Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 83 of 335
Found at i:27490645 original size:2 final size:2
Alignment explanation
Indices: 27490640--27490667 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27490630 AGTGTGTATG
27490640 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27490668 AGATGCAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27492704 original size:21 final size:21
Alignment explanation
Indices: 27492665--27492704 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27492655 ATTAATATAA
* **
27492665 TTTAAAACTAAAATTTTAAAT
1 TTTAAAAATAAAAAATTAAAT
27492686 TTTAAAAATAAAAAATTAA
1 TTTAAAAATAAAAAATTAA
27492705 GATTACAAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAAAAATAAAAAATTAAAT
Found at i:27496336 original size:26 final size:26
Alignment explanation
Indices: 27496300--27496409 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
27496290 CATGAAATTC
27496300 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
27496326 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
27496352 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
27496378 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
27496404 TTATCA
1 TTATCA
27496410 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:27499714 original size:13 final size:13
Alignment explanation
Indices: 27499696--27499723 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27499686 TGTTTTCATC
27499696 TGCATAATTATTT
1 TGCATAATTATTT
27499709 TGCATAATTATTT
1 TGCATAATTATTT
27499722 TG
1 TG
27499724 AAGTTCGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.54
Consensus pattern (13 bp):
TGCATAATTATTT
Found at i:27508844 original size:46 final size:46
Alignment explanation
Indices: 27508794--27508969 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
27508784 TGGTTGAGCA
27508794 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27508840 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
27508885 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27508933 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27508970 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27508950 original size:93 final size:93
Alignment explanation
Indices: 27508791--27508962 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
27508781 GGATGGTTGA
* *
27508791 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27508856 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
27508884 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27508949 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
27508963 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27516403 original size:46 final size:46
Alignment explanation
Indices: 27516353--27516528 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
27516343 TGGTTGAGCA
27516353 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27516399 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
27516444 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27516492 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27516529 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27516509 original size:93 final size:93
Alignment explanation
Indices: 27516350--27516521 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
27516340 GGATGGTTGA
* *
27516350 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27516415 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
27516443 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27516508 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
27516522 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27520237 original size:75 final size:75
Alignment explanation
Indices: 27520118--27520289 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
27520108 CATGGCAAAG
** *
27520118 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
27520177 CCATACTGAGC
65 CCATACCGAGC
27520188 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
27520253 CATACCGAGT
66 CATACCGAGC
***
27520263 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
27520290 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:27520256 original size:35 final size:35
Alignment explanation
Indices: 27520121--27520287 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
27520111 GGCAAAGTGT
* **
27520121 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
27520156 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
27520191 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
27520231 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
27520267 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
27520288 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:27520279 original size:36 final size:35
Alignment explanation
Indices: 27520217--27520287 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
27520207 ATTATCAAAT
* *
27520217 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
27520252 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
27520288 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:27527735 original size:75 final size:75
Alignment explanation
Indices: 27527616--27527786 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
27527606 CATGGCAAAG
** *
27527616 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
27527675 CCATACTGAGC
65 CCATACCGAGC
27527686 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
27527751 CATACCGAGT
66 CATACCGAGC
***
27527761 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
27527787 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:27527754 original size:35 final size:35
Alignment explanation
Indices: 27527619--27527784 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
27527609 GGCAAAGTGT
* **
27527619 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
27527654 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
27527689 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
27527729 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
27527764 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
27527785 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:27530284 original size:14 final size:14
Alignment explanation
Indices: 27530262--27530300 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
27530252 CGGGCCCGTG
*
27530262 CAAACACAAAACAA
1 CAAAAACAAAACAA
27530276 CAAAAACAAAACAA
1 CAAAAACAAAACAA
27530290 -AAAATACAAAA
1 CAAAA-ACAAAA
27530301 AATATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.77, C:0.21, G:0.00, T:0.03
Consensus pattern (14 bp):
CAAAAACAAAACAA
Found at i:27530292 original size:20 final size:21
Alignment explanation
Indices: 27530263--27530301 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
27530253 GGGCCCGTGC
27530263 AAACACAAAACA-ACAAAAACA
1 AAACACAAAA-ATACAAAAACA
27530284 AAACA-AAAAATACAAAAA
1 AAACACAAAAATACAAAAA
27530302 ATATATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.79, C:0.18, G:0.00, T:0.03
Consensus pattern (21 bp):
AAACACAAAAATACAAAAACA
Found at i:27530499 original size:21 final size:21
Alignment explanation
Indices: 27530458--27530529 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
27530448 CGGACACCTA
*
27530458 CAAATAGATAAGAAAACAACAG
1 CAAATAGA-AACAAAACAACAG
*
27530480 CAAATAGAAACAAAAAAACAAG
1 CAAATAGAAACAAAACAAC-AG
* * **
27530502 CAAATGGCAACAGGACAACAG
1 CAAATAGAAACAAAACAACAG
27530523 CAAATAG
1 CAAATAG
27530530 GAAAAATGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
21 17 0.41
22 24 0.59
ACGTcount: A:0.61, C:0.17, G:0.15, T:0.07
Consensus pattern (21 bp):
CAAATAGAAACAAAACAACAG
Found at i:27532494 original size:14 final size:14
Alignment explanation
Indices: 27532475--27532504 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27532465 TATTTGATTG
27532475 TTAGTCCATCATTT
1 TTAGTCCATCATTT
*
27532489 TTAGTCCATTATTT
1 TTAGTCCATCATTT
27532503 TT
1 TT
27532505 GTGTCGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (14 bp):
TTAGTCCATCATTT
Found at i:27533209 original size:130 final size:132
Alignment explanation
Indices: 27532834--27533235 Score: 431
Period size: 132 Copynumber: 3.1 Consensus size: 132
27532824 TAATTATTCA
*
27532834 TTTAAAAATTCTTTAAAACGA-AGACGAGAT-TT-AATATTTGGCAATTCGCAGAATCGTGCCCT
1 TTTAAAAATTCTTT-AAACGATAG--GAGATGTTCGATATTTGGCAATTCGCAGAATCGTGCCCT
* * * * * * *
27532896 AACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTTA
