Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 24 of 345
Found at i:6969670 original size:17 final size:17
Alignment explanation
Indices: 6969622--6969670 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 17
6969612 TAAAATTTTA
6969622 AAATTCAAAATATATAA--
1 AAATT-AAAATATA-AACT
6969639 AAATTAAAA-AT-AACT
1 AAATTAAAATATAAACT
6969654 AAATTAAAATATAAACT
1 AAATTAAAATATAAACT
6969671 TACATTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 2 0.07
15 11 0.39
16 6 0.21
17 9 0.32
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATTAAAATATAAACT
Found at i:6972744 original size:19 final size:19
Alignment explanation
Indices: 6972720--6972772 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
6972710 TATTATATTG
*
6972720 ATATTTTATTATGTGTCAT
1 ATATTTTATTATATGTCAT
* *
6972739 ATATTTTTACTATATGTTAT
1 ATA-TTTTATTATATGTCAT
*
6972759 TTATTTTATTATAT
1 ATATTTTATTATAT
6972773 TTTATATCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (19 bp):
ATATTTTATTATATGTCAT
Found at i:6972777 original size:19 final size:19
Alignment explanation
Indices: 6972669--6972777 Score: 73
Period size: 19 Copynumber: 5.8 Consensus size: 19
6972659 TTTTATAAAT
6972669 TTTTATTATATGTTATTT-
1 TTTTATTATATGTTATTTA
* * * *
6972687 TTTAAAATATATATTGTTTA
1 TTT-TATTATATGTTATTTA
* *
6972707 TTCTATTATAT-TGA--TA
1 TTTTATTATATGTTATTTA
* * *
6972723 TTTTATTATGTGTCATATA
1 TTTTATTATATGTTATTTA
*
6972742 TTTTTACTATATGTTATTTA
1 -TTTTATTATATGTTATTTA
*
6972762 TTTTATTATATTTTAT
1 TTTTATTATATGTTAT
6972778 ATCATTTTTA
Statistics
Matches: 67, Mismatches: 18, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
16 11 0.16
17 2 0.03
18 4 0.06
19 33 0.49
20 17 0.25
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (19 bp):
TTTTATTATATGTTATTTA
Found at i:6974026 original size:17 final size:18
Alignment explanation
Indices: 6973992--6974028 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6973982 TCAAAATTCG
6973992 ATCCCTTGTTTTTCAAAA
1 ATCCCTTGTTTTTCAAAA
*
6974010 ATCCCTT-TTTTTTAAAA
1 ATCCCTTGTTTTTCAAAA
6974027 AT
1 AT
6974029 GGTTTCGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.30, C:0.19, G:0.03, T:0.49
Consensus pattern (18 bp):
ATCCCTTGTTTTTCAAAA
Found at i:6975646 original size:22 final size:21
Alignment explanation
Indices: 6975611--6975686 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 21
6975601 AAAGGATATC
* *
6975611 TACAAATTAAATCTCCAAGAT
1 TACAAATCATATCTCCAAGAT
*
6975632 TACAAAATCATATCTTCAAGAT
1 TAC-AAATCATATCTCCAAGAT
* *
6975654 TGCATATCATATCT--AAGAT
1 TACAAATCATATCTCCAAGAT
* *
6975673 TGCATATCATATCT
1 TACAAATCATATCT
6975687 AAGATTGTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 19 0.39
21 13 0.27
22 17 0.35
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCCAAGAT
Found at i:6975673 original size:19 final size:19
Alignment explanation
Indices: 6975638--6975735 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
6975628 AGATTACAAA
6975638 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
6975659 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
6975678 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
6975695 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
6975714 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
6975733 ATC
1 ATC
6975736 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:6975702 original size:36 final size:37
Alignment explanation
Indices: 6975638--6975735 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
6975628 AGATTACAAA
6975638 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
*
6975678 ATCATATCTAAGATTG-TATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
6975714 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
6975736 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:6975875 original size:7 final size:7
Alignment explanation
Indices: 6975858--6975886 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
6975848 TTGAACTTTG
6975858 TTTTA-T
1 TTTTATT
6975864 TTTTATT
1 TTTTATT
6975871 TTTTATT
1 TTTTATT
6975878 TTTTATT
1 TTTTATT
6975885 TT
1 TT
6975887 AGTTTAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTATT
Found at i:6976900 original size:55 final size:52
Alignment explanation
Indices: 6976841--6977427 Score: 296
Period size: 55 Copynumber: 10.8 Consensus size: 52
6976831 ATGAGTTTTC
** * **
6976841 AAAAAAAGGATTTTTTTTGTGCTGGCCTGTCAATTCCCGGCACCAGTAATTTT
1 AAAAAAAAAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAA-TTT
*
6976894 AAAAAAATTCAAATTTTTTTGGTGGTGGCCTGTCAATGGCCGGCACCAGAATACAATTTTTTT
1 AAAAAAA---AAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAG--T--AA----TTT
* ** * * *
6976957 TAAAAAAAAA-----TTGGTATTGGCTTGTCAATAGTCGGCACCAGTAATTT
1 AAAAAAAAAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTT
* * *
6977004 AAAAAAAAATTTAATTTTTTT-GTGCTGGTCTGTCAATGACCGACACCAGTAATTT
1 -AAAAAAAA---AATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTT
6977059 AAAAAAAATTCAAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGAATACGAGTTTT
1 -AAAAAAA---AAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAG--TA--A--TTT
* *
6977121 CAAAAAAAAAA-----TTGGTGCTGGCCTGTCAATGGCCGGCAACAATAATTT
1 -AAAAAAAAAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTT
* * *
6977169 AAAAAAAATTAAATTTTTTTGGTGCTGGCCTATCAATGGCTGACACCAGT-A-TT
1 -AAAAAAA--AAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTT
** * *
6977222 AAAAAAATGATTTTTTTTGTGCTGGTCTGTCAATGGCCGGCACCAGAATACGAGTTTT
1 AAAAAAAAAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAG--TA--A--TTT
* ** *
6977280 CAAAAAAAAA----TTTGGTGCTGGCCTGTCAATGGCCAACATCAGT-A-TT
1 AAAAAAAAAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTT
** * * *
6977326 AAAAAAAATTTTGAATTTTTTTTATGCTGGCCTGTCAATGGTCGACACCAGT-ATTA
1 AAAAAAAA-----AATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTT
* * * * *
6977382 AAAAAAATTCAAAATTTTTTGGAGCTAGTCTGTTAATGGCCGGCAC
1 AAAAAAA---AAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCAC
6977428 TAAATTTGAG
Statistics
Matches: 413, Mismatches: 64, Indels: 113
0.70 0.11 0.19
Matches are distributed among these distances:
46 9 0.02
47 3 0.01
48 17 0.04
49 1 0.00
50 36 0.09
51 6 0.01
52 11 0.03
53 10 0.02
54 83 0.20
55 126 0.31
56 68 0.16
58 13 0.03
59 4 0.01
60 6 0.01
62 10 0.02
63 10 0.02
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (52 bp):
AAAAAAAAAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTT
Found at i:6977028 original size:166 final size:162
Alignment explanation
Indices: 6976852--6977427 Score: 680
Period size: 159 Copynumber: 3.5 Consensus size: 162
6976842 AAAAAAGGAT
** * *
6976852 TTTTTTTGTGCTGGCCTGTCAATTCCCGGCACCAGTAATTTTAAAAAAATTCAAATTTTTTTGGT
1 TTTTTTTGTGCTGGCCTGTCAATGGCCGACACCAGT-A-TTAAAAAAAATTCAAATTTTTTTGGT
* * * ** *
6976917 GGTGGCCTGTCAATGGCCGGCACCAGAATACAATTTTTTTTAAAAAAAAATTGGTATTGGCTTGT
64 GCTGGCCTGTCAATGGCCGGCACCAGAATACGA--TTTTTAAAAAAAAAATTGGTGCTGGCCTGT
* * *
6976982 CAATAGTCGGCACCAGTAATTTAAAAAAAAATTTAA
127 CAATGGCCGGCAACAGTAATTTAAAAAAAAATTTAA
* *
6977018 TTTTTTTGTGCTGGTCTGTCAATGACCGACACCAGTAATTTAAAAAAAATTCAAATTTTTTTGGT
1 TTTTTTTGTGCTGGCCTGTCAATGGCCGACACCAGT-A-TTAAAAAAAATTCAAATTTTTTTGGT
*
6977083 GCTGGCCTGTCAATGGCCGGCACCAGAATACGAGTTTTCAAAAAAAAAATTGGTGCTGGCCTGTC
64 GCTGGCCTGTCAATGGCCGGCACCAGAATACGA-TTTTTAAAAAAAAAATTGGTGCTGGCCTGTC
* *
6977148 AATGGCCGGCAACAATAATTT-AAAAAAAATTAAA
128 AATGGCCGGCAACAGTAATTTAAAAAAAAATTTAA
* * * *
6977182 TTTTTTTGGTGCTGGCCTATCAATGGCTGACACCAGTATT-AAAAAAA-T--GATTTTTTTTGTG
1 TTTTTTT-GTGCTGGCCTGTCAATGGCCGACACCAGTATTAAAAAAAATTCAAATTTTTTTGGTG
* * *
6977243 CTGGTCTGTCAATGGCCGGCACCAGAATACGAGTTTTCAAAAAAAAATTTGGTGCTGGCCTGTCA
65 CTGGCCTGTCAATGGCCGGCACCAGAATACGA-TTTTTAAAAAAAAAATTGGTGCTGGCCTGTCA
** * *
6977308 ATGGCCAACATCAGT-A-TTAAAAAAAATTTTGAA
129 ATGGCCGGCAACAGTAATTTAAAAAAAAATTT-AA
* * * *
6977341 TTTTTTTTATGCTGGCCTGTCAATGGTCGACACCAGTATTAAAAAAAATTCAAAATTTTTTGGAG
1 -TTTTTTTGTGCTGGCCTGTCAATGGCCGACACCAGTATTAAAAAAAATTCAAATTTTTTTGGTG
* * *
6977406 CTAGTCTGTTAATGGCCGGCAC
65 CTGGCCTGTCAATGGCCGGCAC
6977428 TAAATTTGAG
Statistics
Matches: 360, Mismatches: 42, Indels: 19
0.86 0.10 0.05
Matches are distributed among these distances:
157 2 0.01
158 10 0.03
159 115 0.32
160 14 0.04
161 2 0.01
162 7 0.02
163 31 0.09
164 20 0.06
165 68 0.19
166 91 0.25
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (162 bp):
TTTTTTTGTGCTGGCCTGTCAATGGCCGACACCAGTATTAAAAAAAATTCAAATTTTTTTGGTGC
TGGCCTGTCAATGGCCGGCACCAGAATACGATTTTTAAAAAAAAAATTGGTGCTGGCCTGTCAAT
GGCCGGCAACAGTAATTTAAAAAAAAATTTAA
Found at i:6977226 original size:50 final size:49
Alignment explanation
Indices: 6977181--6977387 Score: 125
Period size: 54 Copynumber: 4.0 Consensus size: 49
6977171 AAAAAATTAA
*
6977181 ATTTTTTTGGTGCTGGCCTATCAATGGCTGACACCAGTATTAAAAAAATG
1 ATTTTTTTGGTGCTGGCCTATCAATGGCCGACACCAGTATTAAAAAAA-G
* * * *
6977231 ATTTTTTTTGTGCTGGTCTGTCAATGGCCGGCACCAGAATACGAGTTTTCAAAAAAA-
1 ATTTTTTTGGTGCTGGCCTATCAATGGCCGACACCAG--T---A---TT-AAAAAAAG
* * * *
6977288 A---ATTTGGTGCTGGCCTGTCAATGGCCAACATCAGTATTAAAAAAAATTTTG
1 ATTTTTTTGGTGCTGGCCTATCAATGGCCGACACCAGTATT-AAAAAAA----G
** * *
6977339 AATTTTTTTTATGCTGGCCTGTCAATGGTCGACACCAGTATTAAAAAAA
1 -ATTTTTTTGGTGCTGGCCTATCAATGGCCGACACCAGTATTAAAAAAA
6977388 ATTCAAAATT
Statistics
Matches: 121, Mismatches: 18, Indels: 32
0.71 0.11 0.19
Matches are distributed among these distances:
46 9 0.07
49 1 0.01
50 32 0.26
52 3 0.02
54 34 0.28
55 32 0.26
57 1 0.01
58 2 0.02
59 7 0.06
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (49 bp):
ATTTTTTTGGTGCTGGCCTATCAATGGCCGACACCAGTATTAAAAAAAG
Found at i:6977403 original size:109 final size:104
Alignment explanation
Indices: 6977018--6977422 Score: 259
Period size: 109 Copynumber: 3.8 Consensus size: 104
6977008 AAAAATTTAA
* * * * *
6977018 TTTTTTTGTGCTGGTCTGTCAATGACCGACACCAGTAATTTAAAAAAAATTCAAATTTTTTTGGT
1 TTTTTTTATGCTGGCCTGTCAATGGCCGGCACCAGT-A-TTAAAAAAAATTCAAAATTTTTTGGT
**
6977083 GCTGGCCTGTCAATGGCCGGCACCAGAATACGAGTTTTCAAAAAAA--A-
64 GCTGGCCTGTCAATGGCCAACACCAG--T---A---TT-AAAAAAATGAT
** ** * * *
6977130 --AATTGGTGCTGGCCTGTCAATGGCCGGCAACAATAATTTAAAAAAAATT-AAATTTTTTTGGT
1 TTTTTTTATGCTGGCCTGTCAATGGCCGGCACCAGT-A-TTAAAAAAAATTCAAAATTTTTTGGT
* **
6977192 GCTGGCCTATCAATGGCTGACACCAGTATTAAAAAAATGAT
64 GCTGGCCTGTCAATGGCCAACACCAGTATTAAAAAAATGAT
* * * ** *** ***
6977233 TTTTTTTGTGCTGGTCTGTCAATGGCCGGCACCAG-AAT-ACGAGTTTTCAAAAAAAAATTTGGT
1 TTTTTTTATGCTGGCCTGTCAATGGCCGGCACCAGTATTAAAAAAAATTC--AAAATTTTTTGGT
*
6977296 GCTGGCCTGTCAATGGCCAACATCAGTATTAAAAAAAATTTTGAAT
64 GCTGGCCTGTCAATGGCCAACACCAGTATT-AAAAAAA---TG-AT
* * *
6977342 TTTTTTTATGCTGGCCTGTCAATGGTCGACACCAGTATTAAAAAAAATTCAAAATTTTTTGGAGC
1 TTTTTTTATGCTGGCCTGTCAATGGCCGGCACCAGTATTAAAAAAAATTCAAAATTTTTTGGTGC
* * *
6977407 TAGTCTGTTAATGGCC
66 TGGCCTGTCAATGGCC
6977423 GGCACTAAAT
Statistics
Matches: 230, Mismatches: 48, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
100 7 0.03
101 6 0.03
102 2 0.01
103 1 0.00
104 36 0.16
105 34 0.15
107 1 0.00
108 2 0.01
109 93 0.40
110 43 0.19
111 5 0.02
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (104 bp):
TTTTTTTATGCTGGCCTGTCAATGGCCGGCACCAGTATTAAAAAAAATTCAAAATTTTTTGGTGC
TGGCCTGTCAATGGCCAACACCAGTATTAAAAAAATGAT
Found at i:6980570 original size:10 final size:10
Alignment explanation
Indices: 6980555--6980580 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6980545 TCACATCCAG
6980555 CACGATAGGA
1 CACGATAGGA
