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 54 of 73
Found at i:12811132 original size:26 final size:26
Alignment explanation
Indices: 12811098--12811195 Score: 128
Period size: 26 Copynumber: 3.7 Consensus size: 26
12811088 TAACCTCTCA
12811098 TTTTTTTTTCTTTTTCTTT-TTCTTTC
1 TTTTTTTTTCTTTTTCTTTATT-TTTC
* *
12811124 TTTTCTTTTCTTTTTCTTTAATTTTC
1 TTTTTTTTTCTTTTTCTTTATTTTTC
12811150 TTTTTTATTTCTTTTTCTTTATTTTTC
1 TTTTTT-TTTCTTTTTCTTTATTTTTC
*
12811177 -TTTTTCTTCTCTTTTCTTT
1 TTTTTTTTTCT-TTTTCTTT
12811196 CTTAGGCGTA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
25 4 0.06
26 40 0.62
27 20 0.31
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTTTTTTCTTTTTCTTTATTTTTC
Found at i:12824779 original size:24 final size:24
Alignment explanation
Indices: 12824752--12824804 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
12824742 CAATAACAAT
*
12824752 CATAAAATCAATTTAAA-GTAGTAA
1 CATAAAAT-AAATTAAATGTAGTAA
*
12824776 CATAAACTAAATTAAATGTAGTAA
1 CATAAAATAAATTAAATGTAGTAA
*
12824800 TATAA
1 CATAA
12824805 TATGTAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.30
Consensus pattern (24 bp):
CATAAAATAAATTAAATGTAGTAA
Found at i:12825637 original size:16 final size:14
Alignment explanation
Indices: 12825616--12825649 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
12825606 ATTTCTAATT
12825616 TTATTTAAATATATAA
1 TTATTTAAA-A-ATAA
12825632 TTATTTAAAAATAA
1 TTATTTAAAAATAA
12825646 TTAT
1 TTAT
12825650 GAAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 1 0.06
16 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTATTTAAAAATAA
Found at i:12825769 original size:16 final size:16
Alignment explanation
Indices: 12825750--12825782 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12825740 TAATTTATAT
12825750 ATAATAATAAAAATAA
1 ATAATAATAAAAATAA
*
12825766 ATAATTATAAAAATAA
1 ATAATAATAAAAATAA
12825782 A
1 A
12825783 AGGAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAATAATAAAAATAA
Found at i:12825789 original size:27 final size:28
Alignment explanation
Indices: 12825759--12825811 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
12825749 TATAATAATA
*
12825759 AAAATAA-ATAATTATAAAAATAAAAGG
1 AAAATAATATAATTAAAAAAATAAAAGG
*
12825786 AAAATAATTTAATTAAAAAAATAAAA
1 AAAATAATATAATTAAAAAAATAAAA
12825812 AATATAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (28 bp):
AAAATAATATAATTAAAAAAATAAAAGG
Found at i:12827976 original size:2 final size:2
Alignment explanation
Indices: 12827969--12828025 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
12827959 ACTAATCACC
12827969 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
12828011 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
12828026 CACACACAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12828422 original size:37 final size:36
Alignment explanation
Indices: 12828366--12828457 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 36
12828356 TTAATACTTC
*
12828366 TTTTAAATA-TTAACGATAAAGTGAATTGATCAAGTTT
1 TTTTAAATAGTTAA--ATAAAGTGAATTGATCAAATTT
*
12828403 TTTTAAAATAGTTAAATAAAGTGAATTGATTAAATTT
1 TTTT-AAATAGTTAAATAAAGTGAATTGATCAAATTT
* *
12828440 TTTTTAATAGTTATATAA
1 TTTTAAATAGTTAAATAA
12828458 TATGATTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
36 12 0.24
37 28 0.57
38 5 0.10
39 4 0.08
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (36 bp):
TTTTAAATAGTTAAATAAAGTGAATTGATCAAATTT
Found at i:12828663 original size:1 final size:1
Alignment explanation
Indices: 12828657--12828716 Score: 84
Period size: 1 Copynumber: 60.0 Consensus size: 1
12828647 GAGAGAGAGA
* * * *
12828657 GGGGGGGGGGAGGGGGGGGGGGTGGGGGGGGGGGGGGGGGGGGGGAGGGGGGGAGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
12828717 AGGAGAGAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.05, C:0.00, G:0.93, T:0.02
Consensus pattern (1 bp):
G
Found at i:12828687 original size:23 final size:22
Alignment explanation
Indices: 12828657--12828716 Score: 95
Period size: 21 Copynumber: 2.8 Consensus size: 22
12828647 GAGAGAGAGA
12828657 GGGGGGGGGGAGGGGGGGGGGG
1 GGGGGGGGGGAGGGGGGGGGGG
*
12828679 TGGGGGGGGG-GGGGGGGGGGG
1 GGGGGGGGGGAGGGGGGGGGGG
*
12828700 GGAGGGGGGGAGGGGGG
1 GGGGGGGGGGAGGGGGG
12828717 AGGAGAGAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 19 0.56
22 15 0.44
ACGTcount: A:0.05, C:0.00, G:0.93, T:0.02
Consensus pattern (22 bp):
GGGGGGGGGGAGGGGGGGGGGG
Found at i:12828728 original size:4 final size:4
Alignment explanation
Indices: 12828719--12829004 Score: 212
Period size: 4 Copynumber: 73.5 Consensus size: 4
12828709 GAGGGGGGAG
* * *
12828719 GAGA GAGA GAG- GAGA GAGA GAGA GAGA GAGA GAGA GAGC GAGG GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * *
12828766 GAGA GAGA GAG- GAGG GAGG GAGA GAGG GAGA GGGA GGGA G-GA GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * *
12828812 GAG- GGGG GAGG GAGG GAG- GGGA GGGA GAG- GAG- GGGA GAGG GAG-
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * *
12828855 GAGA GGGA GAGA GGGA GGGA GAGA GAGA GGGA GAGA GAGA GGGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * *
12828903 GAGA GGGA GAGA GGGA GAGA GAGA GAGA GAGA GAGG GAGA GA-A TGGGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA -GAGA
* * * * * *
12828951 GAGA GAGG GGGA GGGA GAGG GAGA GAGA GAGA GAGA GGGA TAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
12828999 GAGA GA
1 GAGA GA
12829005 CTATGGGCAG
Statistics
Matches: 232, Mismatches: 41, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
3 22 0.09
4 209 0.90
5 1 0.00
ACGTcount: A:0.38, C:0.00, G:0.61, T:0.01
Consensus pattern (4 bp):
GAGA
Found at i:12828728 original size:6 final size:6
Alignment explanation
Indices: 12828719--12829004 Score: 212
Period size: 6 Copynumber: 49.0 Consensus size: 6
12828709 GAGGGGGGAG
* * *
12828719 GAGAGA GAGAG- GAGAGA GAGAGA GAGAGA GAGAGA GAGCGA GGGAGG
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * *
12828766 GAGAGA GAGAG- GAGGGA GGGAGA GAGGGA GAGGGA GGGAG- GAGAGG
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * * * *
12828812 GAG-GG GGGAGG GAGGGA G-GGGA GGGAGA G-GAG- GGGAGA GGGAG-
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * *
12828855 GAGAGG GAGAGA GGGAGG GAGAGA GAGAGG GAGAGA GAGAGG GAGAGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * *
12828903 GAGAGG GAGAGA GGGAGA GAGAGA GAGAGA GAGAGG GAGAGA -ATGGGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GA-GAGA
* * * * * *
12828951 GAGAGA GGGGGA GGGAGA GGGAGA GAGAGA GAGAGA GGGATA GAGAGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
12828999 GAGAGA
1 GAGAGA
12829005 CTATGGGCAG
Statistics
Matches: 225, Mismatches: 45, Indels: 20
0.78 0.16 0.07
Matches are distributed among these distances:
4 1 0.00
5 33 0.15
6 190 0.84
7 1 0.00
ACGTcount: A:0.38, C:0.00, G:0.61, T:0.01
Consensus pattern (6 bp):
GAGAGA
Found at i:12830303 original size:29 final size:29
Alignment explanation
Indices: 12830260--12830342 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
12830250 CTCACCTAAC
12830260 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
12830290 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
12830319 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
12830343 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:12834050 original size:29 final size:29
Alignment explanation
Indices: 12834007--12834089 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
12833997 CTCACCTAAC
12834007 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
12834037 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
12834066 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
12834090 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:12835626 original size:145 final size:145
Alignment explanation
Indices: 12835363--12835654 Score: 584
Period size: 145 Copynumber: 2.0 Consensus size: 145
12835353 TCTGTTAATC
12835363 AAAAAGATGTTAGGGTAAAATTTAAATATTTTGTATCTTAACTATCACTTTAATTCCGTTTTCTT
1 AAAAAGATGTTAGGGTAAAATTTAAATATTTTGTATCTTAACTATCACTTTAATTCCGTTTTCTT
12835428 CAATTAATTATTTTTTCCCTTTAAAATTATACTTAATGTTACATTTTGGCTTCATTTTAGTCATC
66 CAATTAATTATTTTTTCCCTTTAAAATTATACTTAATGTTACATTTTGGCTTCATTTTAGTCATC
12835493 CACCATTAAAAACTT
131 CACCATTAAAAACTT
12835508 AAAAAGATGTTAGGGTAAAATTTAAATATTTTGTATCTTAACTATCACTTTAATTCCGTTTTCTT
1 AAAAAGATGTTAGGGTAAAATTTAAATATTTTGTATCTTAACTATCACTTTAATTCCGTTTTCTT
12835573 CAATTAATTATTTTTTCCCTTTAAAATTATACTTAATGTTACATTTTGGCTTCATTTTAGTCATC
66 CAATTAATTATTTTTTCCCTTTAAAATTATACTTAATGTTACATTTTGGCTTCATTTTAGTCATC
12835638 CACCATTAAAAACTT
131 CACCATTAAAAACTT
12835653 AA
1 AA
12835655 CAGGACCGTT
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 147 1.00
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (145 bp):
AAAAAGATGTTAGGGTAAAATTTAAATATTTTGTATCTTAACTATCACTTTAATTCCGTTTTCTT
CAATTAATTATTTTTTCCCTTTAAAATTATACTTAATGTTACATTTTGGCTTCATTTTAGTCATC
CACCATTAAAAACTT
Found at i:12837058 original size:2 final size:2
Alignment explanation
Indices: 12837051--12837079 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12837041 TTATTAGAAA
12837051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12837080 ACCAGGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12838188 original size:2 final size:2
Alignment explanation
Indices: 12838181--12838211 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12838171 TACTTCGTTG
12838181 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
12838212 TATATACTCA
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:12839518 original size:14 final size:14
Alignment explanation
Indices: 12839495--12839532 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
12839485 TCTGTCTATA
*
12839495 TGCAGAGATTT-TT
1 TGCAGGGATTTATT
12839508 TCGCAGGGATTTATT
1 T-GCAGGGATTTATT
12839523 TGCAGGGATT
1 TGCAGGGATT
12839533 ACTTCCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 18 0.82
15 3 0.14