63 AACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAATATCCCTTTAGAGTTTCACTCA
27532961 TGTCT
128 TGTCT
** * ** * * * * *
27532966 TCCAAAAATCCTTTAAAATAAAGGTGATGTTCGACATTTGACAATTCGCAGAATCATGCCCTAAC
1 TTTAAAAATTCTTTAAACGATAGGAGATGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTAAC
* * *
27533031 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGATCCCTTTAGAGTTTCACCCATGT
66 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAATATCCCTTTAGAGTTTCACTCATGT
27533096 CT
131 CT
* *
27533098 TTTAAAAATTCTTTAAAC-ATAGGAGATGTTCGATATTTGGCAATTCG-GGAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAACGATAGGAGATGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTAAC
* * * * * * * *
27533161 GTGCTAGGTTGCGATTTCTCGTTGGTTCAAAGCAGTTGAATATTCCTTTAG-GTTTTCACTCATG
66 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAATATCCCTTTAGAG-TTTCACTCATG
27533225 T-T
130 TCT
27533227 TTTACAAAA
1 TTTA-AAAA
27533236 AAAAAATTCT
Statistics
Matches: 225, Mismatches: 40, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
129 6 0.03
130 73 0.32
131 31 0.14
132 115 0.51
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAACGATAGGAGATGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTAAC
GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAATATCCCTTTAGAGTTTCACTCATGT
CT
Found at i:27537247 original size:26 final size:26
Alignment explanation
Indices: 27537211--27537318 Score: 144
Period size: 26 Copynumber: 4.2 Consensus size: 26
27537201 TGAAATTCCC
* *
27537211 ATCATGAAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
27537237 ATCACGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27537263 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* **
27537289 GTCATAAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27537315 ATCA
1 ATCA
27537319 ATTTGTATCA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27539882 original size:6 final size:6
Alignment explanation
Indices: 27539871--27539912 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
27539861 ACACTATAGG
* *
27539871 GTAACA GTAACA GTAATA GTAACA GTAATA GTAACA GTAACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA
27539913 ATCATAATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:27540792 original size:20 final size:18
Alignment explanation
Indices: 27540754--27540797 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
27540744 AAAACCTAAT
27540754 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
27540771 TTTCCCTTTTTCATTCTTTC
1 TTTCCCTTTTTC-TT-TTTC
27540791 TTTCCCT
1 TTTCCCT
27540798 GCTAATCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 5 0.21
19 2 0.08
20 11 0.46
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:27548486 original size:4 final size:4
Alignment explanation
Indices: 27548477--27548520 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
27548467 AGCCATTTAG
*
27548477 CATA CATA CATA CATA CATA CATA CATA GATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
27548521 GTAATTAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:27553206 original size:25 final size:26
Alignment explanation
Indices: 27553171--27553237 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
27553161 TTTATATTAA
27553171 AATAAATTTAAAAATATAATATATT-G
1 AATAAA-TTAAAAATATAATATATTCG
* *
27553197 AA-AACATT-AAAATA-AATATTTTCT
1 AATAA-ATTAAAAATATAATATATTCG
27553221 AATAAATTAAAAATATA
1 AATAAATTAAAAATATA
27553238 TTAAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
23 7 0.21
24 11 0.32
25 12 0.35
26 4 0.12
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (26 bp):
AATAAATTAAAAATATAATATATTCG
Found at i:27553326 original size:23 final size:22
Alignment explanation
Indices: 27553300--27553342 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
27553290 AAATGTCTCT
* *
27553300 AAAATAGTAGCAAAAATAATAAC
1 AAAATAATAACAAAAA-AATAAC
27553323 AAAATAATAACAAAAAAATA
1 AAAATAATAACAAAAAAATA
27553343 GTAGTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (22 bp):
AAAATAATAACAAAAAAATAAC
Found at i:27553340 original size:14 final size:12
Alignment explanation
Indices: 27553300--27553342 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
27553290 AAATGTCTCT
* *
27553300 AAAATAGTAGCA
1 AAAATAATAACA
27553312 AAAATAATAAC-
1 AAAATAATAACA
27553323 AAAATAATAACA
1 AAAATAATAACA
27553335 AAAA-AATA
1 AAAATAATA
27553343 GTAGTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 15 0.54
12 13 0.46
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (12 bp):
AAAATAATAACA
Found at i:27553354 original size:22 final size:22
Alignment explanation
Indices: 27553328--27553378 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
27553318 ATAACAAAAT
*
27553328 AATAACAAAAAAATAGTAGTAA
1 AATAACAAAAAAATAGTAGCAA
* * * *
27553350 TATAATAACAAAATGGTAGCAA
1 AATAACAAAAAAATAGTAGCAA
27553372 AATAACA
1 AATAACA
27553379 TCAGTAGTGA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.20
Consensus pattern (22 bp):
AATAACAAAAAAATAGTAGCAA
Found at i:27553573 original size:21 final size:21
Alignment explanation
Indices: 27553547--27553591 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
27553537 ATTAGTTCAA
27553547 AAGAAATAATTGGTTAATTAT
1 AAGAAATAATTGGTTAATTAT
27553568 AAGAAATAATTGGTTAATTAT
1 AAGAAATAATTGGTTAATTAT
27553589 AAG
1 AAG
27553592 GTTTGGTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.36
Consensus pattern (21 bp):
AAGAAATAATTGGTTAATTAT
Found at i:27553622 original size:3 final size:3
Alignment explanation
Indices: 27553614--27553652 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
27553604 AGTTAAACTT
27553614 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27553653 ATAAGGATAA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27554308 original size:37 final size:37
Alignment explanation
Indices: 27554253--27554326 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
27554243 ATAAAAGGAA
27554253 AACACATCCAGATTGATATAAGAGGATACAAACATAT
1 AACACATCCAGATTGATATAAGAGGATACAAACATAT
*
27554290 AACATATCCAGATTGATATAAGAGGATACAAACATAT
1 AACACATCCAGATTGATATAAGAGGATACAAACATAT
27554327 CCAGATTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.23
Consensus pattern (37 bp):
AACACATCCAGATTGATATAAGAGGATACAAACATAT
Found at i:27558055 original size:2 final size:2
Alignment explanation
Indices: 27558043--27558080 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
27558033 TACTTCTGCT
27558043 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27558081 TTTTTTTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:27558216 original size:21 final size:20
Alignment explanation
Indices: 27558177--27558216 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27558167 AAACTTATTT
*
27558177 TTACATACCAAATATTAAAA
1 TTACATACCAAAAATTAAAA
*
27558197 TTACATCCCAAAAAATTAAA
1 TTACATACC-AAAAATTAAA
27558217 TTTATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (20 bp):
TTACATACCAAAAATTAAAA
Found at i:27560753 original size:20 final size:21
Alignment explanation
Indices: 27560714--27560753 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27560704 AAGAGAATGT
*
27560714 ATTTTTGTAATGCAATAATTG
1 ATTTTTGTAATGCAACAATTG
*
27560735 ATTTTTGTATTGC-ACAATT
1 ATTTTTGTAATGCAACAATT
27560754 AGGCATTGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.50
Consensus pattern (21 bp):
ATTTTTGTAATGCAACAATTG
Found at i:27574023 original size:16 final size:17
Alignment explanation
Indices: 27573990--27574024 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27573980 TCATGTATTT
*
27573990 TTTTATTTTTTTATAAA
1 TTTTAGTTTTTTATAAA
27574007 TTTTAGTTTTTTA-AAA
1 TTTTAGTTTTTTATAAA
27574023 TT
1 TT
27574025 AGGACTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTAGTTTTTTATAAA
Found at i:27579682 original size:17 final size:17
Alignment explanation
Indices: 27579648--27579682 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27579638 AACTTGAGCC
* *
27579648 TTTATTTATTTATTCAT
1 TTTATTTATGTATCCAT
27579665 TTTATTTATGTATCCAT
1 TTTATTTATGTATCCAT
27579682 T
1 T
27579683 GTCGGAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTATTTATGTATCCAT
Found at i:27580175 original size:16 final size:17
Alignment explanation
Indices: 27580144--27580176 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27580134 TTCATAAGTA
27580144 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
27580161 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
