCACCACCGTTCCCTCAACGGTTGAAGAAGCATGATGATGAAA
TCCAGTTCAAGAAATTTGTTGATGTTCTGGATCAGTTGTGTATTAATGTGCCTTTACTTGAAGCC
ATCGAGCAAATGCCTTCCTATGCCAAGTATCTTAAGGAAATTGTTACAAAGAAAAGAAAGGTAGA
ACGTGTCACCACGACAACAGAAATCTGCTCAGCAGTGAGCAAACTCCCACCAAAGAAAAAAAAAC
CCTGGAAGCTTTATAATACCAAACTCAATTGGTAATGACTTCATAGGACGAGCTCTTTTTGATTT
GGGATCAAGTGAAAACTTGATACCAAAGTCCATATTTATGAAACTAGACGGGTATCACGCCAATC
CCACCTCGGTCATCCTACAGTTGGCTGATCAGTCTTATGTGCGACCCGATGGTAAAACAGAAGAC
GTCTTAGTAAAGGTGGACAATTCATATTTCCAGTAGATTTTTTC
Found at i:2447987 original size:18 final size:19
Alignment explanation
Indices: 2447952--2447988 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2447942 CACGGAATGT
2447952 AAGATTACCAGCGGGAATAA
1 AAGATTACCA-CGGGAATAA
2447972 AAGATTACCA-GGGAATA
1 AAGATTACCACGGGAATA
2447989 TGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.14, G:0.24, T:0.16
Consensus pattern (19 bp):
AAGATTACCACGGGAATAA
Found at i:2451119 original size:15 final size:15
Alignment explanation
Indices: 2451099--2451127 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2451089 CTTGGTCACA
2451099 ACTCTTTAGTATCCT
1 ACTCTTTAGTATCCT
2451114 ACTCTTTAGTATCC
1 ACTCTTTAGTATCC
2451128 ATTTGTTGAT
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:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (15 bp):
ACTCTTTAGTATCCT
Found at i:2451260 original size:30 final size:30
Alignment explanation
Indices: 2451224--2451283 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
2451214 TTCTTTCGTG
2451224 ATTTTATCTATTTCTTACAGTTCAACTAAT
1 ATTTTATCTATTTCTTACAGTTCAACTAAT
*
2451254 ATTTTATCTATTTCTTACAGTTCAATTAAT
1 ATTTTATCTATTTCTTACAGTTCAACTAAT
2451284 TTTCTGCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (30 bp):
ATTTTATCTATTTCTTACAGTTCAACTAAT
Found at i:2459198 original size:18 final size:18
Alignment explanation
Indices: 2459177--2459213 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2459167 TCCTACTTGT
2459177 CGTGGCATTTCTCCATGA
1 CGTGGCATTTCTCCATGA
2459195 CGTGGCATTTCTCCATGA
1 CGTGGCATTTCTCCATGA
2459213 C
1 C
2459214 AAGCTTGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.30, G:0.22, T:0.32
Consensus pattern (18 bp):
CGTGGCATTTCTCCATGA
Found at i:2474656 original size:14 final size:14
Alignment explanation
Indices: 2474639--2474686 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
2474629 TCTTTTTGAA
2474639 CTTCTTTTTCTTTT
1 CTTCTTTTTCTTTT
2474653 CTTC-TTTTC-TTT
1 CTTCTTTTTCTTTT
*
2474665 -TTCTGATTT-TTTT
1 CTTCT-TTTTCTTTT
2474678 CTTCTTTTT
1 CTTCTTTTT
2474687 GTCTTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
11 3 0.11
12 3 0.11
13 14 0.50
14 8 0.29
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (14 bp):
CTTCTTTTTCTTTT
Found at i:2479796 original size:134 final size:134
Alignment explanation
Indices: 2479491--2482635 Score: 2743
Period size: 134 Copynumber: 23.6 Consensus size: 134
2479481 TTTAATTTTT
* * * * *
2479491 AGATTTGATATTCTCTGAGTGACAGTGGAACAAGTTTG-CTTGATTCAAACTTCCTTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * * * *
2479555 GTGGAATGGATC-CACTCTCTAAGATCTGATATTCCCTTCAGAAGAAGAAGAATAACATATCCCT
66 GTGGAATGGATCAAACTCCCCAA-ATCTGATATTCCCTCCAGAAGAAG-CG-A-AACATATCCCT
2479619 CTCTTTCA
127 CTCTTTCA
* * * * * * * * *
2479627 GGATTTGATATTCCATGAGTTACAATAGAACAAGTCTGCCTCTATTCAATATTCCTTGAGTGATA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * *
2479692 ATGAAATGGATCAAAATCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCTCT
66 GTGGAATGGATCAAACTCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCTCT
2479757 TTCA
131 TTCA
* *
2479761 AGATTCGATATTCCCTGAGTGACAGTGGAACAAGTCAT-CCTTGATTCAATCTTCCCTGAGTGAC
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTC-TGCCTCGATTCAATCTTCCCTGAGTGAC
* * * * * * * *
2479825 AGTGGAATAGATC-AACTCCCCTAGATTTAATATTCCCTCTAGAAGAAGCGGAACAGATCCATCT
65 AGTGGAATGGATCAAACTCCCC-AAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCT
2479889 CTTTCA
129 CTTTCA
* * ** * *
2479895 TGATTTGATATTCCCTGAGTGATAGTGGAACAAGTCCACCTTGATTCAATCTTCCCTGAGTGAAA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * * *
2479960 ATGGAATGGATC-AACTACCTCAAATTTGATATTCCCTCCAGAAGAAGC-AGAACAAAT-CCT-T
66 GTGGAATGGATCAAACT-CCCCAAATCTGATATTCCCTCCAGAAGAAGCGA-AACATATCCCTCT
2480021 CTTTCA
129 CTTTCA
* * * * * * * * *
2480027 AGATTTGATATTCCTTGAGTGACATTGGAACAAGTTTACCTTGATTCAATATTTCCTGAATGAAA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * * * * * *
2480092 GTGGAATGGATCAACCTCCATCACATCTGATTTTCCCTCCAGAATAAGTGGAAA-AAATCCCTCT
66 GTGGAATGGATCAAACTCC-CCAAATCTGATATTCCCTCCAGAAGAAG-CGAAACATATCCCTCT
2480156 CTTTCA
129 CTTTCA
* * * * *
2480162 AGATTTGATATTCCCTGAGTGACACTAGAACAAATATGCCTCGATTCAATCTTCCCTGAGTGATA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * * * *
2480227 GTGAAATGGATC-AACTCCCTCAAATATGATATTCCCTCCAGAAAAAGCGGAACAAATCCCTCTC
66 GTGGAATGGATCAAACTCCC-CAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCTC
2480291 TTTCA
130 TTTCA
* * * * *
2480296 AGATTTAATATTCCCTGAGTGACAATGGAACAAGTCTTCTTCGATTCAATCTTCCCTAAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
*** ** * *** * *
2480361 ACAGAATGGATC-AACTCCCTCCGATCTGATATTCCCTCTAGAAGAAGATTAACAGATCCCTCTT
66 GTGGAATGGATCAAACTCCC-CAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCTC
*
2480425 TTTTA
130 TTTCA
* * * * *
2480430 AGATTTGATATTCTCTGAGTAACAATAGAACAAGTCTGTCTCGATTCAATCTTCCCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * * * * * * * * *
2480495 GTGGGATGGATCAACCTCCCTCATATAT-ATTTTTCCCT-CAAAAAAAGTGGAACAGATCCCTCT
66 GTGGAATGGATCAAACTCCC-CAAATCTGA-TATTCCCTCCAGAAGAAGCGAAACATATCCCTCT
* *
2480558 ATTTTA
129 CTTTCA
* * * * * * *
2480564 ATATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTCGGTTTACTCTTCCCTTAGTGATA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * * ** * * * * * * * * *
2480629 CTAGAATGAATCAATGTCCTCATATCCGATTTTCCATTCGGAAGAAGTTG-AACATATCTCTCTC
66 GTGGAATGGATCAAACTCCCCAAATCTGATATTCCCTCCAGAAGAAG-CGAAACATATCCCTCTC
2480693 TTTCA
130 TTTCA
* * * * * * *
2480698 AGATTTTATATTCTCTAACTGACAGTGAAACAAGTCTGCCTCAATTCAATCTT-CCTCGAGTGAT
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCT-GAGTGAC
* **** * ** *
2480762 AGTGGAATGAATC-AACTTAATTAAATCTGGTATTCAGTCCAGAAGAAGTGAAACATATCCCTCT
65 AGTGGAATGGATCAAAC-TCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCT
*
2480826 TTTTCA
129 CTTTCA
* * * *
2480832 AGATTTGATATTTCCTGAGTGGCAGTGGAACAAGTCTGTCTCGATCCAATCTTCCCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * ** * * * * *
2480897 GTGGAATGAATC-AACTTACTTAGATCTGATATTCACTCCAGAATAAGTGAAACATATCACTCTC
66 GTGGAATGGATCAAAC-TCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCTC
2480961 TTTCA
130 TTTCA
* **
2480966 AGATTTGATATTCCCTGAGTGGCAGT-GAATCAAGTCTATCTCGATTCAATCTTCCCTGAGTGAC
1 AGATTTGATATTCCCTGAGTGACAGTGGAA-CAAGTCTGCCTCGATTCAATCTTCCCTGAGTGAC
* * * * * * *
2481030 AGTGGAATGGA-C-AAGTCCATCATATATGATATTCCATCCAGAAGAAGTGGAACATATCCCTCT
65 AGTGGAATGGATCAAACTCC-CCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCT
2481093 CTTTCA
129 CTTTCA
* ** * *
2481099 AGATTTGATATTCCCTGGGTGACAGTAAAACAAGTATGCCTCGATTCAATCTTCCCTGAGTGATA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * * ** * * * * *
2481164 TTGTAATGGATCAACCTCCCTCTGATCTAATTTTCCGTCTAGAAGAAGCGGAACATATCCCTCT-
66 GTGGAATGGATCAAACTCCC-CAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCTC
2481228 TTTCCA
130 TTT-CA
* * * *
2481234 AGATTTAATATTCCCTGAGTAATAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
** * * * * *
2481299 GTGGAATGG-TTGAACTCCCCCAGATCTGATATTCCCTCTAGAAGAAGCGGAACAAATCCCTCTA
