Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 117 of 320
Found at i:38192110 original size:40 final size:40
Alignment explanation
Indices: 38192033--38192176 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
38192023 TACTCGAATG
* *
38192033 ATATCC-GGCTAAGTCCCGAAAGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
38192073 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
38192113 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
38192153 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
38192177 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 67 0.74
41 21 0.23
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:38204690 original size:14 final size:14
Alignment explanation
Indices: 38204643--38204690 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
38204633 GTACGAATGG
*
38204643 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
38204657 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
38204671 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
38204685 ATTGGT
1 AATGGT
38204691 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:38205294 original size:14 final size:14
Alignment explanation
Indices: 38205275--38205319 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
38205265 AACTCATCTT
*
38205275 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
38205289 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
38205302 AATTTAATTTAATG
1 AGTTTAATTTAATG
38205316 AGTT
1 AGTT
38205320 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:38206327 original size:29 final size:29
Alignment explanation
Indices: 38206294--38206353 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
38206284 ATAACCAAAC
*
38206294 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
38206323 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
38206352 CT
1 CT
38206354 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:38206346 original size:15 final size:15
Alignment explanation
Indices: 38206300--38206347 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
38206290 AAACCTACAA
*
38206300 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
38206315 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
38206329 AAACTTCATATCCAT
1 AAACTTCATATCCAT
38206344 AAAC
1 AAAC
38206348 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:38206630 original size:14 final size:14
Alignment explanation
Indices: 38206595--38206632 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
38206585 ACAAAAAAAA
38206595 TGAAAAAAAAATTC
1 TGAAAAAAAAATTC
*
38206609 -AAACAAAAAAATTC
1 TGAA-AAAAAAATTC
38206623 TGAAAAAAAA
1 TGAAAAAAAA
38206633 CAAAATCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.10
14 16 0.80
15 2 0.10
ACGTcount: A:0.71, C:0.08, G:0.05, T:0.16
Consensus pattern (14 bp):
TGAAAAAAAAATTC
Found at i:38210145 original size:14 final size:14
Alignment explanation
Indices: 38210126--38210170 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
38210116 AACTCATCTT
*
38210126 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
38210140 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
38210153 AATTTAATTTAATG
1 AGTTTAATTTAATG
38210167 AGTT
1 AGTT
38210171 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:38211177 original size:29 final size:29
Alignment explanation
Indices: 38211144--38211203 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
38211134 ATAACCAAAC
*
38211144 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
38211173 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
38211202 CT
1 CT
38211204 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:38211196 original size:15 final size:15
Alignment explanation
Indices: 38211150--38211197 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
38211140 AAACCTACAA
*
38211150 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
38211165 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
38211179 AAACTTCATATCCAT
1 AAACTTCATATCCAT
38211194 AAAC
1 AAAC
38211198 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:38214337 original size:18 final size:19
Alignment explanation
Indices: 38214316--38214352 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
38214306 TTATACAAGT
*
38214316 TAAAAAAAATTC-AAAAAA
1 TAAAAAAAAATCGAAAAAA
38214334 TAAAAAAAAATCGAAAAAA
1 TAAAAAAAAATCGAAAAAA
38214353 AGTGATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (19 bp):
TAAAAAAAAATCGAAAAAA
Found at i:38218993 original size:21 final size:22
Alignment explanation
Indices: 38218967--38219010 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
38218957 AAACGAGCTC
38218967 GTTGAGCTAAGTTGAG-TTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
* *
38218988 GTTGAGCTGATTTGAGCTTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
38219010 G
1 G
38219011 GAGTATGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.25, C:0.07, G:0.34, T:0.34
Consensus pattern (22 bp):
GTTGAGCTAAGTTGAGCTTGAA
Found at i:38226600 original size:27 final size:27
Alignment explanation
Indices: 38226561--38226738 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
38226551 ACATTGAGCC
* * * *
38226561 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
38226588 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
38226615 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
38226643 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38226670 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
38226697 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
38226724 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
38226739 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38226700 original size:82 final size:81
Alignment explanation
Indices: 38226582--38226737 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
38226572 TGCTATATAA
* * * **
38226582 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
38226647 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38226664 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
38226728 CCCTTAGTGC
65 CACTTAGTGC
38226738 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38232513 original size:14 final size:14
Alignment explanation
Indices: 38232494--38232527 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
38232484 TTCTTTTCAT
38232494 TCTTTTTATTTTTC
1 TCTTTTTATTTTTC
*
38232508 TCTTTTTCTTTTTC
1 TCTTTTTATTTTTC
38232522 TCTTTT
1 TCTTTT
38232528 AATAGATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTTTATTTTTC
Found at i:38234027 original size:46 final size:44
Alignment explanation
Indices: 38233884--38234027 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
38233874 CCCGCCCATA
* *
38233884 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
38233933 --TGAACTCGGACTCAACTCAAAGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
38233976 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
38234023 AGTGA
1 AGTGA
38234028 CATATCACTT
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
45 1 0.01
46 31 0.41
47 26 0.35
48 5 0.07
49 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:38241885 original size:23 final size:22
Alignment explanation
Indices: 38241833--38241885 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38241823 TCCACGTCTT
*
38241833 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38241855 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38241878 TTTCTTTT
1 TTTCTTTT
38241886 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38250915 original size:23 final size:22
Alignment explanation
Indices: 38250864--38250915 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
38250854 CCTCGTCTTT
*
38250864 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
38250886 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
38250909 TTCTTTT
1 TTCTTTT
38250916 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:38257196 original size:30 final size:30
Alignment explanation
Indices: 38257142--38257226 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
38257132 TTCTTTTGTT
*
38257142 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTTCATCTTCTTTTTCAATC
**
38257172 TCAAATTTCTTTTTGTTC-TCTTTTTCAATC
1 TC-AATTTCTTTTTCATCTTCTTTTTCAATC
* * *
38257202 TCATTTTCTTTTACATTTTCTTTTT
1 TCAATTTCTTTTTCATCTTCTTTTT
38257227 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 10 0.22
30 22 0.49
31 13 0.29
ACGTcount: A:0.14, C:0.21, G:0.01, T:0.64
Consensus pattern (30 bp):
TCAATTTCTTTTTCATCTTCTTTTTCAATC
Found at i:38257244 original size:12 final size:12
Alignment explanation
Indices: 38257229--38257259 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
38257219 TTCTTTTTGC
38257229 TTTTCAAAGGCT
1 TTTTCAAAGGCT
38257241 TTTTCAAAGGCT
1 TTTTCAAAGGCT
38257253 TTTTCAA
1 TTTTCAA
38257260 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:38257315 original size:5 final size:5
Alignment explanation
Indices: 38257305--38257363 Score: 59
Period size: 5 Copynumber: 11.4 Consensus size: 5
38257295 GCCTCTTGCC
*
38257305 TTTCT TTTCT TTT-T ATTTCTT TTTCT TTT-T CTTCT TTTGCTT TTTCT
1 TTTCT TTTCT TTTCT -TTTC-T TTTCT TTTCT TTTCT TTT-C-T TTTCT
38257352 TTTCT TTTCT TT
1 TTTCT TTTCT TT
38257364 GTTTTCTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
4 4 0.09
5 31 0.67
6 6 0.13
7 5 0.11
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:38257325 original size:15 final size:14
Alignment explanation
Indices: 38257305--38257370 Score: 69
Period size: 16 Copynumber: 4.4 Consensus size: 14
38257295 GCCTCTTGCC
38257305 TTTCTTTTCTTTTT
1 TTTCTTTTCTTTTT
38257319 ATTTCTTTTTCTTTTT
1 -TTTC-TTTTCTTTTT
*
38257335 CTTCTTTTGCTTTTTCT
1 TTTCTTTT-C-TTTT-T
*
38257352 TTTCTTTTCTTTGT
1 TTTCTTTTCTTTTT
38257366 TTTCT
1 TTTCT
38257371 CTTTACAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