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:12840375 original size:17 final size:17
Alignment explanation
Indices: 12840353--12840392 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
12840343 AATATATTTA
12840353 ATAATATTTCTAATAAT
1 ATAATATTTCTAATAAT
* *
12840370 ATAATATTTTTAATATT
1 ATAATATTTCTAATAAT
12840387 ATAATA
1 ATAATA
12840393 AAATAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAATATTTCTAATAAT
Found at i:12840428 original size:23 final size:23
Alignment explanation
Indices: 12840363--12840432 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
12840353 ATAATATTTC
* *
12840363 TAATAATATAATATTTTTAATATTA
1 TAATAATATAACA-TATT-ATATTA
*
12840388 TAATAAAATAATCA-ATTATATTA
1 TAATAATATAA-CATATTATATTA
*
12840411 TAATAATATAAGATATTATATT
1 TAATAATATAACATATTATATT
12840433 TTTATTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 1 0.03
23 24 0.63
24 2 0.05
25 10 0.26
26 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (23 bp):
TAATAATATAACATATTATATTA
Found at i:12840676 original size:37 final size:34
Alignment explanation
Indices: 12840611--12840710 Score: 93
Period size: 37 Copynumber: 2.9 Consensus size: 34
12840601 AATATTTTAA
* *
12840611 AATATAA--TATAATAATATTACTTTAATAAATAATT
1 AATATAATTTATAATATTTTTA-TTTAATAAA-AA-T
12840646 AATATAATTTATAATATTTTTATTTCAATAAAAAT
1 AATATAATTTATAATATTTTTATTT-AATAAAAAT
*
12840681 -ATACCAATTT-TAATATTTTTA-TTAATAAAA
1 AATA-TAATTTATAATATTTTTATTTAATAAAA
12840711 TTATAAAAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
32 7 0.12
33 2 0.03
34 14 0.24
35 13 0.22
36 5 0.09
37 17 0.29
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (34 bp):
AATATAATTTATAATATTTTTATTTAATAAAAAT
Found at i:12840695 original size:34 final size:33
Alignment explanation
Indices: 12840651--12840715 Score: 96
Period size: 32 Copynumber: 1.9 Consensus size: 33
12840641 TAATTAATAT
12840651 AATTTATAATATTTTTATTTCAATAAAAATATACC
1 AATTTATAATATTTTTA-TT-AATAAAAATATACC
*
12840686 AATTT-TAATATTTTTATTAATAAAATTATA
1 AATTTATAATATTTTTATTAATAAAAATATA
12840716 AAAATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 11 0.38
33 2 0.07
34 11 0.38
35 5 0.17
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (33 bp):
AATTTATAATATTTTTATTAATAAAAATATACC
Found at i:12840778 original size:29 final size:28
Alignment explanation
Indices: 12840720--12840778 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
12840710 ATTATAAAAA
* * *
12840720 TAATATTTTAATAATAAATAAATTATTT
1 TAATATTTTAAAAAAAAATAAATAATTT
12840748 TAATATTTTAAAAAAAGAAT-AATAAGTTT
1 TAATATTTTAAAAAAA-AATAAATAA-TTT
12840777 TA
1 TA
12840779 TGATAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (28 bp):
TAATATTTTAAAAAAAAATAAATAATTT
Found at i:12840949 original size:14 final size:14
Alignment explanation
Indices: 12840898--12840956 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 14
12840888 CAATTTTCAT
12840898 AAAATATTTTTTAAA
1 AAAATATTTTTT-AA
12840913 AAATATAATTATTTTTACGA
1 AAA-AT-A-T-TTTTTA--A
12840933 AAAATATTTTTTAA
1 AAAATATTTTTTAA
12840947 AAAATATTTT
1 AAAATATTTT
12840957 CAATAAAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
14 11 0.29
15 3 0.08
16 8 0.21
17 2 0.05
18 3 0.08
19 7 0.18
20 4 0.11
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
AAAATATTTTTTAA
Found at i:12841228 original size:28 final size:28
Alignment explanation
Indices: 12841158--12841241 Score: 80
Period size: 29 Copynumber: 3.0 Consensus size: 28
12841148 TTTAAAGTAA
*
12841158 ATTTTTGATAAAATAAGTACATAAAATT
1 ATTTTTAATAAAATAAGTACATAAAATT
* * * *
12841186 ATTTTTTAGTTAAATAAGTACCTATAA-T
1 A-TTTTTAATAAAATAAGTACATAAAATT
* *
12841214 ATTTTTAATCAAAATTAGTATATAAAAT
1 ATTTTTAAT-AAAATAAGTACATAAAAT
12841242 ATTCAATTTT
Statistics
Matches: 42, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
27 7 0.17
28 15 0.36
29 20 0.48
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (28 bp):
ATTTTTAATAAAATAAGTACATAAAATT
Found at i:12846019 original size:155 final size:155
Alignment explanation
Indices: 12845834--12846143 Score: 595
Period size: 155 Copynumber: 2.0 Consensus size: 155
12845824 AAGATCTTCA
12845834 ACTTAAAGTTTCACTTTATTTATTATTTAATTCA-TTTTCTTAATTTAGGTATTATTAATATGTT
1 ACTTAAAGTTTCACTTTATTTATTATTTAATTCATTTTTCTTAATTTAGGTATTA-TAATATGTT
*
12845898 TTACTCAAAATGAAAAAATAAAAATATAAAGTAAAGTCAGATATTCGAATCTTGATATTATATAT
65 TTACTCAAAATGAAAAAATAAAAATATAAAGTAAAGTCAGATATTCGAATCTTGATATGATATAT
12845963 AGAATAAATTGAATTGGGAGAGTCGC
130 AGAATAAATTGAATTGGGAGAGTCGC
12845989 ACTTAAAGTTTCACTTTATTTATTATTTAATTCATTTTTCTTAATTTAGGTATTATAATATGTTT
1 ACTTAAAGTTTCACTTTATTTATTATTTAATTCATTTTTCTTAATTTAGGTATTATAATATGTTT
12846054 TACTCAAAATGAAAAAATAAAAATATAAAGTAAAGTCAGATATTCGAATCTTGATATGATATATA
66 TACTCAAAATGAAAAAATAAAAATATAAAGTAAAGTCAGATATTCGAATCTTGATATGATATATA
12846119 GAATAAATTGAATTGGGAGAGTCGC
131 GAATAAATTGAATTGGGAGAGTCGC
12846144 TCCTATAAAT
Statistics
Matches: 153, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
155 133 0.87
156 20 0.13
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (155 bp):
ACTTAAAGTTTCACTTTATTTATTATTTAATTCATTTTTCTTAATTTAGGTATTATAATATGTTT
TACTCAAAATGAAAAAATAAAAATATAAAGTAAAGTCAGATATTCGAATCTTGATATGATATATA
GAATAAATTGAATTGGGAGAGTCGC
Found at i:12852741 original size:21 final size:21
Alignment explanation
Indices: 12852717--12852762 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
12852707 CATGGCATCT
12852717 ATAACAACAAACTTGAAATCC
1 ATAACAACAAACTTGAAATCC
*
12852738 ATAACAACCAACTTGAAATCC
1 ATAACAACAAACTTGAAATCC
12852759 ATAA
1 ATAA
12852763 TAATAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.52, C:0.24, G:0.04, T:0.20
Consensus pattern (21 bp):
ATAACAACAAACTTGAAATCC
Found at i:12862450 original size:42 final size:42
Alignment explanation
Indices: 12862390--12862519 Score: 125
Period size: 42 Copynumber: 3.1 Consensus size: 42
12862380 TTGGACAATC
* * *
12862390 GCGACATTTATAATAAAAACACCACTAAGGTACATGACTATT
1 GCGACATTTATTACAAAAACACCACTAAAGTACATGACTATT
* * *
12862432 GCGACATTTATTACAAAAAACACCACTAAATTATATGATTATT
1 GCGACATTTATTAC-AAAAACACCACTAAAGTACATGACTATT
** * * * * * *
12862475 ATGGCGTTTATTACAAAAATACCACTAAAATAAAGGACTATT
1 GCGACATTTATTACAAAAACACCACTAAAGTACATGACTATT
12862517 GCG
1 GCG
12862520 GCGTTTGAAT
Statistics
Matches: 70, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 36 0.51
43 34 0.49
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (42 bp):
GCGACATTTATTACAAAAACACCACTAAAGTACATGACTATT
Found at i:12862523 original size:42 final size:43
Alignment explanation
Indices: 12862404--12862525 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 43
12862394 CATTTATAAT
** * * * *
12862404 AAAAACACCACTAAGGTACATGACTATTGCGACATTTATTACA
1 AAAAACACCACTAAAATAAAGGACTATTGCGGCGTTTATTACA
* * * * **
12862447 AAAAACACCACTAAATTATATGATTATTATGGCGTTTATTAC-
1 AAAAACACCACTAAAATAAAGGACTATTGCGGCGTTTATTACA
*
12862489 AAAAATACCACTAAAATAAAGGACTATTGCGGCGTTT
1 AAAAACACCACTAAAATAAAGGACTATTGCGGCGTTT
12862526 GAATAAAAAC
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (43 bp):
AAAAACACCACTAAAATAAAGGACTATTGCGGCGTTTATTACA
Found at i:12862562 original size:41 final size:41
Alignment explanation
Indices: 12862512--12862652 Score: 151
Period size: 41 Copynumber: 3.5 Consensus size: 41
12862502 AAATAAAGGA
* *
12862512 CTATTGCGGCGTTTGAATAAAAACGACACTAAAGTACAAGT
1 CTATAGCGGCGTTTGTATAAAAACGACACTAAAGTACAAGT
* **
12862553 CTATAGCGGCATTTGTAT-AAAACGACACTAAAGTATGAGT
1 CTATAGCGGCGTTTGTATAAAAACGACACTAAAGTACAAGT
* * * * *
12862593 CTATAACGGCGTTTGTATAAAAATGCCACTGAAG-AAAGAGT
1 CTATAGCGGCGTTTGTATAAAAACGACACTAAAGTACA-AGT
* *
12862634 TTATAGCGGTGTTTGTATA
1 CTATAGCGGCGTTTGTATA
12862653 CAAATGCTAC
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 37 0.45
41 46 0.55
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (41 bp):
CTATAGCGGCGTTTGTATAAAAACGACACTAAAGTACAAGT
Found at i:12862585 original size:40 final size:40
Alignment explanation
Indices: 12862512--12862614 Score: 143
Period size: 40 Copynumber: 2.5 Consensus size: 40
12862502 AAATAAAGGA
* *
12862512 CTATTGCGGCGTTTGAATAAAAACGACACTAAAGTACAAGT
1 CTATAGCGGCGTTTGTAT-AAAACGACACTAAAGTACAAGT
* **
12862553 CTATAGCGGCATTTGTATAAAACGACACTAAAGTATGAGT
1 CTATAGCGGCGTTTGTATAAAACGACACTAAAGTACAAGT
*
12862593 CTATAACGGCGTTTGTATAAAA
1 CTATAGCGGCGTTTGTATAAAA
12862615 ATGCCACTGA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 40 0.73
41 15 0.27
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (40 bp):
CTATAGCGGCGTTTGTATAAAACGACACTAAAGTACAAGT
Found at i:12862673 original size:41 final size:41
Alignment explanation
Indices: 12862518--12862676 Score: 133
Period size: 41 Copynumber: 3.9 Consensus size: 41
12862508 AGGACTATTG
* * * * *
12862518 CGGCGTTTGAATAAAAACGACACTAAAGTACA-AGTCTATAG
1 CGGCGTTTGTATAAAAATGCCACCAAAGTA-AGAGTCTATAA
* * * * *
12862559 CGGCATTTGTAT-AAAACGACACTAAAGTATGAGTCTATAA
1 CGGCGTTTGTATAAAAATGCCACCAAAGTAAGAGTCTATAA
** * * *
12862599 CGGCGTTTGTATAAAAATGCCACTGAAGAAAGAGTTTATAG
1 CGGCGTTTGTATAAAAATGCCACCAAAGTAAGAGTCTATAA
* * *
12862640 CGGTGTTTGTATACAAATGCTACCAAAGTAAGAGTCT
1 CGGCGTTTGTATAAAAATGCCACCAAAGTAAGAGTCT
12862677 TTTGCGGCGT
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
40 36 0.37
41 61 0.63
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (41 bp):
CGGCGTTTGTATAAAAATGCCACCAAAGTAAGAGTCTATAA
Found at i:12862689 original size:41 final size:41
Alignment explanation
Indices: 12862517--12862697 Score: 118
Period size: 41 Copynumber: 4.4 Consensus size: 41
12862507 AAGGACTATT
* * * * * *
12862517 GCGGCGTTTGAATAAAAACGACACTAAAGTACA-AGTCTATA
1 GCGGCGTTTGTATAAAAATGCCACCAAAG-AAAGAGTTTATA
* * * * * * *
12862558 GCGGCATTTGTAT-AAAACGACACTAAAGTATGAGTCTATA
1 GCGGCGTTTGTATAAAAATGCCACCAAAGAAAGAGTTTATA
* **
12862598 ACGGCGTTTGTATAAAAATGCCACTGAAGAAAGAGTTTATA
1 GCGGCGTTTGTATAAAAATGCCACCAAAGAAAGAGTTTATA
* * * * *
12862639 GCGGTGTTTGTATACAAATGCTACCAAAGTAAGAGTCTT-TT
1 GCGGCGTTTGTATAAAAATGCCACCAAAGAAAGAGT-TTATA
12862680 GCGGCGTTTG-ATCAAAAA
1 GCGGCGTTTGTAT-AAAAA