66 GTGGAATGGATCAAACT-CCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCTC
2481363 TTTCA
130 TTTCA
* * * * * * *
2481368 AGAGTTGATATTCCGTGAGTGACAATGGAACAAGTCTACCTCGGTTCAATCTTCTCTAAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* ** * * * * * *
2481433 GTGGAATGAATC-AACGTCCTTATATCTGA-ATTTTCCTCCATAAGAAGCGGAGCAAATCCCTCG
66 GTGGAATGGATCAAAC-TCCCCAAATCTGATA-TTCCCTCCAGAAGAAGCGAAACATATCCCTC-
2481496 T-TTTCA
128 TCTTTCA
* * * * * * * *
2481502 AGATTTGATATTCCCTGAGTGGCATTAGAACAAATCTACCTTGATTAAATCTTCCCTAAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * *
2481567 GTGGAATGGAT-AAAATCCCCTAGAA-CAGATATTCCTTCC------A--G------A--CCTCT
66 GTGGAATGGATCAAACTCCCC-A-AATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCT
2481614 CTTTCA
129 CTTTCA
* * * * * * *
2481620 AGATTTAATATTTCCTTAGTAACAGTGGAACAAGTATGCCTAGATTCAATCTTCTCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * * *
2481685 GTGGAATGAATC-AACTCCCTCAGAA-CTTATATTCCCTCCAAAAGAAGC-AGAACAAATCCCTC
66 GTGGAATGGATCAAACTCCC-CA-AATCTGATATTCCCTCCAGAAGAAGCGA-AACATATCCCTC
2481747 TCTTTCA
128 TCTTTCA
** * * * * *
2481754 AGATTTGATATTCCCTGAGTGATGGTGTAACAAGTATGTCTCGATTCAATCTTCCCTGAGAGATA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * * * * * * * *
2481819 GTGGAATGGAGC-AAGTCTCTCAGATCTGATATTTCCTCCAGAA-AATGTGTAACAGATCCATCT
66 GTGGAATGGATCAAACTC-CCCAAATCTGATATTCCCTCCAGAAGAA-GCGAAACATATCCCTCT
*
2481882 ATTTCA
129 CTTTCA
* *
2481888 AGATTTGATATTCCCTGAGTGACAGTGAAACAAGTCTGTCTCGATTCAATCTTCCCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * ** * * * * * *
2481953 GTGGAATGGATCAACCACCCTCTGATTTGATTTTCCCTCCAAAAGAAGCAAAACATATACCTCTG
66 GTGGAATGGATCAAACTCCC-CAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCTC
*
2482018 TTCCA
130 TTTCA
* * * *
2482023 AGATTTGATAATCCCTGAGTAACAGTGGAACACGTCTACCTCGATTCAATCTTCCCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * * * ** *
2482088 GTGGAATAGATC-AACTCCCTCAGATATGATTTTCCCTTAAGAAGAAGC-AGAACAAATCCCTCT
66 GTGGAATGGATCAAACTCCC-CAAATCTGATATTCCCTCCAGAAGAAGCGA-AACATATCCCTCT
2482151 CTTTCA
129 CTTTCA
** * * * * *
2482157 AGATTTGATATTATCTTAGTGACAGTGGAACAAGTCTACCTTGGTTTAATCTTCCCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
** * * * *
2482222 GTGGAATTAATC-AACGTCCCCAAATCTGATTTTTCCCTCCAGAAAAAG-TAGAACAGATCCCTC
66 GTGGAATGGATCAAAC-TCCCCAAATCTGA-TATTCCCTCCAGAAGAAGCGA-AACATATCCCTC
*
2482285 TATTT-A
128 TCTTTCA
* * *
2482291 AGGATTTGATATTCCCTTAGTGACAATAGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGAC
1 A-GATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGAC
* * *
2482356 AGTGGAATGGATC-AACTCCCCAGATATGATATTCCCTCCATAAGAAGC-AAACATATCCCTCTC
65 AGTGGAATGGATCAAACTCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCTC
*
2482419 TTTTA
130 TTTCA
* *
2482424 AGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGATA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
* * * * * * * *
2482489 GTGGAATGAATC-AACAACCCCAAATATGATTTTCCCTCAAGAAAAAGCGGAACAAAT--CTCTC
66 GTGGAATGGATCAAAC-TCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCTC
*
2482551 TTGCA
130 TTTCA
* * * ** *
2482556 ATATTTAATATTCCCTGAGTAACAACGGAACAAAGTCTGCCTTGATTCAATCTTCCCTGAGTGAC
1 AGATTTGATATTCCCTGAGTGACAGTGGAAC-AAGTCTGCCTCGATTCAATCTTCCCTGAGTGAC
*
2482621 AGTGGAATGAATCAA
65 AGTGGAATGGATCAA
2482636 TGACCTCATA
Statistics
Matches: 2482, Mismatches: 448, Indels: 160
0.80 0.14 0.05
Matches are distributed among these distances:
117 1 0.00
118 91 0.04
119 1 0.00
120 1 0.00
124 1 0.00
126 1 0.00
128 1 0.00
132 202 0.08
133 268 0.11
134 1394 0.56
135 427 0.17
136 34 0.01
137 54 0.02
138 6 0.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (134 bp):
AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACA
GTGGAATGGATCAAACTCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCTCTCT
TTCA
Found at i:2480884 original size:536 final size:535
Alignment explanation
Indices: 2479491--2482635 Score: 3034
Period size: 536 Copynumber: 5.9 Consensus size: 535
2479481 TTTAATTTTT
* ** * * *
2479491 AGATTTGATATTCTCTGAGTGACAGTGGAACAAGT-TTGCTTGATTCAAACTTCCTTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTATACCTCGATTCAATCTTCCCTGAGTGACA
* * * * * * * *
2479555 GTGGAATGGATCCA-CTCTCTAAGATCTGATATTCCCTTCAGAAGAAGAAGAATAACATATCCCT
66 GTGGAATGAATCAACCTC-CTCATATCTGATTTTCCCTCCAGAAGAAGTAG---AACAAATCCCT
* * * * * * *
2479619 CTCTTTCAGGATTTGATATTCCATGAGTTACAAT-AGAACAAGTCTGCCTCTATTCAATATTCCT
127 CTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGA-AACAAGTCTGCCTCGATTCAATCTTCCC
* * **
2479683 TGAGTGATAATGAAATGGATCAAAATCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATA
191 TGAGTGATAGTGGAATGGATCAACTTCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATA
* * *
2479748 TCCCTCTCTTTCAAGATTCGATATTCCCTGAGTGACAGTGGAACAAGTCAT-CCTTGATTCAATC
256 TCCCTCTATTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTC-TGCCTCGATTCAATC
* * *
2479812 TTCCCTGAGTGACAGTGGAAT-AGATCAACTCCC-CTAGATTTAATATTCCCTCTAGAAGAAGCG
320 TTCCCTGAGTGACAGTGGAATGA-ATCAACTCCCTC-AGATCTGATATTCCCTCCAGAAGAAGCG
* * * * * * *
2479875 GAACAGATCCATCTCTTTCATGATTTGATATTCCCTGAGTGATAGTGGAACAAGTCCACCTTGAT
383 GAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCGAT
* * * * * *
2479940 TCAATCTTCCCTGAGTGAAAATGGAATGGATCAACTACCTCAAATTTGATATTCCCTCCAGAAGA
448 TCAATCTTCCCTGAGTGACAGTGGAATGGATCAACTCCCTCATATATGATATTCCCT-CAAAAGA
*
2480005 AGCAGAACAAAT-CCT-TCTTTCA
512 AGTAGAACAAATCCCTCTCTTTCA
* * * * * * * *
2480027 AGATTTGATATTCCTTGAGTGACATTGGAACAAGTTTACCTTGATTCAATATTTCCTGAATGAAA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTATACCTCGATTCAATCTTCCCTGAGTGACA
* * * * *
2480092 GTGGAATGGATCAACCTCCATCACATCTGATTTTCCCTCCAGAATAAGTGGAAAAAATCCCTCTC
66 GTGGAATGAATCAACCTCC-TCATATCTGATTTTCCCTCCAGAAGAAGTAGAACAAATCCCTCTC
* * *
2480157 TTTCAAGATTTGATATTCCCTGAGTGACACT-AGAACAAATATGCCTCGATTCAATCTTCCCTGA
130 TTTCAAGATTTGATATTCCCTGAGTGACAGTGA-AACAAGTCTGCCTCGATTCAATCTTCCCTGA
* * * * *
2480221 GTGATAGTGAAATGGATCAAC-TCCCTCAAATATGATATTCCCTCCAGAAAAAGCGGAACAAATC
194 GTGATAGTGGAATGGATCAACTTCCC-CAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATC
* * * * *
2480285 CCTCTCTTTCAAGATTTAATATTCCCTGAGTGACAATGGAACAAGTCTTCTTCGATTCAATCTTC
258 CCTCTATTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTC
* *** * * * ***
2480350 CCTAAGTGACAACAGAATGGATCAACTCCCTCCGATCTGATATTCCCTCTAGAAGAAGATTAACA
323 CCTGAGTGACAGTGGAATGAATCAACTCCCTCAGATCTGATATTCCCTCCAGAAGAAGCGGAACA
* * * * * * **
2480415 GATCCCTCTTTTTTAAGATTTGATATTCTCTGAGTAACAATAGAACAAGTCTGTCTCGATTCAAT
388 AATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCGATTCAAT
* * * *
2480480 CTTCCCTGAGTGACAGTGGGATGGATCAACCTCCCTCATATAT-ATTTTTCCCTCAAAAAAAGTG
453 CTTCCCTGAGTGACAGTGGAATGGATCAA-CTCCCTCATATATGA-TATTCCCTCAAAAGAAGTA
* * *
2480544 GAACAGATCCCTCTATTTTA
516 GAACAAATCCCTCTCTTTCA
* * * * * * *
2480564 ATATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTCGGTTTACTCTTCCCTTAGTGATA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTATACCTCGATTCAATCTTCCCTGAGTGACA
* * ** * * * * * * *
2480629 CTAGAATGAATCAATGTCCTCATATCCGATTTTCCATTCGGAAGAAGTTGAACATATCTCTCTCT
66 GTGGAATGAATCAACCTCCTCATATCTGATTTTCCCTCCAGAAGAAGTAGAACAAATCCCTCTCT
* * * * *
2480694 TTCAAGATTTTATATTCTCTAACTGACAGTGAAACAAGTCTGCCTCAATTCAATCTT-CCTCGAG
131 TTCAAGATTTGATATTCCCTGAGTGACAGTGAAACAAGTCTGCCTCGATTCAATCTTCCCT-GAG
* **** * ** *
2480758 TGATAGTGGAATGAATCAACTTAATTAAATCTGGTATTCAGTCCAGAAGAAGTGAAACATATCCC
195 TGATAGTGGAATGGATCAACTTCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCC
* * * * *