27580177 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:27580728 original size:46 final size:46
Alignment explanation
Indices: 27580457--27580730 Score: 379
Period size: 46 Copynumber: 6.0 Consensus size: 46
27580447 TTATCTTTGA
* * * * * * *
27580457 CATGATGCCATAGTGTCTTTCAACTACGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ** ***
27580503 CATGTTGCCATGGTATCTTTCAACCATTGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
27580549 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACGCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
27580595 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
27580641 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
27580687 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
27580731 TTCAAAGAGC
Statistics
Matches: 207, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 203 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:27583275 original size:30 final size:31
Alignment explanation
Indices: 27583223--27583281 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
27583213 CACCCTTAAA
** *
27583223 ATATTTACACTATTGGTCCTTCAACTTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTTC
27583254 ATATTTACACT-TTAATCCTTCAAATTTT
1 ATATTTACACTATTAATCCTTCAAATTTT
27583282 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.27, C:0.20, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCCTTCAAATTTTTC
Found at i:27583289 original size:30 final size:31
Alignment explanation
Indices: 27583223--27583291 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
27583213 CACCCTTAAA
** *
27583223 ATATTTACACTATTGGTCCTTCAACTTTTTC
1 ATATTTACACTATTAATCCTTCAACATTTTC
*
27583254 ATATTTACACT-TTAATCCTTCAA-ATTTTG
1 ATATTTACACTATTAATCCTTCAACATTTTC
27583283 AGTATTTAC
1 A-TATTTAC
27583292 TCTTATGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.48
Consensus pattern (31 bp):
ATATTTACACTATTAATCCTTCAACATTTTC
Found at i:27587676 original size:29 final size:30
Alignment explanation
Indices: 27587640--27587710 Score: 126
Period size: 29 Copynumber: 2.4 Consensus size: 30
27587630 AAAACCCTCA
27587640 AAACTTTTTACTCCCTCCCACTTT-CCCCT
1 AAACTTTTTACTCCCTCCCACTTTCCCCCT
27587669 AAACTTTTTACTCCCTCCCACTTTCCCCCT
1 AAACTTTTTACTCCCTCCCACTTTCCCCCT
*
27587699 AAAATTTTTACT
1 AAACTTTTTACT
27587711 TCATTCCTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 24 0.60
30 16 0.40
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (30 bp):
AAACTTTTTACTCCCTCCCACTTTCCCCCT
Found at i:27589746 original size:2 final size:2
Alignment explanation
Indices: 27589734--27589770 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
27589724 AAGATAGTCT
*
27589734 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27589771 GTATTTTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:27597612 original size:30 final size:31
Alignment explanation
Indices: 27597531--27597613 Score: 75
Period size: 33 Copynumber: 2.7 Consensus size: 31
27597521 TTTAATTTAT
*
27597531 TTATAATATAT-TAT-TA-ATTAAATAATCA
1 TTATAATATATATATATATAATAAATAATCA
* * *
27597559 TAATAATTTAATATAAAACTATAAT-AATAATCA
1 TTATAATAT-ATAT-ATA-TATAATAAATAATCA
27597592 TTATAATATATATATATATAAT
1 TTATAATATATATATATATAAT
27597614 TTAATATATA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
28 7 0.17
29 2 0.05
30 7 0.17
31 3 0.07
32 4 0.10
33 17 0.40
34 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (31 bp):
TTATAATATATATATATATAATAAATAATCA
Found at i:27602223 original size:46 final size:46
Alignment explanation
Indices: 27602162--27602342 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
27602152 TAGGATGGTT
27602162 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
27602208 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
27602254 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
27602301 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27602343 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:27602323 original size:93 final size:93
Alignment explanation
Indices: 27602164--27602334 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
27602154 GGATGGTTGA
* *
27602164 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27602229 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
27602257 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27602322 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
27602335 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27609410 original size:3 final size:3
Alignment explanation
Indices: 27609402--27609441 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
27609392 TTTGTTTATG
27609402 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27609442 AACCTAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27619491 original size:30 final size:29
Alignment explanation
Indices: 27619434--27619491 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
27619424 CTTTTTTACT
* *
27619434 TTTCCCTCAAAACTTTTACTCCTTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTCCCAC
*
27619463 TTTCCCCCCAAACTTTTACTCCCCTCCCA
1 TTTCCCCCAAAACTTTTACT-CCCTCCCA
27619492 TCCCAACCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.19, C:0.47, G:0.00, T:0.34
Consensus pattern (29 bp):
TTTCCCCCAAAACTTTTACTCCCTCCCAC
Found at i:27621848 original size:49 final size:49
Alignment explanation
Indices: 27621771--27621866 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 49
27621761 GTCGCATTGC
* * * *
27621771 AACTTGGGCTCCCAATTCACAGTGGTTATACGGTCACGAGTTGAAGTAT
1 AACTAGGGCTCCCAATTCACAGTAGTTATACGATCACGAGTTCAAGTAT
* * * *
27621820 AACTAGGGCTCCCAATTGACGGTAGTTATGCGATCATGAGTTCAAGT
1 AACTAGGGCTCCCAATTCACAGTAGTTATACGATCACGAGTTCAAGT
27621867 TTTATGCCAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (49 bp):
AACTAGGGCTCCCAATTCACAGTAGTTATACGATCACGAGTTCAAGTAT
Found at i:27623901 original size:21 final size:21
Alignment explanation
Indices: 27623875--27623918 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
27623865 AATGAAAGTT
*
27623875 AAACAATATTTATATTGTATG
1 AAACAATATTTACATTGTATG
27623896 AAACAATATTTACATTGTATG
1 AAACAATATTTACATTGTATG
27623917 AA
1 AA
27623919 CTTGCTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (21 bp):
AAACAATATTTACATTGTATG
Found at i:27629978 original size:8 final size:8
Alignment explanation
Indices: 27629965--27630001 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
27629955 AAAGAACACT
27629965 CTTACTTG
1 CTTACTTG
27629973 CTTACTTG
1 CTTACTTG
27629981 CTTACTTG
1 CTTACTTG
27629989 CTTACTTG
1 CTTACTTG
27629997 CTTAC
1 CTTAC
27630002 ACCTCTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.14, C:0.27, G:0.11, T:0.49
Consensus pattern (8 bp):
CTTACTTG
Found at i:27630923 original size:2 final size:2
Alignment explanation
Indices: 27630916--27630945 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27630906 CCTCAATTAA
27630916 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27630946 TAGAATGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27636925 original size:158 final size:158
Alignment explanation
Indices: 27636637--27636962 Score: 474
Period size: 158 Copynumber: 2.1 Consensus size: 158
27636627 TTAGAATATA
* * * *
27636637 ATTCATTTTTATTAAGTAAAGCTAAAAATCAGTATAAGATAATTTTGATGTAATTCCATAAGAGC
1 ATTCATATTTATAAAGTAAAACTAAAAATCAATATAAGATAATTTTGATGTAATTCCATAAGAGC
* * ** * * * *
27636702 CTTGATATAATCCAATGCCTTTAAATTTGGAGAGTGATCTTACTTGATCTTCAAGTAACCATTTT
66 CTCGATATAATCCAATACCTTTAAACATGAAAAATGATCTTACTTGATCATCAAGTAACCATTTT
27636767 TCAAGTTTTCAACCTTAACTCAATTGGT
131 TCAAGTTTTCAACCTTAACTCAATTGGT
27636795 ATTCATATTTATAAAGTAAAACTAAAAATCAATATAAGATAATTTTGATGTAATTCCATAAGAGC
1 ATTCATATTTATAAAGTAAAACTAAAAATCAATATAAGATAATTTTGATGTAATTCCATAAGAGC
** * * *
27636860 CTCGATATAATCCAATATGTTTGAACATGAAAAATGA-CTCTACTTGTTCATCAAGTGACCATTT
66 CTCGATATAATCCAATACCTTTAAACATGAAAAATGATCT-TACTTGATCATCAAGTAACCATTT
27636924 TTCAAGTTTTCAACCTTAACTCAATTGGT
130 TTCAAGTTTTCAACCTTAACTCAATTGGT
*
27636953 CTTCATATTT
1 ATTCATATTT
27636963 TGAGTTTTAA
Statistics
Matches: 149, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
157 2 0.01
158 147 0.99
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (158 bp):
ATTCATATTTATAAAGTAAAACTAAAAATCAATATAAGATAATTTTGATGTAATTCCATAAGAGC
CTCGATATAATCCAATACCTTTAAACATGAAAAATGATCTTACTTGATCATCAAGTAACCATTTT
TCAAGTTTTCAACCTTAACTCAATTGGT
Found at i:27639649 original size:22 final size:23