6980565 CACGATAGGA
1 CACGATAGGA
6980575 CACGAT
1 CACGAT
6980581 CCTTTATACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (10 bp):
CACGATAGGA
Found at i:6980915 original size:131 final size:131
Alignment explanation
Indices: 6980753--6981008 Score: 381
Period size: 131 Copynumber: 2.0 Consensus size: 131
6980743 AGTTTAGAAA
* **
6980753 ACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
1 ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAAAAATTGCAACCCAGCAC
* * *
6980818 GATAGGGC-CTGATTCCCCGAATCGTCAAACGTCGAACATTTCCTTCATTTTAAAGAATTTCTAA
66 GATAGGGCAC-GATTCCCCGAATCGCCAAACATCGAACATTGCCTTCATTTTAAAGAATTTCTAA
6980882 GG
130 GG
* *
6980884 ACATGAGTGAAGTTAC-AAAGGAATATTCGATTATTTTGAACAAACGAAAAATTGCAATCCAGCA
1 ACATGAGTGAAATT-CTAAAGGAATATTCGATTATTTTGAACAAACGAAAAATTGCAACCCAGCA
* * *
6980948 CGATAGGGCACGATTTCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAATTT
65 CGATAGGGCACGATTCCCCGAATCGCCAAACATCGAACATTGCCTTCATTTTAAAGAATTT
6981009 TTAAATGAAT
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
131 110 0.98
132 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (131 bp):
ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAAAAATTGCAACCCAGCAC
GATAGGGCACGATTCCCCGAATCGCCAAACATCGAACATTGCCTTCATTTTAAAGAATTTCTAAG
G
Found at i:6982716 original size:130 final size:130
Alignment explanation
Indices: 6982582--6982966 Score: 590
Period size: 130 Copynumber: 3.0 Consensus size: 130
6982572 CACATATTGC
* * * *** ** * * *
6982582 CTTCGTTTTAGGGATTTTAAAAGACACGAGCGAAATTTTAAAGTGATATTTGATTATTTTGAGCA
1 CTTCGTTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATTTTGAGCA
* *
6982647 AATGCGAAATTGCAACCCAACACGTTAAGGCACGATTCCGCGAATTGCCAAACATCAAATCTCAT
66 AATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCGAACATCAAATCTCAT
6982712 CTTCGTTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATTTTGAGCA
1 CTTCGTTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATTTTGAGCA
*
6982777 AATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCTGAACATCAAATCTCAT
66 AATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCGAACATCAAATCTCAT
* *
6982842 CTTCGTTTAATGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATCTTGAGCA
1 CTTCGTTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATTTTGAGCA
* * * *
6982907 AATGTGAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGTCGAACATTAAAT
66 AATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCGAACATCAAAT
6982967 TTTGTCTTCG
Statistics
Matches: 234, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 234 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (130 bp):
CTTCGTTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATTTTGAGCA
AATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCGAACATCAAATCTCAT
Found at i:6983556 original size:20 final size:18
Alignment explanation
Indices: 6983531--6983578 Score: 71
Period size: 17 Copynumber: 2.6 Consensus size: 18
6983521 AAAAGTTAAC
6983531 AAAATATATGATAATACAAA
1 AAAATATATG--AATACAAA
6983551 AAAATATATG-ATACAAA
1 AAAATATATGAATACAAA
6983568 AAAATATATGA
1 AAAATATATGA
6983579 CAAAAACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 17 0.63
20 10 0.37
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (18 bp):
AAAATATATGAATACAAA
Found at i:6983574 original size:15 final size:15
Alignment explanation
Indices: 6983529--6983584 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
6983519 TTAAAAGTTA
*
6983529 ACAAAATATATGATAAT
1 ACAAAAAATAT-AT-AT
6983546 ACAAAAAAATATATGAT
1 AC-AAAAAATATAT-AT
6983563 ACAAAAAA-ATATAT
1 ACAAAAAATATATAT
6983577 GACAAAAA
1 -ACAAAAA
6983585 CATGAGGCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 6 0.17
17 8 0.23
18 8 0.23
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.21
Consensus pattern (15 bp):
ACAAAAAATATATAT
Found at i:6986246 original size:132 final size:132
Alignment explanation
Indices: 6985921--6986566 Score: 915
Period size: 132 Copynumber: 4.9 Consensus size: 132
6985911 TCTGCAATCG
* * *
6985921 TCAACCTACTCCACTACAACTTTAGGGAGCTAGGGCGATAGT--C-TAAATCTACTTCACTGCAA
1 TCAACCTACTCCACTACAACTTTAGGGAGCTA--G-GTTAGTGACTTAAATCTGCTTCGCTGCAA
* * * ** * * * *
6985983 CATCAGGAAGCCTAGATTCACCGTCTTTGATCTGTTCCACTGCAA-TCCCAGGGAAACAAAATCT
63 CTTCAGGAAGTCAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACT-TCAGGGAAACGAGATCT
* *
6986047 ATATTT
127 AAAATT
* *
6986053 CTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACT
1 -TCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCGCTGCAACT
* * * *
6986118 TCAAGAAGTTAAGATTCGTCGTCTTCGATCTGCTCCACTGTAACTTCAGGGAAACGAGATCTAAA
65 TCAGGAAGTCAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAA
6986183 ATT
130 ATT
*
6986186 TCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTT
1 TCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCGCTGCAACTT
* *
6986251 CAGGAAGTCAAGATTCGTTGTCTTTGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAA
66 CAGGAAGTCAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAA
6986316 TT
131 TT
* *
6986318 TTAACCTACTCCACTACAACTTTAAGGAGCTAGGTTAGTGACTTAAATCTGCTTCGCTGCAACTT
1 TCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCGCTGCAACTT
* *
6986383 CAGGAAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAA
66 CAGGAAGTCAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAA
6986448 TT
131 TT
* * *
6986450 TTAACCTACTCCATTACAACTTTAAGGAGCTAGGTTAGTGACTTAAATCTGCTTCGCTGCAACTT
1 TCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCGCTGCAACTT
* *
6986515 CAAGAAGTCAAGATTTGTCGTCTTCGATCTGCTT-CACTGCAACTTCAGGGAA
66 CAGGAAGTCAAGATTCGTCGTCTTCGATCTG-TTCCACTGCAACTTCAGGGAA
6986567 GCAGGATCTG
Statistics
Matches: 471, Mismatches: 37, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
130 5 0.01
131 1 0.00
132 360 0.76
133 104 0.22
134 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (132 bp):
TCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCGCTGCAACTT
CAGGAAGTCAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAA
TT
Found at i:6998458 original size:130 final size:130
Alignment explanation
Indices: 6998277--6998763 Score: 390
Period size: 130 Copynumber: 3.7 Consensus size: 130
6998267 TTGCCCTCAT
* * * *
6998277 TTTAAAGGATTTTTAAAAGAGCCGAGTGAAATTTTGAAGGGATATTTGATTACTTT-A-CACAAT
1 TTTAAGGGA-TTTTAAAAGAGCCGAGCGAAATTTTAAAGGGATATTCGATTACTTTGAGCA-AAT
* * * * * * * *
6998340 -CGAGAAATTGCTACTCAACACGTTAGGGCGCGATCCCACGAAATGCCAAATACCACATATCGCC
64 AC--GAAATTGCAACCCAACACGTTAAGGCACGATCCCACGAAATACCAAACACCAAATATCACC
6998404 TTCG
127 TTCG
* * *
6998408 TTTTAGGGATTTTAAAAGA-CACGAGCGAAATTTTAAAGTGATATTCGATTATTTTGAGCAAATA
1 TTTAAGGGATTTTAAAAGAGC-CGAGCGAAATTTTAAAGGGATATTCGATTACTTTGAGCAAATA
* * * * * *
6998472 CGAAATTGCAACCCAACACGTTAAGGCACGATTCCGCGAATTACCAAACATCAAATCTCATCTTC
65 CGAAATTGCAACCCAACACGTTAAGGCACGATCCCACGAAATACCAAACACCAAATATCACCTTC
6998537 G
130 G
*** *** * * * * * *
6998538 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCAAAGGAAAATTCAATTATTTTGAGCAAATGC
1 TTTAAGGGATTTTAAAAGAGCCGAGCGAAATTTTAAAGGGATATTCGATTACTTTGAGCAAATAC
* ** * * * * * * * *
6998603 GGAATTATAACCCAACACGTTATGGCACGATTCCACGAATTGCCGAACATCAAATCTCATCTTCG
66 GAAATTGCAACCCAACACGTTAAGGCACGATCCCACGAAATACCAAACACCAAATATCACCTTCG
*** *** ** * *
6998668 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTA-TCTTGAGCAAATG
1 TTTAAGGGATTTTAAAAGAGCCGAGCGAAATTTTAAAGGGATATTCGATTACT-TTGAGCAAATA
*
6998732 CGAAATTGCAACCCAACACGTTAGGGCACGAT
65 CGAAATTGCAACCCAACACGTTAAGGCACGAT
6998764 TCCGCGAATT
Statistics
Matches: 303, Mismatches: 47, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
129 2 0.01
130 287 0.95
131 11 0.04
132 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (130 bp):
TTTAAGGGATTTTAAAAGAGCCGAGCGAAATTTTAAAGGGATATTCGATTACTTTGAGCAAATAC
GAAATTGCAACCCAACACGTTAAGGCACGATCCCACGAAATACCAAACACCAAATATCACCTTCG
Found at i:6998764 original size:130 final size:130
Alignment explanation
Indices: 6998343--6998800 Score: 583
Period size: 130 Copynumber: 3.5 Consensus size: 130
6998333 ACACAATCGA
* * * * * * * * * **
6998343 GAAATTGCTACTCAACACGTTAGGGCGCGATCCCACGAAATGCCAAATACCACATATCGCCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAACATCAAATCTCATCTTCG
* * * *** * * * *
6998408 TTTTAGGGATTTTAAAAGACACGAGCGAAATTTTAAAGTGATATTCGATTATTTTGAGCAAATAC
66 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCAAAGGGAAATTCGATTATTTTGAGCAAATGC
* * *
6998473 GAAATTGCAACCCAACACGTTAAGGCACGATTCCGCGAATTACCAAACATCAAATCTCATCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAACATCAAATCTCATCTTCG
* *
6998538 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCAAAGGAAAATTCAATTATTTTGAGCAAATGC
66 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCAAAGGGAAATTCGATTATTTTGAGCAAATGC
* ** * *
6998603 GGAATTATAACCCAACACGTTATGGCACGATTCCACGAATTGCCGAACATCAAATCTCATCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAACATCAAATCTCATCTTCG
* *
6998668 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATCTTGAGCAAATGC
66 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCAAAGGGAAATTCGATTATTTTGAGCAAATGC
* * * *
6998733 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCGAACATCAAATTTCGTCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAACATCAAATCTCATCTTCG
6998798 TTT
66 TTT
6998801 TGAAGAATTT
Statistics
Matches: 284, Mismatches: 44, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
130 284 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (130 bp):
GAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAACATCAAATCTCATCTTCG
TTTAAGGGATTTTAAAAGATATGAATAAAATTTCAAAGGGAAATTCGATTATTTTGAGCAAATGC
Found at i:6999386 original size:17 final size:18
Alignment explanation
Indices: 6999352--6999399 Score: 71
Period size: 17 Copynumber: 2.6 Consensus size: 18
6999342 AAAAGTTAAC
6999352 AAAATATATGATAGTACAAA
1 AAAATATATG--AGTACAAA
6999372 AAAATATATGA-TACAAA
1 AAAATATATGAGTACAAA
6999389 AAAATATATGA
1 AAAATATATGA
6999400 CAAAAACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.61
18 1 0.04
20 10 0.36
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.25
Consensus pattern (18 bp):
AAAATATATGAGTACAAA
Found at i:7002684 original size:6 final size:7
Alignment explanation
Indices: 7002657--7002683 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7002647 AAGAAAAGGG
7002657 GAAAAAA
1 GAAAAAA
7002664 GAAAAAA
1 GAAAAAA
7002671 GAAAAAA
1 GAAAAAA
7002678 GAAAAA
1 GAAAAA
7002684 GGATTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:7003236 original size:22 final size:23
Alignment explanation
Indices: 7003201--7003250 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
7003191 TAAATGAAAT
**
7003201 AAAATTAGATAAATTGTATGAGAA
1 AAAATTAGATAAATTACATG-GAA
7003225 AAAATT-GA-AAATTACATGGAA
1 AAAATTAGATAAATTACATGGAA
7003246 AAAAT
1 AAAAT
7003251 GATAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 8 0.33
23 2 0.08
24 6 0.25
ACGTcount: A:0.58, C:0.02, G:0.14, T:0.26
Consensus pattern (23 bp):
AAAATTAGATAAATTACATGGAA
Found at i:7003273 original size:27 final size:26
Alignment explanation
Indices: 7003243--7003454 Score: 81
Period size: 27 Copynumber: 8.3 Consensus size: 26
7003233 AAATTACATG
7003243 GAAAAAATGATAATTTAAATGAAATGA
1 GAAAAAA-GATAATTTAAATGAAATGA
* *
7003270 GAAAAAA-ATAAATTGAAATGAAACG-
1 GAAAAAAGAT-AATTTAAATGAAATGA
* *
7003295 G--TACA-A-AATTTAAATGAAAATTGA
1 GAAAAAAGATAATTTAAATG-AAA-TGA
*
7003319 -AAGAAAGATAAATTTAAATGAAATGA
1 GAAAAAAGAT-AATTTAAATGAAATGA
*** * *
7003345 GGAAAAATTTTAATTGAAATGAAATAA