2480823 TCTTTTTCAAGATTTGATATTTCCTGAGTGGCAGTGGAACAAGTCTGTCTCGATCCAATCTTCCC
260 TCTATTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCC
** * * * * * *
2480888 TGAGTGACAGTGGAATGAATCAACTTACTTAGATCTGATATTCACTCCAGAATAAGTGAAACATA
325 TGAGTGACAGTGGAATGAATCAACTCCCTCAGATCTGATATTCCCTCCAGAAGAAGCGGAACAAA
* ** *
2480953 TCACTCTCTTTCAAGATTTGATATTCCCTGAGTGGCAGT-GAATCAAGTCTATCTCGATTCAATC
390 TCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAA-CAAGTCTACCTCGATTCAATC
* * * * *
2481017 TTCCCTGAGTGACAGTGGAATGGA-CAAGTCCATCATATATGATATTCCATCCAGAAGAAGTGGA
454 TTCCCTGAGTGACAGTGGAATGGATCAACTCCCTCATATATGATATTCCCT-CAAAAGAAGTAGA
*
2481081 ACATATCCCTCTCTTTCA
518 ACAAATCCCTCTCTTTCA
* ** * *
2481099 AGATTTGATATTCCCTGGGTGACAGTAAAACAAGTATGCCTCGATTCAATCTTCCCTGAGTGATA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTATACCTCGATTCAATCTTCCCTGAGTGACA
* * * * * * ** *
2481164 TTGTAATGGATCAACCTCCCTC-TGATCTAATTTTCCGTCTAGAAGAAGCGGAACATATCCCTCT
66 GTGGAATGAATCAACCT-CCTCAT-ATCTGATTTTCCCTCCAGAAGAAGTAGAACAAATCCCTCT
* * * * *
2481228 -TTTCCAAGATTTAATATTCCCTGAGTAATAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTG
129 CTTT-CAAGATTTGATATTCCCTGAGTGACAGTGAAACAAGTCTGCCTCGATTCAATCTTCCCTG
* * * * * * * *
2481292 AGTGACAGTGGAATGGTTGAACTCCCCCAGATCTGATATTCCCTCTAGAAGAAGCGGAACAAATC
193 AGTGATAGTGGAATGGATCAACTTCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATC
* * * * *
2481357 CCTCTATTTCAAGAGTTGATATTCCGTGAGTGACAATGGAACAAGTCTACCTCGGTTCAATCTTC
258 CCTCTATTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTC
* * * * * * *
2481422 TCTAAGTGACAGTGGAATGAATCAACGT-CCTTATATCTGA-ATTTTCCTCCATAAGAAGCGGAG
323 CCTGAGTGACAGTGGAATGAATCAAC-TCCCTCAGATCTGATA-TTCCCTCCAGAAGAAGCGGAA
** * * * * *
2481485 CAAATCCCTCGT-TTTCAAGATTTGATATTCCCTGAGTGGCATTAGAACAAATCTACCTTGATTA
386 CAAATCCCTC-TCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCGATTC
* * * * *
2481549 AATCTTCCCTAAGTGACAGTGGAATGGATAAAATCCC-C-TAGAACAGATATT-CCT--------
450 AATCTTCCCTGAGTGACAGTGGAATGGATCAACTCCCTCATA-TA-TGATATTCCCTCAAAAGAA
* *
2481603 -T---CCAGA--CCTCTCTTTCA
513 GTAGAACAAATCCCTCTCTTTCA
* * * * * * *
2481620 AGATTTAATATTTCCTTAGTAACAGTGGAACAAGTATGCCTAGATTCAATCTTCTCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTATACCTCGATTCAATCTTCCCTGAGTGACA
* * * * * *
2481685 GTGGAATGAATCAA-CTCCCTCAGAACTTATATTCCCTCCAAAAGAAGCAGAACAAATCCCTCTC
66 GTGGAATGAATCAACCT-CCTCATATCTGATTTTCCCTCCAGAAGAAGTAGAACAAATCCCTCTC
** * * *
2481749 TTTCAAGATTTGATATTCCCTGAGTGATGGTGTAACAAGTATGTCTCGATTCAATCTTCCCTGAG
130 TTTCAAGATTTGATATTCCCTGAGTGACAGTGAAACAAGTCTGCCTCGATTCAATCTTCCCTGAG
* * * * * * * * *
2481814 AGATAGTGGAATGGAGCAA-GTCTCTCAGATCTGATATTTCCTCCAGAA-AATGTGTAACAGATC
195 TGATAGTGGAATGGATCAACTTC-CCCAAATCTGATATTCCCTCCAGAAGAA-GCGAAACATATC
* * *
2481877 CATCTATTTCAAGATTTGATATTCCCTGAGTGACAGTGAAACAAGTCTGTCTCGATTCAATCTTC
258 CCTCTATTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTC
* * * * * * **
2481942 CCTGAGTGACAGTGGAATGGATCAACCACCCTCTGATTTGATTTTCCCTCCAAAAGAAGCAAAAC
323 CCTGAGTGACAGTGGAATGAATCAA-CTCCCTCAGATCTGATATTCCCTCCAGAAGAAGCGGAAC
* * * * * *
2482007 ATATACCTCTGTTCCAAGATTTGATAATCCCTGAGTAACAGTGGAACACGTCTACCTCGATTCAA
387 AAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCGATTCAA
* * * * *
2482072 TCTTCCCTGAGTGACAGTGGAATAGATCAACTCCCTCAGATATGATTTTCCCTTAAGAAGAAGCA
452 TCTTCCCTGAGTGACAGTGGAATGGATCAACTCCCTCATATATGATATTCCCTCAA-AAGAAGTA
2482137 GAACAAATCCCTCTCTTTCA
516 GAACAAATCCCTCTCTTTCA
** * * * * *
2482157 AGATTTGATATTATCTTAGTGACAGTGGAACAAGTCTACCTTGGTTTAATCTTCCCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTATACCTCGATTCAATCTTCCCTGAGTGACA
* * * * * * *
2482222 GTGGAATTAATCAACGTCCCCAAATCTGATTTTTCCCTCCAGAAAAAGTAGAACAGATCCCTCTA
66 GTGGAATGAATCAACCTCCTCATATCTGA-TTTTCCCTCCAGAAGAAGTAGAACAAATCCCTCTC
* *
2482287 TTT-AAGGATTTGATATTCCCTTAGTGACAAT-AGAACAAGTCTGCCTCGATTCAATCTTCCCTG
130 TTTCAA-GATTTGATATTCCCTGAGTGACAGTGA-AACAAGTCTGCCTCGATTCAATCTTCCCTG
* * * *
2482350 AGTGACAGTGGAATGGATCAAC-TCCCCAGATATGATATTCCCTCCATAAGAAGC-AAACATATC
193 AGTGATAGTGGAATGGATCAACTTCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATC
* * *
2482413 CCTCTCTTTTAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTC
258 CCTCTATTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTC
* * * * * * *
2482478 CCTGAGTGATAGTGGAATGAATCAACAACCC-CAAATATGATTTTCCCTCAAGAAAAAGCGGAAC
323 CCTGAGTGACAGTGGAATGAATCAAC-TCCCTCAGATCTGATATTCCCTCCAGAAGAAGCGGAAC
* * * ** * *
2482542 AAAT--CTCTCTTGCAATATTTAATATTCCCTGAGTAACAACGGAACAAAGTCTGCCTTGATTCA
387 AAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAAC-AAGTCTACCTCGATTCA
*
2482605 ATCTTCCCTGAGTGACAGTGGAATGAATCAA
451 ATCTTCCCTGAGTGACAGTGGAATGGATCAA
2482636 TGACCTCATA
Statistics
Matches: 2132, Mismatches: 415, Indels: 126
0.80 0.16 0.05
Matches are distributed among these distances:
519 3 0.00
520 219 0.10
521 193 0.09
522 5 0.00
523 4 0.00
526 1 0.00
533 34 0.02
534 65 0.03
535 463 0.22
536 776 0.36
537 238 0.11
538 131 0.06
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (535 bp):
AGATTTGATATTCCCTGAGTGACAGTGGAACAAGTATACCTCGATTCAATCTTCCCTGAGTGACA
GTGGAATGAATCAACCTCCTCATATCTGATTTTCCCTCCAGAAGAAGTAGAACAAATCCCTCTCT
TTCAAGATTTGATATTCCCTGAGTGACAGTGAAACAAGTCTGCCTCGATTCAATCTTCCCTGAGT
GATAGTGGAATGGATCAACTTCCCCAAATCTGATATTCCCTCCAGAAGAAGCGAAACATATCCCT
CTATTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCT
GAGTGACAGTGGAATGAATCAACTCCCTCAGATCTGATATTCCCTCCAGAAGAAGCGGAACAAAT
CCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTT
CCCTGAGTGACAGTGGAATGGATCAACTCCCTCATATATGATATTCCCTCAAAAGAAGTAGAACA
AATCCCTCTCTTTCA
Found at i:2482811 original size:3 final size:3
Alignment explanation
Indices: 2482803--2482838 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2482793 TTTTTCGTCC
2482803 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2482839 AAGTACTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2494409 original size:6 final size:6
Alignment explanation
Indices: 2494398--2494456 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
2494388 CTATTTTTTT
* * *
2494398 AAATAA AAAT-- AAATAA ATAATAT AAATAA AAATAA TAATAA TAATAAA
1 AAATAA AAATAA AAATAA A-AATAA AAATAA AAATAA AAATAA AAAT-AA
2494446 ATAATAA AAAT
1 A-AATAA AAAT
2494457 TATATAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
4 4 0.09
6 27 0.61
7 10 0.23
8 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
AAATAA
Found at i:2494424 original size:9 final size:8
Alignment explanation
Indices: 2494403--2494454 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
2494393 TTTTTAAATA
2494403 AAAATAA-
1 AAAATAAT
2494410 ATAAATAAT
1 A-AAATAAT
2494419 ATAAAT-A-
1 A-AAATAAT
2494426 AAAATAAT
1 AAAATAAT
2494434 AATAATAAT
1 AA-AATAAT
2494443 AAAATAAT
1 AAAATAAT
2494451 AAAA
1 AAAA
2494455 ATTATATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.10
7 3 0.08
8 19 0.47
9 14 0.35
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAATAAT
Found at i:2494455 original size:9 final size:9
Alignment explanation
Indices: 2494399--2494467 Score: 59
Period size: 9 Copynumber: 7.1 Consensus size: 9
2494389 TATTTTTTTA
2494399 AATAAAAAT
1 AATAAAAAT
2494408 AAATAAATAATAT
1 -AAT-AA-AA-AT
2494421 AAATAAAAAT
1 -AATAAAAAT
*
2494431 AATAATAAT
1 AATAAAAAT
2494440 AAT-AAAAT
1 AATAAAAAT
2494448 AATAAAAAT
1 AATAAAAAT
*
2494457 TATATAAAAT
1 AATA-AAAAT
2494467 A
1 A
2494468 TATTATATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
8 7 0.14
9 19 0.38
10 10 0.20
11 4 0.08
12 4 0.08
13 6 0.12
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AATAAAAAT
