Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 73
Found at i:3813853 original size:21 final size:21
Alignment explanation
Indices: 3813758--3813865 Score: 101
Period size: 21 Copynumber: 5.1 Consensus size: 21
3813748 GCCCGACTCA
3813758 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
3813779 TCT-CCTATCGTTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* ** *
3813800 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
** *
3813821 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
3813842 CCTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
3813863 CCT
1 CCT
3813866 CCCAACATTC
Statistics
Matches: 67, Mismatches: 18, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
20 1 0.01
21 65 0.97
22 1 0.01
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.24
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:3815186 original size:30 final size:28
Alignment explanation
Indices: 3815152--3815227 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
3815142 AAAAATAATA
*
3815152 TAATAAGAGTTGATTTGTTTAATTGATGTG
1 TAATAAGACTT-ATTTG-TTAATTGATGTG
**
3815182 TAATAATTCTTATTTGTTAATTGATGTG
1 TAATAAGACTTATTTGTTAATTGATGTG
**
3815210 TAAATAATTCTTATTTGT
1 T-AATAAGACTTATTTGT
3815228 GCTTGTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 13 0.31
29 21 0.50
30 8 0.19
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (28 bp):
TAATAAGACTTATTTGTTAATTGATGTG
Found at i:3815198 original size:29 final size:30
Alignment explanation
Indices: 3815164--3815227 Score: 114
Period size: 29 Copynumber: 2.2 Consensus size: 30
3815154 ATAAGAGTTG
3815164 ATTTGTTTAATTGATGTGT-AATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
3815193 ATTTG-TTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
3815222 ATTTGT
1 ATTTGT
3815228 GCTTGTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
28 13 0.39
29 20 0.61
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTCTT
Found at i:3815415 original size:20 final size:20
Alignment explanation
Indices: 3815371--3815665 Score: 222
Period size: 20 Copynumber: 15.8 Consensus size: 20
3815361 GCGATTTTCT
*
3815371 CGTTGCGATTGTCAAATTC-
1 CGTTGCGATAGTCAAATTCG
*
3815390 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
3815410 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
3815429 CGTTGCGAT--T---ATT--
1 CGTTGCGATAGTCAAATTCG
3815442 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
3815462 CGTTGCGATAGT-AAATTCG
1 CGTTGCGATAGTCAAATTCG
**
3815481 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
**
3815501 CGTTGCGGATAGTCATTTTCG
1 CGTTGC-GATAGTCAAATTCG
* *
3815522 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
3815536 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
3815556 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* * *
3815576 CATTGCGAT--T---A-CCC
1 CGTTGCGATAGTCAAATTCG
* * *
3815590 CG-TGTGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
* *
3815609 CGTTGTGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
3815629 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
* *
3815649 TGTTACGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
3815666 GAATGTGTAA
Statistics
Matches: 224, Mismatches: 29, Indels: 45
0.75 0.10 0.15
Matches are distributed among these distances:
13 14 0.06
14 12 0.05
15 4 0.02
16 1 0.00
17 1 0.00
18 6 0.03
19 54 0.24
20 113 0.50
21 19 0.08
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:3815416 original size:53 final size:54
Alignment explanation
Indices: 3815359--3815637 Score: 200
Period size: 53 Copynumber: 5.1 Consensus size: 54
3815349 CTAATACACT
* * *
3815359 TTGCGATTTTCTCGTTGCGATTGTCAAATTC-CGTTGCGATAATCAAATTCGCG
1 TTGCGATTTTCCCGTTGCGATTGTCAAATTCGCGTTGCGATAGTCATATTCGCG
* *
3815412 TTGCGATAGTCATTTCGCGTTGCGA-T-T---ATT--CGTTGCGATAGTCAAATTCGCG
1 TTGCG--A-T--TTTCCCGTTGCGATTGTCAAATTCGCGTTGCGATAGTCATATTCGCG
* * ** * *
3815464 TTGCGATAGTAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCGGATAGTCATTTTCGCA
1 TTGCGAT--T---TTCCCGTTGCGATTGTCAAATTCGCGTTGC-GATAGTCATATTCGCG
* * * *
3815524 TTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCA
1 TTGCGATTTTCCCGTTGCGATTGTCAAATTCGCGTTGCGATAGTCATATTCGCG
** * * *
3815578 TTGCGATTACCCCG-TGTGATAT-TCAAATTCACGTTGTGATAGTCATATTCGCG
1 TTGCGATTTTCCCGTTGCGAT-TGTCAAATTCGCGTTGCGATAGTCATATTCGCG
3815631 TTGCGAT
1 TTGCGAT
3815638 AGTCATATTC
Statistics
Matches: 189, Mismatches: 20, Indels: 34
0.78 0.08 0.14
Matches are distributed among these distances:
49 2 0.01
50 1 0.01
52 38 0.20
53 47 0.25
54 30 0.16
55 27 0.14
56 2 0.01
57 3 0.02
58 13 0.07
59 6 0.03
60 20 0.11
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (54 bp):
TTGCGATTTTCCCGTTGCGATTGTCAAATTCGCGTTGCGATAGTCATATTCGCG
Found at i:3815450 original size:52 final size:52
Alignment explanation
Indices: 3815390--3815489 Score: 173
Period size: 52 Copynumber: 1.9 Consensus size: 52
3815380 TGTCAAATTC
* *
3815390 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCATTTCGCGTTGCGATTATT
1 CGTTGCGATAATCAAATTCGCGTTGCGATAGTAAATTCGCGTTGCGATTATT
*
3815442 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTAAATTCGCGTTGCGAT
1 CGTTGCGATAATCAAATTCGCGTTGCGATAGTAAATTCGCGTTGCGAT
3815490 AGTCATTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (52 bp):
CGTTGCGATAATCAAATTCGCGTTGCGATAGTAAATTCGCGTTGCGATTATT
Found at i:3815557 original size:55 final size:54
Alignment explanation
Indices: 3815481--3815637 Score: 217
Period size: 53 Copynumber: 2.9 Consensus size: 54
3815471 AGTAAATTCG
** *
3815481 CGTTGCGATAGTCATTTTCGCGTTGCGGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCGCGTTGC-GATAGTCATTTTCGCATTGCGATTACCC
3815536 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTACCC
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTACCC
* * * * * *
3815590 CG-TGTGATATTCAAATTCACGTTGTGATAGTCATATTCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGAT
3815638 AGTCATATTC
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 40 0.43
54 29 0.31
55 24 0.26
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTACCC
Found at i:3816268 original size:96 final size:91
Alignment explanation
Indices: 3816058--3816244 Score: 293
Period size: 91 Copynumber: 2.0 Consensus size: 91
3816048 GGTCGGGTAG
* *
3816058 GTAGCCTTCTGTCCATGGCTAGTGGAAAAGGTTTGTAAATCATTGGTATGTCCCACTCAGAAGTG
1 GTAGCATTCTGTCCATGGCTAGTGGAAAAGGTTTGTAAATCATCGGTATGTCCCACTCAGAAGTG
*
3816123 GAATCGGGTCGATAATCTCGGCATAA
66 GAATAGGGTCGATAATCTCGGCATAA
*
3816149 GTAGCCTTCTGTCCATGGCTAGTGGAAAAGTGTTTGTAAATCATCGGTATGTCCCACTCAGAAGG
1 GTAGCATTCTGTCCATGGCTAGTGGAAAAG-GTTTGTAAATCATCGGTATGTCCCACTCAG-A--
3816214 ATGTGGAATAGGGTCGATAATCTCGGCATAA
62 A-GTGGAATAGGGTCGATAATCTCGGCATAA
3816245 TTCTGTCGAT
Statistics
Matches: 89, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
91 30 0.34
92 29 0.33
93 1 0.01
95 1 0.01
96 28 0.31
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (91 bp):
GTAGCATTCTGTCCATGGCTAGTGGAAAAGGTTTGTAAATCATCGGTATGTCCCACTCAGAAGTG
GAATAGGGTCGATAATCTCGGCATAA
Found at i:3818086 original size:24 final size:23
Alignment explanation
Indices: 3818048--3818101 Score: 90
Period size: 24 Copynumber: 2.3 Consensus size: 23
3818038 CTGAAACATC
3818048 ATCAAATCCGAGTATTGACCAAG
1 ATCAAATCCGAGTATTGACCAAG
*
3818071 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAA-TCCGAGTATTGACCAAG
3818095 ATCAAAT
1 ATCAAAT
3818102 TTCGAATACC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 7 0.24
24 22 0.76
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (23 bp):
ATCAAATCCGAGTATTGACCAAG
Found at i:3818933 original size:20 final size:20
Alignment explanation
Indices: 3818905--3819052 Score: 174
Period size: 20 Copynumber: 7.3 Consensus size: 20
3818895 AATTCAGTGA
* *
3818905 TGCGTTAGTCAGAATCACGT
1 TGCGATAGTCAGAATCGCGT
3818925 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
**
3818945 TGCGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
3818966 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
**
3818986 TGCGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
* *
3819007 TGTGATAGTCCGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
3819027 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
3819047 TGCGAT
1 TGCGAT
3819053 CAAGTGTTAT
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
19 4 0.04
20 71 0.66
21 29 0.27
22 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:3818967 original size:41 final size:41
Alignment explanation
Indices: 3818922--3819032 Score: 204
Period size: 41 Copynumber: 2.7 Consensus size: 41
3818912 GTCAGAATCA
3818922 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
3818963 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
* *
3819004 CGTTGTGATAGTCCGAATCGCGTTGCGAT
1 CGTTGCGATAGTCAGAATCGCGTTGCGAT
3819033 AGTCAGAATC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
Found at i:3818975 original size:61 final size:61
Alignment explanation
Indices: 3818905--3819073 Score: 184
Period size: 61 Copynumber: 2.8 Consensus size: 61
3818895 AATTCAGTGA
* * **
3818905 TGCGTTAGTCAGAATCACGTTGCGAT-A-GTCAGAATCGCGTTGCGATCACGT-ATTATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATCACGT-AGAATCGCGTTGCGAT-A-GTCAGAATCGCGT
** * *
3818966 TGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGTTGTGATAGTCCGAATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATCACGTAGAATCGCGTTGCGATAGTCAGAATCGCGT
* *
3819027 TGCGATAGTCAGAATCGCGTTGCGATCAAGT-GTTATCGCGTTGCGAT
1 TGCGATAGTCAGAATCGCGTTGCGATCACGTAG-AATCGCGTTGCGAT
3819074 TTACATATTC
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
60 2 0.02
61 75 0.81
62 14 0.15
63 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (61 bp):
TGCGATAGTCAGAATCGCGTTGCGATCACGTAGAATCGCGTTGCGATAGTCAGAATCGCGT
Found at i:3819090 original size:20 final size:20
Alignment explanation
Indices: 3819062--3819114 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
3819052 TCAAGTGTTA
*
3819062 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
3819082 TCGCATTGCGATTTATATAT
1 TCGCATTGCGATTTACATAT
3819102 TCGCATTGCGATT
1 TCGCATTGCGATT
3819115 ATCTAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:3819091 original size:61 final size:61
Alignment explanation
Indices: 3818905--3819093 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