14 10 0.23
15 11 0.25
16 15 0.34
17 8 0.18
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTCTTTTCTTTTT
Found at i:38257364 original size:21 final size:21
Alignment explanation
Indices: 38257305--38257374 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
38257295 GCCTCTTGCC
*
38257305 TTTCTTTTCTTTT-TATTTCTT
1 TTTCTTTTCTTTTCT-TTGCTT
*
38257326 TTTCTTTT-TCTTCTTTTGCTT
1 TTTCTTTTCTTTTC-TTTGCTT
38257347 TTTCTTTTCTTTTCTTTG-TT
1 TTTCTTTTCTTTTCTTTGCTT
38257367 TTCTCTTT
1 TT-TCTTT
38257375 ACAATAATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 7 0.17
21 30 0.71
22 5 0.12
ACGTcount: A:0.01, C:0.17, G:0.03, T:0.79
Consensus pattern (21 bp):
TTTCTTTTCTTTTCTTTGCTT
Found at i:38258315 original size:10 final size:11
Alignment explanation
Indices: 38258278--38258329 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
38258268 ATTAAACACT
* *
38258278 TTTTTTTAGAT
1 TTTTTTTCGAA
*
38258289 TTTTTTTCAAAA
1 TTTTTTTC-GAA
*
38258301 TTTTTTTTGAA
1 TTTTTTTCGAA
38258312 TTTTTTTCGAA
1 TTTTTTTCGAA
38258323 TTTTTTT
1 TTTTTTT
38258330 TACTTGTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 26 0.76
12 8 0.24
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.71
Consensus pattern (11 bp):
TTTTTTTCGAA
Found at i:38258315 original size:23 final size:23
Alignment explanation
Indices: 38258277--38258331 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
38258267 CATTAAACAC
*
38258277 TTTTTTTTAGATTTTTTTTCAAAA
1 TTTTTTTTAGAATTTTTTTC-AAA
*
38258301 TTTTTTTT-GAATTTTTTTCGAA
1 TTTTTTTTAGAATTTTTTTCAAA
38258323 TTTTTTTTA
1 TTTTTTTTA
38258332 CTTGTATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 10 0.36
23 10 0.36
24 8 0.29
ACGTcount: A:0.20, C:0.04, G:0.05, T:0.71
Consensus pattern (23 bp):
TTTTTTTTAGAATTTTTTTCAAA
Found at i:38263880 original size:40 final size:40
Alignment explanation
Indices: 38263823--38263901 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
38263813 AGTAAGTTCG
*
38263823 GTTGAGCTCAAACGAGCT-GAAACGAGCT-TAAATGAGCTAA
1 GTTGAGCTCAAACGAGCTCGAAA--AGCTGGAAATGAGCTAA
*
38263863 GTTGAGCT-AGACAGAGCTCGAAAAGCTGGAAATGAGCTA
1 GTTGAGCTCAAAC-GAGCTCGAAAAGCTGGAAATGAGCTA
38263902 GGATCAGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
39 7 0.21
40 23 0.68
41 4 0.12
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (40 bp):
GTTGAGCTCAAACGAGCTCGAAAAGCTGGAAATGAGCTAA
Found at i:38265978 original size:12 final size:13
Alignment explanation
Indices: 38265960--38265996 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
38265950 TTCTCTTTTT
38265960 ATTTTTCACTTTC
1 ATTTTTCACTTTC
*
38265973 -TTTTTCAATTTC
1 ATTTTTCACTTTC
38265985 ATTTTTC-CTTTC
1 ATTTTTCACTTTC
38265997 CTTATTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.14, C:0.22, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTTTTCACTTTC
Found at i:38272789 original size:40 final size:40
Alignment explanation
Indices: 38272689--38272860 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
38272679 GCTCCTCGTT
* * *
38272689 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
38272729 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
38272768 CGAATGCCTTTGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
38272808 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
38272848 CAAATGCCTTCGG
1 CAAATGCCTTCGG
38272861 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.30
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:38272873 original size:80 final size:78
Alignment explanation
Indices: 38272689--38272913 Score: 220
Period size: 80 Copynumber: 2.8 Consensus size: 78
38272679 GCTCCTCGTT
* * * * *
38272689 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
38272753 ATTTAATAACTCGCA
64 ATTTAATAACTCGCA
* * * *
38272768 CGAATGCCTTTGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCC-TTCGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
38272833 AATTT-GTATCTCGCA
63 AATTTAATAACTCGCA
* * * * *
38272848 CAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCGG
38272913 A
63 A
38272914 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 68 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAAT
TTAATAACTCGCA
Found at i:38272922 original size:41 final size:41
Alignment explanation
Indices: 38272845--38272922 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38272835 TTTGTATCTC
* * *
38272845 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38272886 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38272923 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38274960 original size:93 final size:93
Alignment explanation
Indices: 38274848--38275019 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
38274838 CGCCCATAAG
*
38274848 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
38274912 AACGAGTTCAGATGCCTAGTTACATCTCA
65 AACGAGTTCAGATGCCTAGTTACATCTCA
*
38274941 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
38275006 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
38275020 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:38275016 original size:46 final size:47
Alignment explanation
Indices: 38274841--38275013 Score: 205
Period size: 46 Copynumber: 3.7 Consensus size: 47
38274831 TGTAACCCGC
* *
38274841 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGACATTCGCAT
* * *
38274887 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAG--GAC-A-TTCGCAT
*
38274937 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGACATTCGCAT
*
38274980 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
38275014 GGATGCTCAA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 2 0.02
46 61 0.56
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGACATTCGCAT
Found at i:38282528 original size:93 final size:93
Alignment explanation
Indices: 38282420--38282591 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
38282410 CGCCCATAAG
* *
38282420 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAG-TCAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
38282484 AACGAGTTCAGATGCCTAGTTACATCTCA
65 AACGAGTTCAGATGCCTAGTTACATCTCA
**
38282513 CGAACTCAGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTCAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
38282578 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
38282592 TCAATCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTCAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:38282607 original size:46 final size:46
Alignment explanation
Indices: 38282413--38282593 Score: 172
Period size: 46 Copynumber: 3.9 Consensus size: 46
38282403 TGTAACCCGC
* * *
38282413 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGCTCGCAT
* * *
38282459 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* * * * **
38282509 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
38282552 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
38282594 AATCATCCTA
Statistics
Matches: 105, Mismatches: 22, Indels: 16
0.73 0.15 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 3 0.03
46 64 0.61
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:38288712 original size:9 final size:9
Alignment explanation
Indices: 38288698--38288753 Score: 85
Period size: 9 Copynumber: 6.2 Consensus size: 9
38288688 AACACTTTAA
38288698 AAACACATT
1 AAACACATT
*
38288707 AAACACACT
1 AAACACATT
38288716 AAACACATT
1 AAACACATT
* *
38288725 AAGCACACT
1 AAACACATT
38288734 AAACACATT
1 AAACACATT
38288743 AAACACATT
1 AAACACATT
38288752 AA
1 AA
38288754 TTACTATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.55, C:0.25, G:0.02, T:0.18
Consensus pattern (9 bp):
AAACACATT
Found at i:38288721 original size:18 final size:18
Alignment explanation
Indices: 38288698--38288749 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
38288688 AACACTTTAA
38288698 AAACACATTAAACACACT
1 AAACACATTAAACACACT
*
38288716 AAACACATTAAGCACACT
1 AAACACATTAAACACACT
38288734 AAACACATTAAACACA
1 AAACACATTAAACACA
38288750 TTAATTACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (18 bp):
AAACACATTAAACACACT
Found at i:38288871 original size:34 final size:34
Alignment explanation
Indices: 38288833--38288904 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
38288823 CCAGTAATTA
* * *
38288833 AATTAATTAAGATAAAGATTTATTCTAACAACTC
1 AATTAACTAAGATAAAGATTGATTCCAACAACTC
* * * *
38288867 AATTAACTAAGTTGAATATTGATTCCAACAACTT
1 AATTAACTAAGATAAAGATTGATTCCAACAACTC
38288901 AATT
1 AATT
38288905 TAATAACTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.36
Consensus pattern (34 bp):
AATTAACTAAGATAAAGATTGATTCCAACAACTC
Found at i:38294495 original size:31 final size:32
Alignment explanation
Indices: 38294460--38294519 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
38294450 AGTTTCAAAA
* *
38294460 TCTA-TAGTTTTTAGAATCTAAAATTTCATAG
1 TCTATTAGTTTTCAAAATCTAAAATTTCATAG
* *
38294491 TCTATTTGTTTTCAAAATCTAAAGTTTCA
1 TCTATTAGTTTTCAAAATCTAAAATTTCA
38294520 GTATATCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 4 0.17
32 20 0.83
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (32 bp):
TCTATTAGTTTTCAAAATCTAAAATTTCATAG
Found at i:38296009 original size:44 final size:44
Alignment explanation
Indices: 38295961--38296054 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
38295951 ACCTACTCAA
38295961 CAACAAGCAACACCAATCCAAGCATATACATACAACCAAATCAG
1 CAACAAGCAACACCAATCCAAGCATATACATACAACCAAATCAG
*
38296005 CAACAAGCAACACCAATCCAAGCATATATATACAACCAAATCAG
1 CAACAAGCAACACCAATCCAAGCATATACATACAACCAAATCAG
*
38296049 CCACAA
1 CAACAA
38296055 ACAAGTTATC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.50, C:0.32, G:0.06, T:0.12
Consensus pattern (44 bp):
CAACAAGCAACACCAATCCAAGCATATACATACAACCAAATCAG
Found at i:38298659 original size:35 final size:35
Alignment explanation