Found at i:2494763 original size:39 final size:37
Alignment explanation
Indices: 2494720--2494810 Score: 107
Period size: 39 Copynumber: 2.5 Consensus size: 37
2494710 AACCGATTTT
* *
2494720 AAAAATTACATATTATATGCTTTCATAAATCATTTTCTA
1 AAAAACTACATATTATATGCTTTCAAAAAT-ATTTTC-A
* *
2494759 AAAAACTATATATTATATGTTTTCAAAAATATTTTC-
1 AAAAACTACATATTATATGCTTTCAAAAATATTTTCA
2494795 AAAAACT--ATATTATAT
1 AAAAACTACATATTATAT
2494811 ATACACACTA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
34 9 0.19
36 7 0.15
38 6 0.12
39 26 0.54
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (37 bp):
AAAAACTACATATTATATGCTTTCAAAAATATTTTCA
Found at i:2494812 original size:36 final size:36
Alignment explanation
Indices: 2494616--2494805 Score: 138
Period size: 37 Copynumber: 5.1 Consensus size: 36
2494606 ATACATTATA
** * *
2494616 TATATATTATGCGTTTTAAAAAATGTGTTTTC-AAAAC
1 TATATATTATATGTTTTCAAAAA--TATTTTCAAAAAC
* * *
2494653 TATATATTATACT-TTTTCAAAACGTATTTTTAAAACC
1 TATATATTATA-TGTTTTCAAAA-ATATTTTCAAAAAC
* * *
2494690 TA-ACTA-TATATATTTTCAAAAACCGATTTT-AAAAAT
1 TATA-TATTATATGTTTTCAAAAA--TATTTTCAAAAAC
* * *
2494726 TACATATTATATGCTTTCATAAATCATTTTCTAAAAAAC
1 TATATATTATATGTTTTCAAAAAT-ATTTTC--AAAAAC
2494765 TATATATTATATGTTTTCAAAAATATTTTCAAAAAC
1 TATATATTATATGTTTTCAAAAATATTTTCAAAAAC
2494801 TATAT
1 TATAT
2494806 TATATATACA
Statistics
Matches: 121, Mismatches: 19, Indels: 27
0.72 0.11 0.16
Matches are distributed among these distances:
35 1 0.01
36 43 0.36
37 45 0.37
38 6 0.05
39 26 0.21
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (36 bp):
TATATATTATATGTTTTCAAAAATATTTTCAAAAAC
Found at i:2495459 original size:73 final size:73
Alignment explanation
Indices: 2495364--2495645 Score: 393
Period size: 73 Copynumber: 3.9 Consensus size: 73
2495354 CAATCTCATA
* * * * * *
2495364 GGCACGATATCCTTCGTCGTGAAGTTGAAATCATGGGTTACTCTTTTGTCGCGAAGTTAAGTCGA
1 GGCACGATATCCTTCGTTGTGAAGTTGAAATCGTGGGTGACTCATTCGTCGTGAAGTTAAGTCGA
2495429 AACTTTTG
66 AACTTTTG
* * * *
2495437 GGCATGATATCCTTCGTTGTGAAGTTAAAATCGTGGGTGAATCATTCGTCGTGAAGTTAAGTCAA
1 GGCACGATATCCTTCGTTGTGAAGTTGAAATCGTGGGTGACTCATTCGTCGTGAAGTTAAGTCGA
2495502 AACTTTTG
66 AACTTTTG
* * * *
2495510 GGCACGATATCCTTTGTTGTGAAGTTGAAATCGTGGGTGACTCCTTCGTCATGAAGTTAATTCGA
1 GGCACGATATCCTTCGTTGTGAAGTTGAAATCGTGGGTGACTCATTCGTCGTGAAGTTAAGTCGA
2495575 AACTTTTG
66 AACTTTTG
* * * * *
2495583 GGTATGATATCCTTCGTTGTGAAGTTGATATCGCGGGTGACTCATTCGTCGTGAAGTTGAGTC
1 GGCACGATATCCTTCGTTGTGAAGTTGAAATCGTGGGTGACTCATTCGTCGTGAAGTTAAGTC
2495646 CCAATTGAAT
Statistics
Matches: 182, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 182 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (73 bp):
GGCACGATATCCTTCGTTGTGAAGTTGAAATCGTGGGTGACTCATTCGTCGTGAAGTTAAGTCGA
AACTTTTG
Found at i:2505529 original size:12 final size:12
Alignment explanation
Indices: 2505512--2505542 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2505502 TAGTAAGATA
2505512 AAAATAATAATC
1 AAAATAATAATC
*
2505524 AAAATAATAATG
1 AAAATAATAATC
2505536 AAAATAA
1 AAAATAA
2505543 AAATTCCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (12 bp):
AAAATAATAATC
Found at i:2507608 original size:18 final size:20
Alignment explanation
Indices: 2507585--2507635 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
2507575 CATTTTTTTA
2507585 AATAAAAATAATA-AAT-AT
1 AATAAAAATAATATAATAAT
2507603 AATAAATAATAATATAATAAT
1 AATAAA-AATAATATAATAAT
*
2507624 ATATAACAATAA
1 A-ATAAAAATAA
2507636 AAACTATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 6 0.21
19 7 0.25
20 3 0.11
21 8 0.29
22 4 0.14
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAAAATAATATAATAAT
Found at i:2507616 original size:15 final size:16
Alignment explanation
Indices: 2507586--2507622 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
2507576 ATTTTTTTAA
2507586 ATAA-AAATAATAAAT
1 ATAATAAATAATAAAT
2507601 ATAATAAATAAT-AAT
1 ATAATAAATAATAAAT
2507616 ATAATAA
1 ATAATAA
2507623 TATATAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAATAAATAATAAAT
Found at i:2507621 original size:8 final size:8
Alignment explanation
Indices: 2507592--2507626 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
2507582 TTAAATAAAA
2507592 ATAATAAAT
1 ATAAT-AAT
2507601 ATAATAA-
1 ATAATAAT
2507608 ATAATAAT
1 ATAATAAT
2507616 ATAATAAT
1 ATAATAAT
2507624 ATA
1 ATA
2507627 TAACAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.28
8 13 0.52
9 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
ATAATAAT
Found at i:2507646 original size:24 final size:23
Alignment explanation
Indices: 2507583--2507652 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
2507573 AGCATTTTTT
2507583 TAAATAAAAATA-ATAAATATAA
1 TAAATAAAAATATATAAATATAA
*
2507605 TAAATAATAATATAATAATATATAA
1 TAAATAAAAATAT-ATAA-ATATAA
*
2507630 -CAATAAAAACTATATAACATATA
1 TAAATAAAAA-TATATAA-ATATA
2507653 TTATATTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 11 0.28
24 20 0.50
25 9 0.22
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAATAAAAATATATAAATATAA
Found at i:2507680 original size:17 final size:17
Alignment explanation
Indices: 2507658--2507690 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2507648 ATATATTATA
2507658 TTTTCAAAAATAATATG
1 TTTTCAAAAATAATATG
*
2507675 TTTTCAAAAATTATAT
1 TTTTCAAAAATAATAT
2507691 ATTATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTCAAAAATAATATG
Found at i:2507731 original size:41 final size:44
Alignment explanation
Indices: 2507633--2507733 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 44
2507623 TATATAACAA
* * *
2507633 TAAAAACTATATA-ACATATATTATATTTTCAAAAATAATATGTTT
1 TAAAAACTATATATA-TTATATTATATTTCCAAAAAT-ACATGTTT
2507678 TCAAAAA-T-TATATATTATA-TATATTTCCAAAAAT-CAT-TTT
1 T-AAAAACTATATATATTATATTATATTTCCAAAAATACATGTTT
2507718 TAAAAACTATATATAT
1 TAAAAACTATATATAT
2507734 GTTTTCAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
39 5 0.10
40 5 0.10
41 9 0.18
43 14 0.29
44 8 0.16
45 3 0.06
46 5 0.10
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.43
Consensus pattern (44 bp):
TAAAAACTATATATATTATATTATATTTCCAAAAATACATGTTT
Found at i:2507748 original size:13 final size:13
Alignment explanation
Indices: 2507730--2507756 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2507720 AAAACTATAT
2507730 ATATGTTTTCAAA
1 ATATGTTTTCAAA
2507743 ATATGTTTTCAAA
1 ATATGTTTTCAAA
2507756 A
1 A
2507757 CTATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
ATATGTTTTCAAA
Found at i:2507767 original size:36 final size:35
Alignment explanation
Indices: 2507669--2507890 Score: 168
Period size: 36 Copynumber: 6.1 Consensus size: 35
2507659 TTTCAAAAAT
*
2507669 AATATGTTTTCAAAAATTATATATTATATATATTTCCAAA
1 AATATGTTTTC-AAAACTATATA-TATATAT-TTT-C-AA
* *
2507709 AATCAT-TTTTAAAAAC--TATATATATGTTTTCAA
1 AAT-ATGTTTTCAAAACTATATATATATATTTTCAA
*
2507742 AATATGTTTTCAAAACTATATTATATACATTTTCAA
1 AATATGTTTTCAAAACTATA-TATATATATTTTCAA
*
2507778 AA-ATTGTTTTTAAAACTATATATATTATAATTTTCAAA
1 AATA-TGTTTTCAAAACTATATATA-TAT-ATTTTC-AA
*
2507816 AATGTGTTTTCAAAACTATATAT-TATACTGTTTCAA
1 AATATGTTTTCAAAACTATATATATATA-T-TTTCAA
* * * * *
2507852 AAAAGTATTTTCCAAACCATATAT-TATATGTTTTAA
1 AATA-TGTTTTCAAAACTATATATATATAT-TTTCAA
2507888 AAT
1 AAT
2507891 TTTTATATTA
Statistics
Matches: 152, Mismatches: 17, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
32 2 0.01
33 14 0.09
34 1 0.01
35 11 0.07
36 55 0.36
37 34 0.22
38 22 0.14
39 4 0.03
40 7 0.05
41 2 0.01
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (35 bp):
AATATGTTTTCAAAACTATATATATATATTTTCAA