Alignment explanation
Indices: 27639624--27639669 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
27639614 GATGGGGGGG
27639624 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATGGTATTTTGAGGAGAGA
* *
27639646 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATGGTATTTTGAGGAGAGA
27639669 A
1 A
27639670 GAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.30, C:0.04, G:0.33, T:0.33
Consensus pattern (23 bp):
ATCGATGGTATTTTGAGGAGAGA
Found at i:27639675 original size:23 final size:22
Alignment explanation
Indices: 27639631--27639680 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
27639621 GGGATCGATG
**
27639631 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
27639653 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
27639676 GTATT
1 GTATT
27639681 AGAGTGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:27640359 original size:38 final size:38
Alignment explanation
Indices: 27640292--27640402 Score: 186
Period size: 38 Copynumber: 2.9 Consensus size: 38
27640282 ATAAAGTATG
27640292 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGAATA
*
27640331 GTTTTAATTAATAATAAAACAAAATAGTATGGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGAATA
* *
27640369 GTTTTAATTAATAATAAAACAAAGTAGCATGGGG
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGG
27640403 GAGTGGAATC
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 54 0.78
39 15 0.22
ACGTcount: A:0.48, C:0.04, G:0.18, T:0.31
Consensus pattern (38 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGAATA
Found at i:27640951 original size:2 final size:2
Alignment explanation
Indices: 27640924--27640968 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
27640914 AAATATTTTA
* *
27640924 AT AT -T AT AT -T AT GT AT AC AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27640963 AT AT AT
1 AT AT AT
27640969 CTCTTTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:27644895 original size:15 final size:15
Alignment explanation
Indices: 27644875--27644903 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27644865 TTACTTTCCA
27644875 AGAGGTAGAAAAGAG
1 AGAGGTAGAAAAGAG
27644890 AGAGGTAGAAAAGA
1 AGAGGTAGAAAAGA
27644904 AAATCTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.38, T:0.07
Consensus pattern (15 bp):
AGAGGTAGAAAAGAG
Found at i:27656034 original size:205 final size:203
Alignment explanation
Indices: 27655654--27656439 Score: 1245
Period size: 205 Copynumber: 3.8 Consensus size: 203
27655644 TAGGCCGCAG
*
27655654 CATAACAGATCT-GACCTTCAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCG-CCTTCAGATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
27655718 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACATGATTACGATGAAGCAAATCT
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
* *
27655783 AAGATGATTTGTCGTCTCTGTATTGTTAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATAG
129 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
27655848 AGAGCAGACA
194 AGAGCAGACA
27655858 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
27655923 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAATCT
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
27655988 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
129 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
27656053 AGAGCAGACA
194 AGAGCAGACA
* *
27656063 CATAGCAGATCTCGCCTTCAGATGATTTTACTGAAGCAAATTCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG--TTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* *
27656128 TTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAATC
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATC
*
27656192 TAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATG
128 TAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATG
27656257 GAGAGCAGACA
193 GAGAGCAGACA
* * *
27656268 CATAGCAGATCTCGCCTTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTTATG
1 CATAGCAGATCTCGCCTTCAGATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * * * * *
27656333 CTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCGCGTGCTTACGTTAAAGCAAATCT
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
* * * * *
27656397 AATATGATTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
129 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAG
27656440 AAATAGATTT
Statistics
Matches: 542, Mismatches: 32, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
203 4 0.01
204 97 0.18
205 438 0.81
206 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (203 bp):
CATAGCAGATCTCGCCTTCAGATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTT
TACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAA
GATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAG
AGCAGACA
Found at i:27656585 original size:44 final size:43
Alignment explanation
Indices: 27656536--27656665 Score: 199
Period size: 44 Copynumber: 3.0 Consensus size: 43
27656526 GATTTCAACA
*
27656536 TGGCATCCCAGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA-AGCAGATT
*
27656580 TGGCATCCCTGTGTTTATAGAGAACAAGTTGAAGACAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA-AGCAGATT
*
27656624 TGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGAAGCAGAT
1 TGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGAAGCAGAT
27656666 CGAAGAACTC
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
43 9 0.11
44 71 0.89
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (43 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAAGCAGATT
Found at i:27656666 original size:13 final size:13
Alignment explanation
Indices: 27656648--27656672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27656638 TTATAGGGAA
27656648 CAGATCGAAGAAG
1 CAGATCGAAGAAG
27656661 CAGATCGAAGAA
1 CAGATCGAAGAA
27656673 CTCAAAACTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.28, T:0.08
Consensus pattern (13 bp):
CAGATCGAAGAAG
Found at i:27657156 original size:22 final size:23
Alignment explanation
Indices: 27657124--27657180 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
27657114 AGATGGGAGG
*
27657124 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATTGTATTTTGAGGAGAGA
*
27657146 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATTGTATTTTGAGGAGAGA
**
27657169 AGAGATTGTATT
1 ATCGATTGTATT
27657181 AGAGGGGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (23 bp):
ATCGATTGTATTTTGAGGAGAGA
Found at i:27657175 original size:23 final size:22
Alignment explanation
Indices: 27657131--27657180 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
27657121 AGGATCGATG
**
27657131 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
27657153 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
27657176 GTATT
1 GTATT
27657181 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:27657897 original size:39 final size:39
Alignment explanation
Indices: 27657786--27657897 Score: 163
Period size: 39 Copynumber: 2.9 Consensus size: 39
27657776 TAAAGTATGA
*
27657786 TTTTAATTAATAAAAAAAACAAAATAGTAT-GGGGAATAG
1 TTTTAATTAAT-AATAAAACAAAATAGTATGGGGGAATAG
* *
27657825 TTTTAATTAATAATGAAACAAAATAGTATGGGGGAGTAG
1 TTTTAATTAATAATAAAACAAAATAGTATGGGGGAATAG
* *
27657864 TTTTAATTAATAATAAAACAAAGTAGCATGGGGG
1 TTTTAATTAATAATAAAACAAAATAGTATGGGGG
27657898 GAGTGGAATC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 16 0.24
39 50 0.76
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (39 bp):
TTTTAATTAATAATAAAACAAAATAGTATGGGGGAATAG
Found at i:27666113 original size:2 final size:2
Alignment explanation
Indices: 27666108--27666133 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27666098 ACAGAGAGGC
27666108 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27666134 GGTAGGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27673543 original size:3 final size:3
Alignment explanation
Indices: 27673503--27673527 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27673493 TTCAAAACAA
27673503 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
27673528 CACTTTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27674640 original size:26 final size:26
Alignment explanation
Indices: 27674601--27674653 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
27674591 GGGAGAACCT
*
27674601 ATGAAAATTGGGTGAAATTTCATGAG
1 ATGAAAATTAGGTGAAATTTCATGAG
27674627 ATGAAAATTAGGTGAAATTTCATGAG
1 ATGAAAATTAGGTGAAATTTCATGAG
27674653 A
1 A