12862698 ATGTCGTTAT
Statistics
Matches: 113, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
40 36 0.32
41 75 0.66
42 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (41 bp):
GCGGCGTTTGTATAAAAATGCCACCAAAGAAAGAGTTTATA
Found at i:12862895 original size:83 final size:83
Alignment explanation
Indices: 12862786--12863214 Score: 436
Period size: 83 Copynumber: 5.2 Consensus size: 83
12862776 CTCATTGTGG
** * * *
12862786 CATTTGTATAAAAACGTCGCTGAAGTATTACTCTATTGCGGTGTTTTTTGAAAAAATGCCACTAT
1 CATTTGTATAAAAACACCGCTAAAGTACTACTCTATTGCGGTGTTTGTTGAAAAAATGCCACTAT
*
12862851 AGT-TGAACCCTCTTACAA
66 A-TATGAACCCTATTACAA
** * * * * *
12862869 CATTTGTATAAAAATTCCACTAAAGTACTACTCTATTGTGGAGTTTGTTGAAAAAACGTCACTAT
1 CATTTGTATAAAAACACCGCTAAAGTACTACTCTATTGCGGTGTTTGTTGAAAAAATGCCACTAT
*
12862934 ATATAAACCCTATTACAA
66 ATATGAACCCTATTACAA
* * * *
12862952 CCTTTATATAAAAACACCGCTAAAGTACTACTCTATTGCGGCGTTTGTTGAAAAAATACCACTAT
1 CATTTGTATAAAAACACCGCTAAAGTACTACTCTATTGCGGTGTTTGTTGAAAAAATGCCACTAT
* **
12863017 AAATGAACCCTATTATGA
66 ATATGAACCCTATTACAA
* * * * *
12863035 CATTTATATAAAAACACTGCTAAAGTACTACTCTATTGCGATATTTATTGAAAAAATGCCACTAT
1 CATTTGTATAAAAACACCGCTAAAGTACTACTCTATTGCGGTGTTTGTTGAAAAAATGCCACTAT
***
12863100 ATATGAACCCTATTATGG
66 ATATGAACCCTATTACAA
* * * *
12863118 CATTTGTATAACAAA-ACTGCTAAAGTGCTACTCT-TTG-GTTGCGTTTATTGAAAAAA-GACCA
1 CATTTGTATAA-AAACACCGCTAAAGTACTACTCTATTGCG--GTGTTTGTTGAAAAAATG-CCA
* * * *
12863179 CCATAGATGAGCCCTATTACGA
62 CTATATATGAACCCTATTACAA
*
12863201 CGTTTGTATAAAAA
1 CATTTGTATAAAAA
12863215 TGCCGCTATA
Statistics
Matches: 294, Mismatches: 47, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
81 1 0.00
82 8 0.03
83 282 0.96
84 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (83 bp):
CATTTGTATAAAAACACCGCTAAAGTACTACTCTATTGCGGTGTTTGTTGAAAAAATGCCACTAT
ATATGAACCCTATTACAA
Found at i:12864844 original size:30 final size:29
Alignment explanation
Indices: 12864809--12864893 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 29
12864799 GATTTATTTA
* * *
12864809 GTGACCAAATTATAAATTTGGTAAAGTTTG
1 GTGACCAAAATATAAATTTGGAAAAG-TTC
*
12864839 GTGACCAAAGTATAAACTTT-GAAAAGTTC
1 GTGACCAAAATATAAA-TTTGGAAAAGTTC
*
12864868 ATAGACCAAAATATAAATTTGGAAAA
1 GT-GACCAAAATATAAATTTGGAAAA
12864894 ATTAAAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
29 6 0.13
30 38 0.81
31 3 0.06
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.29
Consensus pattern (29 bp):
GTGACCAAAATATAAATTTGGAAAAGTTC
Found at i:12865858 original size:30 final size:30
Alignment explanation
Indices: 12865817--12865880 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
12865807 AAGCCTTAGA
* * *
12865817 AAAATTTGGGGACCATTTTG-TAATTTTTG
1 AAAATTTGGGGACCAATTTGATAACTTTGG
12865846 AAAATTTGGGGGACCAATTTGATAACTTTGG
1 AAAATTT-GGGGACCAATTTGATAACTTTGG
12865877 AAAA
1 AAAA
12865881 GTTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 7 0.23
30 12 0.40
31 11 0.37
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (30 bp):
AAAATTTGGGGACCAATTTGATAACTTTGG
Found at i:12867872 original size:45 final size:45
Alignment explanation
Indices: 12867783--12867915 Score: 232
Period size: 45 Copynumber: 3.0 Consensus size: 45
12867773 GTAATCATGC
* *
12867783 AAATAAGCTTACAAGCTTATGG-ATTAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
12867827 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
12867872 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATATTGGT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
12867916 TAGAAATTTT
Statistics
Matches: 85, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
44 21 0.25
45 64 0.75
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:12868671 original size:23 final size:22
Alignment explanation
Indices: 12868639--12868736 Score: 115
Period size: 23 Copynumber: 4.3 Consensus size: 22
12868629 TGAGTGACAT
*
12868639 ATAGAATGTCTCGAAGGACCAC
1 ATAGAATGTCCCGAAGGACCAC
12868661 ATAGATATGTCCCGAAGGACCAC
1 ATAGA-ATGTCCCGAAGGACCAC
* *
12868684 ATATATATGTCCCGAAGGACCGC
1 ATAGA-ATGTCCCGAAGGACCAC
* *
12868707 ATAAAAATGTCCCGAAAGACCAC
1 AT-AGAATGTCCCGAAGGACCAC
*
12868730 GTAGAAT
1 ATAGAAT
12868737 TATATCGAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
22 9 0.14
23 55 0.83
24 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (22 bp):
ATAGAATGTCCCGAAGGACCAC
Found at i:12868700 original size:46 final size:47
Alignment explanation
Indices: 12868635--12868729 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 47
12868625 ACACTGAGTG
* * * *
12868635 ACATATAGAATGTCTCGAAGGACCACATAGATATGTCCCGAAGGACC
1 ACATATAGAATGTCCCGAAGGACCACATAAAAATGTCCCGAAAGACC
* *
12868682 ACATATA-TATGTCCCGAAGGACCGCATAAAAATGTCCCGAAAGACC
1 ACATATAGAATGTCCCGAAGGACCACATAAAAATGTCCCGAAAGACC
12868728 AC
1 AC
12868730 GTAGAATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 35 0.83
47 7 0.17
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (47 bp):
ACATATAGAATGTCCCGAAGGACCACATAAAAATGTCCCGAAAGACC
Found at i:12876360 original size:23 final size:23
Alignment explanation
Indices: 12876328--12876423 Score: 90
Period size: 23 Copynumber: 4.2 Consensus size: 23
12876318 TGAGTGCCAT
12876328 ATAGA-ATGTCCCAAAGGACCAC
1 ATAGATATGTCCCAAAGGACCAC
*
12876350 ATAGATATGTCCCAGAGGACCAC
1 ATAGATATGTCCCAAAGGACCAC
* * * *
12876373 GTAGAAATGTCCTAAAGAACCAC
1 ATAGATATGTCCCAAAGGACCAC
*
12876396 GTATA-AT-TGTCCCGAAGGACCAC
1 --ATAGATATGTCCCAAAGGACCAC
*
12876419 GTAGA
1 ATAGA
12876424 ACCATCGACT
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
21 2 0.03
22 6 0.10
23 47 0.81
24 1 0.02
25 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.18
Consensus pattern (23 bp):
ATAGATATGTCCCAAAGGACCAC
Found at i:12876384 original size:46 final size:45
Alignment explanation
Indices: 12876332--12876424 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 45
12876322 TGCCATATAG
*
12876332 AATGTCCCAAAGGACCAC-ATAGATATGTCCC-AGAGGACCACGTAGA
1 AATGTCCCAAAGAACCACGATA-AT-TGTCCCGA-AGGACCACGTAGA
*
12876378 AATGTCCTAAAGAACCACGTATAATTGTCCCGAAGGACCACGTAGA
1 AATGTCCCAAAGAACCACG-ATAATTGTCCCGAAGGACCACGTAGA
12876424 A
1 A
12876425 CCATCGACTC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
46 36 0.86
47 3 0.07
48 3 0.07
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (45 bp):
AATGTCCCAAAGAACCACGATAATTGTCCCGAAGGACCACGTAGA
Found at i:12877159 original size:35 final size:35
Alignment explanation
Indices: 12877095--12877164 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
12877085 TTATTCTAAA
*
12877095 AATGGTATCGATACCTATATATTGATATCGATACC
1 AATGGTATCGATACCTATATATGGATATCGATACC
*
12877130 AATGGTATCGATA-CTACTACT-TGGGTATCGATACC
1 AATGGTATCGATACCTA-TA-TATGGATATCGATACC
12877165 CTATTAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 3 0.10
35 27 0.87
36 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (35 bp):
AATGGTATCGATACCTATATATGGATATCGATACC
Found at i:12884201 original size:2 final size:2
Alignment explanation
Indices: 12884194--12884221 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12884184 GGTTATACAA
12884194 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
12884222 GACACGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12887285 original size:12 final size:12
Alignment explanation
Indices: 12887268--12887300 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
12887258 ATCTTGTTGC
*
12887268 CAACTTGCTTGG
1 CAACTTGCATGG
12887280 CAACTTGCATGG
1 CAACTTGCATGG
12887292 CAACTTGCA
1 CAACTTGCA
12887301 ACAATCTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (12 bp):
CAACTTGCATGG
Found at i:12894245 original size:26 final size:26
Alignment explanation
Indices: 12894209--12894264 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
12894199 TAAAATTGAT
*
12894209 GCCCCTACATGCTGCGCTGGGCCGTC
1 GCCCCTACATGCTGCCCTGGGCCGTC
12894235 GCCCCTACATGCTGCCCTGGGCCGTC
1 GCCCCTACATGCTGCCCTGGGCCGTC
12894261 GCCC
1 GCCC
12894265 ATCTGACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.07, C:0.46, G:0.29, T:0.18
Consensus pattern (26 bp):
GCCCCTACATGCTGCCCTGGGCCGTC
Found at i:12900042 original size:2 final size:2
Alignment explanation
Indices: 12900035--12900076 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12900025 AAATTATGAC
12900035 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
12900077 GCATCATACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12901492 original size:2 final size:2
Alignment explanation
Indices: 12901485--12901524 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
12901475 TAAATATAAT
12901485 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12901525 TAATAAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12901528 original size:6 final size:7
Alignment explanation
Indices: 12901470--12901529 Score: 56
Period size: 8 Copynumber: 8.6 Consensus size: 7
12901460 CAGCCCGATA
12901470 AATAT-T
1 AATATAT
12901476 AA-ATAT
1 AATATAT
12901482 AAT-TAT
1 AATATAT
12901488 ATATATAT
1 A-ATATAT
12901496 ATATATAT
1 A-ATATAT
12901504 ATATATAT
1 A-ATATAT
12901512 ATATATAT
1 A-ATATAT
12901520 AATAT-T
1 AATATAT
12901526 AATA
1 AATA
12901530 AATTTAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.04
6 14 0.28
7 6 0.12
8 28 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
AATATAT
Found at i:12901860 original size:31 final size:31
Alignment explanation
Indices: 12901815--12902101 Score: 368
Period size: 31 Copynumber: 9.2 Consensus size: 31
12901805 GCTCATATAA
* *
12901815 TAATCTATCCATATGTCCTG-AAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAAG-ACATAGG
* *
12901846 TAATTTGTCCATATGTCCTG-AAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAAG-ACATAGG
*
12901877 TAATCTGTCCATATGTCTCG-AAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAAG-ACATAGG
*
12901908 TAATATGTCCATATGTCCCG-AAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAAG-ACATAGG
*
12901939 TAATCTGTCCATATGTTCCGAAAGACATAGG
1 TAATCTGTCCATATGTCCCGAAAGACATAGG
*
