Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 122 of 240
Found at i:37902998 original size:22 final size:22
Alignment explanation
Indices: 37902971--37903035 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
37902961 ATAAAATCTC
*
37902971 CTCCCCCGAAATCCCCAACTTT
1 CTCCCCTGAAATCCCCAACTTT
* *
37902993 CTCCCCTAAAATCCCTAA-TTT
1 CTCCCCTGAAATCCCCAACTTT
*
37903014 C-CCCCTTGAAACCCCCAACTTT
1 CTCCCC-TGAAATCCCCAACTTT
37903036 ACAAACATAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 13 0.37
22 18 0.51
ACGTcount: A:0.25, C:0.46, G:0.03, T:0.26
Consensus pattern (22 bp):
CTCCCCTGAAATCCCCAACTTT
Found at i:37903014 original size:21 final size:21
Alignment explanation
Indices: 37902979--37903035 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
37902969 TCCTCCCCCG
37902979 AAATCCCCAACTTTCTCCCCTA
1 AAATCCCCAACTTTC-CCCCTA
* *
37903001 AAATCCCTAA-TTTCCCCCTTG
1 AAATCCCCAACTTTCCCCC-TA
*
37903022 AAACCCCCAACTTT
1 AAATCCCCAACTTT
37903036 ACAAACATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.14
21 13 0.45
22 12 0.41
ACGTcount: A:0.28, C:0.42, G:0.02, T:0.28
Consensus pattern (21 bp):
AAATCCCCAACTTTCCCCCTA
Found at i:37911493 original size:5 final size:5
Alignment explanation
Indices: 37911479--37911508 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
37911469 GTAAGTTTCT
37911479 AAAA- AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
37911509 GCATTGAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:37912427 original size:41 final size:42
Alignment explanation
Indices: 37912328--37912481 Score: 131
Period size: 41 Copynumber: 3.7 Consensus size: 42
37912318 TGCATTTTCG
* * *
37912328 TGTAAGACCAC-GTCTGGGACGTTGGCATCGACT-TGTG-TATACG
1 TGTAAGACC-CTGTTTGGGACATTGGCAT-GA-TATGTGAT-TACA
* * *
37912371 TGTAAGACCATGTTTGGGACATTGGCATCG-TATTTGATT-TA
1 TGTAAGACCCTGTTTGGGACATTGGCAT-GATATGTGATTACA
*
37912412 TGTAAGACCCTGTTTGGGACAGTGGCATGATATGTGATTACA
1 TGTAAGACCCTGTTTGGGACATTGGCATGATATGTGATTACA
* *
37912454 TGTAAGACCAC-GTCTGGGACGTTGGCAT
1 TGTAAGACC-CTGTTTGGGACATTGGCAT
37912482 TGTACGAGCC
Statistics
Matches: 92, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
40 1 0.01
41 35 0.38
42 28 0.30
43 28 0.30
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (42 bp):
TGTAAGACCCTGTTTGGGACATTGGCATGATATGTGATTACA
Found at i:37912670 original size:16 final size:17
Alignment explanation
Indices: 37912641--37912672 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
37912631 TGAATTGATG
37912641 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
37912658 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
37912673 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:37914392 original size:23 final size:23
Alignment explanation
Indices: 37914360--37914413 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
37914350 AATATGTTCG
*
37914360 ATTGAGCTTTGATGTATGTTTAA
1 ATTGAACTTTGATGTATGTTTAA
37914383 ATTGAACTTTGATGTATGTTTAA
1 ATTGAACTTTGATGTATGTTTAA
37914406 ATTGAACT
1 ATTGAACT
37914414 AGTTTTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.46
Consensus pattern (23 bp):
ATTGAACTTTGATGTATGTTTAA
Found at i:37917621 original size:15 final size:15
Alignment explanation
Indices: 37917601--37917636 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