Found at i:2507800 original size:38 final size:38
Alignment explanation
Indices: 2507669--2507880 Score: 180
Period size: 37 Copynumber: 5.7 Consensus size: 38
2507659 TTTCAAAAAT
* *
2507669 AATATGTTTTCAAAAATTATATATTATATATATTTCCAAA
1 AATATGTTTTC-AAAACTATATATTATATA-ATTTTCAAA
* *
2507709 AATCAT-TTTTAAAAAC--TATA-TATAT-GTTTTC-AA
1 AAT-ATGTTTTCAAAACTATATATTATATAATTTTCAAA
2507742 AATATGTTTTCAAAAC--TATATTATATACATTTTCAAA
1 AATATGTTTTCAAAACTATATATTATATA-ATTTTCAAA
*
2507779 AAT-TGTTTTTAAAACTATATA-TATTATAATTTTCAAA
1 AATATGTTTTCAAAACTATATATTA-TATAATTTTCAAA
* *
2507816 AATGTGTTTTCAAAACTATATATTATACT--GTTTCAAA
1 AATATGTTTTCAAAACTATATATTATA-TAATTTTCAAA
* * *
2507853 AA-AGTATTTTCCAAACCATATATTATAT
1 AATA-TGTTTTCAAAACTATATATTATAT
2507881 GTTTTAAAAT
Statistics
Matches: 146, Mismatches: 13, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
32 2 0.01
33 18 0.12
34 9 0.06
36 22 0.15
37 52 0.36
38 27 0.18
39 7 0.05
40 7 0.05
41 2 0.01
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (38 bp):
AATATGTTTTCAAAACTATATATTATATAATTTTCAAA
Found at i:2507863 original size:37 final size:35
Alignment explanation
Indices: 2507648--2507889 Score: 161
Period size: 37 Copynumber: 6.5 Consensus size: 35
2507638 ACTATATAAC
* *
2507648 ATATATTATATTTTCAAAAATAATATGTTTTCAAAAATT
1 ATATATTATATTTTCAAAAA-AGTA--TTTTC-AAAACT
* *
2507687 ATATATTATATATATTTCCAAAAA-TCATTTTTAAAAACT
1 ATATA-T-TATAT-TTTCAAAAAAGT-A-TTTTCAAAACT
* * *
2507726 ATATA-TATGTTTTCAAAATA-TGTTTTCAAAACT
1 ATATATTATATTTTCAAAAAAGTATTTTCAAAACT
* *
2507759 ATATTATATACATTTTCAAAAATTGT-TTTT-AAAACTAT
1 ATA-TAT-TATATTTTCAAAAA-AGTATTTTCAAAAC--T
* *
2507797 ATATATTATAATTTTCAAAAATGTGTTTTCAAAACT
1 ATATATTAT-ATTTTCAAAAAAGTATTTTCAAAACT
* *
2507833 ATATATTATACTGTTTCAAAAAAGTATTTTCCAAACC
1 ATATATTATA-T-TTTCAAAAAAGTATTTTCAAAACT
*
2507870 ATATATTATATGTTTTAAAA
1 ATATATTATAT-TTTCAAAA
2507890 TTTTTATATT
Statistics
Matches: 168, Mismatches: 19, Indels: 35
0.76 0.09 0.16
Matches are distributed among these distances:
33 13 0.08
34 2 0.01
35 10 0.06
36 45 0.27
37 52 0.31
38 10 0.06
39 15 0.09
40 6 0.04
41 7 0.04
42 8 0.05
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (35 bp):
ATATATTATATTTTCAAAAAAGTATTTTCAAAACT
Found at i:2507938 original size:38 final size:37
Alignment explanation
Indices: 2507896--2507973 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 37
2507886 AAAATTTTTA
*
2507896 TATTATATGCTTTCATAAATCATTTTCTAAAAACTAT-T
1 TATTATATGCTTTCAAAAAT-ATTTTC-AAAAACTATAT
* *
2507934 TATTATATGTTTTCAAAAATATTTTCAAAAATTATAT
1 TATTATATGCTTTCAAAAATATTTTCAAAAACTATAT
2507971 TAT
1 TAT
2507974 ATTATTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 8 0.22
37 10 0.28
38 18 0.50
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (37 bp):
TATTATATGCTTTCAAAAATATTTTCAAAAACTATAT
Found at i:2508103 original size:61 final size:61
Alignment explanation
Indices: 2508037--2508228 Score: 181
Period size: 61 Copynumber: 3.3 Consensus size: 61
2508027 CTATATATAA
2508037 AAACTATATAATTTATATTTATATTATTATATACTATATATAAACTATATGTATTAAGTAT
1 AAACTATATAATTTATATTTATATTATTATATACTATATATAAACTATATGTATTAAGTAT
* * * *
2508098 AAACTATATAGTTTAT-TAATATAATATGTA-AGTA-TATATATAAAC--TATGTA--CA-T-T
1 AAACTATATAATTTATAT-TTATATTAT-TATA-TACTATATATAAACTATATGTATTAAGTAT
* * * * *
2508153 -AACTATATAAATTT-TAATTATATTATTTTATACTATATATACACTATATATATTATGTAT
1 AAACTATAT-AATTTATATTTATATTATTATATACTATATATAAACTATATGTATTAAGTAT
*
2508213 AAACTATATAGTTTAT
1 AAACTATATAATTTAT
2508229 TAATATAAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 30
0.70 0.10 0.21
Matches are distributed among these distances:
53 3 0.03
54 27 0.26
55 5 0.05
56 6 0.06
57 1 0.01
59 7 0.07
60 6 0.06
61 43 0.42
62 4 0.04
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (61 bp):
AAACTATATAATTTATATTTATATTATTATATACTATATATAAACTATATGTATTAAGTAT
Found at i:2508193 original size:2 final size:2
Alignment explanation
Indices: 2508181--2508832 Score: 125
Period size: 2 Copynumber: 331.0 Consensus size: 2
2508171 TATATTATTT
* * *
2508181 TA TA CTA TA TA TA CA CTA TA TA TA T- TA TG TA TA AA CTA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
2508223 GTT TA T- TA -A TA TA AA T- TA TA TA GTT TA TA TA TA AA T- TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
2508263 TA TA -A T- TA TA TT TA AA TA TA TT TA TA TA TA AA T- 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
* * * *
2508302 TGA -A T- TA TA TT TA AA TA TA TA CTC T- TA T- TA TA TA T- TA TG
1 T-A TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * * * *
2508341 TA TA AA T- TA TA GTT TA AA TA GTT TA AA TA TA AA GTA TA TA -A
1 TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA
* * * * *
2508382 GTA TA TA -A TA TA AA GTA TA AA GTA TA -A GTA TG TA TG TA TG TA
1 -TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* * *
2508424 TA TA TA TA TA TA TA TA TA AA GT- TT TA GTA TA AA GTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA
* *
2508466 TA TA -A TA -A TA TA AA GTA GA -A GTA TA T- 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
*
2508506 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA T- TA TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
2508545 TA TA AA GA CTA AA GTA TG TA -A GA -A TA TA -A TA TA AA GTA TA
1 TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
2508585 TA -A GTA TA TA -A TA GA -A AA TA TA TA -A GTA T- TA AA TA TA -A
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * * * * *
2508623 AA TA TA TA TA TG TA TA TA -A TA TA TA TT TA TA TG TA TG TC TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
2508664 TA TA TA -A TA -A TA TA AA GTA TA TA -A GTA TA TA -A TA TA AA GTA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA
* * *
2508705 TG TA -A GTA TT TA -A TA TA -A GTA TA TA TA TA TA TA TA AA CTA
1 TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA
* * * *
2508745 TA AA GA -A TA TA TA TA TA TA GTA TA -A GTA AA TA TA TA AA CTA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA
* * * *
2508786 TA AA GTA TT TA TA TA TA TA TA TA TA CTT TA TA T- TA TA TA CA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
2508829 TA TA
1 TA TA
2508833 CCTTAGTCTT
Statistics
Matches: 461, Mismatches: 109, Indels: 160
0.63 0.15 0.22
Matches are distributed among these distances:
1 45 0.10
2 379 0.82
3 37 0.08
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.43
Consensus pattern (2 bp):
TA
Found at i:2508279 original size:115 final size:116
Alignment explanation
Indices: 2508024--2508270 Score: 331
Period size: 115 Copynumber: 2.1 Consensus size: 116
2508014 AGTGACTACA
* *
2508024 AAACTATATATAA-AAACTATAT-AATTTATATTTATATTATTATATACTATATATAAACTATAT
1 AAACTATATA-AATTAACTATATAAATTTATAATTATATTATTATATACTATATATAAACTATAT
* *
2508087 GTATTAAGTATAAACTATATAGTTTATTAATATAATATGTAAGTATATATAT
65 ATATTAAGTATAAACTATATAGTTTATTAATATAATATATAAGTATATATAT
* * * *
2508139 AAACTATGTACATTAACTATATAAATTT-TAATTATATTATTTTATACTATATATACACTATATA
1 AAACTATATAAATTAACTATATAAATTTATAATTATATTATTATATACTATATATAAACTATATA
* *
2508203 TATTATGTATAAACTATATAGTTTATTAATATAA-ATTATATAGTTTATATAT
66 TATTAAGTATAAACTATATAGTTTATTAATATAATA-TATA-AGTATATATAT
*
2508255 AAATTATATATAATTA
1 AAACTATATA-AATTA
2508271 TATTTAAATA
Statistics
Matches: 114, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
114 2 0.02
115 85 0.75
116 23 0.20
117 4 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (116 bp):
AAACTATATAAATTAACTATATAAATTTATAATTATATTATTATATACTATATATAAACTATATA
TATTAAGTATAAACTATATAGTTTATTAATATAATATATAAGTATATATAT