3818895 AATTCAGTGA
* * * * *
3818905 TGCGTTAGTCAGAATCACGTTGCGAT--AGTCAG-AATCGCGTTGCGA-TCACGTATTATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATCAAGT--GTTATCGCGTTGCGATTTACATA-T-TCGCGT
* * * * *
3818966 TGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGTTGTGATAGTCCGA-A-TCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATCAAGTGTTATCGCGTTGCGAT-TTAC-ATATTCGCGT
*
3819027 TGCGATAGTCAGAATCGCGTTGCGATCAAGTGTTATCGCGTTGCGATTTACATATTCGCAT
1 TGCGATAGTCAGAATCGCGTTGCGATCAAGTGTTATCGCGTTGCGATTTACATATTCGCGT
3819088 TGCGAT
1 TGCGAT
3819094 TTATATATTC
Statistics
Matches: 104, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
59 1 0.01
60 3 0.03
61 85 0.82
62 11 0.11
63 2 0.02
64 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (61 bp):
TGCGATAGTCAGAATCGCGTTGCGATCAAGTGTTATCGCGTTGCGATTTACATATTCGCGT
Found at i:3819161 original size:21 final size:20
Alignment explanation
Indices: 3819119--3819167 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
3819109 GCGATTATCT
*
3819119 AAAATCGCAACGCGGATTTC
1 AAAATCGCAACGCGGATGTC
*
3819139 AAAAATCGCAATGC-GATGGTC
1 -AAAATCGCAACGCGGAT-GTC
3819160 AAAATCGC
1 AAAATCGC
3819168 GTTGCGAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGGATGTC
Found at i:3830864 original size:17 final size:16
Alignment explanation
Indices: 3830842--3830873 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
3830832 GATCAATACC
3830842 TTTGCATACATGCATTT
1 TTTGCATACAT-CATTT
3830859 TTTGCATACATCATT
1 TTTGCATACATCATT
3830874 ATTCATTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (16 bp):
TTTGCATACATCATTT
Found at i:3837698 original size:10 final size:11
Alignment explanation
Indices: 3837682--3837766 Score: 74
Period size: 10 Copynumber: 8.0 Consensus size: 11
3837672 TTATGCTTGA
*
3837682 AGAAAAAAATG
1 AGAAAAAAAAG
3837693 -GAAAAAAAAG
1 AGAAAAAAAAG
3837703 AAAGAAAAAAAAG
1 --AGAAAAAAAAG
3837716 -GAAAAAAAAG
1 AGAAAAAAAAG
3837726 AG-AAAAAAAG
1 AGAAAAAAAAG
*
3837736 A-AAAAGAAAG
1 AGAAAAAAAAG
*
3837746 A-AAAAAGAAG
1 AGAAAAAAAAG
3837756 A-AAGAAAAAAG
1 AGAA-AAAAAAG
3837767 GGGGGCTCAA
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
10 46 0.73
11 7 0.11
13 10 0.16
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:3837705 original size:19 final size:19
Alignment explanation
Indices: 3837697--3837751 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
3837687 AAAATGGAAA
3837697 AAAAAGAAAGAAAAAAAAGG
1 AAAAAGAAAG-AAAAAAAGG
*
3837717 AAAAA-AAAGAGAAAAAAAG
1 AAAAAGAAAGA-AAAAAAGG
3837736 AAAAAGAAAGAAAAAA
1 AAAAAGAAAGAAAAAA
3837752 GAAGAAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.03
19 21 0.66
20 10 0.31
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAGAAAAAAAGG
Found at i:3837707 original size:23 final size:22
Alignment explanation
Indices: 3837681--3837765 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 22
3837671 ATTATGCTTG
3837681 AAGAAAAAAATGGAAAAAAAAGA
1 AAGAAAAAAA-GGAAAAAAAAGA
3837704 AAGAAAAAAAAGGAAAAAAAAG-
1 AAG-AAAAAAAGGAAAAAAAAGA
3837726 -AGAAAAAAA-GAAAAAGAAAGA
1 AAGAAAAAAAGGAAAAA-AAAGA
*
3837747 AA-AAAGAAGAAAGAAAAAA
1 AAGAAA-AA-AAGGAAAAAA
3837766 GGGGGGCTCA
Statistics
Matches: 55, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
19 6 0.11
20 11 0.20
21 5 0.09
22 3 0.05
23 17 0.31
24 13 0.24
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (22 bp):
AAGAAAAAAAGGAAAAAAAAGA
Found at i:3837720 original size:20 final size:19
Alignment explanation
Indices: 3837697--3837758 Score: 90
Period size: 20 Copynumber: 3.2 Consensus size: 19
3837687 AAAATGGAAA
3837697 AAAAAGAAAGAAAAAAAAGG
1 AAAAAGAAAGAAAAAAAA-G
3837717 AAAAA-AAAGAGAAAAAAAG
1 AAAAAGAAAGA-AAAAAAAG
3837736 AAAAAGAAAGAAAAAAGAAG
1 AAAAAGAAAGAAAAAA-AAG
3837756 AAA
1 AAA
3837759 GAAAAAAGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
19 16 0.41
20 23 0.59
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAGAAAAAAAAG
Found at i:3837722 original size:25 final size:25
Alignment explanation
Indices: 3837681--3837765 Score: 93
Period size: 25 Copynumber: 3.4 Consensus size: 25
3837671 ATTATGCTTG
*
3837681 AAGAAAAAAATGG--AAAAAAAAGA
1 AAGAAAAAAAAGGAAAAAAAAAAGA
*
3837704 AAGAAAAAAAAGGAAAAAAAAGAGA
1 AAGAAAAAAAAGGAAAAAAAAAAGA
* *
3837729 AAAAAAGAAAAAGAAAGAAAAAAGAAGA
1 AAGAAA-AAAAAGGAA-AAAAAA-AAGA
3837757 AAGAAAAAA
1 AAGAAAAAA
3837766 GGGGGGCTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
23 12 0.24
25 14 0.27
26 8 0.16
27 9 0.18
28 8 0.16
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (25 bp):
AAGAAAAAAAAGGAAAAAAAAAAGA
Found at i:3837766 original size:14 final size:14
Alignment explanation
Indices: 3837693--3837766 Score: 86
Period size: 14 Copynumber: 5.6 Consensus size: 14
3837683 GAAAAAAATG
3837693 GAAAAAA-AAGAAA
1 GAAAAAAGAAGAAA
*
3837706 GAAAAAA-AAGGAA
1 GAAAAAAGAAGAAA
3837719 -AAAAAAG-AGAAA
1 GAAAAAAGAAGAAA
*
3837731 -AAAAGAAAAAGAAA
1 GAAAA-AAGAAGAAA
3837745 GAAAAAAGAAGAAA
1 GAAAAAAGAAGAAA
3837759 GAAAAAAG
1 GAAAAAAG
3837767 GGGGGCTCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
12 14 0.26
13 14 0.26
14 21 0.40
15 4 0.08
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
GAAAAAAGAAGAAA
Found at i:3839563 original size:113 final size:113
Alignment explanation
Indices: 3839250--3839966 Score: 1057
Period size: 113 Copynumber: 6.5 Consensus size: 113
3839240 GCAAAGATTT
* *
3839250 AATCTATCACTTGATGGATCAACAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCACTTGATGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
3839315 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTA
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCA
* * * * * *
3839363 AATTCATCACTCGGTGGATCAGTACTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCACTTGATGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
3839427 AGGAAGAGGAAGTTCATAATGAGAATAACTTGTTCAACTTTTTGCTCA
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCA
* ** *
3839475 AATTCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCACTTGATGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
3839540 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTA
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCA
* *
3839588 AATCCATCACTTGATGGATCAACAGTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCACTTGATGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
3839653 AGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAAC-TTTTGCT-T
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCA
*
3839699 AA---ATCACTTGATGGATCAACAGTT-CAGAGAAAGTTCAT-ATGAGAAGAACTCATCT---GA
1 AATCCATCACTTGATGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
3839756 AGGAAGAAGAAGTTCATAATAAGAACAACTTGTTCAAC-TTTTGCTC-
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCA
* * *
3839802 AATCCATCACTTGATGGATCAGC-TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGGAGA
1 AATCCATCACTTGATGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
3839866 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCA
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCA
* * *
3839914 AATCCATCATTTGATGGATCAGCATTTCCAGAGGAAGTTCATAATGAGAAGAA
1 AATCCATCACTTGATGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAA
3839967 TTTGTTCGAC
Statistics
Matches: 552, Mismatches: 39, Indels: 26
0.89 0.06 0.04
Matches are distributed among these distances:
103 48 0.09
105 2 0.00
106 47 0.09
107 30 0.05
108 22 0.04
110 37 0.07
111 10 0.02
112 132 0.24
113 224 0.41
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
AATCCATCACTTGATGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCA
Found at i:3839930 original size:326 final size:334
Alignment explanation
Indices: 3839250--3839966 Score: 1137
Period size: 326 Copynumber: 2.2 Consensus size: 334
3839240 GCAAAGATTT
*
3839250 AATCTATCACTTGATGGATCAACAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCACTTGATGGATCAACAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
3839315 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGG
66 AGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGCTTAAA-T-ATCACTCGATGG
** * *
3839380 ATCAGTACTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATA
129 ATCAACACTTCCAGAAAAGTTCATAATGAGAAGAACTCATCT--AGAAGGAAGAAGAAGTTCATA
* * *
3839445 ATGAGAATAACTTGTTCAACTTTTTGCTCAAATTCATCACTTGATGGATCAGCTTTTCCAGAAAA
192 ATAAGAACAACTTGTTCAACTTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAA
3839510 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
257 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
3839575 AACTTTTTGCTTA
322 AACCTTTTGCTCA
*
3839588 AATCCATCACTTGATGGATCAACAGTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCACTTGATGGATCAACAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
3839653 AGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAAC-TTTTGCTT-AA-ATCACTTGATGGAT
66 AGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGCTTAAATATCACTCGATGGAT
*
3839715 CAACAGTT-CAGAGAAAGTTCAT-ATGAGAAGAACTCATCT-GAAGGAAGAAGAAGTTCATAATA
131 CAACACTTCCAGA-AAAGTTCATAATGAGAAGAACTCATCTAGAAGGAAGAAGAAGTTCATAATA
3839777 AGAACAACTTGTTCAAC-TTTTGCTC-AATCCATCACTTGATGGATCAGC-TTTCCAGAAAAAGT
195 AGAACAACTTGTTCAACTTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGT
* *
3839839 TCATAATGAGAAGAACTCATCTGGAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAAC
260 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
3839904 CTTTTGCTCA
325 CTTTTGCTCA
* * * *
3839914 AATCCATCATTTGATGGATCAGCATTTCCAGAGGAAGTTCATAATGAGAAGAA
1 AATCCATCACTTGATGGATCAACAGTTCCAGAGAAAGTTCATAATGAGAAGAA
3839967 TTTGTTCGAC
Statistics
Matches: 356, Mismatches: 22, Indels: 14
0.91 0.06 0.04
Matches are distributed among these distances:
326 133 0.37
327 22 0.06
328 8 0.02
329 37 0.10
332 21 0.06
333 25 0.07
336 2 0.01
337 8 0.02
338 100 0.28
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (334 bp):
AATCCATCACTTGATGGATCAACAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGCTTAAATATCACTCGATGGAT
CAACACTTCCAGAAAAGTTCATAATGAGAAGAACTCATCTAGAAGGAAGAAGAAGTTCATAATAA
GAACAACTTGTTCAACTTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTT
CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
TTTTGCTCA
Found at i:3840464 original size:3 final size:3
Alignment explanation