1 -GAAAAAAGATAATTTAAATGAAATGA
* *
7003372 GAAAAAA-ATGAAATTAAAT---TTGA
1 GAAAAAAGAT-AATTTAAATGAAATGA
* *
7003395 -AAGAAAGATAAATTTAAATGAAATGG
1 GAAAAAAGAT-AATTTAAATGAAATGA
****
7003421 GAGAAACTTTTAATTTAAAT-AAGATGA
1 GA-AAAAAGATAATTTAAATGAA-ATGA
7003448 GAAAAAA
1 GAAAAAA
7003455 ATTAAATGGA
Statistics
Matches: 133, Mismatches: 33, Indels: 39
0.65 0.16 0.19
Matches are distributed among these distances:
21 9 0.07
22 8 0.06
23 16 0.12
25 6 0.05
26 37 0.28
27 39 0.29
28 18 0.14
ACGTcount: A:0.58, C:0.01, G:0.15, T:0.25
Consensus pattern (26 bp):
GAAAAAAGATAATTTAAATGAAATGA
Found at i:7003337 original size:22 final size:23
Alignment explanation
Indices: 7003312--7003368 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
7003302 ATTTAAATGA
*
7003312 AAATTGAAA-GAAAGATAAATTT
1 AAATTGAAATGAAAGAAAAATTT
*
7003334 AAA-TGAAATG-AGGAAAAATTT
1 AAATTGAAATGAAAGAAAAATTT
*
7003355 TAATTGAAATGAAA
1 AAATTGAAATGAAA
7003369 TAAGAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 16 0.57
22 11 0.39
23 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (23 bp):
AAATTGAAATGAAAGAAAAATTT
Found at i:7003352 original size:49 final size:48
Alignment explanation
Indices: 7003254--7003363 Score: 118
Period size: 49 Copynumber: 2.3 Consensus size: 48
7003244 AAAAAATGAT
*
7003254 AATTTAAATG-AAATGAGAAAAAAATAAATTGAAATGAAACGGTACAA
1 AATTTAAATGAAAATGAGAAAAAAATAAATTGAAATGAAACGGGACAA
* * *
7003301 AATTTAAATGAAAATTGA-AAGAAAGATAAATTTAAATGAAATGAGGA-AA
1 AATTTAAATGAAAA-TGAGAA-AAAAATAAATTGAAATGAAACG-GGACAA
*
7003350 AATTTTAATTGAAA
1 AA-TTTAAATGAAA
7003364 TGAAATAAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
47 10 0.19
48 5 0.09
49 26 0.49
50 12 0.23
ACGTcount: A:0.58, C:0.02, G:0.15, T:0.25
Consensus pattern (48 bp):
AATTTAAATGAAAATGAGAAAAAAATAAATTGAAATGAAACGGGACAA
Found at i:7003398 original size:76 final size:75
Alignment explanation
Indices: 7003221--7003461 Score: 233
Period size: 76 Copynumber: 3.2 Consensus size: 75
7003211 AAATTGTATG
* * * ** *
7003221 AGAAAAAATTGAAAATTACATGGAAA-AAATGAT-AATTTAAATGAAATGA-GAAAAAAATAAAT
1 AGAAAAAAATG-AAATTAAATTGAAAGAAA-GATAAATTTAAATGAAATGAGGAAAAATTTTAAT
*
7003283 TGAAATGAAA-C
64 TGAAATGAAATA
* * * * *
7003294 GGTACAAAATTTAAATGAAAATTGAAAGAAAGATAAATTTAAATGAAATGAGGAAAAATTTTAAT
1 AG-AAAAAAATGAAAT-TAAATTGAAAGAAAGATAAATTTAAATGAAATGAGGAAAAATTTTAAT
7003359 TGAAATGAAATA
64 TGAAATGAAATA
*
7003371 AGAAAAAAATGAAATTAAATTTGAAAGAAAGATAAATTTAAATGAAATG-GGAGAAACTTTTAAT
1 AGAAAAAAATGAAATTAAA-TTGAAAGAAAGATAAATTTAAATGAAATGAGGA-AAAATTTTAAT
* *
7003435 TTAAAT-AAGATG
64 TGAAATGAA-ATA
*
7003447 AGAAAAAAATTAAAT
1 AGAAAAAAATGAAAT
7003462 GGAAAGATAG
Statistics
Matches: 140, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
73 5 0.04
74 17 0.12
75 27 0.19
76 90 0.64
77 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.25
Consensus pattern (75 bp):
AGAAAAAAATGAAATTAAATTGAAAGAAAGATAAATTTAAATGAAATGAGGAAAAATTTTAATTG
AAATGAAATA
Found at i:7003417 original size:17 final size:17
Alignment explanation
Indices: 7003377--7003417 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
7003367 AATAAGAAAA
*
7003377 AAATGAAATTAAATTTG
1 AAATGAAAATAAATTTG
7003394 AAA-GAAAGATAAATTT-
1 AAATGAAA-ATAAATTTG
7003410 AAATGAAA
1 AAATGAAA
7003418 TGGGAGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (17 bp):
AAATGAAAATAAATTTG
Found at i:7003584 original size:22 final size:22
Alignment explanation
Indices: 7003553--7003620 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
7003543 AAATAAAAAT
*
7003553 AAAAATAATATAAATGAATTGA
1 AAAAAAAATATAAATGAATTGA
* * *
7003575 GAAAAAAATA-AATTTAAATTGA
1 AAAAAAAATATAA-ATGAATTGA
* *
7003597 AAAAAAAATTTAAATGAAATGA
1 AAAAAAAATATAAATGAATTGA
7003619 AA
1 AA
7003621 TTAGAATGAA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (22 bp):
AAAAAAAATATAAATGAATTGA
Found at i:7003605 original size:18 final size:18
Alignment explanation
Indices: 7003577--7003615 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
7003567 TGAATTGAGA
7003577 AAAAAATAAATTTAAATTG
1 AAAAAATAAATTTAAA-TG
7003596 AAAAAA-AAATTTAAATG
1 AAAAAATAAATTTAAATG
7003613 AAA
1 AAA
7003616 TGAAATTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAAATAAATTTAAATG
Found at i:7003616 original size:5 final size:5
Alignment explanation
Indices: 7003608--7003684 Score: 73
Period size: 5 Copynumber: 14.6 Consensus size: 5
7003598 AAAAAAATTT
* * * *
7003608 AAATG AAATG AAATT AGAATG AAATG AAGTTG AAATG AAATA AAATG AAGAAG
1 AAATG AAATG AAATG A-AATG AAATG AA-ATG AAATG AAATG AAATG AA-ATG
*
7003661 AAATG AAAATG AAAAG AAATG AAA
1 AAATG -AAATG AAATG AAATG AAA
7003685 AAAAAAGAGT
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
5 41 0.71
6 17 0.29
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:7003628 original size:16 final size:16
Alignment explanation
Indices: 7003609--7003668 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
7003599 AAAAAATTTA
7003609 AATGAAATGAAATTAG
1 AATGAAATGAAATTAG
*
7003625 AATGAAATGAAGTT-G
1 AATGAAATGAAATTAG
* *
7003640 AAATGAAATAAAATGAAG
1 -AATGAAATGAAAT-TAG
7003658 AA-GAAATGAAA
1 AATGAAATGAAA
7003669 ATGAAAAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
15 1 0.03
16 32 0.89
17 2 0.06
18 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (16 bp):
AATGAAATGAAATTAG
Found at i:7003644 original size:32 final size:32
Alignment explanation
Indices: 7003608--7003684 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
7003598 AAAAAAATTT
* **
7003608 AAATGAAATGAAAT-TAGAATGAAATGAAGTTG
1 AAATGAAATGAAATGAAGAA-GAAATGAAAATG
*
7003640 AAATGAAATAAAATGAAGAAGAAATGAAAATG
1 AAATGAAATGAAATGAAGAAGAAATGAAAATG
*
7003672 AAAAGAAATGAAA
1 AAATGAAATGAAA
7003685 AAAAAAGAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 34 0.89
33 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.18
Consensus pattern (32 bp):
AAATGAAATGAAATGAAGAAGAAATGAAAATG
Found at i:7003677 original size:16 final size:16
Alignment explanation
Indices: 7003628--7003685 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
7003618 AAATTAGAAT
** *
7003628 GAAATGAAGTTGAAAT
1 GAAATGAAAATGAAAA
7003644 GAAAT-AAAATGAAGAA
1 GAAATGAAAATGAA-AA
7003660 GAAATGAAAATGAAAA
1 GAAATGAAAATGAAAA
7003676 GAAATGAAAA
1 GAAATGAAAA
7003686 AAAAAGAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 6 0.16
16 23 0.62
17 8 0.22
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.16
Consensus pattern (16 bp):
GAAATGAAAATGAAAA
Found at i:7004005 original size:17 final size:17
Alignment explanation
Indices: 7003983--7004084 Score: 68
Period size: 17 Copynumber: 5.7 Consensus size: 17
7003973 ACCACTTCTA
*
7003983 ATTAATTTGAAAAAAAT
1 ATTAATATGAAAAAAAT
7004000 ATTAATATGAAAAAAAT
1 ATTAATATGAAAAAAAT
7004017 AATATAAAATGAATTGAAAAAAA-
1 -AT-T--AAT--A-TGAAAAAAAT
*
7004040 AATAATATG-AAAAAA-
1 ATTAATATGAAAAAAAT
7004055 A-TAATATGAAAAGAAAAT
1 ATTAATATG-AAA-AAAAT
*
7004073 AATAATATGAAA
1 ATTAATATGAAA
7004085 TGAATTGAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 23
0.74 0.02 0.24
Matches are distributed among these distances:
14 7 0.10
15 7 0.10
16 4 0.06
17 21 0.30
18 6 0.08
19 11 0.15
21 4 0.06
22 1 0.01
23 1 0.01
24 9 0.13
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (17 bp):
ATTAATATGAAAAAAAT
Found at i:7004028 original size:19 final size:19
Alignment explanation
Indices: 7003990--7004088 Score: 89
Period size: 19 Copynumber: 5.2 Consensus size: 19
7003980 CTAATTAATT
*
7003990 TGAAAAAAAT-AT-TAATA
1 TGAAAAAAATAATATAAAA
7004007 TGAAAAAAATAATATAAAA
1 TGAAAAAAATAATATAAAA
* *
7004026 TGAATTGAAAAA-AAAATAATA
1 TGAA---AAAAATAATATAAAA
7004047 TGAAAAAAATAATATGAAAA
1 TGAAAAAAATAATAT-AAAA
* *
7004067 -GAAAATAATAATATGAAA
1 TGAAAAAAATAATATAAAA
7004085 TGAA
1 TGAA
7004089 TTGAAAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
17 10 0.15
18 10 0.15
19 28 0.42
20 3 0.04
21 11 0.16
22 5 0.07
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (19 bp):
TGAAAAAAATAATATAAAA
Found at i:7004046 original size:40 final size:42
Alignment explanation
Indices: 7003989--7004066 Score: 133
Period size: 40 Copynumber: 1.9 Consensus size: 42
7003979 TCTAATTAAT
*
7003989 TTGAAAAAAATATTAATATGAAAAAAATAATAT-AAAATGAA
1 TTGAAAAAAATAATAATATGAAAAAAATAATATGAAAATGAA
7004030 TTGAAAAAAA-AATAATATGAAAAAAATAATATGAAAA
1 TTGAAAAAAATAATAATATGAAAAAAATAATATGAAAA
7004067 GAAAATAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 21 0.60
41 14 0.40
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (42 bp):
TTGAAAAAAATAATAATATGAAAAAAATAATATGAAAATGAA
Found at i:7004071 original size:16 final size:15
Alignment explanation
Indices: 7003985--7004076 Score: 74
Period size: 16 Copynumber: 6.3 Consensus size: 15
7003975 CACTTCTAAT
*
7003985 TAATTTGAAAAAAATA
1 TAATATGAAAAAAA-A
7004001 TTAATATG-AAAAAAA
1 -TAATATGAAAAAAAA
7004016 TAATAT-----AAAA
1 TAATATGAAAAAAAA
7004026 TGAAT-TGAAAAAAAAA
1 T-AATATG-AAAAAAAA
7004042 TAATATG-AAAAAAA
1 TAATATGAAAAAAAA
7004056 TAATATGAAAAGAAAA
1 TAATATGAAAA-AAAA
7004072 TAATA
1 TAATA
7004077 ATATGAAATG
Statistics
Matches: 64, Mismatches: 1, Indels: 21
0.74 0.01 0.24
Matches are distributed among these distances:
10 6 0.09
11 3 0.05
14 20 0.31
15 7 0.11
16 22 0.34
17 6 0.09
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (15 bp):
TAATATGAAAAAAAA
Found at i:7004084 original size:14 final size:14
Alignment explanation
Indices: 7004002--7004076 Score: 70
Period size: 14 Copynumber: 5.4 Consensus size: 14
7003992 AAAAAAATAT
7004002 TAATATGAAAAAAA
1 TAATATGAAAAAAA
7004016 TAATAT----AAAA
1 TAATATGAAAAAAA
7004026 TGAAT-TGAAAAAAAAA
1 T-AATATG--AAAAAAA
7004042 TAATATGAAAAAAA
1 TAATATGAAAAAAA
7004056 TAATATGAAAAGAAAA
1 TAATATG-AAA-AAAA
7004072 TAATA
1 TAATA
7004077 ATATGAAATG
Statistics
Matches: 51, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
10 6 0.12
11 3 0.06
14 20 0.39
15 6 0.12
16 16 0.31
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (14 bp):
TAATATGAAAAAAA
Found at i:7008266 original size:45 final size:45
Alignment explanation
Indices: 7008211--7008574 Score: 376
Period size: 45 Copynumber: 8.1 Consensus size: 45
7008201 GGAAGGCGAT
* * * *
7008211 ATCTGCTATCTTTGATCTGCTCCCCATCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
7008256 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * **
7008301 ATCTGCT-TCTTCAATCTGCTCCTTGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * **
7008345 ATCTGTTATCTCCGATTTGCTCTTCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * **
7008390 ATCTGTTATCTCCGATTTGCTCTTCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
7008435 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * *
7008480 ATCTATCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAA
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* * * *
7008525 ATCTGCTATGTCTTCGATCTGCTCCTCGTCTAATATAAAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
7008572 ATC
1 ATC
7008575 ATCTTGGATC
Statistics
Matches: 275, Mismatches: 35, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
43 6 0.02
44 44 0.16
45 193 0.70
46 1 0.00
47 20 0.07
48 5 0.02
49 6 0.02
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:7008929 original size:234 final size:234
Alignment explanation
Indices: 7008514--7008935 Score: 704
Period size: 234 Copynumber: 1.8 Consensus size: 234
7008504 ATGTAAACAC
*
7008514 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCTCGTCTAATATAAAGATGCCAAATCATCT