Found at i:2508299 original size:115 final size:115
Alignment explanation
Indices: 2508024--2508299 Score: 321
Period size: 115 Copynumber: 2.4 Consensus size: 115
2508014 AGTGACTACA
* *
2508024 AAACTATATATAA-AAACTATATAATTTATATTTATATT-ATTATATACTATATATAAACTATAT
1 AAACTATATA-AATTAACTATATAAATTATATTTATATTAATT-TATACTATATATAAACTATAT
* *
2508087 GTATTAAGTATAAACTATATAGTTTATTAATATAATATGTAAGTATATATAT
64 ATATTAAGTATAAACTATATAGTTTATTAATATAATATATAAGTATATATAT
* * * * * *
2508139 AAACTATGTACATTAACTATATAAATTTTAATTATATTATTTTATACTATATATACACTATATAT
1 AAACTATATAAATTAACTATATAAATTATATTTATATTAATTTATACTATATATAAACTATATAT
* *
2508204 ATTATGTATAAACTATATAGTTTATTAATATAA-ATTATATAGTTTATATAT
66 ATTAAGTATAAACTATATAGTTTATTAATATAATA-TATA-AGTATATATAT
* * *
2508255 AAATTATATATAATT-A-TATTTAAA-TATATTTATATATAAATTATA
1 AAACTATATA-AATTAACTATATAAATTATATTTATAT-TAATTTATA
2508300 TATGAATTAT
Statistics
Matches: 135, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
114 11 0.08
115 100 0.74
116 21 0.16
117 3 0.02
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (115 bp):
AAACTATATAAATTAACTATATAAATTATATTTATATTAATTTATACTATATATAAACTATATAT
ATTAAGTATAAACTATATAGTTTATTAATATAATATATAAGTATATATAT
Found at i:2508308 original size:38 final size:37
Alignment explanation
Indices: 2508240--2508380 Score: 151
Period size: 38 Copynumber: 3.6 Consensus size: 37
2508230 AATATAAATT
2508240 ATATAGTTTATATATAAATTATATATAATTATATTTAA
1 ATATA-TTTATATATAAATTATATATAATTATATTTAA
2508278 ATATATTTATATATAAATTATATATGAATTATATTTAA
1 ATATATTTATATATAAATTATATAT-AATTATATTTAA
* *
2508316 ATATATACTCT-TATTATATATTATGTATAAATTATAGTTTAA
1 ATATAT--T-TATA-TATAAATTATATAT-AATTATA-TTTAA
* * *
2508358 ATA-GTTTAAATATAAAGTATATA
1 ATATATTTATATATAAATTATATA
2508381 AGTATATAAT
Statistics
Matches: 88, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
37 20 0.23
38 34 0.39
39 2 0.02
40 3 0.03
41 21 0.24
42 8 0.09
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
ATATATTTATATATAAATTATATATAATTATATTTAA
Found at i:2508317 original size:79 final size:80
Alignment explanation
Indices: 2508198--2508380 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 80
2508188 TATATACACT
* ** *
2508198 ATATATATTATGTATAAACTATATAGTTTATTAATATAAATTATATAGT-TTATATATAAATTAT
1 ATATAT-TTATATATAAACTATATAGTGAATTAATATAAA-TATATACTCTTAT-TATAAATTAT
2508262 ATAT-AATTATA-TTTAA
63 ATATAAATTATAGTTTAA
* * * *
2508278 ATATATTTATATATAAATTATATA-TGAATTATATTTAAATATATACTCTTATTATATATTATGT
1 ATATATTTATATATAAACTATATAGTGAATTA-ATATAAATATATACTCTTATTATAAATTATAT
2508342 ATAAATTATAGTTTAA
65 ATAAATTATAGTTTAA
* * *
2508358 ATA-GTTTAAATATAAAGTATATA
1 ATATATTTATATATAAACTATATA
2508381 AGTATATAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
78 24 0.27
79 50 0.57
80 14 0.16
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (80 bp):
ATATATTTATATATAAACTATATAGTGAATTAATATAAATATATACTCTTATTATAAATTATATA
TAAATTATAGTTTAA
Found at i:2508400 original size:7 final size:7
Alignment explanation
Indices: 2508364--2508412 Score: 59
Period size: 7 Copynumber: 7.1 Consensus size: 7
2508354 TTAAATAGTT
2508364 TAAA-TA
1 TAAAGTA
2508370 TAAAGTA
1 TAAAGTA
2508377 TATAAGTA
1 TA-AAGTA
2508385 TATAA-TA
1 TA-AAGTA
2508392 TAAAGTA
1 TAAAGTA
2508399 TAAAGTA
1 TAAAGTA
2508406 T-AAGTA
1 TAAAGTA
2508412 T
1 T
2508413 GTATGTATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
6 12 0.30
7 18 0.45
8 10 0.25
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (7 bp):
TAAAGTA
Found at i:2508705 original size:22 final size:22
Alignment explanation
Indices: 2508366--2508645 Score: 179
Period size: 22 Copynumber: 13.3 Consensus size: 22
2508356 AAATAGTTTA
2508366 AATATAAAGTATATAAGTATAT
1 AATATAAAGTATATAAGTATAT
2508388 AATATAAAGTATA-AAGTATA-
1 AATATAAAGTATATAAGTATAT
* * *
2508408 AGTAT---GTATGTATGTATAT
1 AATATAAAGTATATAAGTATAT
* *
2508427 ATATATATA-TATATAAAGT-TTT
1 A-ATATAAAGTATAT-AAGTATAT
*
2508449 AGTATAAAGTATATATA-TATAAT
1 AATATAAAGTATATA-AGTAT-AT
*
2508472 AATATAAAG--TAGAAGTATAT
1 AATATAAAGTATATAAGTATAT
* *
2508492 TATATATA-TATAT-A-TATAT
1 AATATAAAGTATATAAGTATAT
*
2508511 -ATATATA-TATAT-A-TATAT
1 AATATAAAGTATATAAGTATAT
*
2508529 ATATATAAA-T-TATAATTATA-
1 A-ATATAAAGTATATAAGTATAT
* * *
2508549 AAGACTAAAGTATGTAAGAATAT
1 AATA-TAAAGTATATAAGTATAT
2508572 AATATAAAGTATATAAGTATAT
1 AATATAAAGTATATAAGTATAT
* *
2508594 AATAGAAAATATATAAGTAT-T
1 AATATAAAGTATATAAGTATAT
*
2508615 AAATATAAAATATATATATGTATAT
1 -AATATAAAGTATATA-A-GTATAT
2508640 AATATA
1 AATATA
2508646 TATTTATATG
Statistics
Matches: 206, Mismatches: 26, Indels: 50
0.73 0.09 0.18
Matches are distributed among these distances:
17 4 0.02
18 24 0.12
19 11 0.05
20 30 0.15
21 28 0.14
22 82 0.40
23 16 0.08
24 10 0.05
25 1 0.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.39
Consensus pattern (22 bp):
AATATAAAGTATATAAGTATAT
Found at i:2508767 original size:41 final size:42
Alignment explanation
Indices: 2508673--2508810 Score: 160
Period size: 41 Copynumber: 3.3 Consensus size: 42
2508663 GTATATAATA
* * *
2508673 ATATAAAGTATATAAGTATATAATATAAAGTATGTAAGTATTTA-
1 ATATATAGTATAT-AGTATAT-ATATAAACTAT-AAAGTATTTAT
* *
2508717 ATATA-AGTATATA-TATATATATAAACTATAAAGAATATAT
1 ATATATAGTATATAGTATATATATAAACTATAAAGTATTTAT
*
2508757 ATATATAGTATA-AGTAAATATATAAACTATAAAGTATTTAT
1 ATATATAGTATATAGTATATATATAAACTATAAAGTATTTAT
2508798 ATATATA-TATATA
1 ATATATAGTATATA
2508811 CTTTATATTA
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
39 7 0.08
40 20 0.24
41 43 0.52
42 1 0.01
43 7 0.08
44 5 0.06
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.39
Consensus pattern (42 bp):
ATATATAGTATATAGTATATATATAAACTATAAAGTATTTAT
Found at i:2512306 original size:21 final size:21
Alignment explanation
Indices: 2512280--2512319 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2512270 CAGAACCCCA
*
2512280 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
2512301 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
2512320 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:2517555 original size:30 final size:30
Alignment explanation
Indices: 2517519--2517579 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
2517509 CCTACCTTAG
2517519 CTATCCACACTAAGGATTTTCCAACAAATT
1 CTATCCACACTAAGGATTTTCCAACAAATT
2517549 CTATCCACACTAAGGATTTTCCAACAAATT
1 CTATCCACACTAAGGATTTTCCAACAAATT
2517579 C
1 C
2517580 ACTAATTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.30
Consensus pattern (30 bp):
CTATCCACACTAAGGATTTTCCAACAAATT
Found at i:2518439 original size:2 final size:2
Alignment explanation
Indices: 2518432--2519112 Score: 297
Period size: 2 Copynumber: 340.5 Consensus size: 2
2518422 CGAATCTTAA
2518432 AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2518472 AT AT -T AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
2518512 AT AT AT AT AT AT AT A- AT -T AT AT AT TT AT AT ACT TT A- AT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* *
2518552 TT AT A- AT -T AT ACT TT AT AT AT AT AT AT AT AT AT GAT AT ACT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT -AT AT A-T
* * *
2518593 -T AT ACT AT ACT TT AT AT -T AT -T AT AT GT AT AT AT AT TT AT ACT
1 AT AT A-T AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * *
2518635 A- AA ACT TT AT AT AT AT AT AT AT AT AT AT AT AC ACT -T GT ACT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T
* * *
2518676 TT AT AT GT AT AT AT ACT -T AT AT ACT -T AT AT ACT TT AGT AT -T
1 AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT A-T AT A-T AT AT
*