Indices: 3840456--3840513 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
3840446 CCGATTTTAT
* * *
3840456 TTA TTA TTA TCA -TA TTA TTA TTTA TTA TATA TTT TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA T-TA TTA TTA TTA TTA TTA
3840502 TTA TTA TTA TTA
1 TTA TTA TTA TTA
3840514 CAAACAGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
2 1 0.02
3 39 0.85
4 6 0.13
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:3840493 original size:28 final size:28
Alignment explanation
Indices: 3840452--3840511 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
3840442 TGTCCCGATT
* *
3840452 TTATTTATTATTATCA-TATTATTATTTA
1 TTATATATTATTATCATTAATATTA-TTA
* *
3840480 TTATATATTTTTATTATTAATATTATTA
1 TTATATATTATTATCATTAATATTATTA
3840508 TTAT
1 TTAT
3840512 TACAAACAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
TTATATATTATTATCATTAATATTATTA
Found at i:3840502 original size:15 final size:16
Alignment explanation
Indices: 3840456--3840513 Score: 82
Period size: 15 Copynumber: 3.6 Consensus size: 16
3840446 CCGATTTTAT
3840456 TTATTATTATCATATTA
1 TTATTATTAT-ATATTA
*
3840473 TTATTTATTATATATTT
1 TTA-TTATTATATATTA
3840490 TTATTATTA-ATATTA
1 TTATTATTATATATTA
3840505 TTATTATTA
1 TTATTATTA
3840514 CAAACAGGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.37
16 6 0.16
17 11 0.29
18 7 0.18
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTATTATATATTA
Found at i:3841838 original size:30 final size:31
Alignment explanation
Indices: 3841804--3841861 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
3841794 TTTTTTTACA
3841804 AGTTATATATATAATTTTAATT-TTATTGTT
1 AGTTATATATATAATTTTAATTATTATTGTT
* * *
3841834 AGTTATATGTTTACTTTTAATTATTATT
1 AGTTATATATATAATTTTAATTATTATT
3841862 ACTAGTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (31 bp):
AGTTATATATATAATTTTAATTATTATTGTT
Found at i:3842216 original size:7 final size:7
Alignment explanation
Indices: 3842206--3842230 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3842196 AATTAAATAT
3842206 ATTTTGA
1 ATTTTGA
3842213 ATTTTGA
1 ATTTTGA
3842220 ATTTTGA
1 ATTTTGA
3842227 ATTT
1 ATTT
3842231 CTAATAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
ATTTTGA
Found at i:3843491 original size:17 final size:17
Alignment explanation
Indices: 3843465--3843532 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
3843455 AAATAAATAT
*
3843465 AAAAATAAAAGAAAAAAAG
1 AAAAA-AAAA-AAATAAAG
*
3843484 AAAAAAAAAAAATATAG
1 AAAAAAAAAAAATAAAG
* *
3843501 -AAATAAAAAAATAAAT
1 AAAAAAAAAAAATAAAG
* *
3843517 AAAATAAAAAAGTAAA
1 AAAAAAAAAAAATAAA
3843533 AATATATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
16 13 0.31
17 20 0.48
18 4 0.10
19 5 0.12
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAAAAAAAATAAAG
Found at i:3843497 original size:34 final size:33
Alignment explanation
Indices: 3843454--3843527 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 33
3843444 AATAGTAAGT
*
3843454 AAAATAAATATAAAAATAAAAGAAAAAAAGAAAA
1 AAAAAAAATATAAAAATAAAA-AAAAAAAGAAAA
* * *
3843488 AAAAAAAATATAGAAATAAAAAAATAAATAAAA
1 AAAAAAAATATAAAAATAAAAAAAAAAAGAAAA
*
3843521 TAAAAAA
1 AAAAAAA
3843528 GTAAAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 16 0.46
34 19 0.54
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (33 bp):
AAAAAAAATATAAAAATAAAAAAAAAAAGAAAA
Found at i:3843508 original size:20 final size:19
Alignment explanation
Indices: 3843485--3843560 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 19
3843475 GAAAAAAAGA
3843485 AAAAAAAAAAATATAGAAAT
1 AAAAAAAAAAATATA-AAAT
*
3843505 -AAAAAAATAA-ATAAAAT
1 AAAAAAAAAAATATAAAAT
*
3843522 AAAAAAGTAAAAATATATATAT
1 AAAAAA--AAAAATATA-AAAT
*
3843544 AAAATAAAAAATA-AAAA
1 AAAAAAAAAAATATAAAA
3843561 GAGTAAATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
17 4 0.09
18 10 0.22
19 10 0.22
20 11 0.24
21 3 0.07
22 8 0.17
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAAAAAAAAATATAAAAT
Found at i:3843512 original size:8 final size:8
Alignment explanation
Indices: 3843453--3843560 Score: 83
Period size: 8 Copynumber: 12.8 Consensus size: 8
3843443 AAATAGTAAG
3843453 TAAAATAAA
1 TAAAA-AAA
*
3843462 TATAAAAA
1 TAAAAAAA
3843470 TAAAAGAAA
1 TAAAA-AAA
*
3843479 AAAAGAAAA
1 TAAA-AAAA
*
3843488 AAAAAAAA
1 TAAAAAAA
* *
3843496 TATAGAAA
1 TAAAAAAA
3843504 TAAAAAAA
1 TAAAAAAA
3843512 TAAATAAAA
1 TAAA-AAAA
*
3843521 TAAAAAAG
1 TAAAAAAA
3843529 TAAAAATATA
1 TAAAAA-A-A
*
3843539 TATATAAAA
1 TA-AAAAAA
3843548 T-AAAAAA
1 TAAAAAAA
3843555 TAAAAA
1 TAAAAA
3843561 GAGTAAATAT
Statistics
Matches: 80, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
7 6 0.08
8 39 0.49
9 28 0.35
10 4 0.05
11 3 0.04
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (8 bp):
TAAAAAAA
Found at i:3843532 original size:25 final size:24
Alignment explanation
Indices: 3843454--3843569 Score: 96
Period size: 25 Copynumber: 4.8 Consensus size: 24
3843444 AATAGTAAGT
* *
3843454 AAAATAAATATAA-AAATAAAAGAA
1 AAAATAAA-AAAATAAATAAAATAA
*
3843478 AAAA-AGAAAAA-AAA-AAAATATA
1 AAAATAAAAAAATAAATAAAATA-A
*
3843500 GAAATAAAAAAATAAATAAAATAA
1 AAAATAAAAAAATAAATAAAATAA
*
3843524 AAAAGTAAAAATATATATATAAAATAA
1 AAAA-TAAAAA-A-ATAAATAAAATAA
*
3843551 AAAATAAAAAGAGTAAATA
1 AAAATAAAAA-AATAAATA
3843570 TATATATATA
Statistics
Matches: 75, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
21 5 0.07
22 10 0.13
23 8 0.11
24 11 0.15
25 17 0.23
26 8 0.11
27 16 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (24 bp):
AAAATAAAAAAATAAATAAAATAA
Found at i:3843538 original size:39 final size:35
Alignment explanation
Indices: 3843454--3843560 Score: 108
Period size: 39 Copynumber: 2.9 Consensus size: 35
3843444 AATAGTAAGT
* * *
3843454 AAAATAAATATAAAAATAAAAGAAAAA-AAGAAAA
1 AAAAAAAATATAAAAATAAAAAAAAAATAAAAAAA
*
3843488 AAAAAAAATATAGAAATAAAAAAATAAATAAAATAAA
1 AAAAAAAATATAAAAATAAAAAAA-AAATAAAA-AAA
* *
3843525 AAAGTAAAAATATATATATAAAATAAAAAATAAAAA
1 AAA--AAAAATATAAAAATAAAA-AAAAAATAAAAA
3843561 GAGTAAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
34 21 0.34
35 3 0.05
36 3 0.05
37 6 0.10
38 1 0.02
39 24 0.39
40 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (35 bp):
AAAAAAAATATAAAAATAAAAAAAAAATAAAAAAA
Found at i:3843573 original size:35 final size:35
Alignment explanation
Indices: 3843508--3843590 Score: 123
Period size: 35 Copynumber: 2.3 Consensus size: 35
3843498 TAGAAATAAA
*
3843508 AAAATAAATAAAATAAAAAAGTAAAAATATATATAT
1 AAAAT-AATAAAATAAAAAAGTAAATATATATATAT
3843544 AAAATAA-AAAATAAAAAGAGTAAATATATATATAT
1 AAAATAATAAAATAAAAA-AGTAAATATATATATAT
*
3843579 AAATTAATAAAA
1 AAAATAATAAAA
3843591 CTGATAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 10 0.23
35 24 0.56
36 9 0.21
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (35 bp):
AAAATAATAAAATAAAAAAGTAAATATATATATAT
Found at i:3843640 original size:24 final size:25
Alignment explanation
Indices: 3843613--3843660 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
3843603 ATAATATATT
* *
3843613 TATATA-TAATCTAAAAAATAAAAA
1 TATATACTAAACTAAAAAAGAAAAA
*
3843637 TATATACTAAAGTAAAAAAGAAAA
1 TATATACTAAACTAAAAAAGAAAA
3843661 TACATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (25 bp):
TATATACTAAACTAAAAAAGAAAAA
Found at i:3843671 original size:41 final size:40
Alignment explanation
Indices: 3843624--3843700 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
3843614 ATATATAATC
*
3843624 TAAAAAATAAAAATATATAC-T-AAAGTAAAAAAGAAAATACA
1 TAAAAAAAAAAAATAT-TACATGAAA--AAAAAAGAAAATACA
3843665 TAAAAAAAAAAAATATTACATGAAAAAAAAAGAAAA
1 TAAAAAAAAAAAATATTACATGAAAAAAAAAGAAAA
3843701 GAAAAATACA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
40 14 0.42
41 16 0.48
42 3 0.09
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.17
Consensus pattern (40 bp):
TAAAAAAAAAAAATATTACATGAAAAAAAAAGAAAATACA
Found at i:3843673 original size:20 final size:20
Alignment explanation
Indices: 3843650--3843700 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
3843640 ATACTAAAGT
3843650 AAAAAAGAAAATACATAAAA
1 AAAAAAGAAAATACATAAAA
* *
3843670 AAAAAA-AATATTACATGAAA
1 AAAAAAGAA-AATACATAAAA
3843690 AAAAAAGAAAA
1 AAAAAAGAAAA
3843701 GAAAAATACA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (20 bp):
AAAAAAGAAAATACATAAAA
Found at i:3843991 original size:36 final size:35
Alignment explanation
Indices: 3843951--3844075 Score: 139
Period size: 36 Copynumber: 3.6 Consensus size: 35
3843941 GGATCATATC
* * *
3843951 TTTAGGAATTTAATCTTAGTAGAACTCTATCCTATT
1 TTTAGGAATTGAATCCTAGTA-AAATCTATCCTATT
* * *
3843987 TTTAGGAGTTGAATCCTAGCAAAATGTTATCCTATT
1 TTTAGGAATTGAATCCTAGTAAAAT-CTATCCTATT
*
3844023 TTTAGGAATTGAATCC---TAAATTCTATCCTATT
1 TTTAGGAATTGAATCCTAGTAAAATCTATCCTATT
*
3844055 TTTAGGAGTTGAATCCTAGTA
1 TTTAGGAATTGAATCCTAGTA
3844076 GGGTGTTGAC
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
32 24 0.32
33 4 0.05
35 5 0.07
36 41 0.55
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (35 bp):
TTTAGGAATTGAATCCTAGTAAAATCTATCCTATT
Found at i:3844055 original size:32 final size:33
Alignment explanation
Indices: 3843976--3844072 Score: 135
Period size: 32 Copynumber: 2.9 Consensus size: 33
3843966 TTAGTAGAAC
3843976 TCTATCCTATTTTTAGGAGTTGAATCCTAGCAAAATG
1 TCTATCCTATTTTTAGGAGTTGAATCCT----AAATG
*
3844013 T-TATCCTATTTTTAGGAATTGAATCCTAAAT-
1 TCTATCCTATTTTTAGGAGTTGAATCCTAAATG
3844044 TCTATCCTATTTTTAGGAGTTGAATCCTA
1 TCTATCCTATTTTTAGGAGTTGAATCCTA
3844073 GTAGGGTGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
31 1 0.02
32 30 0.53
36 25 0.44
37 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (33 bp):
TCTATCCTATTTTTAGGAGTTGAATCCTAAATG
Found at i:3844925 original size:104 final size:106
Alignment explanation
Indices: 3844595--3845043 Score: 569
Period size: 104 Copynumber: 4.3 Consensus size: 106
3844585 CATTGTTCCA
* * * **
3844595 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAA-TTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * *
3844659 CAGCCATCCCTTCGTTGTGAAGTTGAAC-TGTGTTGTCTCG
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* * *
3844699 AGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
** * *
3844763 CAG-CG---GGTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
*
3844800 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
3844864 CAGCGGT-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-G