12901970 TAATACTGTCCATATCTCCCGAAAGACATAGG
1 TAAT-CTGTCCATATGTCCCGAAAGACATAGG
*
12902002 TAATATTGTCCATATGTCCCGAAAGACATAGG
1 TAAT-CTGTCCATATGTCCCGAAAGACATAGG
*
12902034 TAAAT-TGTTCATATGTCCCGAAAGACATAGG
1 T-AATCTGTCCATATGTCCCGAAAGACATAGG
*
12902065 TAATACTGTCCATATGTCCCGAAAGACATATG
1 TAAT-CTGTCCATATGTCCCGAAAGACATAGG
12902097 TAATC
1 TAATC
12902102 CCTTGACTCT
Statistics
Matches: 235, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
30 3 0.01
31 142 0.60
32 87 0.37
33 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (31 bp):
TAATCTGTCCATATGTCCCGAAAGACATAGG
Found at i:12902035 original size:95 final size:93
Alignment explanation
Indices: 12901822--12902100 Score: 397
Period size: 95 Copynumber: 3.0 Consensus size: 93
12901812 TAATAATCTA
*
12901822 TCCATATGTCCTGAAGAACATAGGTAATTTGTCCATATG-TCCTG-AAGAACATAGGTAAT-CTG
1 TCCATATGTCCCGAAGAACATAGGTAA-TTGTCCATATGTTCC-GAAAG-ACATAGGTAATACTG
*
12901884 TCCATATGTCTCG-AAGAACATAGGTAATATG
63 TCCATATGTCCCGAAAG-ACATAGGTAATATG
12901915 TCCATATGTCCCGAAGAACATAGGTAATCTGTCCATATGTTCCGAAAGACATAGGTAATACTGTC
1 TCCATATGTCCCGAAGAACATAGGTAAT-TGTCCATATGTTCCGAAAGACATAGGTAATACTGTC
*
12901980 CATATCTCCCGAAAGACATAGGTAATATTG
65 CATATGTCCCGAAAGACATAGGTAATA-TG
* *
12902010 TCCATATGTCCCGAA-AGACATAGGTAAATTGTTCATATGTCCCGAAAGACATAGGTAATACTGT
1 TCCATATGTCCCGAAGA-ACATAGGT-AATTGTCCATATGTTCCGAAAGACATAGGTAATACTGT
*
12902074 CCATATGTCCCGAAAGACATATGTAAT
64 CCATATGTCCCGAAAGACATAGGTAAT
12902101 CCCTTGACTC
Statistics
Matches: 171, Mismatches: 7, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
92 1 0.01
93 48 0.28
94 33 0.19
95 86 0.50
96 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (93 bp):
TCCATATGTCCCGAAGAACATAGGTAATTGTCCATATGTTCCGAAAGACATAGGTAATACTGTCC
ATATGTCCCGAAAGACATAGGTAATATG
Found at i:12902047 original size:63 final size:62
Alignment explanation
Indices: 12901815--12902099 Score: 364
Period size: 63 Copynumber: 4.5 Consensus size: 62
12901805 GCTCATATAA
* * * *
12901815 TAATCTATCCATATGTCCTG-AAGAACATAGGTAATTTGTCCATATGTCCTGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAAG-ACATAGGTAAATTGTCCATATGTCCCGAAGAACATAGG
*
12901877 TAATCTGTCCATATGTCTCG-AAGAACATAGGT-AATATGTCCATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAAG-ACATAGGTAAAT-TGTCCATATGTCCCGAAGAACATAGG
* * *
12901939 TAATCTGTCCATATGTTCCGAAAGACATAGGTAATACTGTCCATATCTCCCGAA-AGACATAGG
1 TAATCTGTCCATATGTCCCGAAAGACATAGGTAA-ATTGTCCATATGTCCCGAAGA-ACATAGG
* *
12902002 TAATATTGTCCATATGTCCCGAAAGACATAGGTAAATTGTTCATATGTCCCGAA-AGACATAGG
1 TAAT-CTGTCCATATGTCCCGAAAGACATAGGTAAATTGTCCATATGTCCCGAAGA-ACATAGG
*
12902065 TAATACTGTCCATATGTCCCGAAAGACATATGTAA
1 TAAT-CTGTCCATATGTCCCGAAAGACATAGGTAA
12902100 TCCCTTGACT
Statistics
Matches: 201, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
61 2 0.01
62 81 0.40
63 89 0.44
64 29 0.14
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (62 bp):
TAATCTGTCCATATGTCCCGAAAGACATAGGTAAATTGTCCATATGTCCCGAAGAACATAGG
Found at i:12902973 original size:20 final size:20
Alignment explanation
Indices: 12902929--12902975 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
12902919 TGAAGTGTAT
*
12902929 CGATACACACTATAGTGCGC
1 CGATACACACTATAGTGCAC
12902949 CGATACACACTATAGTGCAC
1 CGATACACACTATAGTGCAC
*
12902969 TGATACA
1 CGATACA
12902976 TCATGTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (20 bp):
CGATACACACTATAGTGCAC
Found at i:12903839 original size:21 final size:21
Alignment explanation
Indices: 12903813--12903855 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12903803 TCTATACATT
*
12903813 TTTGCATTATTATTTATATTA
1 TTTGCATTACTATTTATATTA
*
12903834 TTTGCATTGCTATTTATATTA
1 TTTGCATTACTATTTATATTA
12903855 T
1 T
12903856 AATTCTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTGCATTACTATTTATATTA
Found at i:12904125 original size:19 final size:20
Alignment explanation
Indices: 12904088--12904131 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
12904078 ATATCATTGT
*
12904088 ATTATGTAATATTAATATTC
1 ATTATGTAACATTAATATTC
* *
12904108 ATTAT-TAACATTATTATTT
1 ATTATGTAACATTAATATTC
12904127 ATTAT
1 ATTAT
12904132 ATTTATCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTATGTAACATTAATATTC
Found at i:12904169 original size:16 final size:16
Alignment explanation
Indices: 12904100--12904193 Score: 51
Period size: 16 Copynumber: 6.2 Consensus size: 16
12904090 TATGTAATAT
12904100 TAATATTCA-TTATTAA
1 TAATATT-ATTTATTAA
* *
12904116 CATTATTATTTATT-A
1 TAATATTATTTATTAA
* *
12904131 T-AT-TTATCATATTTA
1 TAATATTAT-TTATTAA
*
12904146 TTAT-TTATTTATTAA
1 TAATATTATTTATTAA
*
12904161 TAATATTA-TGATTAA
1 TAATATTATTTATTAA
12904176 TATATATT-TTTA-TAA
1 TA-ATATTATTTATTAA
12904191 TAA
1 TAA
12904194 AAAGTGGGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
13 4 0.07
14 6 0.10
15 25 0.41
16 26 0.43
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (16 bp):
TAATATTATTTATTAA
Found at i:12907460 original size:2 final size:2
Alignment explanation
Indices: 12907455--12907538 Score: 161
Period size: 2 Copynumber: 42.5 Consensus size: 2
12907445 AAAGTGTGTG
12907455 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
12907497 -A 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
12907538 T
1 T
12907539 TATTTCAATT
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 80 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12915963 original size:25 final size:25
Alignment explanation
Indices: 12915935--12915990 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
12915925 TTATTCTTCT
12915935 TTTTCTGATTAATTTCA-ATCCCAAA
1 TTTTCTGATTAATTTCACA-CCCAAA
**
12915960 TTTTCTGATTCTTTTCACACCCAAA
1 TTTTCTGATTAATTTCACACCCAAA
12915985 TTTTCT
1 TTTTCT
12915991 TTTCACTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.23, G:0.04, T:0.48
Consensus pattern (25 bp):
TTTTCTGATTAATTTCACACCCAAA
Found at i:12933907 original size:21 final size:21
Alignment explanation
Indices: 12933865--12933907 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12933855 TTTCTGGGCT
*
12933865 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
12933886 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
12933907 A
1 A
12933908 ACGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:12934762 original size:103 final size:103
Alignment explanation
Indices: 12934434--12934754 Score: 588
Period size: 103 Copynumber: 3.1 Consensus size: 103
12934424 GTAGAGGGTC
*
12934434 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
12934499 TTGATCCTTGGCACATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
12934537 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
12934602 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
12934640 TATGTGATCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
12934705 TTGATCCTTAGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
12934743 TATGTGGTCCTT
1 TATGTGGTCCTT
12934755 ATGGACATTA
Statistics
Matches: 209, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 209 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:12934804 original size:23 final size:23
Alignment explanation
Indices: 12934771--12934833 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
12934761 ATTATTATAT
12934771 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
12934794 GGCACTCCGGTGCAATTTTACGT
1 GGCACTACGGTGCAATTCTACGC
12934817 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
12934834 ATATGAGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:12940973 original size:19 final size:19
Alignment explanation
Indices: 12940949--12940985 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12940939 GAATGCTAGA
*
12940949 GGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCAG
*
12940968 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
12940986 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.35, G:0.30, T:0.11
Consensus pattern (19 bp):
GGGGAACCGATACCCCCAG
Found at i:12941647 original size:103 final size:103
Alignment explanation
Indices: 12941468--12941784 Score: 564
Period size: 103 Copynumber: 3.1 Consensus size: 103
12941458 GTAGAGGGTC
*
12941468 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
12941533 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
* *
12941571 TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
12941636 TTGATCCTTGGTATATGTATAT-AGTTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGA-TTCTTAAGGAATGA
* *
12941674 TATGTGGTCCTTCAGGACATGTATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
12941739 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
12941777 TATGTGGT
1 TATGTGGT
12941785 TCTTATGGAC
Statistics
Matches: 204, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
102 1 0.00
103 202 0.99
104 1 0.00
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
Found at i:12941838 original size:23 final size:23
Alignment explanation
Indices: 12941805--12941856 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
12941795 ATTATTATAT
12941805 GGCACTACGGTACAATTCTACGC
1 GGCACTACGGTACAATTCTACGC
* * * *
12941828 GGCACTCCGGTGCAATTTTACGT
1 GGCACTACGGTACAATTCTACGC
12941851 GGCACT
1 GGCACT
12941857 TAGGTGCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTACAATTCTACGC
Found at i:12941862 original size:23 final size:23
Alignment explanation
Indices: 12941804--12941867 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
12941794 CATTATTATA
*
12941804 TGGCAC-TACGGTACAATTCTACG
1 TGGCACTTA-GGTGCAATTCTACG
* ** *
12941827 CGGCACTCCGGTGCAATTTTACG
1 TGGCACTTAGGTGCAATTCTACG
12941850 TGGCACTTAGGTGCAATT
1 TGGCACTTAGGTGCAATT
12941868 ATATGAGCTG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (23 bp):
TGGCACTTAGGTGCAATTCTACG
Found at i:12947554 original size:28 final size:28
Alignment explanation
Indices: 12947514--12947577 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
12947504 CCTTACTCAC
*
12947514 ACATATATTACATCTAAACTAGAACCAA
1 ACATACATTACATCTAAACTAGAACCAA
*
12947542 ACATACATTACATCTATACTAGAACCAA