Indices: 38298575--38298659 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
38298565 GATGATATGT
* * * *
38298575 TTAACTTGTGAGTCCTAATCAAAATAATAGCATGC
1 TTAACATGTGAATCATAATCAAAATAATAGCATGA
** *
38298610 TTAACATGCAAATCATAATCAGAATAATAGCATGA
1 TTAACATGTGAATCATAATCAAAATAATAGCATGA
38298645 TTAACATGTGAATCA
1 TTAACATGTGAATCA
38298660 GAATATTAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (35 bp):
TTAACATGTGAATCATAATCAAAATAATAGCATGA
Found at i:38302181 original size:43 final size:43
Alignment explanation
Indices: 38302074--38302181 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
38302064 TAGCCCAACT
*
38302074 ATGGTCTTACACGA-AATCAAATAATGATGCAAATGTCCCAGAC
1 ATGGTCTTACAC-ATAATCACATAATGATGCAAATGTCCCAGAC
* * * *
38302117 ATGATCGTACATATAATCACATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAATGATGCAAATGTCCCAGAC
*
38302160 ATGGTCTTACACATAAACACAT
1 ATGGTCTTACACATAATCACAT
38302182 CTCGTTGATC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 54 0.98
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATGCAAATGTCCCAGAC
Found at i:38306305 original size:25 final size:25
Alignment explanation
Indices: 38306277--38306332 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
38306267 AGAAACTCAT
*
38306277 AAGAGTTTATAA-CAGGAAGTTCACA
1 AAGAGTTT-TAATCAGGAAGCTCACA
*
38306302 AAGAACTTTTAATCAGGAAGCTCACA
1 AAG-AGTTTTAATCAGGAAGCTCACA
38306328 AAGAG
1 AAGAG
38306333 CCTATCAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (25 bp):
AAGAGTTTTAATCAGGAAGCTCACA
Found at i:38306343 original size:23 final size:24
Alignment explanation
Indices: 38306313--38306358 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
38306303 AGAACTTTTA
38306313 ATCAGGAA-GCTCACAAAGAGCCT
1 ATCAGGAATGCTCACAAAGAGCCT
*
38306336 ATCAGGAATTCTCACAAAGAGCC
1 ATCAGGAATGCTCACAAAGAGCC
38306359 ATGTAACAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (24 bp):
ATCAGGAATGCTCACAAAGAGCCT
Found at i:38307522 original size:22 final size:21
Alignment explanation
Indices: 38307471--38307535 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
38307461 AATTGATGAT
38307471 ATTTTCATTTTTTATCATTTATC
1 ATTTT-ATTTTTT-TCATTTATC
38307494 ATCTTTATTTTTTTCACTTT-TC
1 AT-TTTATTTTTTTCA-TTTATC
*
38307516 ACTTTTATTCTTTTC-TTTAT
1 A-TTTTATTTTTTTCATTTAT
38307536 TTTATTTTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 17 0.46
23 13 0.35
24 3 0.08
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTTATTTTTTTCATTTATC
Found at i:38311285 original size:27 final size:28
Alignment explanation
Indices: 38311230--38311285 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
38311220 ATAAAAATAA
* *
38311230 TTAAAATTCAGTATGTTAATAATTTAAG
1 TTAAAATTAAGTATGTTAATAATTAAAG
* *
38311258 TTAAAATTAATTAT-TTTATAATTAAAG
1 TTAAAATTAAGTATGTTAATAATTAAAG
38311285 T
1 T
38311286 GTGAATTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (28 bp):
TTAAAATTAAGTATGTTAATAATTAAAG
Found at i:38312310 original size:17 final size:18
Alignment explanation
Indices: 38312263--38312311 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
38312253 GTGTTTATCT
38312263 TAAGTAATTATTACTGAAA
1 TAAGTAATT-TTACTGAAA
*
38312282 TAAGTGAATTTTACT-TAA
1 TAAGT-AATTTTACTGAAA
*
38312300 TTAGTAATTTTA
1 TAAGTAATTTTA
38312312 GACATGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 7 0.26
18 6 0.22
19 10 0.37
20 4 0.15
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (18 bp):
TAAGTAATTTTACTGAAA
Found at i:38318971 original size:42 final size:42
Alignment explanation
Indices: 38318925--38319006 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
38318915 TCTTACATGT
* *
38318925 AATC-AATATCGATGCC-ACTGTCCTAGACAGGGTCTTACACAA
1 AATCAAATA-CGATGCCTA-TGTCCCAAACAGGGTCTTACACAA
*
38318967 AATCAAATACGATGCCTATGTCCCAAACATGGTCTTACAC
1 AATCAAATACGATGCCTATGTCCCAAACAGGGTCTTACAC
38319007 GTAAATCTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 30 0.86
43 5 0.14
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
AATCAAATACGATGCCTATGTCCCAAACAGGGTCTTACACAA
Found at i:38328390 original size:46 final size:46
Alignment explanation
Indices: 38328339--38328467 Score: 156
Period size: 46 Copynumber: 2.8 Consensus size: 46
38328329 ATGGTTGAGC
*
38328339 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--GATGCAACAGG
* * *
38328386 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACGAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAAC-AGG
*
38328431 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
38328468 GGGAGGGTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
43 6 0.09
45 4 0.06
46 29 0.41
47 28 0.40
48 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAACAGG
Found at i:38332931 original size:44 final size:42
Alignment explanation
Indices: 38332788--38332945 Score: 140
Period size: 42 Copynumber: 3.7 Consensus size: 42
38332778 AGCTAGTACA
* * * *
38332788 ACGCCAACGTCCCAGACGTGGTCTTATATGT-AATCAATATCG
1 ACGCCAATGTCCCAGACATGGTCTTACACGTAAATCAA-ATCG
* * * * * * *
38332830 ATGCCACTATCCTAGACAGGGTTTTACATG-AAATCAAATACG
1 ACGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAAT-CG
* *
38332872 ATGCCTATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 ACGCCAATGTCCCAGACATGGTCTTACACGTAAA--TCAAATCG
*
38332916 ACGCCAATGTCCCAGACGTGGTCTTACACG
1 ACGCCAATGTCCCAGACATGGTCTTACACG
38332946 ACAACTCATA
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.02
42 52 0.57
43 3 0.03
44 29 0.32
45 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
ACGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATCG
Found at i:38340936 original size:43 final size:43
Alignment explanation
Indices: 38340888--38340973 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
38340878 ATCACATGTA
* * ** *
38340888 TCGCATCCATTATGTACTTGGACCACTCAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
38340931 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
38340974 CACATATATC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
Found at i:38341003 original size:42 final size:43
Alignment explanation
Indices: 38340903--38341003 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 43
38340893 TCCATTATGT
* * * *
38340903 ACTTGGACCACTCAACGAGCTTGGATGCTCGCATCCATAATGA
1 ACTTGGACCACTCAACGAGCTCGGATGCTCACATACATAACGA
** * *
38340946 ACTCAGACCACTCAACGAGCTCGGATGC-CACATATATCACGA
1 ACTTGGACCACTCAACGAGCTCGGATGCTCACATACATAACGA
38340988 ACTTGGACCACTCAAC
1 ACTTGGACCACTCAAC
38341004 AAGTCCGGAC
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 23 0.48
43 25 0.52
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.20
Consensus pattern (43 bp):
ACTTGGACCACTCAACGAGCTCGGATGCTCACATACATAACGA
Found at i:38345787 original size:43 final size:43
Alignment explanation
Indices: 38345739--38345824 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
38345729 ATCACATGTA
* * *
38345739 TCGCATCAATTATGAACTCGGACCACTCAACGAGCTCGGATGC
1 TCGCATCAATAATGAACTCAGACCACTCAACGAGCTAGGATGC
*
38345782 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTAGGATGC
1 TCGCATCAATAATGAACTCAGACCACTCAACGAGCTAGGATGC
38345825 CACATATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (43 bp):
TCGCATCAATAATGAACTCAGACCACTCAACGAGCTAGGATGC
Found at i:38348234 original size:47 final size:47
Alignment explanation
Indices: 38348165--38348261 Score: 158
Period size: 47 Copynumber: 2.1 Consensus size: 47
38348155 ACGGGCATAG
* *
38348165 ATACTGTTTATACAGATGAGTTATGGTTTTCAAATGAATTATTGTTT
1 ATACTGTTTATACAGATGAGTTACGGTTTTCAAATAAATTATTGTTT
* *
38348212 ATACTGTTTATACATATGAGTTACGGTTTTGAAATAAATTATTGTTT
1 ATACTGTTTATACAGATGAGTTACGGTTTTCAAATAAATTATTGTTT
38348259 ATA
1 ATA
38348262 TGATTGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.46
Consensus pattern (47 bp):
ATACTGTTTATACAGATGAGTTACGGTTTTCAAATAAATTATTGTTT
Found at i:38354007 original size:46 final size:45
Alignment explanation
Indices: 38353954--38354129 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
38353944 TATTTGGGCA
38353954 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
38354000 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
38354047 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
38354093 -CCTGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38354130 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 3 0.03
46 65 0.61
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:38354109 original size:93 final size:93
Alignment explanation
Indices: 38353950--38354121 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
38353940 AGGATATTTG
* *
38353950 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
38354015 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
38354043 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGA
*
38354107 GTTGAGTTCGAGTTC
65 GTTGAGTCCGAGTTC
38354122 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:38356101 original size:79 final size:82
Alignment explanation
Indices: 38355990--38356174 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
38355980 GCTACTCGTT
* * *
38355990 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
38356053 GGATTTAGTAAC-TCGCA
65 AGATATAGTAACTTAGCA
* **
38356070 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCA
* *
38356133 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
38356150 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38356175 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCA
GATATAGTAACTTAGCA
Found at i:38356107 original size:39 final size:40
Alignment explanation
Indices: 38355990--38356174 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
38355980 GCTACTCGTT
*
38355990 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
38356030 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
38356070 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