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCTCGTCGAATATAAAGATGCCAAATCATCT
* *
7008579 TGGATCTGCTTCAATGAAGGTCCAATTTGTTATGTCTTTGATCTGCTCCCTGTCTAATACAGAGA
66 TGAATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCTGTCTAATACAGAGA
* *
7008644 TACCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTGTGTCTTCTATCTGCTCCCCG
131 TACCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCG
7008709 TCTAATACAGAGATGCTAAATCATATTGGATCTGCTTCA
196 TCTAATACAGAGATGCTAAATCATATTGGATCTGCTTCA
* **
7008748 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCT-CTCCGTCGAATATGGAGATGCCAAATCATC
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCT-CGTCGAATATAAAGATGCCAAATCATC
*
7008812 TTGAATCTGCTTCAATGAAGGT-CAGATCTGTTGTGTCTTTGATCTGCTCCCTGTCTAATACAGA
65 TTGAATCTGCTTCAATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCTGTCTAATACAGA
* * *
7008876 GATGCCAAATCATCTTGGATTTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTG
129 GATACCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTG
7008936 TTCTCCGTTG
Statistics
Matches: 174, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
233 4 0.02
234 170 0.98
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (234 bp):
ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCTCGTCGAATATAAAGATGCCAAATCATCT
TGAATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCTGTCTAATACAGAGA
TACCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCG
TCTAATACAGAGATGCTAAATCATATTGGATCTGCTTCA
Found at i:7008956 original size:78 final size:77
Alignment explanation
Indices: 7008514--7008964 Score: 609
Period size: 78 Copynumber: 5.8 Consensus size: 77
7008504 ATGTAAACAC
* * *
7008514 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCTCGTCTAATATAAAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC-CGTCTAATACAGAGATGCCAAATCATCT
7008579 TGGATCTGCTTCA
65 TGGATCTGCTTCA
* * * *
7008592 ATGAAGGTCCA-ATTTGTTATGTCTTTGATCTGCTCCCTGTCTAATACAGAGATACCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCC-GTCTAATACAGAGATGCCAAATCATC
7008656 TTGGATCTGCTTCA
64 TTGGATCTGCTTCA
* * * * *
7008670 ATAAAGGTCAGATCTGCTGTGTCTTCTATCTGCTCCCCGTCTAATACAGAGATGCTAAATCATAT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATCT
7008735 TGGATCTGCTTCA
65 TGGATCTGCTTCA
* **
7008748 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-CCGTCTAATACAGAGATGCCAAATCATCT
*
7008813 TGAATCTGCTTCA
65 TGGATCTGCTTCA
* * *
7008826 ATGAAGGTCAGATCTGTTGTGTCTTTGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCC-GTCTAATACAGAGATGCCAAATCATCT
*
7008891 TGGATTTGCTTCA
65 TGGATCTGCTTCA
* **
7008904 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGTTCTCCGT-TGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-CCGTCT-AATACAGAGATGCCAAATC
7008965 TGTTTCTTCG
Statistics
Matches: 327, Mismatches: 38, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
77 7 0.02
78 313 0.96
79 7 0.02
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (77 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCGTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCA
Found at i:7009091 original size:87 final size:89
Alignment explanation
Indices: 7008997--7009158 Score: 215
Period size: 89 Copynumber: 1.8 Consensus size: 89
7008987 ACAGTACAGA
* *
7008997 GATGCCAAATCATCTTAGATCTGCTTC-A-GTGTAA-ACA-CGTGAAAGCCAAATCTGCTATGTC
1 GATGCCAAATCATCTTAGATCTACTTCGATGTG-AAGACATC-CGAAAGCCAAATCTGCTATGTC
7009058 TTCGATCTGCTCCTTGTCAACACAAG
64 TTCGATCTGCTCCTTGTCAACACAAG
* * ** *
7009084 GATGCCAAATCATCTTGGATCTACTTCGATGTGAAGACATCCGAAGGTTAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTACTTCGATGTGAAGACATCCGAAAGCCAAATCTGCTATGTCTT
7009149 CGATCTGCTC
66 CGATCTGCTC
7009159 TCCGTCGAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
87 25 0.39
88 3 0.05
89 35 0.55
90 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
GATGCCAAATCATCTTAGATCTACTTCGATGTGAAGACATCCGAAAGCCAAATCTGCTATGTCTT
CGATCTGCTCCTTGTCAACACAAG
Found at i:7017900 original size:47 final size:49
Alignment explanation
Indices: 7017778--7017956 Score: 205
Period size: 47 Copynumber: 3.8 Consensus size: 49
7017768 TGTAACCCGC
* * *
7017778 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GC-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
* *
7017824 CCATAAGTGAAGTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACAT
* *
7017874 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
7017918 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
7017957 TTCAACCATC
Statistics
Matches: 113, Mismatches: 9, Indels: 19
0.80 0.06 0.13
Matches are distributed among these distances:
43 3 0.03
44 5 0.04
45 1 0.01
46 36 0.32
47 57 0.50
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
Found at i:7017946 original size:94 final size:93
Alignment explanation
Indices: 7017786--7017956 Score: 288
Period size: 94 Copynumber: 1.8 Consensus size: 93
7017776 GCCCATAAGT
* * *
7017786 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAAGTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
7017851 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
7017879 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
7017944 ACGAGTTCGGATG
65 ACGAGTTCGGATG
7017957 TTCAACCATC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
93 28 0.39
94 44 0.61
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:7018410 original size:30 final size:30
Alignment explanation
Indices: 7018376--7018435 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
7018366 CCTTAATACG
7018376 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
7018406 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
7018436 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:7023874 original size:22 final size:21
Alignment explanation
Indices: 7023839--7023914 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
7023829 AAAAGGTACC
* *
7023839 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
7023860 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
7023883 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
7023902 TGC-AATCATATCT
1 TACAAATCATATCT
7023915 ATGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:7023899 original size:19 final size:19
Alignment explanation
Indices: 7023875--7023946 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
7023865 AATCATATCT
7023875 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
7023894 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
7023912 TCTATGATTG--TATCATA
1 TCTAAGATTGCATATCATA
7023929 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
7023947 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.31
18 15 0.31
19 18 0.38
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7024104 original size:21 final size:19
Alignment explanation
Indices: 7024066--7024106 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
7024056 TGGACTTCGG
*
7024066 TTTTTTTTTTTGGTTTATT
1 TTTTTTTTTTTGGATTATT
7024085 TTTTTTATTTTTGGAATTATT
1 TTTTTT-TTTTTGG-ATTATT
7024106 T
1 T
7024107 CTGAGCCCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 7 0.37
21 6 0.32
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (19 bp):
TTTTTTTTTTTGGATTATT
Found at i:7024242 original size:56 final size:55
Alignment explanation
Indices: 7024173--7024543 Score: 233
Period size: 56 Copynumber: 6.6 Consensus size: 55
7024163 ACTTGTATTT
* * *
7024173 TGGTGCCGGCCATTGACAGGCCAACGCCAAAAATATTTCAAAATTTTTTTTAA-TAC
1 TGGTGCCGACCATTGACAGGCCAACACCAAAAA-ATTT-AAAATTTTTTTAAACTAC
* * *
7024229 TGGTGCCGACCATTAACAGGCCAGCACCAAAAAATTT----TTTTTTGAAAACTCGTATTC
1 TGGTGCCGACCATTGACAGGCCAACACCAAAAAATTTAAAATTTTTT-TAAA--C-TA--C
* * *
7024286 TGGTGCCGACCATTGACAGGCCAGCACCAAAAAAAATTAAAATTTTTTTAAATTAC
1 TGGTGCCGACCATTGACAGGCCAACACC-AAAAAATTTAAAATTTTTTTAAACTAC
* * * *
7024342 TGGTGTCGGCCATTGACATGCCAACACC---AAATTT---TTTTTTTATAAACTCTTATTC
1 TGGTGCCGACCATTGACAGGCCAACACCAAAAAATTTAAAATTTTTT-TAAA--C-TA--C
* * * * ** *
7024397 TGGTGTCGGCCATTGACAAGCCAGCACCAAAAAAATTTAATTTTTTTTTTAAATTAC
1 TGGTGCCGACCATTGACAGGCCAACACC-AAAAAATTTAA-AATTTTTTTAAACTAC
* * * ** *
7024454 TGGTGTCGACCATTGACAGGCCAGCACCAAAAAATTTTGATTTTTTTTTAAATTAC
1 TGGTGCCGACCATTGACAGGCCAACACCAAAAAA-TTTAAAATTTTTTTAAACTAC
* * * *
7024510 TGGTGCTGGCCATTGATAGGACAACACCAAAAAA
1 TGGTGCCGACCATTGACAGGCCAACACCAAAAAA
7024544 AAATTATTTT
Statistics
Matches: 259, Mismatches: 29, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
49 6 0.02
50 10 0.04
51 2 0.01
52 5 0.02
53 2 0.01
55 33 0.13
56 104 0.40
57 59 0.23
58 10 0.04
59 8 0.03
61 3 0.01
62 10 0.04
63 7 0.03
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (55 bp):
TGGTGCCGACCATTGACAGGCCAACACCAAAAAATTTAAAATTTTTTTAAACTAC
Found at i:7024272 original size:113 final size:113
Alignment explanation
Indices: 7024148--7024491 Score: 455
Period size: 113 Copynumber: 3.1 Consensus size: 113
7024138 GGCCATTGAC
* * * *
7024148 AATTTTTTTTTGAAAACTTGTATTTTGGTGCCGGCCATTGACAGGCCAACGCCAAAAATATTTCA
1 AATTTTTTTTTGAAAACTTGTATTCTGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTT-A
* *
7024213 AAATTTTTTTTAA-TACTGGTGCCGACCATTAACAGGCCAGCACCAAAA
65 AAATTTTTTTTAATTACTGGTGTCGACCATTGACAGGCCAGCACCAAAA
* * *
7024261 AATTTTTTTTTGAAAACTCGTATTCTGGTGCCGACCATTGACAGGCCAGCACCAAAAAAAATTAA
1 AATTTTTTTTTGAAAACTTGTATTCTGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTAA
* * * *
7024326 AATTTTTTTAAATTACTGGTGTCGGCCATTGACATGCCAACACC---A
66 AATTTTTTTTAATTACTGGTGTCGACCATTGACAGGCCAGCACCAAAA
* * *
7024371 AATTTTTTTTTTATAAACTCT-TATTCTGGTGTCGGCCATTGACAAGCCAGCACCAAAAAAATTT
1 AATTTTTTTTTGA-AAACT-TGTATTCTGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTT
**
7024435 AATTTTTTTTTTAAATTACTGGTGTCGACCATTGACAGGCCAGCACCAAAA
64 AAAATTTTTTTT-AATTACTGGTGTCGACCATTGACAGGCCAGCACCAAAA
7024486 AATTTT
1 AATTTT
7024492 GATTTTTTTT
Statistics
Matches: 199, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
110 13 0.07
111 53 0.27
112 44 0.22
113 82 0.41
115 7 0.04
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (113 bp):
AATTTTTTTTTGAAAACTTGTATTCTGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTAA
AATTTTTTTTAATTACTGGTGTCGACCATTGACAGGCCAGCACCAAAA
Found at i:7024469 original size:57 final size:56
Alignment explanation
Indices: 7024396--7024557 Score: 211
Period size: 57 Copynumber: 2.9 Consensus size: 56
7024386 AACTCTTATT
*
7024396 CTGGTGTCGGCCATTGACAAGCCAGCACCAAAAAAATTTAATTTTTTTTTTAAATTA
1 CTGGTGTCGGCCATTGACAGGCCAGCACCAAAAAAATTT-ATTTTTTTTTTAAATTA
* *
7024453 CTGGTGTCGACCATTGACAGGCCAGCACCAAAAAATTTTGA-TTTTTTTTTAAATTA
1 CTGGTGTCGGCCATTGACAGGCCAGCACCAAAAAAATTT-ATTTTTTTTTTAAATTA
* * * *
7024509 CTGGTG-CTGGCCATTGATAGGACAACACCAAAAAAAAATTATTTTTTTT
1 CTGGTGTC-GGCCATTGACAGGCCAGCACC-AAAAAAATTTATTTTTTTT
7024558 GAAAACTCGT
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
55 1 0.01
56 39 0.42
57 52 0.57
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (56 bp):
CTGGTGTCGGCCATTGACAGGCCAGCACCAAAAAAATTTATTTTTTTTTTAAATTA
Found at i:7026141 original size:129 final size:129
Alignment explanation
Indices: 7025911--7026162 Score: 504
Period size: 129 Copynumber: 2.0 Consensus size: 129
7025901 GCAATGTTAA
7025911 CTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTTCTATTTTATAAGAGTGCTG
1 CTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTTCTATTTTATAAGAGTGCTG
7025976 TATGATATGTGGGATGCTCATCTCTAGAATTTCATTTATCAAACACACCTTTGAATGCTCATCT
66 TATGATATGTGGGATGCTCATCTCTAGAATTTCATTTATCAAACACACCTTTGAATGCTCATCT