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* *
3844903 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 -AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
3844968 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG-TGTTCTCG
65 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG-TCTCG
* *
3845010 AGTGCCACGATATCCTCCGTTGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
3845044 CGCGGATGGC
Statistics
Matches: 304, Mismatches: 27, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
100 16 0.05
101 71 0.23
102 3 0.01
103 2 0.01
104 138 0.45
105 18 0.06
106 29 0.10
107 4 0.01
109 23 0.08
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
Found at i:3844936 original size:205 final size:206
Alignment explanation
Indices: 3844595--3844972 Score: 566
Period size: 205 Copynumber: 1.8 Consensus size: 206
3844585 CATTGTTCCA
*
3844595 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAATTGTTTGTTGACAACC
1 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAACCGGGAATTGTTTGTTGACAACC
* *
3844660 AGCCATCCCTTCGTTGTGAAGTTGAACTGTGTTGTCTCGAGTCCAATATCCTTCGTCGTGAAGTT
66 AGCCATCCCTTCGTCGTGAAGTTGAACTGCGTTGTCTCGAGTCCAATATCCTTCGTCGTGAAGTT
* * *
3844725 GAAATTGGCTCTGAGATTGGGAAGTT-GTTGTTGACAAGCAGCGGGTCGTCGTGAAGTTGAACTT
131 GAAATTGGCTCTGAAATTGAGAAGTTAGTTGTTGACAACCAGCGGGTCGTCGTGAAGTTGAACTT
3844789 GCATTGTCTGG
196 GCATTGTCTGG
* * ** *
3844800 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAAG
1 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAACCGGGAA-TTGTTTGTTGACAAC
** *
3844864 CAGCGGT-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAAGTCCAATATCCTTCGTTGTGAA
65 CAGCCATCCCTTCGTCGTGAAGTTGAAC-TGCGTTGTCTCG-AGTCCAATATCCTTCGTCGTGAA
*
3844927 GTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAACCAGC
128 GTTGAAATTGGCTCTGAAATTGAGAAGTTAGTTGTTGACAACCAGC
3844973 CGTCCCTTCG
Statistics
Matches: 154, Mismatches: 15, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
204 20 0.13
205 114 0.74
206 20 0.13
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (206 bp):
AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAACCGGGAATTGTTTGTTGACAACC
AGCCATCCCTTCGTCGTGAAGTTGAACTGCGTTGTCTCGAGTCCAATATCCTTCGTCGTGAAGTT
GAAATTGGCTCTGAAATTGAGAAGTTAGTTGTTGACAACCAGCGGGTCGTCGTGAAGTTGAACTT
GCATTGTCTGG
Found at i:3845772 original size:67 final size:65
Alignment explanation
Indices: 3845639--3845961 Score: 288
Period size: 65 Copynumber: 4.8 Consensus size: 65
3845629 AAGATATCTG
* * * * * *
3845639 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT-TGTTTTAAGGGAAATAAATTTAAAGA-
3845704 TT
64 TT
* * * * * *
3845706 TGTGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTTAAAGAT
3845771 T
65 T
* * * * * * *
3845772 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTTTAAAGAAAACATATTTAAATATT
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTTAAAGATT
* * ** *
3845837 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAA-ATGTCTCAAGAGA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAAT-T-TA-A-A
*
3845901 GACAAAAT
62 G----ATT
* *
3845909 TTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTTAAGGGAAAT
3845962 TATCTCAAGA
Statistics
Matches: 212, Mismatches: 33, Indels: 15
0.82 0.13 0.06
Matches are distributed among these distances:
64 3 0.01
65 97 0.46
66 4 0.02
67 25 0.12
68 32 0.15
72 36 0.17
73 15 0.07
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (65 bp):
TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTTAAAGATT
Found at i:3845918 original size:21 final size:21
Alignment explanation
Indices: 3845857--3845918 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
3845847 GGAAACTGTC
3845857 TCAAGAGAGACAAAATTTATT
1 TCAAGAGAGACAAAATTTATT
* *
3845878 TCAAG-G-G--AAAA--TGTC
1 TCAAGAGAGACAAAATTTATT
3845893 TCAAGAGAGACAAAATTTATT
1 TCAAGAGAGACAAAATTTATT
3845914 TCAAG
1 TCAAG
3845919 GGAAACTGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
15 7 0.23
16 1 0.03
17 5 0.16
19 5 0.16
20 1 0.03
21 12 0.39
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTATT
Found at i:3845968 original size:37 final size:36
Alignment explanation
Indices: 3845840--3845978 Score: 233
Period size: 36 Copynumber: 3.8 Consensus size: 36
3845830 AAATATTTTG
3845840 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA
*
3845876 TTTCAAGGGAAAATGTCTCAAGAGAGACAAAATTTA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA
*
3845912 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTA
* *
3845949 TTTCAAGGGAAATTATCTCAAGAGAGACAA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAA
3845979 TGGTGAGCAC
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 66 0.68
37 31 0.32
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (36 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA
Found at i:3846857 original size:22 final size:22
Alignment explanation
Indices: 3846832--3846882 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
3846822 TTGTGTTTGG
3846832 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
3846854 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
3846876 TCAAAGG
1 TCAAAGG
3846883 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:3847521 original size:7 final size:7
Alignment explanation
Indices: 3847509--3847596 Score: 70
Period size: 8 Copynumber: 11.7 Consensus size: 7
3847499 GCTTTTTGTC
3847509 CTTTTTT
1 CTTTTTT
3847516 CTTTTTT
1 CTTTTTT
*
3847523 CTTTTTG
1 CTTTTTT
3847530 CTTTTTTT
1 C-TTTTTT
3847538 CCTTTTGTT
1 -CTTTT-TT
*
3847547 C-TTGTT
1 CTTTTTT
3847553 CTCTTTTT
1 CT-TTTTT
3847561 CTTTGTTT
1 CTTT-TTT
*
3847569 TTTTTTT
1 CTTTTTT
*
3847576 GCTTTTTG
1 -CTTTTTT
3847584 CTTCTTTT
1 CTT-TTTT
3847592 CTTTT
1 CTTTT
3847597 GTTTCTTGAT
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
6 3 0.05
7 26 0.40
8 33 0.51
9 3 0.05
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (7 bp):
CTTTTTT
Found at i:3847526 original size:23 final size:23
Alignment explanation
Indices: 3847500--3847596 Score: 76
Period size: 23 Copynumber: 4.2 Consensus size: 23
3847490 TTTGCATGTG
3847500 CTTTTTGTCCTTTTTTCTTTTTT
1 CTTTTTGTCCTTTTTTCTTTTTT
*
3847523 CTTTTTG-CTTTTTTTCCTTTTGTT
1 CTTTTTGTCCTTTTTT-CTTTT-TT
* *
3847547 CTTGTTCT-C-TTTTTCTTTGTTT
1 CTTTTTGTCCTTTTTTCTTT-TTT
* * *
3847569 -TTTTTTTGCTTTTTGCTTCTTTT
1 CTTTTTGTCCTTTTTTCTT-TTTT
3847592 CTTTT
1 CTTTT
3847597 GTTTCTTGAT
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
21 5 0.08
22 14 0.24
23 28 0.47
24 12 0.20
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.76
Consensus pattern (23 bp):
CTTTTTGTCCTTTTTTCTTTTTT
Found at i:3847532 original size:30 final size:32
Alignment explanation
Indices: 3847498--3847564 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 32
3847488 TCTTTGCATG
*
3847498 TGCTTTTTGTCCTTTT-TTCTT-TTTTCTTTT
1 TGCTTTTTGTCCTTTTGTTCTTGTTCTCTTTT
*
3847528 TGCTTTTTTTCCTTTTGTTCTTGTTCTCTTTT
1 TGCTTTTTGTCCTTTTGTTCTTGTTCTCTTTT
3847560 T-CTTT
1 TGCTTT
3847565 GTTTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 15 0.45
31 9 0.27
32 9 0.27
ACGTcount: A:0.00, C:0.18, G:0.07, T:0.75
Consensus pattern (32 bp):
TGCTTTTTGTCCTTTTGTTCTTGTTCTCTTTT
Found at i:3848751 original size:7 final size:7
Alignment explanation
Indices: 3848736--3848765 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
3848726 AATGTAGATG
3848736 AAAATGC
1 AAAATGC
*
3848743 AAAAGGC
1 AAAATGC
3848750 AAAATGC
1 AAAATGC
3848757 AAAATGC
1 AAAATGC
3848764 AA
1 AA
3848766 GAAGCACGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.60, C:0.13, G:0.17, T:0.10
Consensus pattern (7 bp):
AAAATGC
Found at i:3849299 original size:17 final size:17
Alignment explanation
Indices: 3849277--3849312 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
3849267 CCATTAGTCT
3849277 TCAGAAGTGGATGTGAA
1 TCAGAAGTGGATGTGAA
3849294 TCAGAAGTGGATGTGAA
1 TCAGAAGTGGATGTGAA
3849311 TC
1 TC
3849313 CAGACTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.08, G:0.33, T:0.25
Consensus pattern (17 bp):
TCAGAAGTGGATGTGAA
Found at i:3851323 original size:15 final size:15
Alignment explanation
Indices: 3851305--3851334 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3851295 AAAACCATGT
3851305 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
3851320 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
3851335 GAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:3851341 original size:15 final size:15
Alignment explanation
Indices: 3851308--3851342 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3851298 ACCATGTTAG
* *
3851308 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
3851323 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
3851338 ATAAA
1 ATAAA
3851343 TTAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:3851443 original size:6 final size:6
Alignment explanation
Indices: 3851422--3851540 Score: 59
Period size: 6 Copynumber: 18.3 Consensus size: 6
3851412 AATAGTAAGT
*
3851422 AAAATA AATATAA AAAATA AAAGA-A AAAA-A AGAAA-A AGAAATA AAAATA
1 AAAATA AAAAT-A AAAATA AAA-ATA AAAATA A-AAATA A-AAATA AAAATA
*
3851471 TAGAAATA AAACA-A ATAAAT- AAAATA ATAATA AAAAGTA AAAATA ATATATATA
1 -A-AAATA AAA-ATA A-AAATA AAAATA AAAATA AAAA-TA AAAATA A-A-A-ATA
3851525 TAAAATAA AAAATA AA
1 -AAAAT-A AAAATA AA
3851541 GAGTAAATAT
Statistics
Matches: 93, Mismatches: 4, Indels: 32
0.72 0.03 0.25
Matches are distributed among these distances:
5 7 0.08
6 46 0.49
7 27 0.29
8 8 0.09
9 4 0.04
10 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:3851481 original size:24 final size:23
Alignment explanation
Indices: 3851427--3851535 Score: 60
Period size: 23 Copynumber: 4.4 Consensus size: 23
3851417 TAAGTAAAAT
* * *
3851427 AAATATAAA-AAATAAAAGAAAAA
1 AAATAAAAAGAAATAAAA-ATATA
*
3851450 AAAGAAAAAGAAATAAAAATATA
1 AAATAAAAAGAAATAAAAATATA
* *
3851473 GAAAT-AAAACAAATAAATAAAATA
1 -AAATAAAAAGAAATAAA-AATATA
3851497 ATAATAAAAAGTAAAAATAATATATATATA
1 A-AATAAAAAG---AAATAA-A-A-ATATA
3851527 AAATAAAAA
1 AAATAAAAA
3851536 ATAAAGAGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
23 22 0.33
24 19 0.28
25 4 0.06
28 6 0.09
29 11 0.16
30 5 0.07
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (23 bp):
AAATAAAAAGAAATAAAAATATA
Found at i:3851528 original size:35 final size:35