38356109 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38356150 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38356175 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 75 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38364539 original size:26 final size:25
Alignment explanation
Indices: 38364506--38364578 Score: 87
Period size: 24 Copynumber: 2.9 Consensus size: 25
38364496 CGACTTACCA
38364506 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCGAT-TAT
* *
38364532 CAGCTCGT-TGGAGCTTA-CTATTCT
1 CAGCTCGTAT-GAGCTTACCGATTAT
*
38364556 CAGCTCGTATGAGCTTACTGATT
1 CAGCTCGTATGAGCTTACCGATT
38364579 CAACTCGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 17 0.43
25 8 0.20
26 15 0.38
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTAT
Found at i:38364563 original size:24 final size:25
Alignment explanation
Indices: 38364506--38364632 Score: 110
Period size: 23 Copynumber: 5.2 Consensus size: 25
38364496 CGACTTACCA
* *
38364506 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACTGAT-TCT
38364532 CAGCTCGT-TGGAGCTTACT-ATTCT
1 CAGCTCGTAT-GAGCTTACTGATTCT
38364556 CAGCTCGTATGAGCTTACTGA-T-T
1 CAGCTCGTATGAGCTTACTGATTCT
*
38364579 CAACTCGTCA-GAGCTTACTG-TT-T
1 CAGCTCGT-ATGAGCTTACTGATTCT
*
38364602 CAGCTTAGTA-GAGCTTACTG-TTCAT
1 CAGC-TCGTATGAGCTTACTGATTC-T
38364627 CAGCTC
1 CAGCTC
38364633 AACAGGAGCT
Statistics
Matches: 87, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
23 36 0.41
24 25 0.29
25 10 0.11
26 16 0.18
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACTGATTCT
Found at i:38374243 original size:48 final size:48
Alignment explanation
Indices: 38374168--38374393 Score: 212
Period size: 48 Copynumber: 4.7 Consensus size: 48
38374158 CAAATTACCA
* *
38374168 ATGCCATGTCTCAGACAT-GTCTTACACTGGCTCAT-ATGTCGAGGCT-G
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATGTC-AAGCTCG
* * * * **
38374215 ATGCCATGTCCCAGAAATGGTCTTACACTAGCTCTCGTTTCAATTTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCAAGCTCG
** * *
38374263 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTG-TCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCA-AGCTCG
* * * *
38374311 ATGCCATGTCTCAGACATGGTATTACACTGGCTCTCATAAT-ATTGC-CG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-GTCA-AGCTCG
*
38374359 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
38374394 TATAATATTG
Statistics
Matches: 150, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
47 19 0.13
48 130 0.87
49 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCAAGCTCG
Found at i:38374331 original size:96 final size:95
Alignment explanation
Indices: 38374168--38374438 Score: 284
Period size: 96 Copynumber: 2.8 Consensus size: 95
38374158 CAAATTACCA
* * ** * * *
38374168 ATGCCATGTCTCAGACAT-GTCTTACACTGGCTCAT-ATGTCGA-GGCTGATGCCATGTCCCAGA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAAC-ATTGCTAATGCCATGTCTCAGA
* *
38374230 AATGGTCTTACACTAGCTCTCGTTTCAAT-TT-CG
64 CATGGTCTTACACTAGCTCTC--AT-AATATTCCG
*
38374263 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTG-TCAATGCCATGTCTCAGAC
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTGCT-AATGCCATGTCTCAGAC
* *
38374327 ATGGTATTACACTGGCTCTCATAATATTGCCG
65 ATGGTCTTACACTAGCTCTCATAATATT-CCG
* * * * *
38374359 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAATATTGCTGATGCCATGTGTCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTGCTAATGCCATGTCTCAGACA
38374424 TGGTCTTACACTAGC
66 TGGTCTTACACTAGC
38374439 ACACATATCA
Statistics
Matches: 150, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
93 3 0.02
94 3 0.02
95 20 0.13
96 123 0.82
97 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (95 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTGCTAATGCCATGTCTCAGACA
TGGTCTTACACTAGCTCTCATAATATTCCG
Found at i:38374399 original size:48 final size:48
Alignment explanation
Indices: 38374214--38374435 Score: 263
Period size: 48 Copynumber: 4.6 Consensus size: 48
38374204 TGTCGAGGCT
* *
38374214 GATGCCATGTCCCAGAA-ATGGTCTTACACTAGCTCTCGTTTCAAT-TT--C
1 GATGCCATGTCCCA-AACATGGTCTTACACTGGCTCTC--AT-AATATTGCC
* * *
38374262 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATTGCC
* * * *
38374310 AATGCCATGTCTCAGACATGGTATTACACTGGCTCTCATAATATTGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATTGCC
* *
38374358 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAATATTGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATTGCC
**
38374406 GATGCCATGTGTCAAACATGGTCTTACACT
1 GATGCCATGTCCCAAACATGGTCTTACACT
38374436 AGCACACATA
Statistics
Matches: 153, Mismatches: 17, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
45 2 0.01
46 3 0.02
47 1 0.01
48 147 0.96
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATTGCC
Found at i:38374425 original size:144 final size:140
Alignment explanation
Indices: 38374166--38374435 Score: 332
Period size: 144 Copynumber: 1.9 Consensus size: 140
38374156 GGCAAATTAC
* * *
38374166 CAATGCCATGTCTCAGACATGTCTTACACTGGCTCATATGTCGAGGCTGATGCCATGTCCCAGAA
1 CAATGCCATGTCTCAGACATGTATTACACTGGCTCATATAT--AGGCCGATGCCATGTCCCAGAA
* *
38374231 ATGGTCTTACACTAGCTCTCGTTTCAATTTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
64 ATGGTCTTACACTAGCTCTC-TATCAATTTCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
38374296 CTCATAACATTGT
128 CTCATAACATTGT
*
38374309 CAATGCCATGTCTCAGACATGGTATTACACTGGCTC-TCATAATATTGCCGATGCCATGTCCCA-
1 CAATGCCATGTCTCAGACAT-GTATTACACTGGCTCAT-AT-ATA-GGCCGATGCCATGTCCCAG
* **
38374372 AACATGGTCTTACACTGGCTCT-TAT-AATATTGCTGATGCCATGTGTCAAACATGGTCTTACAC
62 AA-ATGGTCTTACACTAGCTCTCTATCAAT-TT-C-GATGCCATGTCCCAAACATGGTCTTACAC
38374435 T
123 T
38374436 AGCACACATA
Statistics
Matches: 110, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
141 3 0.03
142 4 0.04
143 25 0.23
144 77 0.70
145 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (140 bp):
CAATGCCATGTCTCAGACATGTATTACACTGGCTCATATATAGGCCGATGCCATGTCCCAGAAAT
GGTCTTACACTAGCTCTCTATCAATTTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTC
ATAACATTGT
Found at i:38378049 original size:46 final size:48
Alignment explanation
Indices: 38377886--38378048 Score: 183
Period size: 47 Copynumber: 3.5 Consensus size: 48
38377876 AGGGTAAGGT
* * *
38377886 GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCA-A
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATA
* * * **
38377933 GTCGATGTCATGTCCCAGACATGGTCTTACACTGAC-TATCCTCTTGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCATA
* * *
38377981 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCATG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATA
38378027 GTCGATG-CATGTCCCAGACATG
1 GTCGATGCCATGTCCCAGACATG
38378049 TTTTGCACTA
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
46 38 0.39
47 52 0.54
48 7 0.07
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATA
Found at i:38378068 original size:46 final size:46
Alignment explanation
Indices: 38377886--38378070 Score: 146
Period size: 47 Copynumber: 4.0 Consensus size: 46
38377876 AGGGTAAGGT
* * *
38377886 GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATA--TCTCA-A
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACT-GC-CCTACGTCTCATG
* * ** *
38377933 GTCGATGTCATGTCCCAGACATGGTCTTACACTG-ACTATCCTCTTGTA
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGCCCTA-CGTCTCATG
* * *
38377981 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCATG
1 GTCGATGCATGTCCCAGACATGTCTTACACTGCCCTACGTCTCATG
* *
38378027 GTCGATGCATGTCCCAGACATGTTTTGCACTAGCCCT-CGTCTCA
1 GTCGATGCATGTCCCAGACATGTCTTACACT-GCCCTACGTCTCA
38378071 ATGCCAATGC
Statistics
Matches: 114, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
44 2 0.02
46 52 0.46
47 53 0.46
48 7 0.06
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (46 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTGCCCTACGTCTCATG
Found at i:38383954 original size:23 final size:22
Alignment explanation
Indices: 38383902--38383954 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38383892 TCCACGTCTT
*
38383902 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38383924 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38383947 TTTCTTTT
1 TTTCTTTT
38383955 TCACCCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38401891 original size:27 final size:27
Alignment explanation
Indices: 38401838--38401891 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
38401828 TTTTATTCAT
** * *
38401838 ATAACCTTTATTAATTCATTTACTAAA
1 ATAACCTTTATTAAAACATATAATAAA
38401865 ATAACCTTTATTAAAACATATAATAAA
1 ATAACCTTTATTAAAACATATAATAAA
38401892 CATATAATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (27 bp):
ATAACCTTTATTAAAACATATAATAAA
Found at i:38407240 original size:48 final size:48
Alignment explanation
Indices: 38407177--38407446 Score: 231
Period size: 48 Copynumber: 5.8 Consensus size: 48
38407167 CACATGGTAA
** * *
38407177 GATGCCAATGCCATATCCCAGTTATGGTTTTACATGGGATCACATATT
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
* ** **
38407225 GATGCCAATGCCATATCCCAGACATGGTCTTACATTGGATCGTAGGTC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
* *** * *
38407273 GATGCCAATGCCATGTGTTAGGCATGGTTTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
* *
38407321 AATGCC---G--ATAGCCCAG-CTATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGAC-ATGGTCTTACATGGGATCACATATC
* * **
38407364 GATGCC---G--ATAGCCCAG-CTATGGTCTTACACGAAATCACATATC
1 GATGCCAATGCCATATCCCAGAC-ATGGTCTTACATGGGATCACATATC
* *
38407407 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAT
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGAT
38407447 TGTACATAAC
Statistics
Matches: 179, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
42 1 0.01
43 73 0.41
45 1 0.01
46 1 0.01
48 102 0.57
49 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:38407349 original size:43 final size:43
Alignment explanation