37917591 TATGTACCTA
37917601 CATTCAAATCATGCC
1 CATTCAAATCATGCC
37917616 CATTCAAATCATGCC
1 CATTCAAATCATGCC
37917631 CATTCA
1 CATTCA
37917637 GTTGGTTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.06, T:0.28
Consensus pattern (15 bp):
CATTCAAATCATGCC
Found at i:37919358 original size:27 final size:27
Alignment explanation
Indices: 37919278--37919413 Score: 139
Period size: 28 Copynumber: 4.9 Consensus size: 27
37919268 TCGTGTGTCT
* *
37919278 CCTATTTTTCAAATTTTATAGTTTTGCC
1 CCTATTTTT-AGATTTTACAGTTTTGCC
* * * * *
37919306 ACTGTTTTTTAGATTTTATAATTTTTCC
1 CCT-ATTTTTAGATTTTACAGTTTTGCC
37919334 CCTGATTTTTAGATTTTACAGTTTTGCC
1 CCT-ATTTTTAGATTTTACAGTTTTGCC
*
37919362 CCTATTTTCAGATTTTACAGTTTT-CC
1 CCTATTTTTAGATTTTACAGTTTTGCC
* *
37919388 CCTATTTTGCACATTTTACAGTTTTG
1 CCTATTTT-TAGATTTTACAGTTTTG
37919414 ACCCAAAATT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.11
27 35 0.38
28 43 0.46
29 5 0.05
ACGTcount: A:0.20, C:0.18, G:0.10, T:0.53
Consensus pattern (27 bp):
CCTATTTTTAGATTTTACAGTTTTGCC
Found at i:37926785 original size:97 final size:97
Alignment explanation
Indices: 37926619--37926812 Score: 379
Period size: 97 Copynumber: 2.0 Consensus size: 97
37926609 TTGCCTGGGA
*
37926619 ACCAAGGGTGCGATGATCATTGATTTTTAGAATAAAAGTGTTTGGAACGAAGAGAATCTGCAAAT
1 ACCAAGGGTGCGATGATCATTGATTTTCAGAATAAAAGTGTTTGGAACGAAGAGAATCTGCAAAT
37926684 CGCATCAGGTGTGTAAACACCCCACTGTAACT
66 CGCATCAGGTGTGTAAACACCCCACTGTAACT
37926716 ACCAAGGGTGCGATGATCATTGATTTTCAGAATAAAAGTGTTTGGAACGAAGAGAATCTGCAAAT
1 ACCAAGGGTGCGATGATCATTGATTTTCAGAATAAAAGTGTTTGGAACGAAGAGAATCTGCAAAT
37926781 CGCATCAGGTGTGTAAACACCCCACTGTAACT
66 CGCATCAGGTGTGTAAACACCCCACTGTAACT
37926813 GTAGAACGGC
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (97 bp):
ACCAAGGGTGCGATGATCATTGATTTTCAGAATAAAAGTGTTTGGAACGAAGAGAATCTGCAAAT
CGCATCAGGTGTGTAAACACCCCACTGTAACT
Found at i:37927356 original size:28 final size:27
Alignment explanation
Indices: 37927244--37927382 Score: 192
Period size: 27 Copynumber: 5.2 Consensus size: 27
37927234 AAAATAAGGA
* * *
37927244 AAAATAACCGAAATACCCTCATAGGGA
1 AAAATGACCGAAATACCCCCATAGGGT
* * *
37927271 AAAATGACCAAAATACCTCCATAAGGT
1 AAAATGACCGAAATACCCCCATAGGGT
37927298 AAAATGACCGAAATA--CCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
*
37927323 AGAATGACCGAAATACCCCCTATAGGGT
1 AAAATGACCGAAATACCCCC-ATAGGGT
37927351 AAAATGACCGAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
37927378 AAAAT
1 AAAAT
37927383 AACTGTTATG
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
25 22 0.22
27 50 0.51
28 26 0.27
ACGTcount: A:0.45, C:0.22, G:0.17, T:0.17
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCATAGGGT
Found at i:37929211 original size:20 final size:22
Alignment explanation
Indices: 37929182--37929223 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
37929172 TATAGAACTG
37929182 AAAAAGATATAA-AAT-TATAA
1 AAAAAGATATAATAATATATAA
*
37929202 AAAAATATATAATAATATATAA
1 AAAAAGATATAATAATATATAA
37929224 TACAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 3 0.16
22 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAAGATATAATAATATATAA
Found at i:37933718 original size:59 final size:57
Alignment explanation
Indices: 37933594--37933729 Score: 173