Alignment explanation
Indices: 3851489--3851596 Score: 107
Period size: 33 Copynumber: 3.1 Consensus size: 35
3851479 AAACAAATAA
3851489 ATAAAATAATAATAAAAAGTAAAAATAATATATAT
1 ATAAAATAATAATAAAAAGTAAAAATAATATATAT
* *
3851524 ATAAAATAAAAAATAAAGAGT--AAAT-ATATATAT
1 ATAAAAT-AATAATAAAAAGTAAAAATAATATATAT
* * *
3851557 ATAAATTAATAAACTGATAA-TAAAAAATAATATATAT
1 ATAAAATAAT-AA-TAAAAAGT-AAAAATAATATATAT
3851594 ATA
1 ATA
3851597 TAATCTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
32 2 0.03
33 17 0.29
34 7 0.12
35 7 0.12
36 15 0.25
37 11 0.19
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.30
Consensus pattern (35 bp):
ATAAAATAATAATAAAAAGTAAAAATAATATATAT
Found at i:3851533 original size:22 final size:19
Alignment explanation
Indices: 3851461--3851535 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 19
3851451 AAGAAAAAGA
*
3851461 AATAAAAATATAGAAATAA-
1 AATAAAAA-ATAAAAATAAT
*
3851480 AACAAATAAAT-AAAATAAT
1 AATAAA-AAATAAAAATAAT
*
3851499 AATAAAAAGTAAAAATAAT
1 AATAAAAAATAAAAATAAT
3851518 ATATATATAAAATAAAAA
1 A-ATA-A-AAAATAAAAA
3851536 ATAAAGAGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
18 9 0.20
19 21 0.47
20 5 0.11
21 1 0.02
22 9 0.20
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (19 bp):
AATAAAAAATAAAAATAAT
Found at i:3851540 original size:29 final size:31
Alignment explanation
Indices: 3851494--3851562 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 31
3851484 AATAAATAAA
*
3851494 ATAATAATAAAAAGTAAA-AAT-AATATATAT
1 ATAA-AATAAAAAATAAAGAATAAATATATAT
*
3851524 ATAAAATAAAAAATAAAGAGTAAATATATAT
1 ATAAAATAAAAAATAAAGAATAAATATATAT
3851555 ATATAAAT
1 ATA-AAAT
3851563 TAATAAACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 12 0.35
30 6 0.18
31 12 0.35
32 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (31 bp):
ATAAAATAAAAAATAAAGAATAAATATATAT
Found at i:3851620 original size:25 final size:27
Alignment explanation
Indices: 3851578--3851646 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 27
3851568 AACTGATAAT
*
3851578 AAAAAATAATATATATATA-TAATCTAA
1 AAAAAATAATATAAATATACTAA-CTAA
*
3851605 AAAAAATAA-A-AAATATACTAAGTAA
1 AAAAAATAATATAAATATACTAACTAA
3851630 AAAGAAATACATA-AAAT
1 AAA-AAATA-ATATAAAT
3851647 GTAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 12 0.33
26 9 0.25
27 10 0.28
28 5 0.14
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (27 bp):
AAAAAATAATATAAATATACTAACTAA
Found at i:3852015 original size:37 final size:36
Alignment explanation
Indices: 3851972--3852073 Score: 156
Period size: 34 Copynumber: 2.9 Consensus size: 36
3851962 TTAGTAGAAC
3851972 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
*
3852009 GT-TATCCTATTTTTAGGAATTTGAATCCT--AAAAT
1 -TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
3852043 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
3852074 TAGGACGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
33 1 0.02
34 31 0.53
37 26 0.44
38 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:3852684 original size:12 final size:12
Alignment explanation
Indices: 3852667--3852691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3852657 GCCTCACCTC
3852667 ATTTCAGTGGCA
1 ATTTCAGTGGCA
3852679 ATTTCAGTGGCA
1 ATTTCAGTGGCA
3852691 A
1 A
3852692 ATCCAGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (12 bp):
ATTTCAGTGGCA
Found at i:3854434 original size:2 final size:2
Alignment explanation
Indices: 3854427--3854474 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
3854417 TACAAGGAAA
3854427 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3854468 AG AG AG A
1 AG AG AG A
3854475 ATCCAACAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3856781 original size:2 final size:2
Alignment explanation
Indices: 3856774--3856835 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
3856764 ATACCTTACT
3856774 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3856816 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
3856836 GTTGTTTTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3860431 original size:13 final size:13
Alignment explanation
Indices: 3860413--3860446 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3860403 TTCATCAGGA
*
3860413 AAAAAAGAAGAAG
1 AAAAAAGAACAAG
*
3860426 AAAAAAAAACAAG
1 AAAAAAGAACAAG
3860439 AAAAAAGA
1 AAAAAAGA
3860447 TGAGAAATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAGAACAAG
Found at i:3862069 original size:118 final size:117
Alignment explanation
Indices: 3861840--3862081 Score: 306
Period size: 118 Copynumber: 2.1 Consensus size: 117
3861830 CCAGAAATAG
* * * *
3861840 AATGTTGGGGCCTTTCAAAAGCCCATTTCAGACAGAAATGATCTATGTGAGGCATTTTGAAGGCT
1 AATGTTGGGGCATCTCAAAAGCCCATTTCAGACAGAAATGATCCATGTGAGGCATTTTGAAGGCC
* * * *
3861905 TACGACAGTATGAATATTTAGACATTTTTGAAAATTCATATTAGCAAGAAGCA
66 CACGACAGTATGAATATTTAGACATTCTTGAAAACTCATATCAGCAAGAAG-A
*
3861958 AATGTTGGGGCATCTCGAAAGCCCATTTCAGACAGAAATGATCCATGTG-GGACATTTTGAAGGC
1 AATGTTGGGGCATCTCAAAAGCCCATTTCAGACAGAAATGATCCATGTGAGG-CATTTTGAAGGC
* * * * ** * *
3862022 CCACGTCAGTATGAATATTTGGGCATTCTTGGAGGCTCATCTCAGCAAGAAGT
65 CCACGACAGTATGAATATTTAGACATTCTTGAAAACTCATATCAGCAAGAAGA
3862075 AATGTTG
1 AATGTTG
3862082 AACACATTTT
Statistics
Matches: 106, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
117 9 0.08
118 97 0.92
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (117 bp):
AATGTTGGGGCATCTCAAAAGCCCATTTCAGACAGAAATGATCCATGTGAGGCATTTTGAAGGCC
CACGACAGTATGAATATTTAGACATTCTTGAAAACTCATATCAGCAAGAAGA
Found at i:3864080 original size:44 final size:44
Alignment explanation
Indices: 3864032--3864121 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
3864022 TGTGAACCTG
* * *
3864032 AATGCCGTAAAAGGTCGAGTTATATAGCGGTGTTTGTTCTTTCA
1 AATGCCGAAAAAGGTCAAGTTATATAGCAGTGTTTGTTCTTTCA
3864076 AATGCCGAAAAAGGTCAAGTTATATAGCAGTGTTTGTTCTTTCA
1 AATGCCGAAAAAGGTCAAGTTATATAGCAGTGTTTGTTCTTTCA
3864120 AA
1 AA
3864122 CGTCGCTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (44 bp):
AATGCCGAAAAAGGTCAAGTTATATAGCAGTGTTTGTTCTTTCA
Found at i:3864227 original size:42 final size:42
Alignment explanation
Indices: 3864172--3864318 Score: 129
Period size: 42 Copynumber: 3.5 Consensus size: 42
3864162 CAAACTTCTT
**
3864172 TAATTATCATGTCTTTAGTGGCCTTTTTGGTACAAA-TACCGC
1 TAATTATCATGTCTTTAGTGGCCTTTTTGCCACAAACT-CCGC
* * * **
3864214 TAATTCTCTTGTCTATAGTGGTTTTTTTGCCACAAACTCCGC
1 TAATTATCATGTCTTTAGTGGCCTTTTTGCCACAAACTCCGC
* * * *
3864256 TAATTATGATGTCTTTAGT-GCCGTTTTTTCCACAAACGT-TGT
1 TAATTATCATGTCTTTAGTGGCC-TTTTTGCCACAAAC-TCCGC
* *
3864298 TAATTCTCTTGTCTTTAGTGG
1 TAATTATCATGTCTTTAGTGG
3864319 TTTTTTTTCC
Statistics
Matches: 82, Mismatches: 19, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
41 1 0.01
42 78 0.95
43 3 0.04
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.44
Consensus pattern (42 bp):
TAATTATCATGTCTTTAGTGGCCTTTTTGCCACAAACTCCGC
Found at i:3864291 original size:84 final size:84
Alignment explanation
Indices: 3864142--3864344 Score: 210
Period size: 84 Copynumber: 2.4 Consensus size: 84
3864132 TGTTTTGATT
* * * ** **
3864142 TATAGTGGTGTTTTTGTTCACAAACTTCTTTAATTATCATGTCTTTAGTGGCCTTTTTGGTACAA
1 TATAGTGGTTTTTTTG-CCACAAACTCCGCTAATTATCATGTCTTTAGTGGCCTTTTTGCCACAA
*
3864207 ATACCGCTAATTCTCTTGTC
65 ACACCGCTAATTCTCTTGTC
* *
3864227 TATAGTGGTTTTTTTGCCACAAACTCCGCTAATTATGATGTCTTTAGT-GCCGTTTTTTCCACAA
1 TATAGTGGTTTTTTTGCCACAAACTCCGCTAATTATCATGTCTTTAGTGGCC-TTTTTGCCACAA
*** *
3864291 ACGTTGTTAATTCTCTTGTC
65 ACACCGCTAATTCTCTTGTC
* * * * *
3864311 TTTAGTGGTTTTTTTTCCATAAACACTGCTAATT
1 TATAGTGGTTTTTTTGCCACAAACTCCGCTAATT
3864345 CTATTGTTTT
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
83 3 0.03
84 80 0.82
85 15 0.15
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (84 bp):
TATAGTGGTTTTTTTGCCACAAACTCCGCTAATTATCATGTCTTTAGTGGCCTTTTTGCCACAAA
CACCGCTAATTCTCTTGTC
Found at i:3864325 original size:42 final size:41
Alignment explanation
Indices: 3864212--3864359 Score: 143
Period size: 42 Copynumber: 3.5 Consensus size: 41
3864202 TACAAATACC
* * *
3864212 GCTAATTCTCTTGTCTATAGTGGTTTTTTTGCCACAAACTCC
1 GCTAATTCTCTTGTCTTTAGTGGTTTTTTTTCCACAAACT-T
* ** ***
3864254 GCTAATTATGATGTCTTTAGTGCCGTTTTTTCCACAAACGTT
1 GCTAATTCTCTTGTCTTTAGTGGTTTTTTTTCCACAAAC-TT
* * *
3864296 GTTAATTCTCTTGTCTTTAGTGGTTTTTTTTCCATAAACACT
1 GCTAATTCTCTTGTCTTTAGTGGTTTTTTTTCCACAAAC-TT
* *
3864338 GCTAATTCTATTGTTTTTAGTG
1 GCTAATTCTCTTGTCTTTAGTG
3864360 AAGTTTTTAA
Statistics
Matches: 83, Mismatches: 22, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
42 82 0.99
43 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (41 bp):
GCTAATTCTCTTGTCTTTAGTGGTTTTTTTTCCACAAACTT
Found at i:3864366 original size:84 final size:84
Alignment explanation
Indices: 3864214--3864367 Score: 211
Period size: 84 Copynumber: 1.8 Consensus size: 84
3864204 CAAATACCGC
* **
3864214 TAATTCTCTTGTCTATAGTGGTTTTTTTGCCACAAACTCCGCTAATTATGATGTCTTTAGTGCCG
1 TAATTCTCTTGTCTATAGTGGTTTTTTTGCCACAAACACCGCTAATTATGATGTCTTTAGTGAAG
3864279 TTTTTTCCACAAACGTTGT
66 TTTTTTCCACAAACGTTGT
* * * * * *
3864298 TAATTCTCTTGTCTTTAGTGGTTTTTTTTCCATAAACACTGCTAATTCT-ATTGTTTTTAGTGAA
1 TAATTCTCTTGTCTATAGTGGTTTTTTTGCCACAAACACCGCTAATTATGA-TGTCTTTAGTGAA
3864362 GTTTTT
65 GTTTTT
3864368 AATACAAAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
83 1 0.02
84 59 0.98
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (84 bp):
TAATTCTCTTGTCTATAGTGGTTTTTTTGCCACAAACACCGCTAATTATGATGTCTTTAGTGAAG
TTTTTTCCACAAACGTTGT
Found at i:3864367 original size:42 final size:42
Alignment explanation
Indices: 3864203--3864367 Score: 120
Period size: 42 Copynumber: 3.9 Consensus size: 42
3864193 CCTTTTTGGT
* * * *
3864203 ACAAATACCGCTAATTCTCTTGTCTATAGTG--GTTTTTTTGCC
1 ACAAACACTGCTAATTCTATTGTCTTTAGTGAAG-TTTTTT-CC
* * * **
3864245 ACAAACTCCGCTAATTATGA-TGTCTTTAGTGCCGTTTTTTCC
1 ACAAACACTGCTAATTCT-ATTGTCTTTAGTGAAGTTTTTTCC
** * * ***
3864287 ACAAACGTTGTTAATTCTCTTGTCTTTAGTGGTTTTTTTTCC
1 ACAAACACTGCTAATTCTATTGTCTTTAGTGAAGTTTTTTCC
* *
3864329 ATAAACACTGCTAATTCTATTGTTTTTAGTGAAGTTTTT
1 ACAAACACTGCTAATTCTATTGTCTTTAGTGAAGTTTTT
3864368 AATACAAAAC
Statistics
Matches: 96, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
42 89 0.93
43 6 0.06
44 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.46
Consensus pattern (42 bp):