Indices: 38407296--38407412 Score: 189
Period size: 43 Copynumber: 2.7 Consensus size: 43
38407286 TGTGTTAGGC
* *
38407296 ATGGTTTTACATGGGATCACATATCAATGCCGATAGCCCAGCT
1 ATGGTCTTACATGGGATCACATATCGATGCCGATAGCCCAGCT
38407339 ATGGTCTTACATGGGATCACATATCGATGCCGATAGCCCAGCT
1 ATGGTCTTACATGGGATCACATATCGATGCCGATAGCCCAGCT
* **
38407382 ATGGTCTTACACGAAATCACATATCGATGCC
1 ATGGTCTTACATGGGATCACATATCGATGCC
38407413 AAAGCCATGT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACATGGGATCACATATCGATGCCGATAGCCCAGCT
Found at i:38415053 original size:48 final size:48
Alignment explanation
Indices: 38414978--38415127 Score: 185
Period size: 48 Copynumber: 3.1 Consensus size: 48
38414968 CACATGGTAG
** *
38414978 GATGCCAATGCCATA-TCCCGGAGATGGTCTTATATGGGATCACATATC
1 GATGCCAATGCCA-AGTCCCACACATGGTCTTATATGGGATCACATATC
** **
38415026 GATGCCAATGCCAAGTCCCACACATGGTCTTATATGGGATCGTAGGTC
1 GATGCCAATGCCAAGTCCCACACATGGTCTTATATGGGATCACATATC
* * * *
38415074 GATGCCAATGTCATGTCCCATACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCAAGTCCCACACATGGTCTTATATGGGATCACATATC
38415122 GATGCC
1 GATGCC
38415128 GATAGCCTAG
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 85 0.99
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCAAGTCCCACACATGGTCTTATATGGGATCACATATC
Found at i:38421254 original size:22 final size:22
Alignment explanation
Indices: 38421229--38421271 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
38421219 TTTTCCTATT
38421229 TTGCTACCATTTTATTATTATG
1 TTGCTACCATTTTATTATTATG
* *
38421251 TTGCTACTATTTTATTGTTAT
1 TTGCTACCATTTTATTATTAT
38421272 TGTTTGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (22 bp):
TTGCTACCATTTTATTATTATG
Found at i:38421467 original size:18 final size:20
Alignment explanation
Indices: 38421446--38421486 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
38421436 GAAATATTTA
*
38421446 TTTTGATGT-TTTTA-ATAT
1 TTTTGATGTATTATATATAT
38421464 TTTTGATGTATTATATATAT
1 TTTTGATGTATTATATATAT
38421484 TTT
1 TTT
38421487 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATATAT
Found at i:38421517 original size:12 final size:12
Alignment explanation
Indices: 38421487--38421519 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
38421477 TATATATTTT
38421487 AAAATT-ATATA
1 AAAATTAATATA
38421498 AAAA-TAATATA
1 AAAATTAATATA
38421509 AAAATTAATAT
1 AAAATTAATAT
38421520 GGGCATGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:38427229 original size:25 final size:25
Alignment explanation
Indices: 38427198--38427247 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
38427188 TAGTGCAAAG
38427198 AATTATTTATTTCTAACATTTCCAA
1 AATTATTTATTTCTAACATTTCCAA
*
38427223 AATTATTTGTTTCTAACATTTCCAA
1 AATTATTTATTTCTAACATTTCCAA
38427248 GTCAAGGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (25 bp):
AATTATTTATTTCTAACATTTCCAA
Found at i:38435166 original size:27 final size:25
Alignment explanation
Indices: 38435103--38435171 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
38435093 TGTACATATA
* *
38435103 TGCTTACACGAGCTATGAATAAGTG
1 TGCTTACACGAGCTGTGAATAAGGG
*
38435128 TGCTCACACGAGCTGTGAA-AATGGG
1 TGCTTACACGAGCTGTGAATAA-GGG
38435153 CCTGCTTACACGAGCTGTG
1 --TGCTTACACGAGCTGTG
38435172 GAGTATCCGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.05
25 19 0.51
27 16 0.43
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (25 bp):
TGCTTACACGAGCTGTGAATAAGGG
Found at i:38437306 original size:45 final size:45
Alignment explanation
Indices: 38437228--38437328 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
38437218 ATCTGTATTA
** * * * *
38437228 TTTTGTTGTGTACCAATAACCATAGGTAGATTCCATTTATAGTGT
1 TTTTGTTGTGTACCAATAACCATAGACAAATTCCATCTACAATGT
* *
38437273 TTTTGTTGTGTACCCATAACCATAGACAAATTCCATCTGCAATGT
1 TTTTGTTGTGTACCAATAACCATAGACAAATTCCATCTACAATGT
38437318 TTTTGTTGTGT
1 TTTTGTTGTGT
38437329 GTCCATAGCC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (45 bp):
TTTTGTTGTGTACCAATAACCATAGACAAATTCCATCTACAATGT
Found at i:38440565 original size:26 final size:26
Alignment explanation
Indices: 38440536--38440876 Score: 160
Period size: 26 Copynumber: 13.5 Consensus size: 26
38440526 GGGAAAAAAA
*
38440536 TTAAAATAAATAATATGTAAAATAAT
1 TTAAAATAAATAATATATAAAATAAT
* **
38440562 TTAAGATAAATAATATAT-AAATGAGC
1 TTAAAATAAATAATATATAAAAT-AAT
* * *
38440588 TTAAAATAAATATTATGTAAAAAGAAAT
1 TTAAAATAAATAATATAT-AAAA-TAAT
* * *
38440616 TTAAAATAAGTAATATACAAAA-CAT
1 TTAAAATAAATAATATATAAAATAAT
* *
38440641 CTTAAAA-AAATAA-ATGGT-ATATAA-
1 -TTAAAATAAATAATAT-ATAAAATAAT
* *
38440665 --AAAATAGATAATACATATAAA-AAT
1 TTAAAATAAATAATATATA-AAATAAT
* ** * *
38440689 TTGAAATTGATAATATATGAAAAAAAA
1 TTAAAATAAATAATATAT-AAAATAAT
* *
38440716 TTAAAGT--A-AATA-ATAAAACAAT
1 TTAAAATAAATAATATATAAAATAAT
* * *
38440738 TTAAAATGAATAATACATAAAACAAGT
1 TTAAAATAAATAATATATAAAATAA-T
* **
38440765 TTAAAATAAATAATGTATAAAGCAAT
1 TTAAAATAAATAATATATAAAATAAT
* * *
38440791 TTAAAGTATATAGTATATAAAATAAT
1 TTAAAATAAATAATATATAAAATAAT
* *
38440817 TTAAAAT-AAT-ATATCTAAAAAAAT
1 TTAAAATAAATAATATATAAAATAAT
* * * *
38440841 TTAAAA-CAGT-TTA-ATAAAACAAT
1 TTAAAATAAATAATATATAAAATAAT
38440864 TTAAAATAAATAA
1 TTAAAATAAATAA
38440877 AAAAAATCAA
Statistics
Matches: 236, Mismatches: 55, Indels: 49
0.69 0.16 0.14
Matches are distributed among these distances:
21 4 0.02
22 18 0.08
23 19 0.08
24 34 0.14
25 19 0.08
26 90 0.38
27 34 0.14
28 18 0.08
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAAATAAT
Found at i:38440645 original size:54 final size:52
Alignment explanation
Indices: 38440536--38440653 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 52
38440526 GGGAAAAAAA
* * * **
38440536 TTAAAATAAATAATATGTAAAATAATTTAAGATAAATAATATATAAATGAGC
1 TTAAAATAAATAATATGTAAAAAAATTTAAAATAAATAATATACAAAACAGC
* * *
38440588 TTAAAATAAATATTATGTAAAAAGAAATTTAAAATAAGTAATATACAAAACATC
1 TTAAAATAAATAATATGT-AAAA-AAATTTAAAATAAATAATATACAAAACAGC
38440642 TTAAAA-AAATAA
1 TTAAAATAAATAA
38440654 ATGGTATATA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
52 17 0.31
53 9 0.16
54 29 0.53
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (52 bp):
TTAAAATAAATAATATGTAAAAAAATTTAAAATAAATAATATACAAAACAGC
Found at i:38443506 original size:54 final size:54
Alignment explanation
Indices: 38443424--38443536 Score: 208
Period size: 54 Copynumber: 2.1 Consensus size: 54
38443414 ATCTCATGCC
38443424 TGCATCCAATATATATTGCTTAGGTTGACCAATTAACTCTGATTCATATATAGT
1 TGCATCCAATATATATTGCTTAGGTTGACCAATTAACTCTGATTCATATATAGT
* *
38443478 TGCATCCAATATATATTGTTTAGGTTGACCAATTAACTCTGATTCCTATATAGT
1 TGCATCCAATATATATTGCTTAGGTTGACCAATTAACTCTGATTCATATATAGT
38443532 TGCAT
1 TGCAT
38443537 TTGTCAAGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (54 bp):
TGCATCCAATATATATTGCTTAGGTTGACCAATTAACTCTGATTCATATATAGT
Found at i:38445427 original size:21 final size:21
Alignment explanation
Indices: 38445391--38445447 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
38445381 CAAAAAATAT
38445391 ATATAAATACATAAATTAAAAAA
1 ATAT-AATA-ATAAATTAAAAAA
* *
38445414 ATATAATAATAAATTTAAAAT
1 ATATAATAATAAATTAAAAAA
*
38445435 ATATAAAAATAAA
1 ATATAATAATAAA
38445448 AATATCGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 23 0.74
22 4 0.13
23 4 0.13
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
ATATAATAATAAATTAAAAAA
Found at i:38445636 original size:39 final size:39
Alignment explanation
Indices: 38445578--38445655 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
38445568 AAAAAGAAAA
*
38445578 CCTCCTCATCCCGTTCCTCTCTCCCCCACCATCCCCCTT
1 CCTCCTCATCCCGTCCCTCTCTCCCCCACCATCCCCCTT
38445617 CCTCCTCATCCCGTCCCTCTCTCCCCCACCATCCCCCTT
1 CCTCCTCATCCCGTCCCTCTCTCCCCCACCATCCCCCTT
38445656 TCTACCTCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.08, C:0.63, G:0.03, T:0.27
Consensus pattern (39 bp):
CCTCCTCATCCCGTCCCTCTCTCCCCCACCATCCCCCTT
Found at i:38463121 original size:38 final size:37
Alignment explanation
Indices: 38463048--38463126 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
38463038 TATTACGAAA
* *
38463048 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
38463085 TCTTACCCGGACAAAAAT-TCCCACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCT-CCACACGAAGTCATCGGG
38463123 TCTT
1 TCTT
38463127 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.35
38 24 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:38463323 original size:47 final size:47
Alignment explanation
Indices: 38463245--38463777 Score: 778
Period size: 47 Copynumber: 11.2 Consensus size: 47
38463235 CCCTTCGGGA
* * * * * **
38463245 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* * *
38463292 CCTGTCACATATATACACTTTCACATTCATCACATCGACCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
38463339 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
38463386 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
38463435 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* * *
38463482 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
38463531 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
38463578 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
38463627 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
38463674 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGT
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
38463722 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
38463769 CTTATCACA
1 CTTATCACA
38463778 ATTTAGAATT
Statistics
Matches: 439, Mismatches: 40, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
47 265 0.60
48 44 0.10
49 130 0.30
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:38463438 original size:96 final size:96
Alignment explanation
Indices: 38463245--38463777 Score: 804
Period size: 96 Copynumber: 5.6 Consensus size: 96
38463235 CCCTTCGGGA
** * * * * ** * *
38463245 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