7026040 CTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTTCTATTTTATAAGAGTGCTG
1 CTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTTCTATTTTATAAGAGTGCTG
7026105 TATGATATGTGGGATGCTCATCTCTAGAATTTCATTTATCAAACACACCTTTGAATGC
66 TATGATATGTGGGATGCTCATCTCTAGAATTTCATTTATCAAACACACCTTTGAATGC
7026163 ACTGCAAATT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 123 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (129 bp):
CTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTTCTATTTTATAAGAGTGCTG
TATGATATGTGGGATGCTCATCTCTAGAATTTCATTTATCAAACACACCTTTGAATGCTCATCT
Found at i:7031876 original size:19 final size:19
Alignment explanation
Indices: 7031848--7031885 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7031838 TAGTCACACC
7031848 ACACAAAATAAAAAATTTA
1 ACACAAAATAAAAAATTTA
*
7031867 ACACACAATAAAAAATTTA
1 ACACAAAATAAAAAATTTA
7031886 TGTATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (19 bp):
ACACAAAATAAAAAATTTA
Found at i:7038299 original size:3 final size:3
Alignment explanation
Indices: 7038293--7038569 Score: 115
Period size: 3 Copynumber: 93.3 Consensus size: 3
7038283 TATTATTCAA
* ** *
7038293 ATT ATT ACT ATT ATT ATT ATT CCT ATGT -GT ATT ATT ATT ACTT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT A-TT ATT
* * * * *
7038338 ATG ATT GTT ATT -TCT ACT ACT ACT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
7038383 ATT ATT ATT ATT ATT ATT ATT ATT ATG AAT A-T ATC AGT ATT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * *
7038430 A-T ATT GTT ATT ATT AGT ATT ATT GTC AGT GTC AGT ATT ATT -TT CGTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * * *
7038477 ACCTT TTT ATT TTT ATT TTT ATT ATT -TCT ATT ATT GTT ATT ATT -TT
1 A--TT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * * * * * *
7038523 -TT ATT ACT ATT ATT GTT A-T ATT ATC GTT ATT ATC CTT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7038569 A
1 A
7038570 CTGTTAATGA
Statistics
Matches: 197, Mismatches: 61, Indels: 32
0.68 0.21 0.11
Matches are distributed among these distances:
2 17 0.09
3 171 0.87
4 7 0.04
5 2 0.01
ACGTcount: A:0.28, C:0.07, G:0.06, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:7038887 original size:17 final size:18
Alignment explanation
Indices: 7038857--7038893 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7038847 GTATTTCTAG
7038857 TACTATATTACA-TTTAT
1 TACTATATTACATTTTAT
7038874 TACT-TATTAGCATTTTAT
1 TACTATATTA-CATTTTAT
7038892 TA
1 TA
7038894 TTACTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 6 0.33
18 7 0.39
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.54
Consensus pattern (18 bp):
TACTATATTACATTTTAT
Found at i:7039183 original size:3 final size:3
Alignment explanation
Indices: 7039175--7039203 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7039165 CATTAGCTAT
7039175 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7039204 GCCTTCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7048971 original size:19 final size:19
Alignment explanation
Indices: 7048947--7048984 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7048937 TTGAGATTGC
*
7048947 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
7048966 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
7048985 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:7061225 original size:44 final size:44
Alignment explanation
Indices: 7061164--7062222 Score: 1522
Period size: 44 Copynumber: 24.4 Consensus size: 44
7061154 AATCCAAGAT
* ** * *
7061164 GATTTGGCGTCTTTGTAGCGGTAGAGAGCAGATCCAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
7061208 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
7061252 GATTTGGCGTCTCTGTAGTGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
7061296 GATTTGGCGTCTCTATAGCGGCGGAGAGTAAATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
7061340 GATTTGGTGTCTCTGTAGCGGTGGAGAGCAGATTC-AAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA-TCGAAGATAACA
* *
7061384 GATTTAGCGTCTTTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
7061428 GATTTGGCGTTTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
7061472 GATTTGGCGTCTCTGTAGCGACGGAGAACAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
7061516 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
7061556 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAAA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
7061600 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * ** *
7061644 GATTTAGCGTCTCTATAGCGGCAAAGAGCAGATCAAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
7061684 GATTTGGCATCTCTGTAGTGGCGGAGAGTAAATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
7061728 GATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
7061772 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
7061816 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAACAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
7061856 GATTTGGCATCTCTGTAGCCGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
7061900 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
7061944 GATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
7061984 GATTTGGCATCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
7062028 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
7062072 GATTTGGCGTCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACAGA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC--A
7062118 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
7062162 GATTTGGCGTCTTTATAGCGGCGGAGAGCAGATCGAAAATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
7062206 GATTTGGCATCTCTGTA
1 GATTTGGCGTCTCTGTA
7062223 TTAGACGGAT
Statistics
Matches: 909, Mismatches: 86, Indels: 40
0.88 0.08 0.04
Matches are distributed among these distances:
40 142 0.16
43 2 0.00
44 720 0.79
45 2 0.00
46 43 0.05
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:7061625 original size:128 final size:129
Alignment explanation
Indices: 7061159--7062222 Score: 1414
Period size: 128 Copynumber: 8.2 Consensus size: 129
7061149 AAGTAAATCC
* ** * *
7061159 AAGAT-GATTTGGCGTCTTTGTAGCGGTAGAGAGCAGATCCAAGATAATAGATTTGGCATCTCTG
1 AAGATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTG
* * *
7061223 TAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGACGGAGAGCAGATCG
66 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * * **
7061287 AAGATAACAGATTTGGCGTCTCTATAGCGGCGGAGAGTAAATCGAAGATAACAGATTTGGTGTCT
1 AAGAT---AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCT
* * * *
7061352 CTGTAGCGGTGGAGAGCAGATTC-AAGATAGCAGATTTAGCGTCTTTGTAGCGGCGGAGAGCAGA
63 CTGTAGCGGCGGAGAGCAGA-TCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA
7061416 TCG
127 TCG
* *
7061419 AAGATAACAGATTTGGCGTTTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCT
1 AAGAT---AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCT
* * *
7061484 CTGTAGCGACGGAGAACAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGAT
63 CTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGAT
7061549 CG
128 CG
* * *
7061551 AACAT-GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAAAGATTTGGCATCTCTG
1 AAGATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTG
* * ** *
7061615 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTAGCGTCTCTATAGCGGCAAAGAGCAGATCA
66 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * * * * *
7061679 AAGAT-GATTTGGCATCTCTGTAGTGGCGGAGAGTAAATCGAAGATAGCAGATTTGGCGTCTCTG
1 AAGATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTG
* *
7061743 TAGCGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCA
66 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* *
7061807 AAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAACAT----GATTTGGCATCT
1 AAGAT---AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCT
*
7061868 CTGTAGCCGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGAT
63 CTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGAT
7061933 CG
128 CG
*
7061935 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGAT----GATTTGGCATCT
1 AAGAT---AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCT
*
7061996 CTGTAGCGGCGGAGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGAT
63 CTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGAT
7062061 CG
128 CG
* *
7062063 AAGATAACAGATTTGGCGTCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACAGAGATTTGGCGT
1 AAGAT---AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC--AGATTTGGCAT
* *
7062128 CTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTTTATAGCGGCGGAGAGCAG
61 CTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
7062193 ATCG
126 ATCG
* *
7062197 AAAATAACGGATTTGGCATCTCTGTA
1 AAGAT-A--GATTTGGCGTCTCTGTA
7062223 TTAGACGGAT
Statistics
Matches: 840, Mismatches: 78, Indels: 30
0.89 0.08 0.03
Matches are distributed among these distances:
128 482 0.57
131 2 0.00
132 260 0.31
133 2 0.00
134 94 0.11
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (129 bp):
AAGATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTG
TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
Found at i:7062544 original size:11 final size:10
Alignment explanation
Indices: 7062513--7062554 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
7062503 AATACAACCC
7062513 AAAAT-AAAA
1 AAAATAAAAA
7062522 AAAATAAAAA
1 AAAATAAAAA
* *
7062532 AAAATGAAGA
1 AAAATAAAAA
*
7062542 AAAAGAAAAA
1 AAAATAAAAA
7062552 AAA
1 AAA
7062555 CCTAACCTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 5 0.19
10 22 0.81
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:7063748 original size:6 final size:6
Alignment explanation
Indices: 7063735--7063792 Score: 98
Period size: 6 Copynumber: 9.7 Consensus size: 6
7063725 TATATATATA
* *
7063735 TGTATA TGTATA TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
7063783 TGTATG TGTA
1 TGTATG TGTA
7063793 CACATACACA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (6 bp):
TGTATG
Found at i:7063756 original size:18 final size:18
Alignment explanation
Indices: 7063725--7063792 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
7063715 TATTATATTA
* * *
7063725 TATATATATATGTATATG
1 TATATGTATGTGTATGTG
7063743 TATATGTATGTGTATGTG
1 TATATGTATGTGTATGTG
*
7063761 TATGTGTATGTGTATGTG
1 TATATGTATGTGTATGTG
*
7063779 TATGTGTATGTGTA
1 TATATGTATGTGTA
7063793 CACATACACA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (18 bp):
TATATGTATGTGTATGTG
Found at i:7063851 original size:6 final size:6
Alignment explanation
Indices: 7063791--7063848 Score: 107
Period size: 6 Copynumber: 9.7 Consensus size: 6
7063781 TGTGTATGTG
7063791 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
*
7063839 TACATA TACA
1 TACACA TACA
7063849 TATCTATATA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (6 bp):
TACACA
Found at i:7064156 original size:19 final size:19
Alignment explanation
Indices: 7064132--7064169 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7064122 TTGAGATTGC
*
7064132 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
7064151 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
7064170 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:7068092 original size:21 final size:22
Alignment explanation
Indices: 7068059--7068101 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
7068049 AATCAAATAT
*
7068059 TTTAGTAAATTAA-AACTCTTA