ACAAACACTGCTAATTCTATTGTCTTTAGTGAAGTTTTTTCC
Found at i:3866745 original size:42 final size:42
Alignment explanation
Indices: 3866621--3866750 Score: 126
Period size: 42 Copynumber: 3.2 Consensus size: 42
3866611 TACGAGTCTT
* * * * *
3866621 TTGCGACGTTTGTTGAAAAAATATCATTATAGATTAACCCTA
1 TTGCGGCGTTTTTTGAAAAAATCTCACTATAGATGAACCCTA
* *
3866663 TTGCAGCG-TTTGT-ATAAAAATGC-CAC--TAGATGAACCCTA
1 TTGCGGCGTTTTTTGA-AAAAAT-CTCACTATAGATGAACCCTA
*
3866702 TTGCGGCGTTTTTTGAAAAAATCTCACTATAGATGAACACTA
1 TTGCGGCGTTTTTTGAAAAAATCTCACTATAGATGAACCCTA
*
3866744 TTACGGC
1 TTGCGGC
3866751 ATTTGTATGA
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
39 20 0.29
40 14 0.20
41 12 0.17
42 24 0.34
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (42 bp):
TTGCGGCGTTTTTTGAAAAAATCTCACTATAGATGAACCCTA
Found at i:3866958 original size:82 final size:83
Alignment explanation
Indices: 3866583--3866958 Score: 332
Period size: 81 Copynumber: 4.6 Consensus size: 83
3866573 GAGTCTATAG
* * * * * * *
3866583 CGGCGTTTGTATACAAATGCCACTAAAGTACGAGTCTTTTGCGACGTTTGTTGAAAAAATATCAT
1 CGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTATTGCGGCGTTTGTTGAAAAAATATCAC
* *
3866648 TATAGATTAACCCTATTG
66 TATAGATGAACCCTATTA
* * * * * *
3866666 CAGCGTTTGTATAAAAATGCCACTAGA-TGA--ACCCTATTGCGGCGTTTTTTGAAAAAATCTCA
1 CGGCGTTTGTATAAAAACGCCACTAAAGT-ACTACTCTATTGCGGCGTTTGTTGAAAAAATATCA
*
3866728 CTATAGATGAACACTATTA
65 CTATAGATGAACCCTATTA
* * ** * * *
3866747 CGGCATTTGTATGAAAACGCCGTTAAAGTACTACTTTGTTGCGGCGTTTGTTGAAAAAA-ACCAC
1 CGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTATTGCGGCGTTTGTTGAAAAAATATCAC
*
3866811 TATAAATGAACCCTATTA
66 TATAGATGAACCCTATTA
* * * * * ** * *
3866829 CGGCATTT-TTTATAAACGCCGCTAAAGTACTAATCTATCACGACGTTTGTTGAAAAAATGTCAC
1 CGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTATTGCGGCGTTTGTTGAAAAAATATCAC
* * * *
3866893 TATGGGTGAA-CTTATTG
66 TATAGATGAACCCTATTA
* * * *
3866910 TGGCGTTTGTATAAAAAGGCCACTAAAGTACTACTCTGTCGCGGCGTTT
1 CGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTATTGCGGCGTTT
3866959 ACGCCGCTAA
Statistics
Matches: 232, Mismatches: 55, Indels: 13
0.77 0.18 0.04
Matches are distributed among these distances:
81 113 0.49
82 71 0.31
83 48 0.21
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (83 bp):
CGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTATTGCGGCGTTTGTTGAAAAAATATCAC
TATAGATGAACCCTATTA
Found at i:3870953 original size:20 final size:20
Alignment explanation
Indices: 3870930--3870968 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3870920 ATAATTTACC
*
3870930 TTTTAAAAATTTATAATTTT
1 TTTTAAAAATTTAAAATTTT
*
3870950 TTTTAAAATTTTAAAATTT
1 TTTTAAAAATTTAAAATTT
3870969 AAAGGTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAAAAATTTAAAATTTT
Found at i:3872862 original size:18 final size:19
Alignment explanation
Indices: 3872839--3872876 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
3872829 CTCAGTAATC
3872839 TTATTCCC-TGGTAATCTT
1 TTATTCCCATGGTAATCTT
3872857 TTATTCCCATTGGTAATCTT
1 TTATTCCCA-TGGTAATCTT
3872877 ACATCCCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (19 bp):
TTATTCCCATGGTAATCTT
Found at i:3873335 original size:23 final size:23
Alignment explanation
Indices: 3873309--3873377 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
3873299 TTTACTATTC
3873309 ATATTATATTAATAAATATATGA
1 ATATTATATTAATAAATATATGA
* * ** **
3873332 ATATAATATTTTATTTTATATATTT
1 ATAT--TATATTAATAAATATATGA
*
3873357 GTATTATATTAATAAATATAT
1 ATATTATATTAATAAATATAT
3873378 ATTAATAAAT
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
23 17 0.52
25 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (23 bp):
ATATTATATTAATAAATATATGA
Found at i:3873380 original size:14 final size:13
Alignment explanation
Indices: 3873359--3873391 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
3873349 ATATATTTGT
3873359 ATTATATTAATAA
1 ATTATATTAATAA
3873372 ATATATATTAATAA
1 AT-TATATTAATAA
3873386 ATTATA
1 ATTATA
3873392 AAATATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTATATTAATAA
Found at i:3873568 original size:22 final size:23
Alignment explanation
Indices: 3873541--3873587 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
3873531 TATTTAAATA
3873541 TATTTGTA-TTATAAAATATATT
1 TATTTGTATTTATAAAATATATT
*
3873563 TATTTGTATTTTATTAAATATATT
1 TATTTGTA-TTTATAAAATATATT
3873587 T
1 T
3873588 GTATTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
24 14 0.64
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TATTTGTATTTATAAAATATATT
Found at i:3873601 original size:24 final size:24
Alignment explanation
Indices: 3873549--3873602 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
3873539 TATATTTGTA
* *
3873549 TTATAAAATATATTTATTTGTATT
1 TTATTAAATATATTTATATGTATT
*
3873573 TTATTAAATATATTTGTAT-TATT
1 TTATTAAATATATTTATATGTATT
3873596 TGTATTA
1 T-TATTA
3873603 TAGAAATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (24 bp):
TTATTAAATATATTTATATGTATT
Found at i:3873951 original size:23 final size:23
Alignment explanation
Indices: 3873925--3873971 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3873915 TATGGTTTAT
3873925 TAAATATA-TAAAATATTAATAAA
1 TAAAT-TAGTAAAATATTAATAAA
**
3873948 TAAATTAGTATTATATTAATAAA
1 TAAATTAGTAAAATATTAATAAA
3873971 T
1 T
3873972 TAAGAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
TAAATTAGTAAAATATTAATAAA
Found at i:3874065 original size:14 final size:14
Alignment explanation
Indices: 3874048--3874078 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3874038 TTAATATTTA
*
3874048 ATATATTTATTAAT
1 ATATATTTACTAAT
3874062 ATATATTTACTAAT
1 ATATATTTACTAAT
3874076 ATA
1 ATA
3874079 ATAAGAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATATTTACTAAT
Found at i:3874771 original size:116 final size:116
Alignment explanation
Indices: 3874586--3874817 Score: 437
Period size: 116 Copynumber: 2.0 Consensus size: 116
3874576 TGCCACATCA
3874586 CCTGTTTCATTAATTGTTAACGATAGGTTGCCTGATTGAATCATTTAGATAGTAAGATGGTTTGT
1 CCTGTTTCATTAATTGTTAACGATAGGTTGCCTGATTGAATCATTTAGATAGTAAGATGGTTTGT
*
3874651 TTGATTAAGTTGAAACATCAGCGGTCAAAATAATTTTTTATCATAGTTGAG
66 TTGATCAAGTTGAAACATCAGCGGTCAAAATAATTTTTTATCATAGTTGAG
* *
3874702 CCTGTTTCATTAATTGTTAATGATAGGTTGCCTGATTGAATCATTTAGATAGTTAGATGGTTTGT
1 CCTGTTTCATTAATTGTTAACGATAGGTTGCCTGATTGAATCATTTAGATAGTAAGATGGTTTGT
3874767 TTGATCAAGTTGAAACATCAGCGGTCAAAATAATTTTTTATCATAGTTGAG
66 TTGATCAAGTTGAAACATCAGCGGTCAAAATAATTTTTTATCATAGTTGAG
3874818 TGGTCACACG
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 113 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (116 bp):
CCTGTTTCATTAATTGTTAACGATAGGTTGCCTGATTGAATCATTTAGATAGTAAGATGGTTTGT
TTGATCAAGTTGAAACATCAGCGGTCAAAATAATTTTTTATCATAGTTGAG
Found at i:3875595 original size:2 final size:2
Alignment explanation
Indices: 3875588--3875618 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3875578 CATTGGCTGT
3875588 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3875619 GAAAGCTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3877999 original size:54 final size:54
Alignment explanation
Indices: 3877966--3878185 Score: 327
Period size: 54 Copynumber: 4.1 Consensus size: 54
3877956 GCACACATGA
* *
3877966 TGCCTAAACGATTATTTATCCACATAGGATGAATTCCGTGAAATGCACACTTAG
1 TGCCGAAACGATTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAG
3878020 TGCCGAAAC-AGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAG
1 TGCCGAAACGA-TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAG
* * * *
3878074 TACCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACAGTTAG
1 TGCCGAAACGATTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAG
* * *
3878128 TGCCGAAACGGTTATTCATCCACATA-AATTGAACTCCGTGAAATGCACACTTAG
1 TGCCGAAACGATTATTCATCCACATAGGA-TGAATTCCGTGAAATGCACACTTAG
3878182 TGCC
1 TGCC
3878186 AATTTGGTAA
Statistics
Matches: 152, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
53 2 0.01
54 150 0.99
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (54 bp):
TGCCGAAACGATTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAG
Found at i:3878636 original size:21 final size:21
Alignment explanation
Indices: 3878596--3878651 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
3878586 TTCGATATTG
3878596 CATGGTATCGATAC-CCTTAC
1 CATGGTATCGATACTCCTTAC
3878616 CATGGTATCGATACTCCTTAC
1 CATGGTATCGATACTCCTTAC
3878637 CATGGTATCGATACT
1 CATGGTATCGATACT
3878652 ACCTCATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (21 bp):
CATGGTATCGATACTCCTTAC
Found at i:3879715 original size:64 final size:64
Alignment explanation
Indices: 3879641--3879827 Score: 173
Period size: 66 Copynumber: 2.9 Consensus size: 64
3879631 TGACTGTTGG
* * * * *
3879641 ACCCTTAGTGCATCGGTGCACTAAG-AGTGCATTGATGCATGAAGTGCATTCGATG-TTTCA-AA
1 ACCCTGAGTGCATCGATGCA-T-AGCAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAA
3879703 A
64 A
* * *
3879704 TAGCCTGAGTGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTTCATA
1 -ACCCTGAGTGCATCGATGCATAGC-AGTGCATCGATGCATCAAATGCATTCGATG-TTTTCATA
3879769 AA
63 AA
* * * * * *
3879771 ACCCTGAGTGCATCGATGCATGGTATGTGCATCAACGCATAAAATGCATTTGATGTT
1 ACCCTGAGTGCATCGATGCATAGCA-GTGCATCGATGCATCAAATGCATTCGATGTT
3879828 CAATTTATTC
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 43 0.42
65 2 0.02
66 52 0.51
67 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (64 bp):
ACCCTGAGTGCATCGATGCATAGCAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA
Found at i:3879800 original size:66 final size:66
Alignment explanation
Indices: 3879667--3879827 Score: 204
Period size: 66 Copynumber: 2.5 Consensus size: 66
3879657 TGCACTAAGA
* * * *
3879667 GTGCATTGATGCATGAAGTGCATTCGATG--TTTCAAAATAGCCTGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTTCAAAATACCCTGAGTGCATCGATGCATGGCT
3879730 T
66 T
*
3879731 GTGCATCGATGCATCAAATGCATTCGATGTTTTTCATAAA-ACCCTGAGTGCATCGATGCATGG-
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTTCA-AAATACCCTGAGTGCATCGATGCATGGC
3879794 TAT
65 T-T
* * *
3879797 GTGCATCAACGCATAAAATGCATTTGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
3879828 CAATTTATTC
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
64 26 0.31
65 1 0.01
66 55 0.65
67 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (66 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTTCAAAATACCCTGAGTGCATCGATGCATGGCT