*
38463308 ACTTTCACATTCATCACATCGACCATTAAGC
66 ACTTTCACATTCATCACATCGGCCATTAAGC
*
38463339 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
*
38463404 ACTTTCACATTCATCACATCGACCATTAAGC
66 ACTTTCACATTCATCACATCGGCCATTAAGC
*
38463435 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
* * *
38463500 TCTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAAGC
*
38463531 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
*
38463596 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAAGC
* * *
38463627 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCAC--ATATATA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTA-TCACATATATATA
*
38463690 CACTTTCACATTCATCACATCGGCCATTAAGT
65 CACTTTCACATTCATCACATCGGCCATTAAGC
* *
38463722 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA
38463778 ATTTAGAATT
Statistics
Matches: 409, Mismatches: 26, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
94 48 0.12
95 87 0.21
96 270 0.66
97 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:38474950 original size:36 final size:37
Alignment explanation
Indices: 38474865--38474992 Score: 127
Period size: 36 Copynumber: 3.4 Consensus size: 37
38474855 TACTCGTTCA
* * * *
38474865 AATGCCTTCGGGACTTAGCCCGGTTATAGGAAATCGCA-C
1 AATGCCTTC-GGACTTAACCC-G-AATAGTAACTCGCACC
* *
38474904 AAAGCCTTCGGAC-TAACCCGATTAGTAACTCGCACC
1 AATGCCTTCGGACTTAACCCGAATAGTAACTCGCACC
* *
38474940 AATGCCTTCGG-CTTAGCCCGAATAGTAACTCGCACA
1 AATGCCTTCGGACTTAACCCGAATAGTAACTCGCACC
38474976 AATGCCTTCGGATCTTA
1 AATGCCTTCGGA-CTTA
38474993 GTCCGATATG
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
35 11 0.15
36 43 0.57
37 5 0.07
38 8 0.11
39 8 0.11
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (37 bp):
AATGCCTTCGGACTTAACCCGAATAGTAACTCGCACC
Found at i:38476315 original size:23 final size:23
Alignment explanation
Indices: 38476264--38476320 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
38476254 AAAGGATGGA
38476264 CACATTTT-TTTTCTTTTGTTTT
1 CACATTTTCTTTTCTTTTGTTTT
*
38476286 CATCATTTTCTTTCTCTTTTTTTTT
1 CA-CATTTTCTTT-TCTTTTGTTTT
38476311 C-CA-TTTCTTT
1 CACATTTTCTTT
38476321 ATTACTAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 9 0.29
23 8 0.26
24 3 0.10
25 11 0.35
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (23 bp):
CACATTTTCTTTTCTTTTGTTTT
Found at i:38482933 original size:40 final size:40
Alignment explanation
Indices: 38482843--38483025 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
38482833 GCTACTCGTT
* *
38482843 CAAATGCCTTC-GGACATAGCCCGG-TTATAGTAAAT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
38482881 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
38482921 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38482960 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38483001 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38483026 CATCATTCGA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 13 0.10
39 51 0.41
40 49 0.40
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38483009 original size:79 final size:79
Alignment explanation
Indices: 38482843--38483025 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 79
38482833 GCTACTCGTT
* * *
38482843 CAAATGCCTTCGGACATAGCCCGG-TTATAGTAAATGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAA-GCCTTCGGGCTTAGCCCGGAATATAGTAAATGCACAAATGCCTTCGGGACTTAACCCGGA
* *
38482907 TTTAGTAACTCGCAC
65 TATAGTAACTAGCAC
* * **
38482922 CAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAAAT-GCACAAATGCCTTCGGGA-CTTAACCCGG
* *
38482985 ATATGGTCACTTAGCA-
64 ATATAGTAAC-TAGCAC
38483001 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGG-CTTAGCCCGGA
38483026 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 27 0.31
79 45 0.52
80 15 0.17
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAAATGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCAC
Found at i:38490961 original size:79 final size:79
Alignment explanation
Indices: 38490861--38491043 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 79
38490851 TACTCGTTCA
* * * *
38490861 AATGCCTTCAGGACATAGCCCGG-TTATAGTAAATTGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTC-GGGCTTAGCCCGGAAT-TAGTAAATCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
38490924 ATTTAGTAAC-TCGCACC
63 ATATAGTAACTTAGCA-C
* **
38490941 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAAATCGCACAAATGCCTTCGGATCTTAACCCGGATA
* *
38491006 TGGTCACTTAGCAC
66 TAGTAACTTAGCAC
*
38491020 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
38491044 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.68
80 25 0.29
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAAATCGCACAAATGCCTTCGGATCTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:38491043 original size:40 final size:40
Alignment explanation
Indices: 38490840--38491043 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
38490830 CGGAATTTAA
** * *
38490840 CCGGATATAGCT-ACTCGTTCAAATGCCTTCAGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
38490880 CCGGTTATAGTAAATTGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38490920 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
38490959 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38490999 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38491039 CCGGA
1 CCGGA
38491044 CATCATTCGA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 89 0.65
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38492332 original size:23 final size:24
Alignment explanation
Indices: 38492280--38492337 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
38492270 AAAAGATGGA
*
38492280 CACATTTT-TTTTTCTTTTGTTTT
1 CACATTTTCTTTCTCTTTTGTTTT
*
38492303 CATCATTTTCTTTCTCTTTTTTTTT
1 CA-CATTTTCTTTCTCTTTTGTTTT
38492328 C-CA-TTTCTTT
1 CACATTTTCTTT
38492338 ATTACTAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 7 0.23
23 4 0.13
24 6 0.19
25 14 0.45
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.71
Consensus pattern (24 bp):
CACATTTTCTTTCTCTTTTGTTTT
Found at i:38498988 original size:79 final size:81
Alignment explanation
Indices: 38498879--38499061 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
38498869 TACTCGTTCA
* *
38498879 AATGCCTTCGGGACATAGCCCGG-TTATAGTAAATCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAAATCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
38498942 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
38498959 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAAATCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
38499022 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
38499038 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
38499062 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAAATCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:38499061 original size:40 final size:40
Alignment explanation
Indices: 38498858--38499061 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
38498848 CGAAATTTAA
** *
38498858 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
38498898 CCGGTTATAGTAAATCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38498938 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
38498977 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38499017 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38499057 CCGGA
1 CCGGA
38499062 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38500352 original size:23 final size:23
Alignment explanation
Indices: 38500301--38500357 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
38500291 AAAGGATGGA
38500301 CACATTTT-TTTTCTTTTGTTTT
1 CACATTTTCTTTTCTTTTGTTTT
*
38500323 CATCATTTTCTTTCTCTTTTTTTTT
1 CA-CATTTTCTTT-TCTTTTGTTTT
38500348 C-CA-TTTCTTT
1 CACATTTTCTTT
38500358 ATTACTAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 9 0.29
23 8 0.26
24 3 0.10
25 11 0.35
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (23 bp):
CACATTTTCTTTTCTTTTGTTTT
Found at i:38502496 original size:35 final size:35
Alignment explanation
Indices: 38502384--38502497 Score: 140
Period size: 35 Copynumber: 3.3 Consensus size: 35
38502374 CATAGGTAAG
* **
38502384 TACATGAGAGCTTATATTGAACTTGTATATTCGCC
1 TACATGTGAGCTTATATTGAACTTGTATATTCGAT
* * *
38502419 TACAGGTGAGGTTATATTGAACTTG-AGTATTTGAT
1 TACATGTGAGCTTATATTGAACTTGTA-TATTCGAT
*
38502454 TACATGTGAGCTTATATTGAACTTGTATATTCGGT
1 TACATGTGAGCTTATATTGAACTTGTATATTCGAT
*
38502489 TATATGTGA
1 TACATGTGA
38502498 AGTTATCTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
34 1 0.02
35 64 0.97
36 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (35 bp):
TACATGTGAGCTTATATTGAACTTGTATATTCGAT
Found at i:38513125 original size:53 final size:53
Alignment explanation
Indices: 38512942--38513149 Score: 258
Period size: 55 Copynumber: 3.8 Consensus size: 53
38512932 ATTAGGGTTT
*
38512942 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-G-TTCATAAGGC
* * *
38512997 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * * *
38513052 AAATG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
*
38513105 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
38513150 TCAAAAGGAT
Statistics
Matches: 130, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 5 0.04
53 44 0.34
54 8 0.06
55 70 0.54
56 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:38513148 original size:108 final size:110
Alignment explanation
Indices: 38512949--38513149 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
38512939 TTTAAGGATA
* *
38512949 CCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
38513014 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAATGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAATGTC
* *
38513059 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
38513121 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