2518717 AT A- AT -T AT ACT -T AT AT AT AT ACT TT AT AGT AT AT AT AT ACT
1 AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT A-T AT AT AT AT A-T
* * * * *
2518758 -T AT AT AC AT -T AT AT -T AT -T AT AC CT AT AT AG ACT TT AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T
* * *
2518798 A- AT ACT TT AT AT AT AT AT ACT -T AT A- AT TT AT AT AT CT AT AT
1 AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
*
2518839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GT ACT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * *
2518880 ACT TT AT -T AT AT ACT -T AT AT ACT TT TT AT -T AT AT ACT TT AGT
1 A-T AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT A-T AT A-T
* * * *
2518922 CT TT AT AGT -T AT ACT TT AT AT AT AT A- AT ACT AT ACT TT AT -T
1 AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT A-T AT A-T AT AT AT
* * * * * * *
2518963 TT TT AT AT AT GT AC AT AT ACT TT AT ACT A- AA ACT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT A-T AT AT AT AT
* * * *
2519005 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AC AC ACT TT AT ACT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT
* ** * *
2519048 AA AGT AT AT AT GC CT -T AT AGT TT AT AT AT AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
2519091 AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
2519113 CTTTATAGTT
Statistics
Matches: 517, Mismatches: 84, Indels: 156
0.68 0.11 0.21
Matches are distributed among these distances:
1 39 0.08
2 436 0.84
3 42 0.08
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2518933 original size:22 final size:22
Alignment explanation
Indices: 2518687--2519151 Score: 107
Period size: 21 Copynumber: 21.8 Consensus size: 22
2518677 TATATGTATA
2518687 TATACTTATATACTTATATACTT
1 TATA-TTATATACTTATATACTT
2518710 TAGTATTATA-A--T-TATAC-T
1 TA-TATTATATACTTATATACTT
*
2518728 TATA-TATATACTT-TATA--G
1 TATATTATATACTTATATACTT
*
2518746 TATA-TATATACTTATATACAT
1 TATATTATATACTTATATACTT
*
2518767 TATATTATTATACCTATATAGACTT
1 TATATTA-TATA-CT-TATATACTT
* *
2518792 TATACTA-ATACTTTATATA-TA
1 TATATTATATAC-TTATATACTT
* *
2518813 TATACTTATA-ATTTATATA-TC
1 TATA-TTATATACTTATATACTT
*
2518834 TATA-TATATA-TATATATA-TA
1 TATATTATATACT-TATATACTT
*
2518854 TATATATATATA-TTATGTAC-T
1 TATAT-TATATACTTATATACTT
*
2518875 TATA-TACTTTA-TTATATACTT
1 TATATTA-TATACTTATATACTT
*
2518896 ATATACTT-TTTA-TTATATACTT
1 -TATA-TTATATACTTATATACTT
* *
2518918 TAGTCTT-TATA-GT-TATACTT
1 TA-TATTATATACTTATATACTT
*
2518938 TATA-TATATA-ATACTATACTT
1 TATATTATATACTTA-TATACTT
*
2518959 TATTTTTTATATA-TGTACATATACTT
1 TA--TATTATATACT-T--ATATACTT
* * *
2518985 TATACTA-AAACTTTATATA-TA
1 TATATTATATAC-TTATATACTT
*
2519006 TATATATATATA-TTATATA-TA
1 TATAT-TATATACTTATATACTT
* *
2519027 TATA-TACACACTT-TATACTT
1 TATATTATATACTTATATACTT
* * * *
2519047 TAAAGTATATATGCCT-TATAGTT
1 TATA-T-TATATACTTATATACTT
*
2519070 TATATATATATA-TATATATA-TA
1 TATAT-TATATACT-TATATACTT
2519092 TATATATATATA-TATATTATACTT
1 TATAT-TATATACT-TA-TATACTT
* *
2519116 TATAGTT-TACACTT-TATA-TA
1 TATA-TTATATACTTATATACTT
*
2519136 TATACT-TATACTTATA
1 TATATTATATACTTATA
2519152 CTTTTTTATA
Statistics
Matches: 346, Mismatches: 46, Indels: 103
0.70 0.09 0.21
Matches are distributed among these distances:
16 4 0.01
17 3 0.01
18 17 0.05
19 42 0.12
20 45 0.13
21 70 0.20
22 70 0.20
23 47 0.14
24 22 0.06
25 16 0.05
26 9 0.03
27 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATTATATACTTATATACTT
Found at i:2519119 original size:12 final size:12
Alignment explanation
Indices: 2519062--2519155 Score: 54
Period size: 12 Copynumber: 7.8 Consensus size: 12
2519052 TATATATGCC
*
2519062 TTATAGTTTATA
1 TTATACTTTATA
*
2519074 -TATA-TATATA
1 TTATACTTTATA
*
2519084 TATATA-TATATA
1 T-TATACTTTATA
*
2519096 TATATA-TATATA
1 T-TATACTTTATA
2519108 TTATACTTTATA
1 TTATACTTTATA
*
2519120 GTTTACACTTTATA
1 --TTATACTTTATA
2519134 TATATAC-TTATA
1 T-TATACTTTATA
2519146 CTTATACTTT
1 -TTATACTTT
2519156 TTTATATATG
Statistics
Matches: 70, Mismatches: 4, Indels: 15
0.79 0.04 0.17
Matches are distributed among these distances:
10 5 0.07
11 8 0.11
12 39 0.56
13 7 0.10
14 11 0.16
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (12 bp):
TTATACTTTATA
Found at i:2519657 original size:2 final size:2
Alignment explanation
Indices: 2519650--2519678 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2519640 AAAGTATAAG
2519650 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2519679 ATTGTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2520021 original size:24 final size:24
Alignment explanation
Indices: 2519976--2520021 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
2519966 TTTAGTCCAT
*
2519976 TTTTATATTAATATCAGCTTCACA
1 TTTTATATTAATATCAACTTCACA
*
2520000 TTTTATAATTAAT-TCAATTTCA
1 TTTTAT-ATTAATATCAACTTCA
2520022 TCTCTCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTATATTAATATCAACTTCACA
Found at i:2520118 original size:7 final size:7
Alignment explanation
Indices: 2520106--2520265 Score: 93
Period size: 7 Copynumber: 22.6 Consensus size: 7
2520096 TATATACATA
*
2520106 TATAAAC
1 TATAAAG
*
2520113 TATAAAA
1 TATAAAG
2520120 TAT-AAG
1 TATAAAG
2520126 TATATAAG
1 TATA-AAG
*
2520134 TATATA-
1 TATAAAG
2520140 TATAAAG
1 TATAAAG
2520147 TATAAAG
1 TATAAAG
2520154 TATATAA-
1 TATA-AAG
2520161 TATAAAG
1 TATAAAG
2520168 TATTAAAG
1 TA-TAAAG
2520176 TATATAA-
1 TATA-AAG
2520183 TATAAAG
1 TATAAAG
2520190 TAATAAAG
1 T-ATAAAG
* *
2520198 TGT-ATG
1 TATAAAG
*
2520204 GATATAAG
1 TATA-AAG
2520212 TATTAAA-
1 TA-TAAAG
2520219 TATAAAG
1 TATAAAG
*
2520226 TATTATAG
1 TA-TAAAG
*
2520234 TATATAAA
1 TATA-AAG
2520242 TAT-AAG
1 TATAAAG
2520248 TATTAAA-
1 TA-TAAAG
*
2520255 TATAAAA
1 TATAAAG
2520262 TATA
1 TATA
2520266 TTAATTATCA
Statistics
Matches: 121, Mismatches: 14, Indels: 36
0.71 0.08 0.21
Matches are distributed among these distances:
6 29 0.24
7 48 0.40
8 42 0.35
9 2 0.02
ACGTcount: A:0.54, C:0.01, G:0.09, T:0.36
Consensus pattern (7 bp):
TATAAAG
Found at i:2520124 original size:14 final size:14
Alignment explanation
Indices: 2520105--2520407 Score: 82
Period size: 14 Copynumber: 21.8 Consensus size: 14
2520095 TTATATACAT
*
2520105 ATATAAACTATAAA
1 ATATAAAGTATAAA
2520119 ATAT-AAGTATATAA
1 ATATAAAGTATA-AA
* *
2520133 GTATATA-TATAAA
1 ATATAAAGTATAAA
* *
2520146 GTATAAAGTATATA
1 ATATAAAGTATAAA
2520160 ATATAAAGTATTAAA
1 ATATAAAGTA-TAAA
*
2520175 GTATATAA-TATAAA
1 ATATA-AAGTATAAA
* * **
2520189 GTAATAAAGTGTATGG
1 AT-ATAAAGTATA-AA
*
2520205 ATAT-AAGTATTAA
1 ATATAAAGTATAAA
2520218 ATATAAAGTAT---
1 ATATAAAGTATAAA
2520229 -TAT--AGTATATAA
1 ATATAAAGTATA-AA
*
2520241 ATAT-AAGTATTAA
1 ATATAAAGTATAAA
*
2520254 ATATAAAATATATTAA
1 ATATAAAGTATA--AA
* *
2520270 TTATCATAA-T-TAAT
1 ATAT-A-AAGTATAAA
* * *
2520284 ATATTAAGTATTAT
1 ATATAAAGTATAAA
* *
2520298 ATATATA-TATATAT
1 ATATAAAGTATA-AA
*
2520312 ATATATA-TATAAA
1 ATATAAAGTATAAA
* * *
2520325 GTATAAATTATATA
1 ATATAAAGTATAAA
2520339 ATATAAAGTATTAAA
1 ATATAAAGTA-TAAA
*
2520354 GTATATAA-TATAAA
1 ATATA-AAGTATAAA
* * **
2520368 GTAATAAAGTGTTTGA
1 AT-ATAAAGT-ATAAA
*
2520384 ATAT-AAGTATTAA
1 ATATAAAGTATAAA
2520397 ATATAAAGTAT
1 ATATAAAGTAT
2520408 TATAGTATAT
Statistics
Matches: 218, Mismatches: 41, Indels: 60
0.68 0.13 0.19
Matches are distributed among these distances:
8 5 0.02
10 3 0.01
12 2 0.01
13 44 0.20
14 112 0.51
15 33 0.15
16 15 0.07
17 2 0.01
18 2 0.01
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (14 bp):
ATATAAAGTATAAA
Found at i:2520140 original size:478 final size:476