1 TTTAGTAAATTAACAAATCTTA
7068080 TTTA-TAAATTTAACAAATCTTA
1 TTTAGTAAA-TTAACAAATCTTA
7068102 CAAATATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (22 bp):
TTTAGTAAATTAACAAATCTTA
Found at i:7071345 original size:4 final size:4
Alignment explanation
Indices: 7071338--7071363 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
7071328 TATATATATA
7071338 TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TA
7071364 ATGGTTTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:7074272 original size:6 final size:6
Alignment explanation
Indices: 7074261--7074306 Score: 76
Period size: 6 Copynumber: 7.7 Consensus size: 6
7074251 GGGCTTCACT
7074261 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC -CATTCC TCTT
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TC-TTCC TCTT
7074307 GTTCTTCTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 1 0.03
6 36 0.95
7 1 0.03
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTTCC
Found at i:7077269 original size:2 final size:2
Alignment explanation
Indices: 7077262--7077295 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7077252 AGTAAACAGC
7077262 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7077296 ATGAGTGTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7078642 original size:30 final size:30
Alignment explanation
Indices: 7078608--7078669 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
7078598 CTAATTTACG
*
7078608 TCATACTGATCTATAGAGGCCTATTTTTAT
1 TCATACTAATCTATAGAGGCCTATTTTTAT
7078638 TCATACTAATCTATAGAGGCCTATTTTTAT
1 TCATACTAATCTATAGAGGCCTATTTTTAT
7078668 TC
1 TC
7078670 TGCCCAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (30 bp):
TCATACTAATCTATAGAGGCCTATTTTTAT
Found at i:7080046 original size:10 final size:10
Alignment explanation
Indices: 7080031--7080056 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7080021 CGATCCAATT
7080031 AAAAATTTTA
1 AAAAATTTTA
7080041 AAAAATTTTA
1 AAAAATTTTA
7080051 AAAAAT
1 AAAAAT
7080057 CGGTTCAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:7087796 original size:13 final size:13
Alignment explanation
Indices: 7087778--7087806 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7087768 GGTAGTTTGC
7087778 TTCTATCTTGATG
1 TTCTATCTTGATG
7087791 TTCTATCTTGATG
1 TTCTATCTTGATG
7087804 TTC
1 TTC
7087807 ATGAGTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (13 bp):
TTCTATCTTGATG
Found at i:7090217 original size:38 final size:38
Alignment explanation
Indices: 7090166--7090367 Score: 271
Period size: 38 Copynumber: 5.3 Consensus size: 38
7090156 ATATTCGATG
*
7090166 TATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
7090204 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
7090242 TATATACGGGCTTAAAGACCCGCAAGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* *
7090282 AATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
7090320 TATATCCGGGATAAATCCCGCAGGAC-TAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGG-CTTCGTGCTGGTAT
*
7090358 TATATTCGGG
1 TATATCCGGG
7090368 CCTTCGTGCC
Statistics
Matches: 143, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
38 105 0.73
39 11 0.08
40 27 0.19
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:7090272 original size:78 final size:76
Alignment explanation
Indices: 7090166--7090341 Score: 244
Period size: 78 Copynumber: 2.3 Consensus size: 76
7090156 ATATTCGATG
* * **
7090166 TATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTATTATATCCGGGTTAAATCCCACAGGCTT
1 TATATCCGGGTTAAAACCCGCAAGCTTCGTACTGGTAAAATATCCGGGTTAAATCCCACAGGCTT
7090231 CGTGCTGGTAT
66 CGTGCTGGTAT
* * **
7090242 TATATACGGGCTTAAAGACCCGCAAGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCTGCAGGC
1 TATATCCGGG-TTAAA-ACCCGCAAGCTTCGTACTGGTAAAATATCCGGGTTAAATCCCACAGGC
7090307 TTCGTGCTGGTAT
64 TTCGTGCTGGTAT
* *
7090320 TATATCCGGGATAAATCCCGCA
1 TATATCCGGGTTAAAACCCGCA
7090342 GGACTAGTGC
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
76 15 0.17
77 9 0.10
78 63 0.72
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (76 bp):
TATATCCGGGTTAAAACCCGCAAGCTTCGTACTGGTAAAATATCCGGGTTAAATCCCACAGGCTT
CGTGCTGGTAT
Found at i:7090484 original size:43 final size:43
Alignment explanation
Indices: 7090360--7090471 Score: 179
Period size: 43 Copynumber: 2.6 Consensus size: 43
7090350 GCTGGTATTA
* *
7090360 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
7090403 TATTCGGGCCTTCGTGCTTAACAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
7090446 TATTCGGGCCTTTGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
7090472 ATAATGCCGG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:7092145 original size:48 final size:48
Alignment explanation
Indices: 7092050--7092153 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 48
7092040 TGTGCTAAGC
* * **
7092050 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAACTAGT
**
7092098 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAACTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAACTAGT
*
7092146 ATAAGACC
1 GTAAGACC
7092154 ATAGTTGGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 8 0.17
48 39 0.83
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAACTAGT
Found at i:7093646 original size:13 final size:13
Alignment explanation
Indices: 7093628--7093656 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7093618 GGTAGTTTGC
7093628 TTCTATCTTGATG
1 TTCTATCTTGATG
7093641 TTCTATCTTGATG
1 TTCTATCTTGATG
7093654 TTC
1 TTC
7093657 ATGAGTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (13 bp):
TTCTATCTTGATG
Found at i:7096067 original size:38 final size:38
Alignment explanation
Indices: 7096016--7096217 Score: 269
Period size: 38 Copynumber: 5.3 Consensus size: 38
7096006 ATAGTCGATG
*
7096016 TATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
7096054 TATATCCGGGTTAAATCCCACAGGCTTCGTACTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
7096092 TATATCCGGGCTTAAAGACCCGCAGGCTTAGTGTTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
*
7096132 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
7096170 TATATCCGGGATAAATCCCGTAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
7096208 TATATTCGGG
1 TATATCCGGG
7096218 CCTTCGTGCC
Statistics
Matches: 144, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 108 0.75
39 10 0.07
40 26 0.18
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:7096119 original size:78 final size:76
Alignment explanation
Indices: 7096016--7096206 Score: 247
Period size: 78 Copynumber: 2.5 Consensus size: 76
7096006 ATAGTCGATG
* * **
7096016 TATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTATTATATCCGGGTTAAATCCCACAGGCTT
1 TATATCCGGGTTAAAACCCGCAGGCTTAGTACTGGTAAAATATCCGGGTTAAATCCCACAGGCTT
7096081 CGTACTGGTAT
66 CGTACTGGTAT
** *
7096092 TATATCCGGGCTTAAAGACCCGCAGGCTTAGTGTTGGTAAAATATCCGGGTTAAATCCCGCAGGC
1 TATATCCGGG-TTAAA-ACCCGCAGGCTTAGTACTGGTAAAATATCCGGGTTAAATCCCACAGGC
*
7096157 TTCGTGCTGGTAT
64 TTCGTACTGGTAT
* * * * *
7096170 TATATCCGGGATAAATCCCGTAGGCCTAGTGCTGGTA
1 TATATCCGGGTTAAAACCCGCAGGCTTAGTACTGGTA
7096207 TTATATTCGG
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
76 28 0.28
77 9 0.09
78 63 0.63
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (76 bp):
TATATCCGGGTTAAAACCCGCAGGCTTAGTACTGGTAAAATATCCGGGTTAAATCCCACAGGCTT
CGTACTGGTAT
Found at i:7096258 original size:43 final size:43
Alignment explanation
Indices: 7096210--7096300 Score: 155
Period size: 43 Copynumber: 2.1 Consensus size: 43
7096200 GCTGGTATTA
** *
7096210 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGATGTG
7096253 TATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGATGTG
7096296 TATTC
1 TATTC
7096301 AGACCTTTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.11, C:0.23, G:0.32, T:0.34
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGATGTG
Found at i:7096321 original size:43 final size:43
Alignment explanation
Indices: 7096218--7096321 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
7096208 TATATTCGGG
* * * * *
7096218 CCTTCGTGCCTAGTAGGCTTCGTGTCGGTGATGTGTATTCGGG
1 CCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCAGA
* *
7096261 CCTTCGTGCCTAACAGGCTTCGTGCCGGTGATGTGTATTCAGA
1 CCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCAGA
*
7096304 CCTTTGTACCTAGCAGGC
1 CCTTCGTACCTAGCAGGC
7096322 GTAATGCCGG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.13, C:0.25, G:0.30, T:0.32
Consensus pattern (43 bp):
CCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCAGA
Found at i:7096330 original size:43 final size:43
Alignment explanation
Indices: 7096243--7096332 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 43
7096233 GGCTTCGTGT
* * * * **
7096243 CGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGTGC
1 CGGTGATGTGTATTCAGACCTTCGTACCTAACAGGCGTAATGC
* *
7096286 CGGTGATGTGTATTCAGACCTTTGTACCTAGCAGGCGTAATGC
1 CGGTGATGTGTATTCAGACCTTCGTACCTAACAGGCGTAATGC
7096329 CGGT
1 CGGT
7096333 AAAATGATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.16, C:0.23, G:0.31, T:0.30
Consensus pattern (43 bp):
CGGTGATGTGTATTCAGACCTTCGTACCTAACAGGCGTAATGC
Found at i:7096718 original size:45 final size:42
Alignment explanation
Indices: 7096651--7096758 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 42
7096641 TTGACTTGAT
* *
7096651 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
7096696 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
7096738 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
7096759 ACAGGCGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 34 0.60
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:7101684 original size:46 final size:46
Alignment explanation
Indices: 7101617--7101791 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
7101607 TGTAACCCGC
7101617 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
7101663 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * ** * *
7101713 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
7101756 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
7101792 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.57
47 25 0.23
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:7101737 original size:93 final size:93
Alignment explanation
Indices: 7101625--7101796 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
7101615 GCCCATAAGT
** *
7101625 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
7101690 CGAGCTTGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
7101718 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
7101783 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
7101797 CAAATATTCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:7107835 original size:46 final size:46
Alignment explanation
Indices: 7107768--7107939 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
7107758 TGTAACCCGC
7107768 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
7107814 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * ** * *
7107864 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
7107907 CCATAAGTGAACTCGGACTCAACTCAACGAGCT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCT
7107940 AAAATGCCCA
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.56
47 26 0.24
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:7107947 original size:93 final size:93
Alignment explanation
Indices: 7107776--7107947 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