1 ACATACATTACATCTAAACTAGAACCAA
12947570 ACATACAT
1 ACATACAT
12947578 ATATATAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.48, C:0.23, G:0.03, T:0.25
Consensus pattern (28 bp):
ACATACATTACATCTAAACTAGAACCAA
Found at i:12961846 original size:20 final size:19
Alignment explanation
Indices: 12961821--12961875 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
12961811 TGGTGTTATG
**
12961821 ACCGGTTTAAACCGGTCTGA
1 ACCGGTTT-AACCGGTCCAA
*
12961841 ACCGGTTTTACCGGTCCAA
1 ACCGGTTTAACCGGTCCAA
*
12961860 ATCGGTTTGAACCGGT
1 ACCGGTTT-AACCGGT
12961876 TTGACCCGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (19 bp):
ACCGGTTTAACCGGTCCAA
Found at i:12961907 original size:27 final size:27
Alignment explanation
Indices: 12961870--12961924 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
12961860 ATCGGTTTGA
* *
12961870 ACCGGTTTGACCCGACCCGACCTGTTG
1 ACCGGTCTGACCCGACCCGACCCGTTG
*
12961897 ACCGGTCTGACCTGACCCGACCCGTTG
1 ACCGGTCTGACCCGACCCGACCCGTTG
12961924 A
1 A
12961925 TCGACCCGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.16, C:0.38, G:0.25, T:0.20
Consensus pattern (27 bp):
ACCGGTCTGACCCGACCCGACCCGTTG
Found at i:12961935 original size:27 final size:27
Alignment explanation
Indices: 12961878--12961949 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 27
12961868 GAACCGGTTT
* * ** *
12961878 GACCCGACCCGACCTGTTGACCGGTCT
1 GACCTGACCCGACCCGTTGACCGACCC
*
12961905 GACCTGACCCGACCCGTTGATCGACCC
1 GACCTGACCCGACCCGTTGACCGACCC
12961932 GACCCGTTGACCCGACCC
1 GA-CC--TGACCCGACCC
12961950 AGTGACATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 23 0.64
28 2 0.06
30 11 0.31
ACGTcount: A:0.17, C:0.44, G:0.24, T:0.15
Consensus pattern (27 bp):
GACCTGACCCGACCCGTTGACCGACCC
Found at i:12961994 original size:29 final size:29
Alignment explanation
Indices: 12961950--12962056 Score: 144
Period size: 29 Copynumber: 3.7 Consensus size: 29
12961940 GACCCGACCC
* *
12961950 AGTGACATTTTGGGAATTTTTGTGAAAAA
1 AGTGACATTCTAGGAATTTTTGTGAAAAA
*
12961979 AGTGACATTCTAGGAATTTTTGTGGAAAA
1 AGTGACATTCTAGGAATTTTTGTGAAAAA
*
12962008 TGTGACATTCTAGGAATTTTTGTGAAAAA
1 AGTGACATTCTAGGAATTTTTGTGAAAAA
* *
12962037 AATGACAATT-TGGGAATTTT
1 AGTGAC-ATTCTAGGAATTTT
12962057 CGAATGTGGA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 66 0.96
30 3 0.04
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (29 bp):
AGTGACATTCTAGGAATTTTTGTGAAAAA
Found at i:12967512 original size:20 final size:20
Alignment explanation
Indices: 12967489--12967540 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
12967479 AACGCGATCC
12967489 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
12967509 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
12967529 CCAAAATCGCAA
1 CCAGAATCGCAA
12967541 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:12967557 original size:21 final size:20
Alignment explanation
Indices: 12967530--12967628 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
12967520 AATCAGTTTC
12967530 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
12967551 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
12967572 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
12967592 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
12967613 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
12967629 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:12967657 original size:20 final size:20
Alignment explanation
Indices: 12967595--12967788 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
12967585 CGATTTTCCA
* ** *
12967595 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
12967615 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
12967635 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
12967655 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
12967675 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
12967695 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
12967715 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
12967735 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
12967755 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
12967776 AAATCGCAACGCG
1 AAATCGCAACGCG
12967789 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:12967679 original size:60 final size:60
Alignment explanation
Indices: 12967595--12967788 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
12967585 CGATTTTCCA
* ** * *
12967595 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
12967655 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
12967715 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
12967776 AAATCGCAACGCG
1 AAATCGCAACGCG
12967789 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:12968209 original size:33 final size:33
Alignment explanation
Indices: 12968170--12968240 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
12968160 TTCACTTAGA
*
12968170 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
12968203 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
12968236 TTTCA
1 TTTCA
12968241 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:12968380 original size:14 final size:14
Alignment explanation
Indices: 12968361--12968415 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
12968351 AGAATGACTG
12968361 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
12968375 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
12968394 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
12968408 TCGCAACG
1 TCGCAACG
12968416 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:12968428 original size:33 final size:33
Alignment explanation
Indices: 12968361--12968431 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
12968351 AGAATGACTG
***
12968361 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
12968394 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
12968427 TCGCA
1 TCGCA
12968432 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:12968449 original size:19 final size:19
Alignment explanation
Indices: 12968427--12968524 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
12968417 GAAACCAAAA
*
12968427 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
12968446 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
12968460 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
12968479 TCGCGTTGCGA--TTC-TA
1 TCGCGTTGCGATTTTCATT
* *
12968495 T--CGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
12968512 TCGCGTTGCGATT
1 TCGCGTTGCGATT
12968525 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 18 0.29
16 7 0.11
17 8 0.13
19 30 0.48
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:12968468 original size:14 final size:14
Alignment explanation
Indices: 12968449--12968538 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
12968439 TTTCATTTCG
12968449 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
12968463 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
12968482 CGTTGCGATTCTAT
1 CGTTGCGATTCTCT
12968496 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
12968513 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
12968529 CGTTGCGATT
1 CGTTGCGATT
12968539 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 27 0.44
15 1 0.02
16 8 0.13
17 7 0.11
18 1 0.02
19 18 0.29
ACGTcount: A:0.10, C:0.24, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:12968474 original size:33 final size:33
Alignment explanation
Indices: 12968432--12968546 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
12968422 CAAAATCGCA
12968432 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
12968465 TTGCGATTTTCATTTCGCGTTGCGATTCTATCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
12968498 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
12968531 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
12968547 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:12969828 original size:37 final size:38
Alignment explanation
Indices: 12969786--12969857 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
12969776 AATTGATTGT
*
12969786 TTTTTGATTG-TTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
12969823 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
12969858 TGTAAAAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 10 0.30
38 23 0.70
ACGTcount: A:0.29, C:0.01, G:0.17, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:12969858 original size:14 final size:14
Alignment explanation
Indices: 12969839--12969874 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
12969829 ATTGTTTAAT
12969839 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
12969853 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
12969867 TGATTTGT
1 TGATTTGT
12969875 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:12969997 original size:19 final size:19
Alignment explanation
Indices: 12969981--12970082 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
12969971 AAAAATGACT
12969981 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
12970000 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
12970019 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
12970033 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
12970052 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
12970072 ATCGCAATGCG
1 ATCGCAATGCG
12970083 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:12970135 original size:19 final size:19
Alignment explanation
Indices: 12970111--12970417 Score: 358
Period size: 19 Copynumber: 17.4 Consensus size: 19
12970101 GATTATCTCG
12970111 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
12970130 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
12970149 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
12970163 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
12970182 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
12970201 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