27674654 AATATATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.25, T:0.30
Consensus pattern (26 bp):
ATGAAAATTAGGTGAAATTTCATGAG
Found at i:27677245 original size:3 final size:3
Alignment explanation
Indices: 27677237--27677295 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
27677227 TATTCCAATT
27677237 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27677285 TTA TTA TTA TT
1 TTA TTA TTA TT
27677296 TATTTTACTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27677307 original size:5 final size:5
Alignment explanation
Indices: 27677234--27677315 Score: 67
Period size: 6 Copynumber: 14.8 Consensus size: 5
27677224 AAGTATTCCA
27677234 ATTTT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
1 ATTTT ATT-TT ATT-TT ATT-TT ATT-TT ATT-TT ATT-TT ATT-TT ATT-TT
*
27677287 ATTATT A-TTT ATTTT ACTTT ATTTT ATTT
1 ATT-TT ATTTT ATTTT ATTTT ATTTT ATTT
27677316 CTTTTTTATA
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
4 3 0.04
5 19 0.26
6 51 0.70
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (5 bp):
ATTTT
Found at i:27677307 original size:10 final size:9
Alignment explanation
Indices: 27677234--27677320 Score: 60
Period size: 9 Copynumber: 9.6 Consensus size: 9
27677224 AAGTATTCCA
27677234 ATTTTA-TT
1 ATTTTATTT
27677242 ATTATTA-TT
1 ATT-TTATTT
27677251 ATTATTA-TT
1 ATT-TTATTT
27677260 ATTATTA-TT
1 ATT-TTATTT
27677269 ATTATTA-TT
1 ATT-TTATTT
27677278 ATTATTA-TT
1 ATT-TTATTT
27677287 ATTATTATTT
1 ATT-TTATTT
27677297 ATTTTACTTT
1 ATTTTA-TTT
27677307 ATTTTATTT
1 ATTTTATTT
*
27677316 CTTTT
1 ATTTT
27677321 TTATAAATTT
Statistics
Matches: 75, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
8 3 0.04
9 58 0.77
10 14 0.19
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (9 bp):
ATTTTATTT
Found at i:27677867 original size:2 final size:2
Alignment explanation
Indices: 27677860--27677894 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
27677850 ATCATTCGAT
27677860 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27677895 CATTCTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27684609 original size:13 final size:13
Alignment explanation
Indices: 27684593--27684632 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
27684583 AAGTATTCCA
27684593 ATTTATTATTATT
1 ATTTATTATTATT
27684606 ATTTATTATTATTT
1 ATTTATTATTA-TT
27684620 ATTTTATT-TTATT
1 A-TTTATTATTATT
27684633 TTATTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 13 0.52
14 6 0.24
15 6 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTATTATTATT
Found at i:27684611 original size:10 final size:9
Alignment explanation
Indices: 27684594--27684648 Score: 60
Period size: 10 Copynumber: 6.0 Consensus size: 9
27684584 AGTATTCCAA
27684594 TTTA-TTAT
1 TTTATTTAT
27684602 TATTATTTAT
1 T-TTATTTAT
27684612 TATTATTTAT
1 T-TTATTTAT
27684622 TTTATTTTAT
1 TTTA-TTTAT
*
27684632 TTTATTTCT
1 TTTATTTAT
27684641 TTT-TTTAT
1 TTTATTTAT
27684649 AAATTTCGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
8 5 0.12
9 13 0.31
10 24 0.57
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:27684627 original size:5 final size:5
Alignment explanation
Indices: 27684598--27684638 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
27684588 TTCCAATTTA
27684598 TTATT ATTA-T TTATT ATTA-T TTATT TTATT TTATT TTATT T
1 TTATT -TTATT TTATT -TTATT TTATT TTATT TTATT TTATT T
27684639 CTTTTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
4 6 0.19
5 20 0.62
6 6 0.19
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:27684638 original size:19 final size:18
Alignment explanation
Indices: 27684594--27684648 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
27684584 AGTATTCCAA
27684594 TTTA-TTATTATTATTTAT
1 TTTATTTATT-TTATTTAT
27684612 TATTATTTATTTTATTTTAT
1 T-TTATTTATTTTA-TTTAT
*
27684632 TTTATTTCTTTT-TTTAT
1 TTTATTTATTTTATTTAT
27684649 AAATTTCGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 5 0.15
18 1 0.03
19 16 0.48
20 11 0.33
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTATTTTATTTAT
Found at i:27687342 original size:43 final size:43
Alignment explanation
Indices: 27687281--27687469 Score: 292
Period size: 43 Copynumber: 4.4 Consensus size: 43
27687271 ACATATCATT
* *
27687281 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
27687324 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
27687367 TCATCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
27687410 TCACCGGCACTAAGCCTGCTAGGCACAAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
27687452 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
27687470 GAGATTTATC
Statistics
Matches: 136, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 15 0.11
42 2 0.01
43 119 0.88
ACGTcount: A:0.30, C:0.34, G:0.23, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:27687490 original size:38 final size:38
Alignment explanation
Indices: 27687441--27687524 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
27687431 GGCACAAAGG
* * *
27687441 CCCGAATATAATACCAGCACTAGGCCTGCGAGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
*
27687479 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
27687517 CCCGAATA
1 CCCGAATA
27687525 CACATCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
Found at i:27693292 original size:3 final size:3
Alignment explanation
Indices: 27693280--27693322 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
27693270 GTACATATAT
27693280 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
27693323 GCCAAATGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27696580 original size:48 final size:48
Alignment explanation
Indices: 27696509--27696838 Score: 238
Period size: 48 Copynumber: 6.9 Consensus size: 48
27696499 AGGGTAAATT
* *
27696509 GCCGATACCAGGTCCCAGACATGGTCTTACACTGGCTCACATGTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTTGAG
* * * * *
27696557 GCCGATGCCATGTCCCAGACATGGTCTTACATTAGCTC-TA-GTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGT-T-GAG
* * * *
27696605 GCCGATGCCATGTCCCAGGCATAGTCTTACACTGGCTCTCATGTTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTTGAG
* ** ** *
27696653 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TACACACATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATGTTGAG
* * * *** *
27696701 GCCGATGCCATGTCCTAGACATTGTCTTACATTGGCTCTCACAACATCA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCACATGTTGAG
* * * * * * * * *
27696750 -CCGATGCTATGTTCCAAACATGATCTTACACTAGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTTGAG
* * * * *
27696797 GCCGACGTCATGTCCCAGACATTGTCTTATACTGGCACACAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT
27696839 ATCACCCAAA
Statistics
Matches: 212, Mismatches: 60, Indels: 20
0.73 0.21 0.07
Matches are distributed among these distances:
46 7 0.03
47 3 0.01
48 192 0.91
49 2 0.01
50 7 0.03
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTTGAG
Found at i:27696672 original size:96 final size:96
Alignment explanation
Indices: 27696508--27696741 Score: 328
Period size: 96 Copynumber: 2.4 Consensus size: 96
27696498 TAGGGTAAAT
* * * *
27696508 TGCCGATACCAGGTCCCAGACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCC
* **
27696573 AGACATGGTCTTACATTAGCT-CTAGTC-TCAA
66 AGACATGGTCTTACACTAG-TAC-ACACATCAA
* *
27696604 TGCCGATGCCATGTCCCAGGCATAGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCC
27696669 AGACATGGTCTTACACTAGTACACACATCAA
66 AGACATGGTCTTACACTAGTACACACATCAA
* * *
27696700 TGCCGATGCCATGTCCTAGACATTGTCTTACATTGGCTCTCA
1 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCA
27696742 CAACATCACC
Statistics
Matches: 123, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
95 3 0.02
96 120 0.98
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (96 bp):
TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGTACACACATCAA
Found at i:27696754 original size:96 final size:96
Alignment explanation
Indices: 27696508--27696832 Score: 275
Period size: 96 Copynumber: 3.4 Consensus size: 96
27696498 TAGGGTAAAT
* * * *** *
27696508 TGCCGATACCAGGTCCCAGACATGGTCTTACACTGG--CTCACATGTTGAGGCCGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCACAACATCA--CCGATGCCATGTC
* **
27696571 CCAGACATGGTCTTACATTAGCTCTAGTCTCAA
64 CCAGACATGGTCTTACACTAGCTCTACACTCAA
* ***** **
27696604 TGCCGATGCCATGTCCCAGGCATAGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCACAACATCACCGATGCCATGTCCC
27696669 AGACATGGTCTTACACTAG-TAC-ACACATCAA