7107766 GCCCATAAGT
** *
7107776 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
***
7107841 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTAAAATGCCTAGTTACATCTCAC
* *
7107869 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
7107934 CGAGCTAAAATGCC
66 CGAGCTAAAATGCC
7107948 CAAATATTCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTAAAATGCCTAGTTACATCTCAC
Found at i:7109885 original size:14 final size:14
Alignment explanation
Indices: 7109866--7109895 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7109856 TATTTTCAAG
7109866 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
7109880 ATAGATTCACGCAT
1 ATAGATTAACGCAT
7109894 AT
1 AT
7109896 TTATAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:7114578 original size:15 final size:15
Alignment explanation
Indices: 7114558--7114592 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
7114548 AATCGCCAGT
7114558 GAAGACTACACCGAA
1 GAAGACTACACCGAA
7114573 GAAGACTACACCGAA
1 GAAGACTACACCGAA
7114588 GAAGA
1 GAAGA
7114593 ATGGGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.23, T:0.06
Consensus pattern (15 bp):
GAAGACTACACCGAA
Found at i:7139473 original size:45 final size:46
Alignment explanation
Indices: 7139383--7139474 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 46
7139373 TTTATTTGGC
*
7139383 TTTAAATAAATAAATTAAGAAGAGTCTATGTACAAAGAAGGCTTGAA
1 TTTAAATAAATAAATTAAAAAGAG-CTATGTACAAAGAAGGCTTGAA
7139430 TTTAAATAAATAAATTAAAAAGAG-TATGTACAAAGAAGGCTTGAA
1 TTTAAATAAATAAATTAAAAAGAGCTATGTACAAAGAAGGCTTGAA
7139475 AATTGGGTGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 21 0.48
47 23 0.52
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (46 bp):
TTTAAATAAATAAATTAAAAAGAGCTATGTACAAAGAAGGCTTGAA
Found at i:7140084 original size:26 final size:27
Alignment explanation
Indices: 7140051--7140102 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
7140041 CCTTGAAATC
7140051 TAAAAGT-A-GGACTAAATTCTTAAAAA
1 TAAAAGTAATGGACTAAATT-TTAAAAA
7140077 TAAAAGTAAATGGACTAAATTTTAAA
1 TAAAAGT-AATGGACTAAATTTTAAA
7140103 TTTATGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.30
28 6 0.26
29 10 0.43
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.29
Consensus pattern (27 bp):
TAAAAGTAATGGACTAAATTTTAAAAA
Found at i:7142776 original size:3 final size:3
Alignment explanation
Indices: 7142768--7142793 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7142758 TAGCTTCCTT
7142768 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
7142794 TTGTTGCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:7147886 original size:185 final size:187
Alignment explanation
Indices: 7147561--7147932 Score: 552
Period size: 185 Copynumber: 2.0 Consensus size: 187
7147551 GCCCTTGACT
** * * * *
7147561 TTTAGAACTGGTAAACCTGTCTTTTATGGTCATCATCTCTTGATAGTATCAGATTTAGATTATCC
1 TTTAGAACTGGTAAACCTACCTTTTATAGTCATCATCTCATGATAATATCAGATTTAGATCATCC
* * * *
7147626 TAGCAGTGTCATTGAACACCGCAAAAATCCCTAAGCCTGTTATGCCACATTATTCATGTGCTATT
66 TACCAGTGACATTGAACACCGCAAAAATCCCTAAGCCTGTTATGCCACATTATTCACGCGCTATT
*
7147691 AGGTCATCCTACCAGTGTCATTGAACACTGTAAAAGCTTTTAGTCTTTGACTTTTAG
131 AGGTCATCCTACCAGTGTCATTGAACACTGTAAAAGCTTTTAGCCTTTGACTTTTAG
* * *
7147748 TTTAGAACTGGTAGACCTACCTTTTATATTCATCATCTCATGATAATATCATATTTAGATCATCC
1 TTTAGAACTGGTAAACCTACCTTTTATAGTCATCATCTCATGATAATATCAGATTTAGATCATCC
* * *
7147813 TACCAGTGACATTG-A-A-CGCTAAAAATCCCTGATCTTGTTATGCCACATTATTCACGCGCTAT
66 TACCAGTGACATTGAACACCGC-AAAAATCCCTAAGCCTGTTATGCCACATTATTCACGCGCTAT
*
7147875 TAGGTCATCCTACCAGTGTCATTGAGCACTGTAAAAGCTTTTAGCCTTTGACTTTTAG
130 TAGGTCATCCTACCAGTGTCATTGAACACTGTAAAAGCTTTTAGCCTTTGACTTTTAG
7147933 AAATGGTAAA
Statistics
Matches: 166, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
184 3 0.02
185 94 0.57
186 1 0.01
187 68 0.41
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (187 bp):
TTTAGAACTGGTAAACCTACCTTTTATAGTCATCATCTCATGATAATATCAGATTTAGATCATCC
TACCAGTGACATTGAACACCGCAAAAATCCCTAAGCCTGTTATGCCACATTATTCACGCGCTATT
AGGTCATCCTACCAGTGTCATTGAACACTGTAAAAGCTTTTAGCCTTTGACTTTTAG
Found at i:7150089 original size:5 final size:5
Alignment explanation
Indices: 7150079--7150110 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
7150069 TATTTGTGAA
7150079 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
7150111 GAACACACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:7154296 original size:50 final size:50
Alignment explanation
Indices: 7154221--7154346 Score: 216
Period size: 50 Copynumber: 2.5 Consensus size: 50
7154211 CCATGGCAAC
* * *
7154221 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
7154271 AAGTGATAAGTGATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
*
7154321 AAGTGATAAGTGATAGCTTCGACTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
7154347 CTGATTAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
Found at i:7154363 original size:44 final size:46
Alignment explanation
Indices: 7154221--7154363 Score: 148
Period size: 50 Copynumber: 3.0 Consensus size: 46
7154211 CCATGGCAAC
*
7154221 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCAG---CACTTACCTGATT-AGGACAAGTGA
* *
7154271 AAGTGATAAGTGATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCAG---CACTTACCTGAT-TAGGACAAGTGA
*
7154321 AAGTGATAAGTGATAGCTTC-G-AC-TACCTGATTAGTGAAAAGTG
1 AAGTGATAAGTGATAGCTTCAGCACTTACCTGATTAG-GACAAGTG
7154364 GTAGCTTCGG
Statistics
Matches: 86, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
43 2 0.02
44 15 0.17
45 2 0.02
49 1 0.01
50 66 0.77
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (46 bp):
AAGTGATAAGTGATAGCTTCAGCACTTACCTGATTAGGACAAGTGA
Found at i:7154406 original size:46 final size:46
Alignment explanation
Indices: 7154343--7154430 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
7154333 ATAGCTTCGA
* * * *
7154343 CTACCTGATTAGTGAAAAGTGGTAGCTTCGGCTACCTTATCATCAG
1 CTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTAATCATCAG
*
7154389 CTACTTGATCAGTGAAAAATGGTAGCTCCGGCTACCTAATCA
1 CTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTAATCA
7154431 ATGAATAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (46 bp):
CTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTAATCATCAG
Found at i:7160284 original size:94 final size:94
Alignment explanation
Indices: 7160117--7160478 Score: 243
Period size: 94 Copynumber: 4.0 Consensus size: 94
7160107 TGTTTGGATA
* * * ***
7160117 AATGAAATTTGGTTAAGTGACTTAAAATGCTAGCAATGGCTCTACTATTGACTTAGCTAGTGGTA
1 AATGAAATTTGGCTAAGTGACTTAAAAGGCTAGCAATGGCTCCACTATTGACTTAGCTAGCAATA
7160182 CCCTCGAAGGGTGTGTGTTGTTTTAACTT
66 CCCTCGAAGGGTGTGTGTTGTTTTAACTT
**
7160211 AATGAAATTTGGCTAAGT-ACCTTTGAAGGCTAGCAATGGC-CCAGCTATTGACTTAGCTAGCAA
1 AATGAAATTTGGCTAAGTGA-CTTAAAAGGCTAGCAATGGCTCCA-CTATTGACTTAGCTAGCAA
*
7160274 TA-TCTGCGAAGGGTGTGTGTTG--TT---TT
64 TACCCT-CGAAGGGTGTGTGTTGTTTTAACTT
* * *** *
7160300 AATGAAATTTGGCTAAGTGCCTT-ATA-G-TAG---TGGCTGTGCTATT-AGCTTAGCTAGCAGT
1 AATGAAATTTGGCTAAGTGACTTAAAAGGCTAGCAATGGCTCCACTATTGA-CTTAGCTAGCAAT
* * * *** **
7160358 ACCTTTGAAGAGTGCAAGTCATTTTAACTT
65 ACCCTCGAAGGGTGTGTGTTGTTTTAACTT
* * * * * * * * *
7160388 AACGAAATTTGTCTAAGTGCCTTAAAAGGATAGTATTGGCTCTC-CTATTAAGTTAGTTAGCAAT
1 AATGAAATTTGGCTAAGTGACTTAAAAGGCTAGCAATGGCTC-CACTATTGACTTAGCTAGCAAT
* ** *
7160452 ACCCTCAAAAAGTGTGTGGTGTTTTAA
65 ACCCTCGAAGGGTGTGTGTTGTTTTAA
7160479 TGAAATTTAG
Statistics
Matches: 205, Mismatches: 43, Indels: 40
0.71 0.15 0.14
Matches are distributed among these distances:
82 1 0.00
83 31 0.15
84 1 0.00
85 2 0.01
86 3 0.01
87 1 0.00
88 24 0.12
89 25 0.12
90 1 0.00
91 3 0.01
92 2 0.01
93 5 0.02
94 105 0.51
95 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (94 bp):
AATGAAATTTGGCTAAGTGACTTAAAAGGCTAGCAATGGCTCCACTATTGACTTAGCTAGCAATA
CCCTCGAAGGGTGTGTGTTGTTTTAACTT
Found at i:7168362 original size:17 final size:17
Alignment explanation
Indices: 7168336--7168375 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
7168326 GCATCGAGAT
*
7168336 TCAGAGTTAGAACACCA
1 TCAGAATTAGAACACCA
7168353 TCAGAATTAGAACACCA
1 TCAGAATTAGAACACCA
7168370 TCAGAA
1 TCAGAA
7168376 GAAGCGACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (17 bp):
TCAGAATTAGAACACCA
Found at i:7169879 original size:40 final size:39
Alignment explanation
Indices: 7169798--7169914 Score: 112
Period size: 40 Copynumber: 3.0 Consensus size: 39
7169788 TTTTAGGTGA
* * * * * * **
7169798 TCAATTATTTTCTAAAAGTGAATTGTAAGGTTCATCAAT
1 TCAATCATTTTCCAGAACTGAATTGTAAAGTTGATTTAT
*
7169837 TCAATCATTGTT-TAGAACTGAATTAG-AAAGGTTGATTTAT
1 TCAATCATT-TTCCAGAACTGAATT-GTAAA-GTTGATTTAT
7169877 TCAATCATTTTCCAGAACTGAATTGTAAAGTTGATTTA
1 TCAATCATTTTCCAGAACTGAATTGTAAAGTTGATTTA
7169915 GAGTTGTTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
39 32 0.49
40 33 0.51
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (39 bp):
TCAATCATTTTCCAGAACTGAATTGTAAAGTTGATTTAT
Found at i:7171483 original size:21 final size:22
Alignment explanation
Indices: 7171440--7171484 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
7171430 TTCAATTAGT
* *
7171440 AAATATATTTTTAAAAGTTATAA
1 AAATATATTATTAAAAG-AATAA
7171463 AAATATATTATTAAAA-AATAA
1 AAATATATTATTAAAAGAATAA
7171484 A
1 A
7171485 CTAAAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
23 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AAATATATTATTAAAAGAATAA
Found at i:7171960 original size:19 final size:20
Alignment explanation
Indices: 7171893--7171987 Score: 81
Period size: 19 Copynumber: 4.7 Consensus size: 20
7171883 TTTTTATATA
7171893 ATTTT-AATTTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
*
7171912 ATTAT-AATTTTTAAAAATATAT
1 ATTTTGAATTTTT-AAAA-AT-T
*
7171934 AAACTTTTGAATTTTTATAAA-T
1 --A-TTTTGAATTTTTAAAAATT
*
7171956 ATTTTGAA-ATTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
7171975 ATTTTGAATTTTT
1 ATTTTGAATTTTT
7171988 TTTTGTAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
18 7 0.11
19 27 0.44
20 8 0.13
21 2 0.03
22 2 0.03
24 2 0.03
25 6 0.10
26 7 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:7173295 original size:16 final size:16
Alignment explanation
Indices: 7173274--7173330 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
7173264 CGTTTGGTTC
7173274 ACTGTAATAGAATAGA
1 ACTGTAATAGAATAGA
*
7173290 ACTGTAATTGAATA-A
1 ACTGTAATAGAATAGA
* *
7173305 AGTTGTAATGGAATAGA
1 A-CTGTAATAGAATAGA
*
7173322 GCTGTAATA
1 ACTGTAATA
7173331 AGTAATTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 2 0.06
16 30 0.91
17 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (16 bp):
ACTGTAATAGAATAGA
Found at i:7173586 original size:58 final size:58
Alignment explanation
Indices: 7173507--7173629 Score: 176
Period size: 58 Copynumber: 2.1 Consensus size: 58
7173497 TTTTAATAAG
* * *
7173507 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTACTAAAAATAATTTAAT-AAAATAATAAATAATTTAATAAAATTCTTAACATA
* * *
7173565 ATTATTACTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTACTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
7173623 ATTATTA
1 ATTATTA
7173630 TTATATGAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 23 0.40
58 35 0.60
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (58 bp):
ATTATTACTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
Found at i:7173653 original size:58 final size:57
Alignment explanation
Indices: 7173494--7173660 Score: 171
Period size: 58 Copynumber: 2.9 Consensus size: 57