12970220 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
12970239 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
12970254 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
12970272 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
12970291 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
12970305 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
12970324 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
12970343 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
12970357 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
12970377 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
12970391 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
12970410 TTGCGATT
1 TTGCGATT
12970418 GTATTTTCCG
Statistics
Matches: 249, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
14 32 0.13
15 2 0.01
16 31 0.12
17 28 0.11
18 5 0.02
19 139 0.56
20 12 0.05
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:12970186 original size:71 final size:71
Alignment explanation
Indices: 12970111--12970350 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
12970101 GATTATCTCG
12970111 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
12970176 TTCGCA
66 TTCGCA
* *
12970182 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
* *
12970245 TT-ATGTCG-G
61 TTCATTTCGCA
*
12970254 TT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
12970318 TTCGCA
66 TTCGCA
12970324 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
12970351 CTCTCGTTGC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 6 0.04
68 6 0.04
69 7 0.05
70 2 0.01
71 107 0.71
72 2 0.01
73 7 0.05
74 7 0.05
76 6 0.04
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:12970270 original size:142 final size:136
Alignment explanation
Indices: 12970079--12970417 Score: 504
Period size: 142 Copynumber: 2.4 Consensus size: 136
12970069 AAAATCGCAA
12970079 TGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTT-TAATTTCGCATTGCGATTAT-TCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
*
12970143 TTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
64 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-
*
12970208 TTTCATTTCGTAT
128 -TTC-TCTCG--T
12970221 TGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTTTAATTTCGCATTGCGATTAT-TC-GTTGCGATTTTCATTTCGCATTGCGATTTTCAT
12970285 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
64 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
12970350 TCTCTCGT
129 TCTCTCGT
* * *
12970358 TGCGATTTTCATTTCCGCATTGCGATT-TTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTAATTT-CGCATTGCGATTATTC--GTTGCGATTTTCATTTCGCATTGCGATT
12970418 GTATTTTCCG
Statistics
Matches: 185, Mismatches: 7, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
136 2 0.01
137 18 0.10
138 34 0.18
139 4 0.02
140 3 0.02
142 118 0.64
143 6 0.03
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (136 bp):
TGCGATTTTAATTTCGCATTGCGATTATTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTC
TCTCGT
Found at i:12970356 original size:52 final size:52
Alignment explanation
Indices: 12970111--12970389 Score: 354
Period size: 52 Copynumber: 5.2 Consensus size: 52
12970101 GATTATCTCG
*
12970111 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
12970163 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* * *
12970220 TTGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCGATTTTCATTTCGCA
12970272 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
12970324 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
12970377 TTGCGATTTTCAT
1 TTGCGATTTTCAT
12970390 GTTGGGATTT
Statistics
Matches: 212, Mismatches: 7, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
51 3 0.01
52 152 0.72
53 19 0.09
54 6 0.03
55 8 0.04
57 24 0.11
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:12972955 original size:24 final size:24
Alignment explanation
Indices: 12972921--12972967 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12972911 CTGAAACATC
12972921 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
12972945 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
12972968 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:12973668 original size:20 final size:20
Alignment explanation
Indices: 12973640--12974007 Score: 440
Period size: 20 Copynumber: 18.4 Consensus size: 20
12973630 AAATTTCAGT
* * * *
12973640 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
12973660 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
12973680 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
12973700 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
*
12973720 GTTGCGA-TTACGGATATGC
1 GTTGCGATTTACGGATACGC
*
12973739 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
12973759 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
12973779 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
12973799 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
12973819 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
12973839 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
12973859 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
12973879 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
12973899 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
12973919 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
12973939 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
12973959 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
12973979 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
12973999 GTTGCGATT
1 GTTGCGATT
12974008 ATGGAAAATC
Statistics
Matches: 307, Mismatches: 32, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
18 2 0.01
19 18 0.06
20 282 0.92
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:12974096 original size:14 final size:14
Alignment explanation
Indices: 12974077--12974113 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
12974067 CTGGAAACGA
12974077 TTGCGATTTTCGCG
1 TTGCGATTTTCGCG
12974091 TTGCGA-TTTCGCG
1 TTGCGATTTTCGCG
12974104 TTGCGATTTT
1 TTGCGATTTT
12974114 GTTGGTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.08, C:0.19, G:0.27, T:0.46
Consensus pattern (14 bp):
TTGCGATTTTCGCG
Found at i:12977245 original size:8 final size:8
Alignment explanation
Indices: 12977232--12977272 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
12977222 CTCATTTTCA
12977232 GAGAATTT
1 GAGAATTT
12977240 GAGAATTT
1 GAGAATTT
*
12977248 -AGAGTTT
1 GAGAATTT
*
12977255 GGGAATTT
1 GAGAATTT
12977263 GAGAATTT
1 GAGAATTT
12977271 GA
1 GA
12977273 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:12977573 original size:128 final size:128
Alignment explanation
Indices: 12977345--12978355 Score: 1578
Period size: 128 Copynumber: 7.9 Consensus size: 128
12977335 ATCGGAGTAT
* *
12977345 TATTCACATGAAGGAGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
12977410 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
* * *
12977473 TATTCACATGAAGGCACGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
*
12977538 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*** * *
12977601 -AGGGGACATGAAGGCGCGTTCCCGGGGGCGCACCTTCCATTATTTCGTCATAGAATATGTTATC
1 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
* * **
12977665 ATTGCCCTATTATATCACTCATGTCCCTTGGGGACACCCGATATATCAGTACCTATTATTTCAC
65 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
* * *
12977729 TATTCACATGAAGGTGTGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
* * *
12977794 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATTAGTACCTGTTATTTCTC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*** * * *
12977857 -AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGCCATAGAATATGTTATC
1 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
* *
12977921 ATTGCCCTATTATGTTACTCATGTCCCTCGGGGACACTCGATATATCAGTACCTATTATTTCAC
65 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
* *
12977985 TATTCACATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
* *
12978050 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACCCTAGATATATCAGTACCTATTATTTCTC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*** * * * * *
12978113 -AGGGGATATGAAGGCGCGTTCCCGGGGGCGCGCCTTTCATTATTTTGCCATAGAATATGTTATC
1 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
**
12978177 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCAC
65 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
12978241 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
*
12978306 TTGCCCTATTATGTCCCTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
12978356 AATCAGGTAA
Statistics
Matches: 792, Mismatches: 85, Indels: 12
0.89 0.10 0.01
Matches are distributed among these distances:
127 3 0.00
128 786 0.99
129 3 0.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
Found at i:12977805 original size:256 final size:256
Alignment explanation
Indices: 12977350--12978355 Score: 1778
Period size: 256 Copynumber: 3.9 Consensus size: 256
12977340 AGTATTATTC
* * * *
12977350 ACATGAAGGAGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGCCATAGAATATGTTATCATTGCC
**
12977415 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
66 CTATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCAC
*
12977480 ATGAAGGCACGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCT
131 ATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCT
12977545 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGG
196 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGG
* *
12977606 ACATGAAGGCGCGTTCCCGGGGGCGCACCTTCCATTATTTCGTCATAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGCCATAGAATATGTTATCATTGCC
* *
12977671 CTATTATATCACTCATGTCCCTTGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCAC
66 CTATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCAC
* * *
12977736 ATGAAGGTGTGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCT
131 ATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCT
* *
12977801 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATTAGTACCTGTTATTTCTCAGGGG
196 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGG
*
12977862 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGCCATAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGCCATAGAATATGTTATCATTGCC
* *
12977927 CTATTATGTTACTCATGTCCCTCGGGGACACTCGATATATCAGTACCTATTATTTCACTATTCAC
66 CTATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCAC
12977992 ATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCT
131 ATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCT
*
12978057 ATTATGTCACTCATGTCCCTCGGGGACCCTAGATATATCAGTACCTATTATTTCTCAGGGG
196 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGG
* * *
12978118 ATATGAAGGCGCGTTCCCGGGGGCGCGCCTTTCATTATTTTGCCATAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGCCATAGAATATGTTATCATTGCC
12978183 CTATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCAC
66 CTATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCAC
* *
12978248 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCT
131 ATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCT
*
12978313 ATTATGTCCCTCATGTCCCTCGGGGACACTAGATATATCAGTA
196 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
12978356 AATCAGGTAA
Statistics
Matches: 715, Mismatches: 35, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
256 715 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (256 bp):
ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGCCATAGAATATGTTATCATTGCC
CTATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCAC
ATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCT
ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGG
Found at i:12978817 original size:33 final size:34
Alignment explanation
Indices: 12978756--12978855 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
12978746 AAATTTAATG
*
12978756 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
12978790 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
12978823 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
12978856 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:12981236 original size:17 final size:19
Alignment explanation
Indices: 12981214--12981257 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
12981204 ATAATTATAT
12981214 AAATATTAT-TTTA-ATAA
1 AAATATTATATTTACATAA
*
12981231 AAATATAATATTTACATAA
1 AAATATTATATTTACATAA
*
12981250 ATATATTA
1 AAATATTA
12981258 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 10 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATATTATATTTACATAA
Found at i:12981249 original size:19 final size:18
Alignment explanation
Indices: 12981201--12981288 Score: 55
Period size: 17 Copynumber: 5.1 Consensus size: 18
12981191 TTCTAAATAA
* *
12981201 ATAATAATT-ATATAAAT
1 ATAATATTTAATAAAAAT
*
12981218 ATTAT-TTTAATAAAAAT
1 ATAATATTTAATAAAAAT
*
12981235 ATAATATTTACATAAATAT
1 ATAATATTTA-ATAAAAAT
12981254 ATTAATA--T-A-AAAAAT
1 A-TAATATTTAATAAAAAT
12981269 AATAACTATTTAA-AAAAAT
1 -ATAA-TATTTAATAAAAAT
12981288 A
1 A
12981289 CTAACATAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
15 8 0.14
16 6 0.11
17 15 0.27
18 7 0.12
19 15 0.27
20 5 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATATTTAATAAAAAT
Found at i:12981298 original size:34 final size:34
Alignment explanation
Indices: 12981229--12981300 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
12981219 TTATTTTAAT
* * *
12981229 AAAAATATAATATTTACATAAATATATTAATATA
1 AAAAATATAATATTTACATAAAAATACTAACATA
12981263 AAAAATAATAACTATTTA-A-AAAAATACTAACATA
1 AAAAAT-ATAA-TATTTACATAAAAATACTAACATA
12981297 AAAA
1 AAAA
12981301 TAAATTTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 22 0.67
35 5 0.15
36 6 0.18
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (34 bp):
AAAAATATAATATTTACATAAAAATACTAACATA
Found at i:12987787 original size:60 final size:60
Alignment explanation
Indices: 12987694--12987824 Score: 235
Period size: 60 Copynumber: 2.2 Consensus size: 60
12987684 TTATGCACAA
*
12987694 GATATCAATACTTTCATCCATGTATCGATATCAAACCTTAGAAATCATTACTAAATATAT
1 GATATCAATACTTTCATCCATGTATCGATATCAAACCTTAGAAATCATTACTAAAGATAT
*
12987754 GATATCAATGCTTTCATCCATGTATCGATATCAAACCTTAGAAATCATTACTAAAGATAT
1 GATATCAATACTTTCATCCATGTATCGATATCAAACCTTAGAAATCATTACTAAAGATAT
*
12987814 TATATCAATAC
1 GATATCAATAC
12987825 CAAAATAAAC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 67 1.00
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (60 bp):
GATATCAATACTTTCATCCATGTATCGATATCAAACCTTAGAAATCATTACTAAAGATAT
Found at i:12989496 original size:3 final size:3
Alignment explanation
Indices: 12989484--12989525 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
12989474 TCACTTTTAT
12989484 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12989526 TATTATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:12990948 original size:19 final size:20
Alignment explanation
Indices: 12990909--12990957 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
12990899 ATGTTTAGCC
12990909 ATTATAATATTAAATAATTA
1 ATTATAATATTAAATAATTA
* *
12990929 ATTATAA-ATTAGATATTTA
1 ATTATAATATTAAATAATTA
*
12990948 ATTTTAATAT
1 ATTATAATAT
12990958 ATTCTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTATAATATTAAATAATTA
Found at i:12991141 original size:28 final size:28
Alignment explanation
Indices: 12991088--12991141 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
12991078 TTTGAATTTA
* *
12991088 AATATTAATTATTATTATTTTATTTTTT
1 AATATAAATTATTATTATTCTATTTTTT
*
12991116 AATATAAATTATT-TTAATTCTGTTTT
1 AATATAAATTATTATT-ATTCTATTTT
12991142 AATATTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 20 0.91
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (28 bp):
AATATAAATTATTATTATTCTATTTTTT
Found at i:12991306 original size:142 final size:139
Alignment explanation
Indices: 12991136--12991409 Score: 336
Period size: 142 Copynumber: 1.9 Consensus size: 139
12991126 ATTTTAATTC
* * * *
12991136 TGTTTTAATATTTATTTATTTTTCAATAT-TAAG-AAAGGGCGGTCTTAAAACAACTGGATGTCT
1 TGTTTTAATATTTATTTATTTTTCAATATCGAAGAAAAGAGCGGTCTTAAAACAACTAGAAGTC-
* * *
12991199 ATTTTCTGATATTTTTAAATAAATAAATATCCTATTTTATAAATTATATATTAATATATTATTAT
65 ATTTTCTGATATTTCTAAATAAATAAATATCCTA-TTTATAAATTATATATAAAT-TAATATT-T
12991264 TTTTTTAGAAAAA
127 TTTTTTAGAAAAA
* * ** *
12991277 TGTTTTAATTATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTC
1 TGTTTTAA-TATTTATTTATTTTTCAATATCGAAGAAAAGAGCGGTCTTAAAACAACTAGAAGTC
* ** **
12991342 CTTTTCTGATATTTCTAAATAAATAAATATTTTATTTATATTTTATATATAAATTAATATTTTTT
65 ATTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATTATATATAAATTAATATTTTTT
12991407 TTT
130 TTT
12991410 CATAATTATA
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
140 7 0.06
141 14 0.12
142 37 0.33
143 33 0.29
144 22 0.19
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (139 bp):
TGTTTTAATATTTATTTATTTTTCAATATCGAAGAAAAGAGCGGTCTTAAAACAACTAGAAGTCA
TTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATTATATATAAATTAATATTTTTTT
TTAGAAAAA
Found at i:12992037 original size:43 final size:43
Alignment explanation
Indices: 12991989--12992075 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
12991979 AAATTTTATT
12991989 ATTTATTGTCTGTCAAAGGTTTGAATATTTCTCCTCGCACACA
1 ATTTATTGTCTGTCAAAGGTTTGAATATTTCTCCTCGCACACA
*
12992032 ATTTATTGTCTGTCAGAGGTTTGAATATTTCTCCTCGCACACA
1 ATTTATTGTCTGTCAAAGGTTTGAATATTTCTCCTCGCACACA
12992075 A
1 A
12992076 CACTTGCATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (43 bp):
ATTTATTGTCTGTCAAAGGTTTGAATATTTCTCCTCGCACACA
Found at i:12996326 original size:165 final size:165
Alignment explanation
Indices: 12996039--12996348 Score: 514
Period size: 165 Copynumber: 1.9 Consensus size: 165
12996029 GTAAAATTGG
*
12996039 AGGAGGCTGAATAGATCCAAGCTTGATTTGATCAATTAAGCCTTATTGATGAGATGAGATTGAAA
1 AGGAGACTGAATAGATCCAAGCTTGATTTGATCAATTAAGCCTTATTGATGAGATGAGATTGAAA
*
12996104 GCTATTTGCCATGGGCAGATATATCAAAAATGGATGATGAAAGATCATAAAAAGAAAGTACATCC
66 GCTATTTGCCATGGGCAGATATATCAAAAATGGATGATGAAAGATCACAAAAAGAAAGTACATCC
12996169 AAGAGAGTTCCAAGATGTTGATATAGTGCTAAAAA
131 AAGAGAGTTCCAAGATGTTGATATAGTGCTAAAAA
* * *
12996204 AGGAGACTGAATAGATCCAAGCTTTATTTGATCAATTAAGCTTTATTGATGAGAATG-TATTGAA
1 AGGAGACTGAATAGATCCAAGCTTGATTTGATCAATTAAGCCTTATTGATGAG-ATGAGATTGAA
* * * *
12996268 AGCTATTTGCCATGGGCAGATGTATCAGAAGTGGATGATGAAAGATCACAACAAGAAAGTACATC
65 AGCTATTTGCCATGGGCAGATATATCAAAAATGGATGATGAAAGATCACAAAAAGAAAGTACATC
*
12996333 TAAGAGAGTTCCAAGA
130 CAAGAGAGTTCCAAGA
12996349 GAGCGATCTA
Statistics
Matches: 134, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
165 131 0.98
166 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (165 bp):
AGGAGACTGAATAGATCCAAGCTTGATTTGATCAATTAAGCCTTATTGATGAGATGAGATTGAAA
GCTATTTGCCATGGGCAGATATATCAAAAATGGATGATGAAAGATCACAAAAAGAAAGTACATCC
AAGAGAGTTCCAAGATGTTGATATAGTGCTAAAAA
Found at i:12996558 original size:8 final size:8
Alignment explanation
Indices: 12996539--12996610 Score: 99
Period size: 8 Copynumber: 8.8 Consensus size: 8
12996529 TATTATGCTT
12996539 GAAAAAATA
1 GAAAAAA-A
12996548 GAAAAAAA
1 GAAAAAAA
*
12996556 GAAAAAAG
1 GAAAAAAA
12996564 GAAAAAAA
1 GAAAAAAA
12996572 GAAAAAAA
1 GAAAAAAA
*
12996580 AAGAAAAAA
1 GA-AAAAAA
*
12996589 GAAAAAAG
1 GAAAAAAA
12996597 GAAAAAAA
1 GAAAAAAA
12996605 GAAAAA
1 GAAAAA
12996611 TTGAACCAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
8 42 0.75
9 14 0.25
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (8 bp):
GAAAAAAA
Found at i:12996560 original size:7 final size:7
Alignment explanation
Indices: 12996550--12996610 Score: 72
Period size: 7 Copynumber: 8.7 Consensus size: 7
12996540 AAAAAATAGA
12996550 AAAAAAG
1 AAAAAAG
12996557 AAAAAAG
1 AAAAAAG
*
12996564 GAAAAA-
1 AAAAAAG
*
12996570 AAGAAA-
1 AAAAAAG
12996576 AAAAAAG
1 AAAAAAG
12996583 AAAAAAG
1 AAAAAAG
12996590 AAAAAAGG
1 AAAAAA-G