Period size: 59 Copynumber: 2.3 Consensus size: 57
37933584 TTTAATTCAT
* * * * *
37933594 ATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTTTATTTA
1 ATAATAATTATATTAA-AATATGATTAAATTATATATTATTTTAATAAAATATATTTA
* *
37933652 ATAATAATTATGTTAAAATATGATTAAATTATTTATTATTTTTTAATAAAATATATTTA
1 ATAATAATTATATTAAAATATGATTAAATTATATATTA--TTTTAATAAAATATATTTA
*
37933711 ATAATAATTTTATTAAAAT
1 ATAATAATTATATTAAAAT
37933730 TTAATAACAA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 19 0.28
58 15 0.22
59 33 0.49
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGATTAAATTATATATTATTTTAATAAAATATATTTA
Found at i:37933895 original size:16 final size:16
Alignment explanation
Indices: 37933851--37933902 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
37933841 CAAGAATGCT
37933851 ATTATAGCTCTATTCC
1 ATTATAGCTCTATTCC
* *
37933867 ATTACAACTCTATTCC
1 ATTATAGCTCTATTCC
* *
37933883 ATTATAGCCCTATTCA
1 ATTATAGCTCTATTCC
37933899 ATTA
1 ATTA
37933903 CAGTGAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:37934133 original size:35 final size:35
Alignment explanation
Indices: 37934087--37934158 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
37934077 GTTAAAATGA
*
37934087 TAATGAAAATAATGGCGTGGCTTTTTTCTAACTGG
1 TAATGAAAATAATGGCATGGCTTTTTTCTAACTGG
37934122 TAATGAAAATAATGGCATGGCTTTTTTCTAACTGG
1 TAATGAAAATAATGGCATGGCTTTTTTCTAACTGG
37934157 TA
1 TA
37934159 TAATAACACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (35 bp):
TAATGAAAATAATGGCATGGCTTTTTTCTAACTGG
Found at i:37936432 original size:193 final size:191
Alignment explanation
Indices: 37936051--37936433 Score: 445
Period size: 193 Copynumber: 2.0 Consensus size: 191
37936041 TTTTAAAATC
37936051 TTTTTATGATATATCATCATTTGCTTTAGCAATGAAGAATAAAATTATACAATGTAAGTGCATCA
1 TTTTTATGATATATCATCATTTGCTTTA-CAATGAAGAATAAAATTATACAATGTAAGTGCATCA
* * * * * * * *
37936116 AATATTAATTGATTTGTGAAAACTCAATTCCCAAAAGCTTCAAACAACGTTACAAAATTCAAATT
65 AATATTAATTCATTTGTAAAAACTCAATTCCAAAAAACTTCAAACAAAGTAAAAAAAATCAAATT
* * * * * *
37936181 ATTTTCTGATTTTATTATTGAAATATAGAATTTTCACATTGGAAAAAACATTTTTTTTAATTT
130 ATTTCCAGATTTTATTATTGAAATATAGAAATTCCAAATT-GAAAAAACATATTTTTTAATTT
* * * *
37936244 TTTTTATGATATATCATCATTTGC-TT-CAATGATGATAAGTAAAATTATTA-AGTGTTATTGCA
1 TTTTTATGATATATCATCATTTGCTTTACAATGA--AGAA-TAAAATTA-TACAATGTAAGTGCA
*
37936306 TCAAATATTGATTCATTCT-TAAAAACTCAATTCCAAAAAACTTCAAAACAAAGTAAAAAAAATC
62 TCAAATATTAATTCATT-TGTAAAAACTCAATTCCAAAAAACTTC-AAACAAAGTAAAAAAAATC
* *
37936370 AAATTATTTCCAGATTTTATTGTTGAAATATGGAAATTCCAAATT-AAAAAATTCA-ATTTTTTA
125 AAATTATTTCCAGATTTTATTATTGAAATATAGAAATTCCAAATTGAAAAAA--CATATTTTTTA
37936433 A
188 A
37936434 ATCCCTTTCT
Statistics
Matches: 161, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
190 6 0.04
192 11 0.07
193 86 0.53
194 58 0.36
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (191 bp):
TTTTTATGATATATCATCATTTGCTTTACAATGAAGAATAAAATTATACAATGTAAGTGCATCAA
ATATTAATTCATTTGTAAAAACTCAATTCCAAAAAACTTCAAACAAAGTAAAAAAAATCAAATTA
TTTCCAGATTTTATTATTGAAATATAGAAATTCCAAATTGAAAAAACATATTTTTTAATTT
Found at i:37937316 original size:36 final size:36
Alignment explanation
Indices: 37937276--37937346 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
37937266 AGAAGATATA
* * *
37937276 ATTATGGAATCTTAGAGTTCTAATTGTATATAGCTG