T
Found at i:3879863 original size:20 final size:20
Alignment explanation
Indices: 3879838--3879875 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3879828 CAATTTATTC
3879838 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
3879858 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
3879876 TCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:3882552 original size:23 final size:22
Alignment explanation
Indices: 3882518--3882598 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
3882508 CATGGCTTTC
3882518 TGCATCGATGCACATTCAAGGAG
1 TGCATCGATGCACATTCAAGG-G
* * *
3882541 TGCATCGGTGCACCTTC-ATGG
1 TGCATCGATGCACATTCAAGGG
*
3882562 TGTATCGATGCACATTCAAAGGG
1 TGCATCGATGCACATTC-AAGGG
*
3882585 ATACATCGATGCAC
1 -TGCATCGATGCAC
3882599 TATTAAGTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 18 0.39
24 11 0.24
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGG
Found at i:3882573 original size:21 final size:22
Alignment explanation
Indices: 3882518--3882579 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
3882508 CATGGCTTTC
3882518 TGCATCGATGCACATTCAAGGAG
1 TGCATCGATGCACATTC-AGGAG
* * *
3882541 TGCATCGGTGCACCTTCATG-G
1 TGCATCGATGCACATTCAGGAG
*
3882562 TGTATCGATGCACATTCA
1 TGCATCGATGCACATTCA
3882580 AAGGGATACA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 16 0.48
22 2 0.06
23 15 0.45
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (22 bp):
TGCATCGATGCACATTCAGGAG
Found at i:3888332 original size:72 final size:72
Alignment explanation
Indices: 3888244--3888468 Score: 245
Period size: 72 Copynumber: 3.2 Consensus size: 72
3888234 ACACAAGGTA
*
3888244 CATCGGTGCATCAAGTGTAAAATTCAAATATTTTGACTGTTAGATCCTTAGTGCATCGGTGCACT
1 CATCGATGCATCAAGTGTAAAATTCAAATATTTTGACTGTTAGATCCTTAGTGCATCGGTGCACT
3888309 AAGAGTG
66 AAGAGTG
* * * * *** * *
3888316 CATCGATGCATGAAGTG---CATTC-AAT-GTTTCA-AAATAG--CCTGAGTGCATCGATGCA-T
1 CATCGATGCATCAAGTGTAAAATTCAAATATTTTGACTGTTAGATCCTTAGTGCATCGGTGCACT
* *
3888372 -GGCTTGTG
66 AAG--AGTG
3888380 CATCGATGCATCAAGTGTAAAATTCAAATATTTTGACTGTTAGATCCTTAGTGCATCGGTGCACT
1 CATCGATGCATCAAGTGTAAAATTCAAATATTTTGACTGTTAGATCCTTAGTGCATCGGTGCACT
3888445 AAGAGTG
66 AAGAGTG
*
3888452 CATCGATGCATGAAGTG
1 CATCGATGCATCAAGTG
3888469 CATTCAATGT
Statistics
Matches: 117, Mismatches: 24, Indels: 24
0.71 0.15 0.15
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 35 0.30
66 3 0.03
67 8 0.07
68 6 0.05
69 8 0.07
70 3 0.03
72 50 0.43
73 1 0.01
74 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (72 bp):
CATCGATGCATCAAGTGTAAAATTCAAATATTTTGACTGTTAGATCCTTAGTGCATCGGTGCACT
AAGAGTG
Found at i:3888361 original size:64 final size:64
Alignment explanation
Indices: 3888312--3888609 Score: 262
Period size: 64 Copynumber: 4.5 Consensus size: 64
3888302 GTGCACTAAG
*
3888312 AGTGCATCGATGCATGAAGTGCATTCAATGTTTCA-AAATAGCCTGAGTGCATCGATGCATGGCT
1 AGTGCATCGATGCATCAAGTGCATTCAATGTTTCACAAATAGCCTGAGTGCATCGATGCATGG-T
* * * * *** * *
3888376 TGTGCATCGATGCATCAAGTGTAAAATTCAAATATTTTGACTGTTAGATCCTTAGTGCATCGGTG
1 AGTGCATCGATGCATCAAGTG---CATTC-AAT-GTTTCACAAATAG--CCTGAGTGCATCGATG
*
3888441 CACTAAG-
59 CA-T-GGT
*
3888448 AGTGCATCGATGCATGAAGTGCATTCAATGTTTCA-AAATAGCCTGAGTGCATCGATGCATGGCT
1 AGTGCATCGATGCATCAAGTGCATTCAATGTTTCACAAATAGCCTGAGTGCATCGATGCATGG-T
* * * * *
3888512 TGTGCATCGATGCATCAAATGCATTCAATGTTTTTCATAAA-ACCCTGAGTGTATCGATGCATGG
1 AGTGCATCGATGCATCAAGTGCATTCAATG--TTTCACAAATAGCCTGAGTGCATCGATGCATGG
3888576 T
64 T
* * *
3888577 ATGTGCATCGATGCATAAAATGCATTCGATGTT
1 A-GTGCATCGATGCATCAAGTGCATTCAATGTT
3888610 CAATTTATTC
Statistics
Matches: 188, Mismatches: 30, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 64 0.34
65 1 0.01
66 56 0.30
67 11 0.06
68 6 0.03
69 8 0.04
70 3 0.02
72 35 0.19
73 1 0.01
74 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (64 bp):
AGTGCATCGATGCATCAAGTGCATTCAATGTTTCACAAATAGCCTGAGTGCATCGATGCATGGT
Found at i:3888485 original size:136 final size:136
Alignment explanation
Indices: 3888244--3888529 Score: 563
Period size: 136 Copynumber: 2.1 Consensus size: 136
3888234 ACACAAGGTA
*
3888244 CATCGGTGCATCAAGTGTAAAATTCAAATATTTTGACTGTTAGATCCTTAGTGCATCGGTGCACT
1 CATCGATGCATCAAGTGTAAAATTCAAATATTTTGACTGTTAGATCCTTAGTGCATCGGTGCACT
3888309 AAGAGTGCATCGATGCATGAAGTGCATTCAATGTTTCAAAATAGCCTGAGTGCATCGATGCATGG
66 AAGAGTGCATCGATGCATGAAGTGCATTCAATGTTTCAAAATAGCCTGAGTGCATCGATGCATGG
3888374 CTTGTG
131 CTTGTG
3888380 CATCGATGCATCAAGTGTAAAATTCAAATATTTTGACTGTTAGATCCTTAGTGCATCGGTGCACT
1 CATCGATGCATCAAGTGTAAAATTCAAATATTTTGACTGTTAGATCCTTAGTGCATCGGTGCACT
3888445 AAGAGTGCATCGATGCATGAAGTGCATTCAATGTTTCAAAATAGCCTGAGTGCATCGATGCATGG
66 AAGAGTGCATCGATGCATGAAGTGCATTCAATGTTTCAAAATAGCCTGAGTGCATCGATGCATGG
3888510 CTTGTG
131 CTTGTG
3888516 CATCGATGCATCAA
1 CATCGATGCATCAA
3888530 ATGCATTCAA
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 149 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (136 bp):
CATCGATGCATCAAGTGTAAAATTCAAATATTTTGACTGTTAGATCCTTAGTGCATCGGTGCACT
AAGAGTGCATCGATGCATGAAGTGCATTCAATGTTTCAAAATAGCCTGAGTGCATCGATGCATGG
CTTGTG
Found at i:3888582 original size:66 final size:66
Alignment explanation
Indices: 3888449--3888609 Score: 222
Period size: 66 Copynumber: 2.5 Consensus size: 66
3888439 TGCACTAAGA
* * *
3888449 GTGCATCGATGCATGAAGTGCATTCAATG--TTTCAAAATAGCCTGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATAAAATGCATTCAATGTTTTTCAAAATACCCTGAGTGCATCGATGCATGGCT
3888512 T
66 T
* *
3888513 GTGCATCGATGCATCAAATGCATTCAATGTTTTTCATAAA-ACCCTGAGTGTATCGATGCATGG-
1 GTGCATCGATGCATAAAATGCATTCAATGTTTTTCA-AAATACCCTGAGTGCATCGATGCATGGC
3888576 TAT
65 T-T
*
3888579 GTGCATCGATGCATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCAATGTT
3888610 CAATTTATTC
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
64 27 0.31
65 1 0.01
66 56 0.64
67 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (66 bp):
GTGCATCGATGCATAAAATGCATTCAATGTTTTTCAAAATACCCTGAGTGCATCGATGCATGGCT
T
Found at i:3892037 original size:41 final size:41
Alignment explanation
Indices: 3891983--3892067 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
3891973 TAATGCCAAT
3891983 ATCATCTCTTTTAGTTTAGGCCTCAGATCCTCTATGAACCA
1 ATCATCTCTTTTAGTTTAGGCCTCAGATCCTCTATGAACCA
3892024 ATCATCTCTTTTAGTTTAGGCCTCAGATCCTCTATGAACCA
1 ATCATCTCTTTTAGTTTAGGCCTCAGATCCTCTATGAACCA
3892065 ATC
1 ATC
3892068 TCAACAAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (41 bp):
ATCATCTCTTTTAGTTTAGGCCTCAGATCCTCTATGAACCA
Found at i:3893181 original size:2 final size:2
Alignment explanation
Indices: 3893174--3893219 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
3893164 TGAAATCAAC
3893174 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3893216 AT AT
1 AT AT
3893220 CATTATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3893363 original size:54 final size:54
Alignment explanation
Indices: 3893312--3893605 Score: 285
Period size: 54 Copynumber: 5.5 Consensus size: 54
3893302 TCGTTCATAA
* *** *
3893312 ATATATTATGAATTCCGTGTTTTGCACACATGGTGCCGAAACGGTTATTCATCC
1 ATATATGATGAATTCCGTGAAATGCACACATAGTGCCGAAACGGTTATTCATCC
* * * *
3893366 ACATAGGATGAATTCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCC
1 ATATATGATGAATTCCGTGAAATGCACACATAGTGCCGAAACGGTTATTCATCC
** * * * *
3893420 ATATATGATGAATTTGGTGAAATGCACACTTAGTGTCGAAATGATTATTCATCC
1 ATATATGATGAATTCCGTGAAATGCACACATAGTGCCGAAACGGTTATTCATCC
* * * *
3893474 ACATAGGATGAATT-CGTG-AATACACACTTAGTGCCGAAACGGTT-TTACATCC
1 ATATATGATGAATTCCGTGAAATGCACACATAGTGCCGAAACGGTTATT-CATCC
* ** * * *
3893526 --ATA-GAAGAATTATGTGGAATGCACACTTAGTGCCAAAACGGTTATTCATCC
1 ATATATGATGAATTCCGTGAAATGCACACATAGTGCCGAAACGGTTATTCATCC
* * *
3893577 ACATAAGATAAATTCCGTGAAATGCACAC
1 ATATATGATGAATTCCGTGAAATGCACAC
3893606 TTACTGCTGA
Statistics
Matches: 201, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
49 7 0.03
50 6 0.03
51 31 0.15
52 29 0.14
53 6 0.03
54 122 0.61
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (54 bp):
ATATATGATGAATTCCGTGAAATGCACACATAGTGCCGAAACGGTTATTCATCC
Found at i:3894911 original size:65 final size:65
Alignment explanation
Indices: 3894776--3894935 Score: 184
Period size: 65 Copynumber: 2.5 Consensus size: 65
3894766 TGAACTAAGA
* * * * *
3894776 GTGCAGCGATGCATGAAATTCATTCGATG-TTTCAAAATAGCCAGAGTGCATTGATGTATGGCTG
1 GTGCATCGATGCATGAAATACATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
* * *
3894840 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG-
1 GTGCATCGATGCATGAAATACATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGATGCATAGC
*
3894902 TAT
64 T-G
3894905 GTGCATCGATGCATGAAATACATTCGATGTT
1 GTGCATCGATGCATGAAATACATTCGATGTT
3894936 CAATTTATTC
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
64 28 0.34
65 51 0.62
66 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATACATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
Found at i:3895190 original size:21 final size:23
Alignment explanation
Indices: 3895150--3895191 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
3895140 AATTAAATTG
3895150 AAAATACTTAGAAAATCATTTGT
1 AAAATACTTAGAAAATCATTTGT
*
3895173 AAAAT-CTTA-AAATTCATTT
1 AAAATACTTAGAAAATCATTT
3895192 ATACTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (23 bp):
AAAATACTTAGAAAATCATTTGT
Found at i:3896180 original size:160 final size:159
Alignment explanation
Indices: 3895916--3896236 Score: 633
Period size: 160 Copynumber: 2.0 Consensus size: 159
3895906 CTTCGTGAGT
3895916 AGCAGTCAAGCGGGATTCGATGGACGCATACCGTAGATCAAATGTCTCCAAAAACGAAAGAAAAT
1 AGCAGTCAAGCGGGATTCGATGGACGCATACCGTAGATCAAATGTCTCCAAAAACGAAAGAAAAT
3895981 ATAGAGGCACTTGATCCTCTTATGGAGCTTGTTCCAGTGCAGGCTCATTATCTAGTACGTGATCG
66 ATAGAGGCACTTGATCCTCTTATGGAGCTTGTTCCAGTGCAGGCTCATTATCTAGTACGTGATCG
3896046 TTCGATATCTTGCATAAGCTGTTGAAATTC
131 -TCGATATCTTGCATAAGCTGTTGAAATTC
3896076 AGCAGTCAAGCGGGATTCGATGGACGCATACCGTAGATCAAATGTCTCCAAAAACGAAAGAAAAT
1 AGCAGTCAAGCGGGATTCGATGGACGCATACCGTAGATCAAATGTCTCCAAAAACGAAAGAAAAT
3896141 ATAGAGGCACTTGATCCTCTTATGGAGCTTGTTCCAGTGCAGGCTCATTATCTAGTACGTGATCG
66 ATAGAGGCACTTGATCCTCTTATGGAGCTTGTTCCAGTGCAGGCTCATTATCTAGTACGTGATCG
3896206 TCGATATCTTGCATAAGCTGTTGAAATTC
131 TCGATATCTTGCATAAGCTGTTGAAATTC
3896235 AG
1 AG
3896237 GATCATCGTC
Statistics