Alignment explanation
Indices: 2519186--2520143 Score: 1654
Period size: 478 Copynumber: 2.0 Consensus size: 476
2519176 TAAGTGTGTG
* *
2519186 TATATTATATATTATAATTGTTTTATTTTTCCCCAACTTTTGAAATTAATGCAATTTAGTCCATT
1 TATATTATATATTATAATTGTTTTAATTTTCCCCAACTTTTGAAATTAATACAATTTAGTCCATT
*
2519251 TTACAATTTTTCCTCACATTTTACAATTTTTTATTTGATCCTTTTATGTTGTTTATTGTTTTTAA
66 TTACAATTTTTCCTCACATTTTACAATTTTTTATTTGATCCTTTTATGTTGTTTATTGTATTTAA
* *
2519316 ATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAATTATATTTGTATTTTAAATTG
131 ATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAATTATATTTGTATCTGAAATTG
* **
2519381 ACCCATACTTATTTATATTTTTGTAGTTTACTTAAAACCCTATAAAATGTAAATGTCATAATAAA
196 ACCCATACTTATTTATATTTTTGTAATTTACTTAAAACCCTATAAAATGTAAATCACATAATAAA
*
2519446 TTTCTTTTCAAATTATGTTCAACAACTTTTTAAATGTATGCAATTTAGTCCATTTTCTATATTAA
261 TTTCTTTTCAAATTATGTTCAACAACTTTTTAAATGTATGAAATTTAGTCCATTTTCTATATTAA
* * *
2519511 TATCAGCTTCAGATTTTATAATTAATTCAATTTCATCGCTCGTCAATGATTGTTGTTTAATTTAT
326 TATCAGCTTCACATTTTATAATTAATTCAATTTCATCGCTCATCAATGATTATTGTTTAATTTAT
* * *
2519576 TCAATTTTTTATTTCCAATTTCATGTTTGTTTAATTTGTTACTTTATATACATATATAAACTATA
391 TCAATTTTTTATTTCCAATTTCATGTTTGTTCAATATGGTACTTTATATACATATATAAACTATA
*
2519641 AAGTATAAGTATATATATATA
456 AAATATAAGTATATATATATA
*
2519662 TATATATATATATTATAATTGTTTTAATTTTCCCCAACTTTTGAAATTAATACAATTTAGTTCAT
1 TATAT-TATATATTATAATTGTTTTAATTTTCCCCAACTTTTGAAATTAATACAATTTAGTCCAT
2519727 TTTACAA-TTTTCCTCACATTTTACAATTTTTTTGATTTGATCCTTTTATGTTGTTTATTGTATT
65 TTTACAATTTTTCCTCACATTTTACAA-TTTTTT-ATTTGATCCTTTTATGTTGTTTATTGTATT
2519791 TAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAATTATATTTGTATCTGAAA
128 TAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAATTATATTTGTATCTGAAA
2519856 TTGACCCATACTTATTTATATTTTTGTAATTTACTTAAAACCCTATAAAATGTAAATCACATAAT
193 TTGACCCATACTTATTTATATTTTTGTAATTTACTTAAAACCCTATAAAATGTAAATCACATAAT
*
2519921 AAATTTC-TTTCAAATTATGTTCACCAACTTTTTAAATGTATGAAATTTAGTCCATTTT-TATAT
258 AAATTTCTTTTCAAATTATGTTCAACAACTTTTTAAATGTATGAAATTTAGTCCATTTTCTATAT
*
2519984 TAATATCAGCTTCACATTTTATAATTAATTCAATTTCATCTCTCATCAATG-TGTATTGTTTAAT
323 TAATATCAGCTTCACATTTTATAATTAATTCAATTTCATCGCTCATCAATGAT-TATTGTTTAAT
*
2520048 TTATTCAATTTTTTATTTCCAATTTCATGTTTGTTCAATATGGTATTTTATATACATATATAAAC
387 TTATTCAATTTTTTATTTCCAATTTCATGTTTGTTCAATATGGTACTTTATATACATATATAAAC
2520113 TATAAAATATAAGTATATAAGTATATA
452 TATAAAATATAAGTATAT-A-TATATA
2520140 TATA
1 TATA
2520144 AAGTATAAAG
Statistics
Matches: 456, Mismatches: 20, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
475 1 0.00
476 165 0.36
477 119 0.26
478 171 0.38
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.50
Consensus pattern (476 bp):
TATATTATATATTATAATTGTTTTAATTTTCCCCAACTTTTGAAATTAATACAATTTAGTCCATT
TTACAATTTTTCCTCACATTTTACAATTTTTTATTTGATCCTTTTATGTTGTTTATTGTATTTAA
ATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAATTATATTTGTATCTGAAATTG
ACCCATACTTATTTATATTTTTGTAATTTACTTAAAACCCTATAAAATGTAAATCACATAATAAA
TTTCTTTTCAAATTATGTTCAACAACTTTTTAAATGTATGAAATTTAGTCCATTTTCTATATTAA
TATCAGCTTCACATTTTATAATTAATTCAATTTCATCGCTCATCAATGATTATTGTTTAATTTAT
TCAATTTTTTATTTCCAATTTCATGTTTGTTCAATATGGTACTTTATATACATATATAAACTATA
AAATATAAGTATATATATATA
Found at i:2520141 original size:34 final size:33
Alignment explanation
Indices: 2520103--2520170 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 33
2520093 TTTTATATAC
2520103 ATATATAAACTATAAA-ATATAAGTATATAAGTAT
1 ATATATAAACTATAAAGATATAA-TATA-AAGTAT
*
2520137 ATATATAAAGTATAAAGTATATAATATAAAGTAT
1 ATATATAAACTATAAAG-ATATAATATAAAGTAT
2520171 TAAAGTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 21 0.68
35 4 0.13
36 6 0.19
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.35
Consensus pattern (33 bp):
ATATATAAACTATAAAGATATAATATAAAGTAT
Found at i:2520174 original size:22 final size:22
Alignment explanation
Indices: 2520108--2520401 Score: 174
Period size: 22 Copynumber: 13.4 Consensus size: 22
2520098 TATACATATA
* *
2520108 TAAACTATAAAATAT-AAGTA-
1 TAAAGTATATAATATAAAGTAT
2520128 TATAAGTATAT-ATATAAAGTA-
1 TA-AAGTATATAATATAAAGTAT
2520149 TAAAGTATATAATATAAAGTAT
1 TAAAGTATATAATATAAAGTAT
*
2520171 TAAAGTATATAATATAAAGTAA
1 TAAAGTATATAATATAAAGTAT
* *
2520193 TAAAGTGTATGGATAT-AAGTAT
1 TAAAGTATAT-AATATAAAGTAT
*
2520215 TAAA-TATA-AAGTATTATAGTAT
1 TAAAGTATATAA-TA-TAAAGTAT
*
2520237 ATAAA-TATA-AGTATTAAA-TA-
1 -TAAAGTATATAATA-TAAAGTAT
* *
2520257 TAAAATATATTAATTATCATAATTAAT
1 TAAAGTATA-TAA-TAT-A-AAGT-AT
*
2520284 ATATTAAGTAT-T-ATATATA-TAT
1 -TA--AAGTATATAATATAAAGTAT
*
2520306 ATATA-TATATATATATAAAGTA-
1 -TAAAGTATATA-ATATAAAGTAT
*
2520328 TAAATTATATAATATAAAGTAT
1 TAAAGTATATAATATAAAGTAT
*
2520350 TAAAGTATATAATATAAAGTAA
1 TAAAGTATATAATATAAAGTAT
* *
2520372 TAAAGTGTTTGAATAT-AAGTAT
1 TAAAGTATAT-AATATAAAGTAT
2520394 TAAA-TATA
1 TAAAGTATA
2520402 AAGTATTATA
Statistics
Matches: 222, Mismatches: 24, Indels: 55
0.74 0.08 0.18
Matches are distributed among these distances:
19 8 0.04
20 22 0.10
21 44 0.20
22 106 0.48
23 24 0.11
24 3 0.01
25 2 0.01
26 4 0.02
27 1 0.00
28 3 0.01
30 5 0.02
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (22 bp):
TAAAGTATATAATATAAAGTAT
Found at i:2520300 original size:2 final size:2
Alignment explanation
Indices: 2520295--2520343 Score: 57
Period size: 2 Copynumber: 25.0 Consensus size: 2
2520285 TATTAAGTAT
* *
2520295 TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA GTA TA AA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
2520337 TA -A TA TA
1 TA TA TA TA
2520344 AAGTATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 2 0.05
2 37 0.93
3 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:2520321 original size:55 final size:55
Alignment explanation
Indices: 2520096--2520365 Score: 109
Period size: 58 Copynumber: 5.0 Consensus size: 55
2520086 TATGGTATTT
* * *
2520096 TATATACATATATAAACTATAAA--ATATAAGTATATAAGTA-TATA-TATA-AAGTA
1 TATATATATATATAAAGTATAAATTATATAA-TATA-AAGTATTAAAGTATATAA-TA
* * * * *
2520149 TAAAGTATATAATATAAAGTATTAAAGTATATAATATAAAGTAATAAAGTGTATGGATA
1 TATA-TATAT-ATATAAAGTA-TAAATTATATAATATAAAGTATTAAAGTATAT-AATA
* * * *
2520208 TA-AGTATTAAATATAAAGTATTATAGTATATAA-ATATAAGTATTAAA-TATAAAATA
1 TATA-TA-TATATATAAAGTA-TAAATTATATAATATA-AAGTATTAAAGTATATAATA
* *
2520264 TAT-TA-AT-TATCATAA-T-T-AA-TATATTAAGTAT-TA-TATATATA-TATAT-ATA
1 TATATATATATAT-A-AAGTATAAATTATA-TAA-TATAAAGTAT-TAAAGTATATAATA
2520313 TATATATAT----AAAGTATAAATTATATAATATAAAGTATTAAAGTATATAATA
1 TATATATATATATAAAGTATAAATTATATAATATAAAGTATTAAAGTATATAATA
2520364 TA
1 TA
2520366 AAGTAATAAA
Statistics
Matches: 170, Mismatches: 19, Indels: 58
0.69 0.08 0.23
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 4 0.02
49 22 0.13
50 26 0.15
51 8 0.05
52 5 0.03
53 6 0.04
54 6 0.04
55 11 0.06
56 14 0.08
57 13 0.08
58 44 0.26
59 6 0.04
60 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (55 bp):
TATATATATATATAAAGTATAAATTATATAATATAAAGTATTAAAGTATATAATA
Found at i:2520331 original size:7 final size:7
Alignment explanation
Indices: 2520319--2520377 Score: 59
Period size: 7 Copynumber: 8.1 Consensus size: 7
2520309 TATATATATA
2520319 TATAAAG
1 TATAAAG
*
2520326 TATAAAT
1 TATAAAG
2520333 TATATAA-
1 TATA-AAG
2520340 TATAAAG
1 TATAAAG
2520347 TATTAAAG
1 TA-TAAAG
2520355 TATATAA-
1 TATA-AAG
2520362 TATAAAG
1 TATAAAG
2520369 TAATAAAG
1 T-ATAAAG
2520377 T
1 T
2520378 GTTTGAATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
6 4 0.09
7 23 0.51
8 18 0.40
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (7 bp):
TATAAAG
Done.