1 ATTATGGAAGCTTAGAGTTCTAATTATATACAGCTG
*
37937312 ATTATGTAAGCTTAGAGTTCTAATTATATACAGCT
1 ATTATGGAAGCTTAGAGTTCTAATTATATACAGCT
37937347 TTTAATTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (36 bp):
ATTATGGAAGCTTAGAGTTCTAATTATATACAGCTG
Found at i:37937646 original size:48 final size:48
Alignment explanation
Indices: 37937571--37937666 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
37937561 TAAGGGAATT
** * * *
37937571 CTGTTGAATCCTTTATCGTTGCGAGTTAAGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATCACTACAAGTTAAGCTCACTTAGGCGTTTTTA
* *
37937619 CTGTTGAATCCTTTATCACTACAAGTTAGGCTCACTTAGGTGTTTTTA
1 CTGTTGAATCCTTTATCACTACAAGTTAAGCTCACTTAGGCGTTTTTA
37937667 AGCAAAGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCACTACAAGTTAAGCTCACTTAGGCGTTTTTA
Found at i:37942451 original size:36 final size:36
Alignment explanation
Indices: 37942411--37942481 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
37942401 AGAAGATATA
* *
37942411 ATTATGGAATCTTAGAGTTCTAATTGTATATAGCTG
1 ATTATGGAAGCTTAGAGTTCTAATTGTATACAGCTG
*
37942447 ATTATGTAAGCTTAGAGTTCTAATTGTATACAGCT
1 ATTATGGAAGCTTAGAGTTCTAATTGTATACAGCT
37942482 TTTAATTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (36 bp):
ATTATGGAAGCTTAGAGTTCTAATTGTATACAGCTG
Found at i:37942781 original size:48 final size:48
Alignment explanation
Indices: 37942708--37942801 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 48
37942698 AGGGAATTCT
* ** *
37942708 GTTGACTCCTTTATCGTTGCGAGTTAAGCTGACTTAGGCGTTTTTACC
1 GTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCGTTTTTACC
*
37942756 GTTGAATCCTTTATCACTGCAAGTTAGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
37942802 AGCAAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (48 bp):
GTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCGTTTTTACC
Found at i:37944414 original size:59 final size:61
Alignment explanation
Indices: 37944344--37944459 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 61
37944334 TCACTATAAT
* * * * *
37944344 ATTAAATTAATATAATATTTA-T-CAAGATAAATATTATATTAAATTTAATATTAAATCTC
1 ATTAAAATAATAGAATATTTACTACAAGATAAACACTAAATTAAATTTAATATTAAATCTC
*
37944403 ATTAAAATAATAGAATATTTATCTACAAGATAAACACTAAATTTAATTTAATATTAA
1 ATTAAAATAATAGAATATTTA-CTACAAGATAAACACTAAATTAAATTTAATATTAA
37944460 GATAATCATT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 19 0.40
61 1 0.02
62 28 0.58
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.41
Consensus pattern (61 bp):
ATTAAAATAATAGAATATTTACTACAAGATAAACACTAAATTAAATTTAATATTAAATCTC
Found at i:37948214 original size:44 final size:44
Alignment explanation
Indices: 37948166--37948253 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
37948156 GTTCCTTTTA
*
37948166 GATATCTTACAAATATGCACAATTTTGTCCATGCATTCAACTTC
1 GATATCTTACAAACATGCACAATTTTGTCCATGCATTCAACTTC
37948210 GATATCTTACAAACATGCACAATTTTGTCCATGCATTCAACTTC
1 GATATCTTACAAACATGCACAATTTTGTCCATGCATTCAACTTC
37948254 TTTTCATCCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (44 bp):
GATATCTTACAAACATGCACAATTTTGTCCATGCATTCAACTTC
Found at i:37952118 original size:25 final size:25
Alignment explanation
Indices: 37952082--37952129 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
37952072 TTGTAAATCA
37952082 GGAAAATATCTTTAGA-AATTTTTT