38513150 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAATGTC
Found at i:38518250 original size:62 final size:59
Alignment explanation
Indices: 38518142--38518256 Score: 167
Period size: 62 Copynumber: 1.9 Consensus size: 59
38518132 CTTTAATATT
* * *
38518142 AAATTAATATAATATTTATTAAGATAAATATTAGATTAAATTTAATATTAAATCTTATC
1 AAATTAATAGAATATTTATTAAGATAAAAATTAAATTAAATTTAATATTAAATCTTATC
*
38518201 AAATTAATAGAATATTTATCTATAATATAAAAATTAAATTAAATTTAATATTAAAT
1 AAATTAATAGAATATTTA--T-TAAGATAAAAATTAAATTAAATTTAATATTAAAT
38518257 TAATAAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 17 0.35
61 1 0.02
62 31 0.63
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (59 bp):
AAATTAATAGAATATTTATTAAGATAAAAATTAAATTAAATTTAATATTAAATCTTATC
Found at i:38518255 original size:17 final size:17
Alignment explanation
Indices: 38518228--38518304 Score: 72
Period size: 17 Copynumber: 4.7 Consensus size: 17
38518218 ATCTATAATA
*
38518228 TAAAAATTAAATTAAAT
1 TAAATATTAAATTAAAT
*
38518245 TTAATATTAAATT-AAT
1 TAAATATTAAATTAAAT
* *
38518261 AAAATACT--ATTAAGA-
1 TAAATATTAAATTAA-AT
*
38518276 TAAGTATTAAATTAAAT
1 TAAATATTAAATTAAAT
38518293 TAAATATTAAAT
1 TAAATATTAAAT
38518305 CTATTAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
14 3 0.07
15 6 0.13
16 10 0.22
17 27 0.59
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (17 bp):
TAAATATTAAATTAAAT
Found at i:38524840 original size:37 final size:37
Alignment explanation
Indices: 38524799--38524873 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
38524789 TAAAAGGAGA
38524799 AAAAGGAGGAAGAGAATGAAGGAAGTGAAATATTGCC
1 AAAAGGAGGAAGAGAATGAAGGAAGTGAAATATTGCC
38524836 AAAAGGAGGAAGAGAATGAAGGAAGTGAAATATTGCC
1 AAAAGGAGGAAGAGAATGAAGGAAGTGAAATATTGCC
38524873 A
1 A
38524874 TGGAAAAAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.49, C:0.05, G:0.32, T:0.13
Consensus pattern (37 bp):
AAAAGGAGGAAGAGAATGAAGGAAGTGAAATATTGCC
Found at i:38529159 original size:40 final size:40
Alignment explanation
Indices: 38529114--38529276 Score: 258
Period size: 40 Copynumber: 4.1 Consensus size: 40
38529104 CTAAGATCCA
*
38529114 AAGGCATTTGTGCTAGTGACTACATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCG
38529154 AAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCG
*
38529194 AAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCG
* * *
38529234 AAGGCATTTGGGCGAGTTG-CTATATCC-GGCTAAATCCCG
1 AAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCG
38529273 AAGG
1 AAGG
38529277 TACTTGGGTT
Statistics
Matches: 116, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 15 0.13
40 99 0.85
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCG
Found at i:38541572 original size:3 final size:3
Alignment explanation
Indices: 38541564--38541602 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
38541554 CAAAAGAGAT
38541564 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38541603 ATCAAGTAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:38544328 original size:40 final size:40
Alignment explanation
Indices: 38544273--38544407 Score: 234
Period size: 40 Copynumber: 3.4 Consensus size: 40
38544263 TATGTGCATA
38544273 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
38544313 GCATTCATGCGGGTTATTATAACAGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
38544353 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
38544393 GCATTTGTGCTGGTT
1 GCATTCGTGCGGGTT
38544408 GTTACATCCA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:38579621 original size:96 final size:95
Alignment explanation
Indices: 38579551--38580004 Score: 625
Period size: 96 Copynumber: 4.8 Consensus size: 95
38579541 GATAATTGTG
* *
38579551 ATGTG-AA-TGTATATATATGTGAAAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
38579614 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCTAATTG-CGATGTGATGA
38579645 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
38579710 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATTG-CGATGTGATGA
* * *
38579741 ATGTGAAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
38579806 ATATGTGATAAGGCCTAATGGCGATGTGATGA
64 ATATGTGATAAGGCCTAATTGCGATGTGATGA
*
38579838 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
38579901 ATGTGATGAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATTG-CGATGTGATGA
* * * * * *
38579932 ATGTGAAAGTG--TATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 ATGTGAAAGTGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
38579994 AATGTGATAAG
65 TATGTGATAAG
38580005 TCCCGAAGGG
Statistics
Matches: 332, Mismatches: 22, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
93 25 0.08
94 77 0.23
95 46 0.14
96 139 0.42
97 22 0.07
98 23 0.07
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (95 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATTGCGATGTGATGA
Found at i:38579625 original size:47 final size:47
Alignment explanation
Indices: 38579551--38580004 Score: 669
Period size: 47 Copynumber: 9.6 Consensus size: 47
38579541 GATAATTGTG
* * *
38579551 ATGTGAATGTATATATATGTGAAAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
38579598 ATATGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
38579645 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38579694 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
38579741 ATGTGAAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
38579790 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38579838 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38579885 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
38579932 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
38579979 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
38580005 TCCCGAAGGG
Statistics
Matches: 372, Mismatches: 26, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
46 25 0.07
47 212 0.57
48 23 0.06
49 112 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:38582201 original size:38 final size:38
Alignment explanation
Indices: 38582137--38582209 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
38582127 AATCCGAGTT
*
38582137 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCAAG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCAAG
* *
38582175 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCC
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCC
38582210 GGATTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.03
38 30 0.97
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCAAG
Found at i:38582324 original size:40 final size:40
Alignment explanation
Indices: 38582265--38582520 Score: 382
Period size: 40 Copynumber: 6.6 Consensus size: 40
38582255 AGGTCTCGAC
38582265 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
38582304 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
38582344 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
38582383 GATGTATCCGGGCTAAGTCCCGAAGAGCATTTG-GCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
38582422 G--G-ATCTGGGCTATGT-CCGAAGAGCATTCTTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
38582458 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
38582498 GTTGTATCCGGACTAAGTTCCGA
1 GATGTATCCGGGCTAAGTCCCGA
38582521 CCGGACTAAG
Statistics
Matches: 197, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
35 12 0.06
36 18 0.09
37 1 0.01
38 1 0.01
39 60 0.30
40 105 0.53
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:38582401 original size:79 final size:78
Alignment explanation
Indices: 38582265--38582520 Score: 383
Period size: 79 Copynumber: 3.3 Consensus size: 78
38582255 AGGTCTCGAC
*
38582265 GATGATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGA
1 GATGATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGA
38582330 GCATTCGTGCTAGT
65 GCATTCGTGCTAGT
38582344 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGA
1 GATG-ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGA
*
38582409 GCATTTG-GCTAGT
65 GCATTCGTGCTAGT
* * *
38582422 G--GATCTGGGCTATGTCCGAAGAGCATTCTTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAG
1 GATGATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAG
*
38582485 CATTCATGCTAGT
66 CATTCGTGCTAGT
* *
38582498 GTTGTATCCGGACTAAGTTCCGA
1 GATG-ATCCGGGCTAAG-TCCGA
38582521 CCGGACTAAG
Statistics
Matches: 161, Mismatches: 10, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
75 62 0.39
76 8 0.05
78 8 0.05
79 65 0.40
80 18 0.11
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (78 bp):
GATGATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAG
CATTCGTGCTAGT
Found at i:38582467 original size:75 final size:77
Alignment explanation
Indices: 38582268--38582498 Score: 367
Period size: 75 Copynumber: 3.0 Consensus size: 77
38582258 TCTCGACGAT
*
38582268 GATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
1 GATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
38582333 TTCGTGCTAGTGA
65 TTCGTGCTAGTGA
38582346 TGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGC
1 -G-ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGC
*
38582411 ATTTG-GCTAGTG-
64 ATTCGTGCTAGTGA
* * *
38582423 GATCTGGGCTATGTCCGAAGAGCATTCTTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
1 GATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
*
38582488 TCATGCTAGTG
66 TCGTGCTAGTG
38582499 TTGTATCCGG
Statistics
Matches: 143, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
75 62 0.43
76 8 0.06
78 7 0.05
79 53 0.37
80 13 0.09
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (77 bp):
GATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
TCGTGCTAGTGA
Found at i:38582586 original size:40 final size:40
Alignment explanation
Indices: 38582521--38582701 Score: 247
Period size: 40 Copynumber: 4.5 Consensus size: 40
38582511 TAAGTTCCGA
* *
38582521 CCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* * * *