66 AGACATGGTCTTACACTAGCT-CTACAC-TCAA
* * * * *
27696700 TGCCGATGCCATGTCCTAGACATTGTCTTACATTGGCTCTCACAACATCACCGATGCTATGTTCC
1 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCACAACATCACCGATGCCATGTCCC
* * * *
27696765 AAACATGATCTTACACTAGCTCT-CATATC-G
66 AGACATGGTCTTACACTAGCTCTACA-CTCAA
* * * *
27696795 TGGCCGACGTCATGTCCCAGACATTGTCTTATACTGGC
1 T-GCCGATGCCATGTCCCAGACATAGTCTTACACTGGC
27696833 ACACATATCA
Statistics
Matches: 187, Mismatches: 34, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
95 4 0.02
96 175 0.94
97 1 0.01
98 7 0.04
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (96 bp):
TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCACAACATCACCGATGCCATGTCCC
AGACATGGTCTTACACTAGCTCTACACTCAA
Found at i:27696837 original size:144 final size:143
Alignment explanation
Indices: 27696520--27696842 Score: 364
Period size: 144 Copynumber: 2.2 Consensus size: 143
27696510 CCGATACCAG
* * **
27696520 GTCCCAGACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCCAGACATGGTCTT
1 GTCCCAGACATGGTCTTACACTGGCACACATATCAAGGCCGATGCCATGTCCCAGACATGGTCTT
* * ** * * *
27696585 ACATTAGCTCTAGTCTCAATGCCGATGCCATGTCCCAGGCATAGTCTTACACTGGCTCTCATGTT
66 ACATTAGCTCTAG-CACAATACCGATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCATATC
*
27696650 GTGGCCGATGCCAT
130 GTGGCCGACGCCAT
* * * * * *
27696664 GTCCCAGACATGGTCTTACACTAGTACACACATCAATGCCGATGCCATGTCCTAGACATTGTCTT
1 GTCCCAGACATGGTCTTACACTGGCACACATATCAAGGCCGATGCCATGTCCCAGACATGGTCTT
* * *
27696729 ACATTGGCTCT--CACAACATCACCGATGCTATGTTCCAAACAT-GATCTTACACTAGCTCTCAT
66 ACATTAGCTCTAGCAC-A-AT-ACCGATGCCATGTCCCAAACATAG-TCTTACACTAGCTCTCAT
*
27696791 ATCGTGGCCGACGTCAT
127 ATCGTGGCCGACGCCAT
* *
27696808 GTCCCAGACATTGTCTTATACTGGCACACATATCA
1 GTCCCAGACATGGTCTTACACTGGCACACATATCA
27696843 CCCAAATATC
Statistics
Matches: 148, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
141 2 0.01
142 1 0.01
143 3 0.02
144 142 0.96
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (143 bp):
GTCCCAGACATGGTCTTACACTGGCACACATATCAAGGCCGATGCCATGTCCCAGACATGGTCTT
ACATTAGCTCTAGCACAATACCGATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCATATCG
TGGCCGACGCCAT
Found at i:27702583 original size:6 final size:6
Alignment explanation
Indices: 27702572--27702607 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
27702562 TCTTTCTTCC
**
27702572 TCTGTT TCTGTT TCTGTT TCTCAT TCTGTT TCTGTT
1 TCTGTT TCTGTT TCTGTT TCTGTT TCTGTT TCTGTT
27702608 ACTCTTATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.19, G:0.14, T:0.64
Consensus pattern (6 bp):
TCTGTT
Found at i:27703187 original size:22 final size:22
Alignment explanation
Indices: 27703142--27703187 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
27703132 ATTAGCGAAT
*
27703142 ATATTTTTAAAAAATTATAGAA
1 ATATTTTTAAAAAATTATAAAA
*
27703164 ATATTATTTAATAAATT-TAAAA
1 ATATT-TTTAAAAAATTATAAAA
27703186 AT
1 AT
27703188 TAACATGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATATTTTTAAAAAATTATAAAA
Found at i:27714569 original size:15 final size:16
Alignment explanation
Indices: 27714549--27714582 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27714539 TATTAATTTA
*
27714549 TTTTAATA-AATATAT
1 TTTTAATATAAAATAT
27714564 TTTTAATATAAAATAT
1 TTTTAATATAAAATAT
27714580 TTT
1 TTT
27714583 CGTTCACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTAATATAAAATAT
Found at i:27731106 original size:22 final size:22
Alignment explanation
Indices: 27731060--27731106 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
27731050 CATTCAAGAT
** *
27731060 AAAATAATATATAAACTCTTTA
1 AAAATAATATATAAACAATTCA
27731082 AAAATAATATATAAACAATTCA
1 AAAATAATATATAAACAATTCA
27731104 AAA
1 AAA
27731107 TATATAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAATAATATATAAACAATTCA
Found at i:27731354 original size:23 final size:23
Alignment explanation
Indices: 27731288--27731354 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
27731278 TATAAGAAAA
*
27731288 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
27731308 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
27731331 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
27731354 A
1 A
27731355 GTAGACATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:27731364 original size:17 final size:15
Alignment explanation
Indices: 27731321--27731366 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
27731311 ATATAAATAG
*
27731321 AAATAAAAATATAAT
1 AAATAGAAATATAAT
27731336 AAATAGAAATATAAT
1 AAATAGAAATATAAT
*
27731351 AATAGTAGACATATAA
1 AA-A-TAGAAATATAA
27731367 ATAGATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 16 0.59
16 1 0.04
17 10 0.37
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:27736043 original size:104 final size:106
Alignment explanation
Indices: 27735796--27736059 Score: 416
Period size: 105 Copynumber: 2.5 Consensus size: 106
27735786 CTATATATAT
27735796 ATAACCTAAACACTAACAATTTATATAACCTAA-TCATAAATTACTAACAAAATAACTATAAAAT
1 ATAA-CTAAACACTAACAATTTATATAACCTAACTCATAAATTACTAACAAAATAACTATAAAAT
27735860 TATTTTTTTTTAAAAATACATTACTAAAAAATCACAAAACAC
65 TATTTTTTTTTAAAAATACATTACTAAAAAATCACAAAACAC
27735902 ATAACTAAACACTAACAATTTATATAACCTAAC-CATAAATTACTAACAAAATAACTATAAAATT
1 ATAACTAAACACTAACAATTTATATAACCTAACTCATAAATTACTAACAAAATAACTATAAAATT
*
27735966 ATTTTTTTTT-AAATTACATTACTAAAAAATCACAAAATC-C
66 ATTTTTTTTTAAAAATACATTACTAAAAAATCACAAAA-CAC
* *
27736006 -TATACTAAACACTAACAA-TT-TGTAACCTAATCTCATAAATTATTAACAAAATAA
1 ATA-ACTAAACACTAACAATTTATATAACCTAA-CTCATAAATTACTAACAAAATAA
27736060 ATTACTATAA
Statistics
Matches: 150, Mismatches: 3, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
102 9 0.06
103 5 0.03
104 62 0.41
105 70 0.47
106 4 0.03
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (106 bp):
ATAACTAAACACTAACAATTTATATAACCTAACTCATAAATTACTAACAAAATAACTATAAAATT
ATTTTTTTTTAAAAATACATTACTAAAAAATCACAAAACAC
Found at i:27736061 original size:16 final size:18
Alignment explanation
Indices: 27736040--27736074 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
27736030 ACCTAATCTC
27736040 ATAAATTA-T-TAACAAA
1 ATAAATTACTATAACAAA
27736056 ATAAATTACTATAACAAA
1 ATAAATTACTATAACAAA
27736074 A
1 A
27736075 CACAAAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 1 0.06
18 8 0.47
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATTACTATAACAAA
Found at i:27736544 original size:23 final size:24
Alignment explanation
Indices: 27736505--27736552 Score: 57
Period size: 23 Copynumber: 2.0 Consensus size: 24
27736495 TATAAATTTA
27736505 AATAGTTTTAATAAAAATAA-TAAT
1 AATAGTTTTAATAAAAA-AATTAAT
27736529 AATA-TTTT-ATATAAAAAATTAAT
1 AATAGTTTTAATA-AAAAAATTAAT
27736552 A
1 A
27736553 TAAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
AATAGTTTTAATAAAAAAATTAAT
Found at i:27737249 original size:33 final size:33
Alignment explanation
Indices: 27737207--27737275 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
27737197 AATTCAATAT
27737207 AAAACAGAGATTTACCGCGCTTTAATGAAAATC
1 AAAACAGAGATTTACCGCGCTTTAATGAAAATC
** *
27737240 AAAACAGAGATTTATGGCGTTTTAATGAAAATC
1 AAAACAGAGATTTACCGCGCTTTAATGAAAATC
27737273 AAA
1 AAA
27737276 CAAAAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (33 bp):
AAAACAGAGATTTACCGCGCTTTAATGAAAATC
Found at i:27737304 original size:2 final size:2
Alignment explanation
Indices: 27737297--27737331 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
27737287 CAAAAAGGAA
*
27737297 AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
27737332 AAGACCTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27738676 original size:16 final size:17
Alignment explanation
Indices: 27738646--27738678 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27738636 CTTTGAAAAA
27738646 GTTTTCAAATATATATG
1 GTTTTCAAATATATATG
*
27738663 GTTTT-AAATTTATATG
1 GTTTTCAAATATATATG
27738679 CTCTAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (17 bp):
GTTTTCAAATATATATG
Found at i:27740729 original size:43 final size:43
Alignment explanation
Indices: 27740682--27740766 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
27740672 AAAAATTGGG
* *
27740682 TGCTGGCTAGTAGATGGCCAGCACCAAAGATGAAAAAAAATTA
1 TGCTGGCCAGTAGATGACCAGCACCAAAGATGAAAAAAAATTA
* * * * *
27740725 TGCTGGCCAGTAGGTGATCGGCACCAGATATGAAAAAAAATT
1 TGCTGGCCAGTAGATGACCAGCACCAAAGATGAAAAAAAATT
27740767 GAGAAAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (43 bp):
TGCTGGCCAGTAGATGACCAGCACCAAAGATGAAAAAAAATTA