12996598 AAAAAAAG
1 -AAAAAAG
12996606 AAAAA
1 AAAAA
12996611 TTGAACCAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
6 9 0.19
7 30 0.64
8 2 0.04
9 6 0.13
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:12996576 original size:33 final size:33
Alignment explanation
Indices: 12996540--12996610 Score: 124
Period size: 33 Copynumber: 2.1 Consensus size: 33
12996530 ATTATGCTTG
*
12996540 AAAAAATAGAAAAAAAGAAAAAAGGAAAAAAAGA
1 AAAAAAAAG-AAAAAAGAAAAAAGGAAAAAAAGA
12996574 AAAAAAAAGAAAAAAGAAAAAAGGAAAAAAAGA
1 AAAAAAAAGAAAAAAGAAAAAAGGAAAAAAAGA
12996607 AAAA
1 AAAA
12996611 TTGAACCAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 28 0.78
34 8 0.22
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.01
Consensus pattern (33 bp):
AAAAAAAAGAAAAAAGAAAAAAGGAAAAAAAGA
Found at i:12996578 original size:26 final size:25
Alignment explanation
Indices: 12996540--12996604 Score: 94
Period size: 26 Copynumber: 2.6 Consensus size: 25
12996530 ATTATGCTTG
* *
12996540 AAAAAATAGAAAAAAAGAAAAAAGGA
1 AAAAAAGAAAAAAAAAGAAAAAA-GA
12996566 AAAAAAGAAAAAAAAAGAAAAAAGA
1 AAAAAAGAAAAAAAAAGAAAAAAGA
*
12996591 AAAAAGGAAAAAAA
1 AAAAAAGAAAAAAA
12996605 GAAAAATTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.02
Consensus pattern (25 bp):
AAAAAAGAAAAAAAAAGAAAAAAGA
Found at i:12996603 original size:10 final size:9
Alignment explanation
Indices: 12996539--12996610 Score: 66
Period size: 9 Copynumber: 8.7 Consensus size: 9
12996529 TATTATGCTT
*
12996539 GAAAAAATA
1 GAAAAAAAA
12996548 G-AAAAAAA
1 GAAAAAAAA
12996556 G--AAAAAA
1 GAAAAAAAA
*
12996563 GGAAAAAAA
1 GAAAAAAAA
12996572 GAAAAAAAA
1 GAAAAAAAA
*
12996581 -AGAAAAAA
1 GAAAAAAAA
12996589 G--AAAAAA
1 GAAAAAAAA
*
12996596 GGAAAAAAA
1 GAAAAAAAA
12996605 GAAAAA
1 GAAAAA
12996611 TTGAACCAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
7 14 0.26
8 14 0.26
9 26 0.48
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:13000863 original size:54 final size:53
Alignment explanation
Indices: 13000781--13000935 Score: 192
Period size: 50 Copynumber: 2.9 Consensus size: 53
13000771 TTGAGAAATT
* *
13000781 TGAGCAGAAGCCAAAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATC
1 TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATG-TTTACGAACATC
* *
13000835 TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAGTGTTT---TACATC
1 TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTACGAACATC
* * *
13000885 TGAGCAGAAACCACATG-AGATGATGCATGTGTTGTCAAATGTTTTACGAAC
1 TGAGCAGAAACCACA-GAAAAGGATGAATGTGTTGTCAAATG-TTTACGAAC
13000936 CAGTTATTCT
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
50 40 0.46
51 4 0.05
53 3 0.03
54 40 0.46
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (53 bp):
TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTACGAACATC
Found at i:13001328 original size:22 final size:22
Alignment explanation
Indices: 13001302--13001378 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
13001292 ATCTACACTC
* *
13001302 TTCAAATATGATAGATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
*
13001324 TTCAAAGATGATATATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
*
13001346 TTTAAAGATGATAAATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
13001368 TTCAAAGATGA
1 TTCAAAGATGA
13001379 AAGCTTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (22 bp):
TTCAAAGATGATAAATTCTCTT
Found at i:13002495 original size:76 final size:76
Alignment explanation
Indices: 13002052--13002461 Score: 748
Period size: 76 Copynumber: 5.4 Consensus size: 76
13002042 CTATTTCCCA
* *
13002052 CATCTGTAAGTCCTACAGTGCATTATATTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
13002117 AGCCTTCGGGT
66 AGCCTTAGGGT
13002128 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
13002193 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
13002204 CATCTATAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
13002269 AGCCTTAGGGT
66 AGCCTTAGGGT
13002280 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
13002345 AGCCTTAAGGT
66 AGCCTTAGGGT
13002356 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
13002421 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
13002432 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
13002462 TTAAGACCTC
Statistics
Matches: 323, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 323 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:13002625 original size:3 final size:3
Alignment explanation
Indices: 13002613--13002654 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
13002603 TCACTTTTAT
13002613 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13002655 TATTATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:13002659 original size:3 final size:3
Alignment explanation
Indices: 13002653--13002680 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13002643 AATAATAATA
13002653 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13002681 AATACATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:13004058 original size:19 final size:20
Alignment explanation
Indices: 13004019--13004067 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
13004009 ATGTTTAGCT
13004019 ATTATAATATTAAATAATTA
1 ATTATAATATTAAATAATTA
* *
13004039 ATTATAA-ATTAGATATTTA
1 ATTATAATATTAAATAATTA
*
13004058 ATTTTAATAT
1 ATTATAATAT
13004068 ATTCTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTATAATATTAAATAATTA
Found at i:13004470 original size:141 final size:141
Alignment explanation
Indices: 13004229--13004483 Score: 320
Period size: 141 Copynumber: 1.8 Consensus size: 141
13004219 TATTTTAATC
* * * *
13004229 ATGTTTTAATATTTATTTATTTTTCAATATTAAGAAAGGGCAGTCTTAAAACAACTGGATGTCCA
1 ATGTTTTAATATTTATTTATTTTTCAATATGAAGAAAGAGCAGTCTTAAAACAACTAGAAGTCCA
*
13004294 TTTTCTAATATTTTTAAATAAATAAATATCCTATTTTATAAATTATATATTATTATATTATTATT
66 TTTTCTAATATTTCTAAATAAATAAATATCCTA-TTTATAAATTATATATTATTATATTATTATT
13004359 ATTTTTATAAAA
130 ATTTTTATAAAA
* ** *
13004371 ATGTTTTAATTATTTA-TT-TTTTT-AATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGT
1 ATGTTTTAA-TATTTATTTATTTTTCAATAT-GAAG-AAAGAGCAGTCTTAAAACAACTAGAAGT
* ** **
13004433 CC-TTTTCTGATATTTCTAAATAAATAAATATTTTATTTATATTTTATATAT
63 CCATTTTCTAATATTTCTAAATAAATAAATATCCTATTTATAAATTATATAT
13004484 AAATTAATAT
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
140 19 0.20
141 37 0.39
142 34 0.35
143 6 0.06
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (141 bp):
ATGTTTTAATATTTATTTATTTTTCAATATGAAGAAAGAGCAGTCTTAAAACAACTAGAAGTCCA
TTTTCTAATATTTCTAAATAAATAAATATCCTATTTATAAATTATATATTATTATATTATTATTA
TTTTTATAAAA
Found at i:13004510 original size:30 final size:30
Alignment explanation
Indices: 13004452--13004510 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
13004442 ATATTTCTAA
*
13004452 ATAAATAAATATTTTATTTATATTTTATAT
1 ATAAATAAATATTTTATTTATATATTATAT
* *
13004482 ATAAATTAATATTTTTTTTCATA-ATTATA
1 ATAAATAAATATTTTATTT-ATATATTATA
13004511 ACTTTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
ATAAATAAATATTTTATTTATATATTATAT
Found at i:13007143 original size:44 final size:41
Alignment explanation
Indices: 13007094--13007220 Score: 103
Period size: 44 Copynumber: 3.2 Consensus size: 41
13007084 TTAAATATTA
13007094 TATTTTATCTTTGTTTTAGGCATTTTAGCTTAAATAAGTTTTAG
1 TATTTTATCTTTGTTTTAGG-ATTTTAG-TTAAAT-AGTTTTAG
**
13007138 TATTTTAAT-TAAGTTTTAGGA---TA-TT--AT--TTTTA-
1 TATTTT-ATCTTTGTTTTAGGATTTTAGTTAAATAGTTTTAG
13007170 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAG
1 TATTTTATCTTTGTTTTAGG-ATTTTAG-TTAAATA-GTTTTAG
13007214 TATTTTA
1 TATTTTA
13007221 ATTAGGATTT
Statistics
Matches: 65, Mismatches: 4, Indels: 28
0.67 0.04 0.29
Matches are distributed among these distances:
31 2 0.03
32 15 0.23
33 6 0.09
36 4 0.06
38 4 0.06
40 4 0.06
43 6 0.09
44 22 0.34
45 2 0.03
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (41 bp):
TATTTTATCTTTGTTTTAGGATTTTAGTTAAATAGTTTTAG
Found at i:13007203 original size:76 final size:76
Alignment explanation
Indices: 13007091--13007252 Score: 252
Period size: 76 Copynumber: 2.1 Consensus size: 76
13007081 ATTTTAAATA
*
13007091 TTATATTTTATCTTTGTTTTAGGCATTTTAGCTTAAATAAGTTTTAGTATTTTAATTAAGTTTTA
1 TTATATTTTATCTTTGTTTTAGGCATTTTAGCTTAAATAAGTTTTAGTATTTTAATTAAGATTTA
*
13007156 GGATATTATTT
66 GAATATTATTT
* * * *
13007167 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTA
1 TTATATTTTATCTTTGTTTTAGGCATTTTAGCTTAAATAAGTTTTAGTATTTTAATTAAGATTTA
13007232 GAATATTATTT
66 GAATATTATTT
*
13007243 TAAATATTTT
1 T-TATATTTT
13007253 TAATATTTTA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
76 71 0.91
77 7 0.09
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.57
Consensus pattern (76 bp):
TTATATTTTATCTTTGTTTTAGGCATTTTAGCTTAAATAAGTTTTAGTATTTTAATTAAGATTTA
GAATATTATTT
Found at i:13007252 original size:9 final size:9
Alignment explanation
Indices: 13007238--13007268 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13007228 TTTAGAATAT
13007238 TATTTTAAA
1 TATTTTAAA
*
13007247 TATTTTTAA
1 TATTTTAAA
13007256 TATTTTAAA
1 TATTTTAAA
13007265 TATT
1 TATT
13007269 ATTATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TATTTTAAA
Found at i:13007261 original size:18 final size:18
Alignment explanation
Indices: 13007238--13007279 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
13007228 TTTAGAATAT
*
13007238 TATTTTAAATATTTTTAA
1 TATTTTAAATATTATTAA
*
13007256 TATTTTAAATATTATTAT
1 TATTTTAAATATTATTAA
13007274 TATTTT
1 TATTTT
13007280 TAGGTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTTTAAATATTATTAA
Found at i:13007955 original size:18 final size:19
Alignment explanation
Indices: 13007917--13007960 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
13007907 CTTTAATTTG
*
13007917 TTTATTTAATTATTTTA-T
1 TTTATTTAATTATTATATT
* *
13007935 TTTATTTAATTCTTATCTT
1 TTTATTTAATTATTATATT
13007954 TTTATTT
1 TTTATTT
13007961 TAAAAATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTATTTAATTATTATATT
Done.