7173484 TATTATTATT
* * * * *
7173494 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATC
1 AAATTTTAACATA-ATTATTACTAAATATAATTTAA-AAAAATAATATATAATTTAATA
* *
7173552 ATATTTTAACATAATTATTACTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTTTAACATAATTATTACTAAATATAATTTAAAAAAATAATATATAATTTAATA
* *
7173609 AAATTCTTAATATAATTATTA-T-TATATGAA-TTAAAAAATCATAATATATAAT
1 AAATT-TTAACATAATTATTACTAAATAT-AATTTAAAAAA--ATAATATATAAT
7173661 ACTATAAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
56 11 0.12
57 26 0.28
58 55 0.59
59 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (57 bp):
AAATTTTAACATAATTATTACTAAATATAATTTAAAAAAATAATATATAATTTAATA
Found at i:7176110 original size:25 final size:25
Alignment explanation
Indices: 7176063--7176110 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
7176053 AAAAAATTTA
* * *
7176063 AAATATTTTATTAATATATTAAAGT
1 AAATATTTTAATAATAAAGTAAAGT
*
7176088 AAATATTTTAATATTAAAGTAAA
1 AAATATTTTAATAATAAAGTAAA
7176111 TATATTTTAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
AAATATTTTAATAATAAAGTAAAGT
Found at i:7177535 original size:21 final size:21
Alignment explanation
Indices: 7177509--7177591 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
7177499 TGATCAGTAT
*
7177509 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
7177530 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
7177551 ACGACACACGAGGTGCCTAAAA
1 ACGACACACAAAGTGCCT-AAA
*
7177573 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
7177592 GATCAGTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 34 0.68
22 1 0.02
23 15 0.30
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:7177575 original size:23 final size:22
Alignment explanation
Indices: 7177507--7177581 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
7177497 CCTGATCAGT
** *
7177507 ATACGACACATAAAGTGCCTAA
1 ATACGACACACGAGGTGCCTAA
*
7177529 A-ACGACACACGAGGTGCCT-G
1 ATACGACACACGAGGTGCCTAA
7177549 ATACGACACACGAGGTGCCTAAA
1 ATACGACACACGAGGTGCCT-AA
7177572 ATACGACACA
1 ATACGACACA
7177582 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.02
21 33 0.73
22 1 0.02
23 10 0.22
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTAA
Found at i:7179065 original size:16 final size:17
Alignment explanation
Indices: 7179030--7179065 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
7179020 CCTAATTCTC
7179030 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
7179046 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
7179061 CCTTC
1 CCTTC
7179066 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:7191529 original size:3 final size:3
Alignment explanation
Indices: 7191521--7191552 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7191511 GTTTATAGTG
7191521 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7191553 TATTCTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7191864 original size:22 final size:22
Alignment explanation
Indices: 7191834--7191944 Score: 75
Period size: 23 Copynumber: 4.8 Consensus size: 22
7191824 ACATTATATG
* *
7191834 TTTTGAATTTGTTTATATGTTA
1 TTTTAAATTTGTTTATATATTA
*
7191856 TTTTAAA-TTGTTTTATAAATTA
1 TTTTAAATTTG-TTTATATATTA
7191878 TTTACTTAAATTTGCTTTATATATTA
1 -TT--TTAAATTTG-TTTATATATTA
* *
7191904 CTTTAAATTAAT-TTTATATTTTA
1 TTTTAAATT--TGTTTATATATTA
*
7191927 TTTTAGATTAT-TTTATAT
1 TTTTAAATT-TGTTTATAT
7191945 TACTTATTAC
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
21 3 0.04
22 24 0.33
23 26 0.36
25 7 0.10
26 13 0.18
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTTAAATTTGTTTATATATTA
Found at i:7191903 original size:26 final size:24
Alignment explanation
Indices: 7191839--7191908 Score: 65
Period size: 26 Copynumber: 2.9 Consensus size: 24
7191829 ATATGTTTTG
*
7191839 AATTTGTTTATATGTTA-TT-TTA
1 AATTTGTTTATATATTATTTATTA
*
7191861 AA-TTGTTTTATAAATTATTTACTTA
1 AATTTG-TTTATATATTATTTA-TTA
7191886 AATTTGCTTTATATATTACTTTA
1 AATTTG-TTTATATATTA-TTTA
7191909 AATTAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 3 0.08
22 11 0.29
23 2 0.05
25 5 0.13
26 13 0.34
27 4 0.11
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (24 bp):
AATTTGTTTATATATTATTTATTA
Found at i:7192231 original size:28 final size:28
Alignment explanation
Indices: 7192185--7192239 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
7192175 TCATTTATTG
*
7192185 TATAATATATAACTTTTAAATATAATATAC
1 TATAATATATAACTATTAAA-A-AATATAC
7192215 TATAATATA-AA-TATTAAAAAATATA
1 TATAATATATAACTATTAAAAAATATA
7192240 TTAAGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
27 1 0.04
28 6 0.25
29 2 0.08
30 9 0.38
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (28 bp):
TATAATATATAACTATTAAAAAATATAC
Found at i:7194669 original size:25 final size:26
Alignment explanation
Indices: 7194638--7194698 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
7194628 GGCACTAACC
*
7194638 AATGGCCCAAT-TCTAAAATGAG-CCA
1 AATGGCCCAATCT-TAAAACGAGCCCA
*
7194663 AATGGCCCAATCTTCAAACGAGCCCA
1 AATGGCCCAATCTTAAAACGAGCCCA
7194689 AATGGCCCAA
1 AATGGCCCAA
7194699 ATTTTGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 18 0.56
26 14 0.44
ACGTcount: A:0.38, C:0.30, G:0.16, T:0.16
Consensus pattern (26 bp):
AATGGCCCAATCTTAAAACGAGCCCA
Found at i:7199833 original size:19 final size:19
Alignment explanation
Indices: 7199809--7199853 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7199799 ACTTTTTTTT
* *
7199809 TGCATT-CATTTCATGCATC
1 TGCATTACATTACAT-CATA
7199828 TGCATTACATTACATCATA
1 TGCATTACATTACATCATA
7199847 TGCATTA
1 TGCATTA
7199854 AAGTCCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (19 bp):
TGCATTACATTACATCATA
Found at i:7200559 original size:39 final size:38
Alignment explanation
Indices: 7200499--7200913 Score: 291
Period size: 39 Copynumber: 10.8 Consensus size: 38
7200489 TCTTATTTAG
* *
7200499 TATAATCAGTGGATAAT-GCTCGTTTGAGCAAACATTCAA
1 TATAATCAGTAGAT--TCGCTCGTTTGAGCAAGCATTCAA
* * *
7200538 TATAATCAATAGATATGGCTCG-TTGAGCAA-CATTCAG
1 TATAATCAGTAGAT-TCGCTCGTTTGAGCAAGCATTCAA
* * * * * *
7200575 TAAAATTAGTGGATTCGCTTGCTTTGAACAAGCATTCAG
1 TATAATCAGTAGATTCGCTCG-TTTGAGCAAGCATTCAA
* * * * * *
7200614 GATAATTAGTAGATTTGCTCGCTTGAGCAAGTATTCAG
1 TATAATCAGTAGATTCGCTCGTTTGAGCAAGCATTCAA
* * * *
7200652 TAAAATCAGTAGATTTGCTCGTTTTGAACAAGCATTTAA
1 TATAATCAGTAGATTCGCTCG-TTTGAGCAAGCATTCAA
* *
7200691 TATAATCAGTAGATTCGTTCGCTTGAGCAAGCATTCAA
1 TATAATCAGTAGATTCGCTCGTTTGAGCAAGCATTCAA
* * * *
7200729 TA-AAGCTAGTGGATTCGCTCGTTTTGAACAAGCATTCAG
1 TATAATC-AGTAGATTCGCTCG-TTTGAGCAAGCATTCAA
** * * * * * *
7200768 TATAATTGGTATATTCGCTCGCTTGAGAAATCATTTAG
1 TATAATCAGTAGATTCGCTCGTTTGAGCAAGCATTCAA
* * * * *
7200806 TA-ACATCAGTGGATTCGCTCTTTTTAAACAAGCATTCAG
1 TATA-ATCAGTAGATTCGCTC-GTTTGAGCAAGCATTCAA
* * * * * *
7200845 TAAAATCAGTGGATTCGCTCTTTTTGAACAAGCATTTAG
1 TATAATCAGTAGATTCGCTC-GTTTGAGCAAGCATTCAA
7200884 TATAATCAGTAGATTCGCTCGTTTGAGCAA
1 TATAATCAGTAGATTCGCTCGTTTGAGCAA
7200914 ACTTTCAGTA
Statistics
Matches: 300, Mismatches: 65, Indels: 23
0.77 0.17 0.06
Matches are distributed among these distances:
36 5 0.02
37 20 0.07
38 111 0.37
39 161 0.54
40 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (38 bp):
TATAATCAGTAGATTCGCTCGTTTGAGCAAGCATTCAA
Found at i:7200685 original size:77 final size:77
Alignment explanation
Indices: 7200497--7200929 Score: 410
Period size: 77 Copynumber: 5.6 Consensus size: 77
7200487 AATCTTATTT
* * * * * *
7200497 AGTATAATCAGTGGATAAT-GCTCG-TTTGAGCAAACATTCAATATAATCAATAGATATGGCTCG
1 AGTAAAATCAGTGGAT--TCGCTCGTTTTGAACAAGCATTCAGTATAATCAGTAGAT-TCGCTCG
7200560 -TTGAGCAA-CATTC
63 CTTGAGCAAGCATTC
* * * * * *
7200573 AGTAAAATTAGTGGATTCGCTTGCTTTGAACAAGCATTCAGGATAATTAGTAGATTTGCTCGCTT
1 AGTAAAATCAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTCGCTT
*
7200638 GAGCAAGTATTC
66 GAGCAAGCATTC
* * * * *
7200650 AGTAAAATCAGTAGATTTGCTCGTTTTGAACAAGCATTTAATATAATCAGTAGATTCGTTCGCTT
1 AGTAAAATCAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTCGCTT
7200715 GAGCAAGCATTC
66 GAGCAAGCATTC
* * ** *
7200727 AAT-AAAGCTAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATTGGTATATTCGCTCGCT
1 AGTAAAATC-AGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTCGCT
* * *
7200791 TGAGAAATCATTT
65 TGAGCAAGCATTC
* * * * * **
7200804 AGTAACATCAGTGGATTCGCTCTTTTTAAACAAGCATTCAGTAAAATCAGTGGATTCGCTCTTTT
1 AGTAAAATCAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTC-GCT
* *
7200869 TGAACAAGCATTT
65 TGAGCAAGCATTC
* * * * * *
7200882 AGTATAATCAGTAGATTCGCTCG-TTTGAGCAAACTTTCAGTAAAATCA
1 AGTAAAATCAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATCA
7200930 ATATTCTACT
Statistics
Matches: 291, Mismatches: 59, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
74 1 0.00
75 10 0.03
76 51 0.18
77 196 0.67
78 33 0.11
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (77 bp):
AGTAAAATCAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTCGCTT
GAGCAAGCATTC
Found at i:7216565 original size:11 final size:11
Alignment explanation
Indices: 7216533--7216573 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
7216523 TACAATATGC
7216533 AAACAATAACA
1 AAACAATAACA
7216544 ATAA-AATAACA
1 A-AACAATAACA
*
7216555 AAACAACAACA
1 AAACAATAACA
7216566 AAACAATA
1 AAACAATA
7216574 GTAGAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 2 0.08
11 22 0.85
12 2 0.08
ACGTcount: A:0.73, C:0.17, G:0.00, T:0.10
Consensus pattern (11 bp):
AAACAATAACA
Found at i:7219603 original size:46 final size:46
Alignment explanation
Indices: 7219101--7219605 Score: 674
Period size: 46 Copynumber: 11.0 Consensus size: 46
7219091 ACAATACAAT
* * * * *
7219101 AACTCAGTATGGTTTTCTTCATTTAAATACCATACCTACATTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* * * *
7219147 ATCTC-GATATGCTTTTCTTTATTGAAATACCATACCTATGTTTCAC
1 AACTCAG-TATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* *
7219193 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* *
7219239 ATCTC-GATATAGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
1 AACTCAG-TATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* * *
7219285 GAA-TCAGTATAGTTTTCTTTACTGAAATACCATACCTACATTCCAC
1 -AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* ** * * *
7219331 ATCTTGGTATAGTTTTCTTTATTGTAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
*
7219377 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAT
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* * *
7219423 AACTCAGCATGGATTTCTTTACTGAAATACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* * *
7219469 ATCTCAGTATGGTTTTCTTTACTGAAATACCATACCTATGTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* * *
7219515 ATCTCGGTATGGTTTTCTTTACTCAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
7219561 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCA
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCA
7219606 TACTTTGCCA
Statistics
Matches: 406, Mismatches: 47, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
45 3 0.01
46 400 0.99
47 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
Found at i:7220823 original size:20 final size:20
Alignment explanation
Indices: 7220798--7220837 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7220788 CCTTATATAA
*
7220798 GAAAACTTTACTATAACATC
1 GAAAACTCTACTATAACATC
7220818 GAAAACTCTACTATAACATC
1 GAAAACTCTACTATAACATC
7220838 ATTTCCATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (20 bp):
GAAAACTCTACTATAACATC
Done.