Found at i:27744628 original size:49 final size:50
Alignment explanation
Indices: 27744559--27744693 Score: 159
Period size: 50 Copynumber: 2.7 Consensus size: 50
27744549 CAACAGATAT
* *
27744559 TAAAAATAAAAA--TTGAGTGCTTGCCAATAGATGGCTAGCACTAGAGACG
1 TAAAAA-AAAAATTTTGGGTGCTGGCCAATAGATGGCTAGCACTAGAGACG
* * ** *
27744608 -AAAAAAAAAATTTTGGGTGCTGGCCAGTAGATGACCGGCACTAGAGATG
1 TAAAAAAAAAATTTTGGGTGCTGGCCAATAGATGGCTAGCACTAGAGACG
* *
27744657 TAAAAAAAAATTTTTGGGTGCTGGCCAACAGATGGCT
1 TAAAAAAAAAATTTTGGGTGCTGGCCAATAGATGGCT
27744694 GGCATTAGGT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
47 5 0.07
48 5 0.07
49 30 0.42
50 31 0.44
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (50 bp):
TAAAAAAAAAATTTTGGGTGCTGGCCAATAGATGGCTAGCACTAGAGACG
Found at i:27745235 original size:6 final size:6
Alignment explanation
Indices: 27745190--27745218 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
27745180 AATAAATAAA
27745190 TAAATT TAAATT TAAATT TAAATT TAAAT
1 TAAATT TAAATT TAAATT TAAATT TAAAT
27745219 GAATTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAAATT
Found at i:27752357 original size:19 final size:21
Alignment explanation
Indices: 27752333--27752376 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
27752323 CAATTTTAAT
27752333 TTTTA-TCTGTAAATATT-TA
1 TTTTATTCTGTAAATATTCTA
* *
27752352 TTTTATTTTGTAATTATTCTA
1 TTTTATTCTGTAAATATTCTA
27752373 TTTT
1 TTTT
27752377 TAAAATTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 10 0.48
21 6 0.29
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTTATTCTGTAAATATTCTA
Found at i:27752728 original size:90 final size:90
Alignment explanation
Indices: 27752607--27752797 Score: 210
Period size: 90 Copynumber: 2.1 Consensus size: 90
27752597 CATATGGGTA
* * * * * *
27752607 AAATTAATACACGAAAATTTTAAATTCAAAC-TACAT-ATAATACGGACTAAATTAAATTAACAG
1 AAATTAATACACGAAAATATAAAAATCAAACTTAAATCAT-AGAC-AACTAAATTAAATTAACAG
27752670 ATACAAAAAAAATACAAACATTATA-AG
64 ATA-AAAAAAAATACAAACATTATAGAG
* * * *
27752697 AAATTAATACACGAAAATATAAAAATGAAACTTTAAATCCTAGACAACTACATTAAATTTACAGA
1 AAATTAATACACGAAAATATAAAAATCAAAC-TTAAATCATAGACAACTAAATTAAATTAACAGA
* *
27752762 TATAAAAAAATACAAACATTCTAGAG
65 TAAAAAAAAATACAAACATTATAGAG
27752788 AAA-TAATACA
1 AAATTAATACA
27752798 ATTATTTTGA
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
90 53 0.62
91 24 0.28
92 7 0.08
93 1 0.01
ACGTcount: A:0.57, C:0.13, G:0.06, T:0.25
Consensus pattern (90 bp):
AAATTAATACACGAAAATATAAAAATCAAACTTAAATCATAGACAACTAAATTAAATTAACAGAT
AAAAAAAAATACAAACATTATAGAG
Found at i:27753379 original size:27 final size:27
Alignment explanation
Indices: 27753348--27753408 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
27753338 TACACTACGG
27753348 AAAACTCCCATCTACAATCAACTACAA
1 AAAACTCCCATCTACAATCAACTACAA
* *
27753375 AAAACTTCCATCTACAATCTACTACAA
1 AAAACTCCCATCTACAATCAACTACAA
27753402 AAAACTC
1 AAAACTC
27753409 ATTTGATGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (27 bp):
AAAACTCCCATCTACAATCAACTACAA
Found at i:27753597 original size:53 final size:51
Alignment explanation
Indices: 27753538--27753756 Score: 246
Period size: 51 Copynumber: 4.3 Consensus size: 51
27753528 AAAATAATTT
* *
27753538 TTTTTTTACATCTTTGGTGCCGGCCATCTATTGGCCAGCACCCAAAAAAAA
1 TTTTTTTACATCTCTGGTGCCGGCCATCTACTGGCCAGCACCCAAAAAAAA
* * *
27753589 TATGTTTTTACATCTCTGGTGCTGGCCATCTACTGGCCAACACCC---AAAAT
1 T-T-TTTTTACATCTCTGGTGCCGGCCATCTACTGGCCAGCACCCAAAAAAAA
* * * * * *
27753639 TTTTTTTTCATCTCTGGTGCCGACTATCTACTGGCAAGTACCCAAAAAAGA
1 TTTTTTTACATCTCTGGTGCCGGCCATCTACTGGCCAGCACCCAAAAAAAA
* ** **
27753690 TTTTTTTTCATCTCTGGTGCCGGCCATCTACTGGTTAGCACCCAAAAAATTT
1 TTTTTTTACATCTCTGGTGCCGGCCATCTACTGGCCAGCACCCAAAAAA-AA
27753742 TTTTTTTACATCTCT
1 TTTTTTTACATCTCT
27753757 AATGCCGGTC
Statistics
Matches: 140, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
48 34 0.24
49 1 0.01
50 5 0.04
51 48 0.34
52 15 0.11
53 37 0.26
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (51 bp):
TTTTTTTACATCTCTGGTGCCGGCCATCTACTGGCCAGCACCCAAAAAAAA
Found at i:27753717 original size:99 final size:104
Alignment explanation
Indices: 27753533--27753756 Score: 296
Period size: 101 Copynumber: 2.2 Consensus size: 104
27753523 TAACAAAAAT
* * * *
27753533 AATTTTTTTTTTACATCTTTGGTGCCGGCCATCTATTGGCCAGCACCCAAAAAAAATATGTTTTT
1 AATTTTTTTTTTACATCTCTGGTGCCGACCATCTACTGGCAAGCACCCAAAAAAAATATGTTTTT
*
27753598 ACATCTCTGGTGCTGGCCATCTACTGGCCAACACCC-AA
66 ACATCTCTGGTGCCGGCCATCTACTGGCCAACACCCAAA
* * *
27753636 AA-TTTTTTTTT-CATCTCTGGTGCCGACTATCTACTGGCAAGTACCCAAAAAAGAT-T-TTTTT
1 AATTTTTTTTTTACATCTCTGGTGCCGACCATCTACTGGCAAGCACCCAAAAAAAATATGTTTTT
* ** *
27753697 TCATCTCTGGTGCCGGCCATCTACTGGTTAGCACCCAAAA
66 ACATCTCTGGTGCCGGCCATCTACTGGCCAACACCC-AAA
27753737 AATTTTTTTTTTACATCTCT
1 AATTTTTTTTTTACATCTCT
27753757 AATGCCGGTC
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
99 36 0.34
100 1 0.01
101 41 0.39
102 18 0.17
103 9 0.09
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (104 bp):
AATTTTTTTTTTACATCTCTGGTGCCGACCATCTACTGGCAAGCACCCAAAAAAAATATGTTTTT
ACATCTCTGGTGCCGGCCATCTACTGGCCAACACCCAAA
Found at i:27754974 original size:48 final size:48
Alignment explanation
Indices: 27754922--27755071 Score: 158
Period size: 48 Copynumber: 3.1 Consensus size: 48
27754912 TGGCGCCGCT
*
27754922 CATCTACTGGCCAGCACCCCAAATTTTTTTTTCATCTCTGATGTCGAC
1 CATCTACTGGCCAGCACCCCAAATTTTTTTTTCATCTCTGATGTCGGC
* * * *
27754970 CATCTACTGGCCAACA-TCCAAATTTTTGTTTTCATCTTTGCTGTCGGC
1 CATCTACTGGCCAGCACCCCAAATTTTT-TTTTCATCTCTGATGTCGGC
* * ** * *
27755018 CATCTATTAGCCAGCACCTAAAAAAATTTTTTTTACATCTCTGGTGTCGGC
1 CATCTACTGGCCAGCACC---CCAAATTTTTTTTTCATCTCTGATGTCGGC
27755069 CAT
1 CAT
27755072 AGTGTATGAA
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
47 10 0.12
48 45 0.54
51 20 0.24
52 8 0.10
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (48 bp):
CATCTACTGGCCAGCACCCCAAATTTTTTTTTCATCTCTGATGTCGGC
Found at i:27757081 original size:31 final size:31
Alignment explanation
Indices: 27757046--27757109 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
27757036 CCTTTTCATG
27757046 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
27757077 TTTCATATTTCATAGTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
27757108 TT
1 TT
27757110 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:27757347 original size:24 final size:24
Alignment explanation
Indices: 27757301--27757419 Score: 163
Period size: 24 Copynumber: 5.0 Consensus size: 24
27757291 GCTTTATCAT
*
27757301 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
27757326 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
27757350 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
27757373 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
27757397 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
27757420 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
23 25 0.29
24 49 0.56
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:27757380 original size:47 final size:48
Alignment explanation
Indices: 27757301--27757419 Score: 163
Period size: 47 Copynumber: 2.5 Consensus size: 48
27757291 GCTTTATCAT
*
27757301 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
**
27757350 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
27757397 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
27757420 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 2 0.03
47 42 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:27757495 original size:20 final size:20
Alignment explanation
Indices: 27757470--27757529 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
27757460 TATGATTACC
27757470 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
27757490 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
27757510 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
27757530 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:27757604 original size:25 final size:25
Alignment explanation
Indices: 27757572--27757619 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27757562 ATACATAAAC
* * *
27757572 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
27757597 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
27757620 ATATTATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:27764533 original size:31 final size:31
Alignment explanation
Indices: 27764498--27764561 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