38582561 CCGGGCTAAATTTCGAAGAGCATTCGTGCTAGTGTTGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* *
38582601 CCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
38582641 CCGTGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
*
38582681 CCGGGCT-AGGTCCGAAGAGCA
1 CCGGGCTAAGTTCCGAAGAGCA
38582702 ATCATGCTGG
Statistics
Matches: 124, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 13 0.10
40 111 0.90
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:38582602 original size:96 final size:96
Alignment explanation
Indices: 38582438--38582616 Score: 304
Period size: 96 Copynumber: 1.9 Consensus size: 96
38582428 GGGCTATGTC
* * *
38582438 CGAAGAGCATTCTTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGTTGT
1 CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTGTTGT
38582503 ATCCGGACTAAGTTCCGACCGGACTAAGTTT
66 ATCCGGACTAAGTTCCGACCGGACTAAGTTT
** *
38582534 CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATTTCGAAGAGCATTCGTGCTAGTGTTGT
1 CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTGTTGT
38582599 ATCCGGACTAAGTTCCGA
66 ATCCGGACTAAGTTCCGA
38582617 AGAGCATTCA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (96 bp):
CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTGTTGT
ATCCGGACTAAGTTCCGACCGGACTAAGTTT
Found at i:38582658 original size:80 final size:80
Alignment explanation
Indices: 38582521--38582714 Score: 282
Period size: 80 Copynumber: 2.4 Consensus size: 80
38582511 TAAGTTCCGA
* * *
38582521 CCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATTTCGAAGAGCATTC
1 CCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAATTCCGAAGAGCATTC
*
38582586 GTGCTAGTGTTGTAT
66 GTGCTAGTGTTATAT
* *
38582601 CCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATATATCCGTGCTAAGTTCCGAAGAGCATTC
1 CCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAATTCCGAAGAGCATTC
*
38582666 GTGCTGGTGTTATAT
66 GTGCTAGTGTTATAT
* * * *
38582681 CCGGGCT-AGGTCCGAAGAGCAATCATGCTGGTGA
1 CCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGA
38582715 CGTGTATTCG
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
79 24 0.23
80 79 0.77
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (80 bp):
CCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAATTCCGAAGAGCATTC
GTGCTAGTGTTATAT
Found at i:38586350 original size:47 final size:47
Alignment explanation
Indices: 38586298--38586752 Score: 678
Period size: 47 Copynumber: 9.6 Consensus size: 47
38586288 TATAATTGTG
* *
38586298 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
38586345 ATGTGAAACTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
38586392 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38586441 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
38586488 ATGTGAAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
38586537 ATGTGAAAGTGTATATATATCTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38586586 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38586633 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * *
38586680 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
38586727 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
38586753 TCCCGAAGGG
Statistics
Matches: 372, Mismatches: 28, Indels: 15
0.90 0.07 0.04
Matches are distributed among these distances:
46 2 0.01
47 236 0.63
48 2 0.01
49 132 0.35
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:38586368 original size:96 final size:97
Alignment explanation
Indices: 38586286--38586752 Score: 488
Period size: 96 Copynumber: 4.9 Consensus size: 97
38586276 GAAGTATATT
38586286 TGTATAATTG-TG-ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 TGTATAATTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
38586347 GTGAAACTGTATATATGTGATAAGGCCGAA--
66 GTGAAAGTGTATATATGTGATAAGGCCTAATC
***
38586377 TGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTATAAT-TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
38586442 TGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
65 TGTGAAAGTGTATATATGTGATAAGGCCTAAT--C
* * * * *
38586477 CG-AT--GTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 TGTATAATTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
38586539 GTGAAAGTGTATATATATCTGATAAGGCCTAATGGC
66 GTGAAAGTG--TATATATGTGATAAGGCCTAAT--C
* * * *
38586575 CG-GT--GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAAT
1 TGTATAATTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
38586635 GTGAAAGTGTATATATGTGATGAGGCCTAATGGC
66 GTGAAAGTGTATATATGTGATAAGGCCTAAT--C
* * * * * * *
38586669 CG-AT--GTGATGAATGTGAAAGTG--TATATATGTGA-CAGAGCCGAGTGGCCAATGTGATGGA
1 TGTATAATTGATGAATGTGAAAGTGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGAA
*
38586728 TGTGAAAGTGTATAAATGTGATAAG
65 TGTGAAAGTGTATATATGTGATAAG
38586753 TCCCGAAGGG
Statistics
Matches: 335, Mismatches: 29, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
91 5 0.01
92 2 0.01
93 4 0.01
94 100 0.30
95 2 0.01
96 177 0.53
98 44 0.13
100 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (97 bp):
TGTATAATTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
GTGAAAGTGTATATATGTGATAAGGCCTAATC
Found at i:38586538 original size:145 final size:143
Alignment explanation
Indices: 38586298--38586752 Score: 727
Period size: 145 Copynumber: 3.2 Consensus size: 143
38586288 TATAATTGTG
* * * *
38586298 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
38586363 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
38586428 GCCGATGTGATGA
131 GCCGATGTGATGA
38586441 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--GTGTATAT
*
38586506 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATCTGATAAGGCCTAA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
*
38586571 TGGCCGGTGTGATGA
129 TGGCCGATGTGATGA
38586586 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * *
38586651 GTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA-CAGAGCCGAGT
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG-GCCTAAT
* *
38586713 GGCCAATGTGATGG
130 GGCCGATGTGATGA
*
38586727 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
38586753 TCCCGAAGGG
Statistics
Matches: 292, Mismatches: 17, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
140 2 0.01
141 51 0.17
143 99 0.34
145 140 0.48
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:38588685 original size:26 final size:27
Alignment explanation
Indices: 38588636--38588699 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
38588626 ATTTACTAAA
* *
38588636 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAGGTATCAAAATTACCATT
38588663 ATACCCCTAGGTA-CAAAATTACCATT
1 ATACCCCTAGGTATCAAAATTACCATT
*
38588689 ATACCGCTAGG
1 ATACCCCTAGG
38588700 GTTAATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.27
Consensus pattern (27 bp):
ATACCCCTAGGTATCAAAATTACCATT
Found at i:38588845 original size:27 final size:27
Alignment explanation
Indices: 38588807--38588915 Score: 150
Period size: 27 Copynumber: 4.0 Consensus size: 27
38588797 AAGCGTTCTA
38588807 GTGGCTCTGCCACAAATATCTG-ATCTG
1 GTGGCTCTGCCAC-AATATCTGTATCTG
*
38588834 GTGGCTCTGCCACAAATATCTGTTTCTG
1 GTGGCTCTGCCAC-AATATCTGTATCTG
*
38588862 GTGGCTATGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
38588889 GTGACTCTGTCACAATATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
38588915 G
1 G
38588916 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 5 0.07
27 54 0.72
28 16 0.21
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:38588909 original size:54 final size:54
Alignment explanation
Indices: 38588801--38588915 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 54
38588791 TGGAGGAAGC
* * *
38588801 GTTCTAGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
*
38588855 GTTTCTGGTGGCTATGCCAC-AATATCTGTATCTGGTGACTCTGTCAC-AATATCT
1 G-TTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACAAATATCT
38588909 GTTCTGG
1 GTTCTGG
38588916 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
53 6 0.11
54 17 0.31
55 32 0.58
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
Found at i:38596688 original size:27 final size:27
Alignment explanation
Indices: 38596650--38596762 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
38596640 GAGGAAGCGT
38596650 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
38596677 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
38596705 TCTGGTGGCTCTACCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* * *
38596732 TCTAGTGACTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
38596758 TCTGG
1 TCTGG
38596763 CAGCCATGCC
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.05
27 57 0.74
28 16 0.21
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:38596756 original size:54 final size:54
Alignment explanation
Indices: 38596648--38596762 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 54
38596638 TGGAGGAAGC
* * *
38596648 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTACCACAAATATCTGATCTAGTGACTCTGCCACAAATATCT
*
38596702 GTTTCTGGTGGCTCTACCAC-AATATCTGTATCTAGTGACTCTGTCAC-AATATCT
1 G-TTCTGGTGGCTCTACCACAAATATCTG-ATCTAGTGACTCTGCCACAAATATCT
38596756 GTTCTGG
1 GTTCTGG
38596763 CAGCCATGCC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
53 6 0.11
54 17 0.31
55 32 0.58
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (54 bp):
GTTCTGGTGGCTCTACCACAAATATCTGATCTAGTGACTCTGCCACAAATATCT
Found at i:38606706 original size:10 final size:10
Alignment explanation
Indices: 38606691--38606721 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
38606681 GCTTAGGCAT
*
38606691 TTTTGGACCA
1 TTTTGGGCCA
38606701 TTTTGGGCCA
1 TTTTGGGCCA
38606711 TTTTGGGCCA
1 TTTTGGGCCA
38606721 T
1 T
38606722 ATTCGGTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.13, C:0.19, G:0.26, T:0.42
Consensus pattern (10 bp):
TTTTGGGCCA
Done.