Matches: 161, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
159 31 0.19
160 130 0.81
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (159 bp):
AGCAGTCAAGCGGGATTCGATGGACGCATACCGTAGATCAAATGTCTCCAAAAACGAAAGAAAAT
ATAGAGGCACTTGATCCTCTTATGGAGCTTGTTCCAGTGCAGGCTCATTATCTAGTACGTGATCG
TCGATATCTTGCATAAGCTGTTGAAATTC
Found at i:3897424 original size:13 final size:13
Alignment explanation
Indices: 3897406--3897430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3897396 AATCAAAAAC
3897406 ATCAAATTTAGAA
1 ATCAAATTTAGAA
3897419 ATCAAATTTAGA
1 ATCAAATTTAGA
3897431 TTTTTGATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
ATCAAATTTAGAA
Found at i:3900308 original size:21 final size:21
Alignment explanation
Indices: 3900284--3900329 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
3900274 AATCAATTTT
*
3900284 TCAAAAGCATGCACCGATGCA
1 TCAAAACCATGCACCGATGCA
* *
3900305 TCAATACCATGCATCGATGCA
1 TCAAAACCATGCACCGATGCA
3900326 TCAA
1 TCAA
3900330 TGAATAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (21 bp):
TCAAAACCATGCACCGATGCA
Found at i:3900330 original size:21 final size:21
Alignment explanation
Indices: 3900291--3900330 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3900281 TTTTCAAAAG
3900291 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
3900312 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
3900331 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:3900380 original size:19 final size:19
Alignment explanation
Indices: 3900356--3900394 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
3900346 TCGAATGCAT
3900356 TTCATGCACCGATGCACTC
1 TTCATGCACCGATGCACTC
*
3900375 TTCATGCATCGATGCACTC
1 TTCATGCACCGATGCACTC
3900394 T
1 T
3900395 AATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.31
Consensus pattern (19 bp):
TTCATGCACCGATGCACTC
Found at i:3900419 original size:64 final size:64
Alignment explanation
Indices: 3900291--3900458 Score: 187
Period size: 64 Copynumber: 2.6 Consensus size: 64
3900281 TTTTCAAAAG
* * *
3900291 CATGCACCGATGCATCAATACCATGCATCGATGCA-TC-AATGAATAAATTGAAACATCGAATGC
1 CATGCACCGATGCA-CAA-GCCATGCATCGATGCACTCTAAT---TTAATTAAAACATCGAATGC
3900354 ATTT
61 ATTT
**** *
3900358 CATGCACCGATGCACTCTTCATGCATCGATGCACTCTAATTTAATTAAAACATTGAATGCATTT
1 CATGCACCGATGCACAAGCCATGCATCGATGCACTCTAATTTAATTAAAACATCGAATGCATTT
* *
3900422 GATGCATCGATGCACAAGCCATGCATCGATGCACTCT
1 CATGCACCGATGCACAAGCCATGCATCGATGCACTCT
3900459 TAGTGCACCG
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
64 52 0.60
65 14 0.16
66 3 0.03
67 17 0.20
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACAAGCCATGCATCGATGCACTCTAATTTAATTAAAACATCGAATGCATTT
Found at i:3906284 original size:44 final size:43
Alignment explanation
Indices: 3906228--3906350 Score: 106
Period size: 44 Copynumber: 2.8 Consensus size: 43
3906218 TTTGTGCTTA
* * *
3906228 ATGCACCGATGCACTTAACAATGCATCGATGCATCCCTTTGTAT
1 ATGCATCGATGCACTAAACAATGCATCGATGCATCCC-TTGGAT
*** * *
3906272 ATGCATCGATGCA-TCCGCATGATGCACCGATGCATGCCTTGGAT
1 ATGCATCGATGCACTAAACA--ATGCATCGATGCATCCCTTGGAT
* *
3906316 GTGCATCGATGCAC-AAGACCATGCATCGATGCATC
1 ATGCATCGATGCACTAA-ACAATGCATCGATGCATC
3906351 TGTCGGGTTT
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
43 16 0.26
44 29 0.48
45 16 0.26
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (43 bp):
ATGCATCGATGCACTAAACAATGCATCGATGCATCCCTTGGAT
Found at i:3908894 original size:21 final size:21
Alignment explanation
Indices: 3908870--3908915 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
3908860 AATCAATTTT
*
3908870 TCAAAAGCATGCAACGATGCA
1 TCAAAACCATGCAACGATGCA
* *
3908891 TCAATACCATGCATCGATGCA
1 TCAAAACCATGCAACGATGCA
3908912 TCAA
1 TCAA
3908916 TGAATAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.20
Consensus pattern (21 bp):
TCAAAACCATGCAACGATGCA
Found at i:3908916 original size:21 final size:21
Alignment explanation
Indices: 3908877--3908916 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3908867 TTTTCAAAAG
3908877 CATGCAACGATGCATCAATAC
1 CATGCAACGATGCATCAATAC
*
3908898 CATGCATCGATGCATCAAT
1 CATGCAACGATGCATCAAT
3908917 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCAACGATGCATCAATAC
Found at i:3908966 original size:19 final size:19
Alignment explanation
Indices: 3908930--3908980 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
3908920 TAAATTGAAA
3908930 CATCGAATGCA-T-TTCATG
1 CATCG-ATGCACTCTTCATG
3908948 CA-CAGATGCACTCTTCATG
1 CATC-GATGCACTCTTCATG
3908967 CATCGATGCACTCT
1 CATCGATGCACTCT
3908981 GATTTAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.21
18 4 0.14
19 18 0.62
20 1 0.03
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (19 bp):
CATCGATGCACTCTTCATG
Found at i:3909004 original size:64 final size:65
Alignment explanation
Indices: 3908877--3909041 Score: 183
Period size: 64 Copynumber: 2.5 Consensus size: 65
3908867 TTTTCAAAAG
* * *
3908877 CATGCAACGATGCATCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGCA
1 CATGCATCGATGCA-CAA-GCCATGCATCGATGCACTC-ATGAATAAATTAAAACATCGAATGCA
3908941 TTT
63 TTT
**** * *
3908944 CATGCA-CAGATGCACTCTTCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATT
1 CATGCATC-GATGCACAAGCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATT
3909007 T
65 T
*
3909008 GATGCATCGATGCACAAGCCATGCATCGATGCAC
1 CATGCATCGATGCACAAGCCATGCATCGATGCAC
3909042 CAAGCTATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
64 52 0.63
65 15 0.18
66 4 0.05
67 12 0.14
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (65 bp):
CATGCATCGATGCACAAGCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTT
Found at i:3909033 original size:19 final size:20
Alignment explanation
Indices: 3909009--3909046 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
3908999 AATGCATTTG
3909009 ATGCATCGATGCA-CAAGCC
1 ATGCATCGATGCACCAAGCC
3909028 ATGCATCGATGCACCAAGC
1 ATGCATCGATGCACCAAGC
3909047 TATTTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.16
Consensus pattern (20 bp):
ATGCATCGATGCACCAAGCC
Found at i:3909059 original size:64 final size:63
Alignment explanation
Indices: 3908927--3909068 Score: 155
Period size: 64 Copynumber: 2.2 Consensus size: 63
3908917 GAATAAATTG
**** *
3908927 AAACATCGAATGCATTTCATGCACAGATGCACTCTTCATGCATCGATGCACTCTGATTTAATTA
1 AAACATCGAATGCATTTCATGCACAGATGCACAAGCCATGCATCGATGCACGCTGATTT-ATTA
*
3908991 AAACATCGAATGCATTTGATGCATC-GATGCACAAGCCATGCATCGATGCACCAAGCT-ATTT-T
1 AAACATCGAATGCATTTCATGCA-CAGATGCACAAGCCATGCATCGATGCA-C--GCTGATTTAT
*
3909053 TC
62 TA
3909055 AAACATCGAATGCA
1 AAACATCGAATGCA
3909069 CTAGGAGTCC
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
64 59 0.88
65 2 0.03
66 4 0.06
67 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (63 bp):
AAACATCGAATGCATTTCATGCACAGATGCACAAGCCATGCATCGATGCACGCTGATTTATTA
Found at i:3912208 original size:11 final size:11
Alignment explanation
Indices: 3912188--3912223 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
3912178 GTTTGATGAT
3912188 TTCTCT-TTGA
1 TTCTCTCTTGA
3912198 TTCTCTCTTGA
1 TTCTCTCTTGA
3912209 TTCTCTCTTGA
1 TTCTCTCTTGA
3912220 TTCT
1 TTCT
3912224 TGTTTCTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.08, C:0.25, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCTCTTGA
Found at i:3914428 original size:23 final size:23
Alignment explanation
Indices: 3914396--3914463 Score: 79
Period size: 21 Copynumber: 3.1 Consensus size: 23
3914386 TGTCATATAA
*
3914396 AATTG-CCCGAATGACCTCGTAG
1 AATTGTCCCGAAGGACCTCGTAG
* *
3914418 AATTGTCCCGAAGGACCACATA-
1 AATTGTCCCGAAGGACCTCGTAG
*
3914440 TA-TGTCCCGAAGGACCTCGTAG
1 AATTGTCCCGAAGGACCTCGTAG
3914462 AA
1 AA
3914464 CCCTTGACTC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 17 0.46
22 7 0.19
23 13 0.35
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (23 bp):
AATTGTCCCGAAGGACCTCGTAG
Found at i:3917565 original size:16 final size:16
Alignment explanation
Indices: 3917544--3917575 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3917534 CTTCAAAACT
3917544 CTCTTGACACTTAGGA
1 CTCTTGACACTTAGGA
3917560 CTCTTGACACTTAGGA
1 CTCTTGACACTTAGGA
3917576 GTCCAAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (16 bp):
CTCTTGACACTTAGGA
Found at i:3925650 original size:20 final size:20
Alignment explanation
Indices: 3925627--3925677 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
3925617 TGGTATAAGG
*
3925627 GTATCGATATTGGTTGAAAA
1 GTATCGATACTGGTTGAAAA
*
3925647 GTATCGATACTGGTTGAATA
1 GTATCGATACTGGTTGAAAA
*
3925667 GTATTGATACT
1 GTATCGATACT
3925678 ATAAACTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (20 bp):
GTATCGATACTGGTTGAAAA
Found at i:3928370 original size:17 final size:17
Alignment explanation
Indices: 3928317--3928362 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
3928307 GACCAATCAT
3928317 CCGACCCTACCCATTAA
1 CCGACCCTACCCATTAA
*
3928334 CCGGCCCTACCCATTAA
1 CCGACCCTACCCATTAA
3928351 CCGACCCTACCC
1 CCGACCCTACCC
3928363 GTTCACCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.24, C:0.52, G:0.09, T:0.15
Consensus pattern (17 bp):
CCGACCCTACCCATTAA
Found at i:3929008 original size:30 final size:30
Alignment explanation
Indices: 3928968--3929126 Score: 185
Period size: 30 Copynumber: 5.3 Consensus size: 30
3928958 TGATGCATTT
* *
3928968 CTGATTCTGCATGGGATTTTGTTCCTCGTC
1 CTGATTCTGCATGGGACTTTGTTCCCCGTC
*
3928998 CT-AGTTCTGCATGGGACTTTGTTCCCCGTT
1 CTGA-TTCTGCATGGGACTTTGTTCCCCGTC
*
3929028 CTGATTCTGCATGGGACTTTATTCCCCGTC
1 CTGATTCTGCATGGGACTTTGTTCCCCGTC
* * **
3929058 TTGGTTCTATATGGGACTTTGTTCCCCGTC
1 CTGATTCTGCATGGGACTTTGTTCCCCGTC
* * * *
3929088 CTGATTTTGCATAGGACTTTGTTCTCCATC
1 CTGATTCTGCATGGGACTTTGTTCCCCGTC
*
3929118 CTGTTTCTG
1 CTGATTCTG
3929127 TTTGGGATCC
Statistics
Matches: 107, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
29 1 0.01
30 105 0.98
31 1 0.01
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.42
Consensus pattern (30 bp):
CTGATTCTGCATGGGACTTTGTTCCCCGTC
Found at i:3929858 original size:14 final size:14
Alignment explanation
Indices: 3929839--3929868 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3929829 AGAAAGAAGT
3929839 ATAAAGAGAAAAAA
1 ATAAAGAGAAAAAA
3929853 ATAAAGAGAAAAAA
1 ATAAAGAGAAAAAA
3929867 AT
1 AT
3929869 GATTTTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (14 bp):
ATAAAGAGAAAAAA
Done.