27764488 CCTTTTCATG
27764498 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
27764529 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
27764560 TT
1 TT
27764562 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:27764835 original size:23 final size:23
Alignment explanation
Indices: 27764751--27764838 Score: 108
Period size: 23 Copynumber: 3.7 Consensus size: 23
27764741 TGCTTTATCA
*
27764751 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
27764775 TAATAACTGGGGCA-AAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
27764798 CAATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
27764822 TATAACTGGGGCATAAG
1 TATAACTGGGGCATAAG
27764839 AACCCAACCC
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
23 32 0.56
24 17 0.30
25 8 0.14
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:27764892 original size:20 final size:20
Alignment explanation
Indices: 27764867--27764926 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
27764857 TATGATTACC
27764867 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
27764887 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
27764907 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
27764927 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:27767316 original size:34 final size:33
Alignment explanation
Indices: 27767226--27767332 Score: 99
Period size: 34 Copynumber: 3.2 Consensus size: 33
27767216 GGGTTTTGTT
* * ***
27767226 AAAA-TAATTGAATTATGTTTTAGGGGTTTTAA
1 AAAATTAATTAAATTATGATTTAGATTTTTTAA
* * *
27767258 ATAAATAAATTAAATTAGGGTTTAGATTTTTTAA
1 A-AAATTAATTAAATTATGATTTAGATTTTTTAA
*
27767292 GAAAATTAATTAAATTATGATTTAGTTTTTTTAA
1 -AAAATTAATTAAATTATGATTTAGATTTTTTAA
27767326 AATAATT
1 AA-AATT
27767333 TTGTGTTTAG
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
32 1 0.02
33 5 0.08
34 53 0.88
35 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (33 bp):
AAAATTAATTAAATTATGATTTAGATTTTTTAA
Found at i:27767575 original size:126 final size:126
Alignment explanation
Indices: 27767383--27767905 Score: 603
Period size: 127 Copynumber: 4.2 Consensus size: 126
27767373 TTTTGTTTTT
* * * * *
27767383 TTTTTCTACGGTAGTTCTTTAAAAAAATAATTTTGAGAAGACCGTTCT-AAAAATATAATGTCAA
1 TTTTTCTACAGTAGTTC-CTAAAAAAATAATTTTGAGAAGACTGTTCTGAACAA-ATAGTGTCAA
* * *
27767447 AAACGCTTCAAGTAGGATGCACTGTCAGCAAAATT-ACTGAAAAAAGCTCCCATGTGGACGCTC
64 AAACGCTTCAAGCAGGATGCACTATCAGCAAAATTGA-TGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
27767510 TTTTTCTACGGTAATTCCTAAAAAAATAATCTTGAGAAGACTGTTTTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACTGTTCTGAACAAATAGTGTCAAAA
* * * *
27767575 ACTCTTCAAGTAGGATGCACTGTCAGCAAAATT-ACTGAAAAAAGCTCCCACATGGACGCTC
66 ACGCTTCAAGCAGGATGCACTATCAGCAAAATTGA-TGAAAAAAGCTCCCACGTGGACGCTC
* ** * * *
27767636 TTTTTCTGCAGTAGTTTTTAAAAAAAATAATTTTGAGAAGA-TGGTTCTAAATAAATGGTGTCAA
1 TTTTTCTACAGTAGTTCCT-AAAAAAATAATTTTGAGAAGACT-GTTCTGAACAAATAGTGTCAA
* *
27767700 AAATGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCTACGTGGACGCTC
64 AAACGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
* * * *
27767763 TTTTTCTACAATAGTTCCT-GAAAAATAATTTTGAGAAGAC-GATTTTGAACAAATGGTGT-AAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACTG-TTCTGAACAAATAGTGTCAAA
* * ** * *
27767825 AACGCTTTAAGCAAGATGCACTATCAATAAAATTGATGAAAAAAGCTCCCAGGTGGATGCTC
65 AACGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
*
27767887 TTTTTCTATAGT-GTTCCTA
1 TTTTTCTACAGTAGTTCCTA
27767906 TTTGGCCTTA
Statistics
Matches: 343, Mismatches: 46, Indels: 17
0.84 0.11 0.04
Matches are distributed among these distances:
123 6 0.02
124 68 0.20
125 33 0.10
126 109 0.32
127 126 0.37
128 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACTGTTCTGAACAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
Found at i:27770093 original size:25 final size:26
Alignment explanation
Indices: 27770065--27770114 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
27770055 CTTATTCAAA
27770065 TATTAAAA-ATATAAAAATAA-TTTAC
1 TATTAAAATAT-TAAAAATAACTTTAC
*
27770090 TATTTAAATATTAAAAATAACTTTA
1 TATTAAAATATTAAAAATAACTTTA
27770115 ATTTTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
TATTAAAATATTAAAAATAACTTTAC
Found at i:27770118 original size:24 final size:23
Alignment explanation
Indices: 27770071--27770118 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
27770061 CAAATATTAA
27770071 AAATATAAAAATAATTTACTATTT
1 AAATATAAAAATAATTTAC-ATTT
27770095 AAATATTAAAAATAACTTTA-ATTT
1 AAATA-TAAAAATAA-TTTACATTT
27770119 TATTAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.41
25 9 0.41
26 4 0.18
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATATAAAAATAATTTACATTT
Found at i:27770120 original size:25 final size:24
Alignment explanation
Indices: 27770071--27770120 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
27770061 CAAATATTAA
*
27770071 AAATATAAAAATAATTTACTATTT
1 AAATATAAAAATAATTTAATATTT
27770095 AAATATTAAAAATAACTTTAAT-TTT
1 AAATA-TAAAAATAA-TTTAATATTT
27770120 A
1 A
27770121 TTAAATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 13 0.57
26 5 0.22
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATATAAAAATAATTTAATATTT
Found at i:27770575 original size:18 final size:18
Alignment explanation
Indices: 27770549--27770591 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
27770539 GACTGGGAAA
* *
27770549 AGGAAACATATAAGGATT
1 AGGATACATATAAGGACT
*
27770567 AGGATACATATAAGGGCT
1 AGGATACATATAAGGACT
27770585 AGGATAC
1 AGGATAC
27770592 GCACCTAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGACT
Found at i:27772205 original size:22 final size:22
Alignment explanation
Indices: 27772159--27772205 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
27772149 TATTAGATAT
**
27772159 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
27772181 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
27772203 TAA
1 TAA
27772206 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:27774837 original size:46 final size:46
Alignment explanation
Indices: 27774785--27774954 Score: 207
Period size: 46 Copynumber: 3.7 Consensus size: 46
27774775 GAACTTTGAA
** * * * *
27774785 ATGAAATGTGTAAGACAATCGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
27774831 ATGAAATGTATAAGACCATGGTTGAAAGATACCATCGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
27774877 ATAAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
27774923 A-GAAAATGAGTAAGACCATAGTTGAAAGATAC
1 ATG-AAATGAATAAGACCATGGTTGAAAGATAC
27774955 TATGACATCA
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 109 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:27776467 original size:20 final size:21
Alignment explanation
Indices: 27776442--27776490 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
27776432 TAAAGAGAGC
*
27776442 TTTGAGA-AATTTAGGGATAA
1 TTTGAGAGAATTTAGGGAGAA
**
27776462 TTTGAGAGCTTTTAGGGAGAA
1 TTTGAGAGAATTTAGGGAGAA
27776483 TTTGAGAG
1 TTTGAGAG
27776491 CGTTTTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.35
Consensus pattern (21 bp):
TTTGAGAGAATTTAGGGAGAA
Found at i:27776477 original size:21 final size:22
Alignment explanation
Indices: 27776451--27776496 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
27776441 CTTTGAGAAA
*
27776451 TTTAGGGATAATTTGAGAGC-T
1 TTTAGGGAGAATTTGAGAGCGT
27776472 TTTAGGGAGAATTTGAGAGCGT
1 TTTAGGGAGAATTTGAGAGCGT
27776494 TTT
1 TTT
27776497 TGAAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.39
Consensus pattern (22 bp):
TTTAGGGAGAATTTGAGAGCGT
Found at i:27779741 original size:22 final size:22
Alignment explanation
Indices: 27779707--27779749 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
27779697 TATTCAGATA
27779707 ATAATAATAAAA-TAGTAGCAAT
1 ATAATAATAAAATTA-TAGCAAT
* *
27779729 ATAATAGTGAAATTATAGCAA
1 ATAATAATAAAATTATAGCAA
27779750 AATGAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.28
Consensus pattern (22 bp):
ATAATAATAAAATTATAGCAAT
Found at i:27801396 original size:25 final size:25
Alignment explanation
Indices: 27801359--27801407 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
27801349 TTACCAATCA
27801359 AAATACAACTCAGAACAGACGTTCC
1 AAATACAACTCAGAACAGACGTTCC
*
27801384 AAATACAATTCAGAACAGACGTTC
1 AAATACAACTCAGAACAGACGTTC
27801408 ATTTCAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.18
Consensus pattern (25 bp):
AAATACAACTCAGAACAGACGTTCC
Done.