1 GGAAAATATCTTTAGAGAATTTTTT
*
37952106 GGAATAATCTCTTTAGAGAATTTT
1 GGAA-AATATCTTTAGAGAATTTT
37952130 CTCTTTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 11 0.52
26 6 0.29
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (25 bp):
GGAAAATATCTTTAGAGAATTTTTT
Found at i:37952651 original size:19 final size:19
Alignment explanation
Indices: 37952627--37952667 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
37952617 CGGTCTCGAT
*
37952627 TTTAGGCTCTCAAGCCCAA
1 TTTAGGATCTCAAGCCCAA
* *
37952646 TTTAGGATCTCAGGTCCAA
1 TTTAGGATCTCAAGCCCAA
37952665 TTT
1 TTT
37952668 TCAAGTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (19 bp):
TTTAGGATCTCAAGCCCAA
Found at i:37956402 original size:40 final size:40
Alignment explanation
Indices: 37956304--37956606 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
37956294 TCCTCGTTCA
* * * * *
37956304 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
37956343 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
37956383 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37956423 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37956463 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
37956503 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
37956543 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
37956583 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37956607 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37969778 original size:27 final size:28
Alignment explanation
Indices: 37969694--37969791 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
37969684 CATGAGATTG
* * * *
37969694 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
37969723 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
37969751 GCACTAAGTGTGTGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
37969778 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
37969792 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:37969802 original size:27 final size:27
Alignment explanation
Indices: 37969722--37969804 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
37969712 TAAATTGTAC
* * *
37969722 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGGGA-CTTGAATATAT
* * *
37969750 AGCACTAAGTGTGTGAGTTGATTATAT
1 AGCACTAAGTGTGGGACTTGAATATAT
*
37969777 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTG-GGACTTGAATATAT
37969804 A
1 A
37969805 TTTTTGAATC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.60
28 19 0.40
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGGGACTTGAATATAT
Found at i:37983340 original size:89 final size:89
Alignment explanation
Indices: 37983241--37983422 Score: 355
Period size: 89 Copynumber: 2.0 Consensus size: 89
37983231 GAACACCCCA
37983241 AAATGATATTAGGATTTGACAACAAGAAGAGAATAAAGTGTTAAAGTGATGATCAAAAGAAGAAA
1 AAATGATATTAGGATTTGACAACAAGAAGAGAATAAAGTGTTAAAGTGATGATCAAAAGAAGAAA
37983306 TAATATAAGAGAAGAAGAGCTATC
66 TAATATAAGAGAAGAAGAGCTATC
37983330 AAATGATATTAGGATTTGACAACAAGAAGAGAATAAAGTGTTAAAGTGATGATCAAAAGAAGAAA
1 AAATGATATTAGGATTTGACAACAAGAAGAGAATAAAGTGTTAAAGTGATGATCAAAAGAAGAAA
*
37983395 TAATATAAGAGAAGAAGAGTTATC
66 TAATATAAGAGAAGAAGAGCTATC
37983419 AAAT
1 AAAT
37983423 AAATCAATTT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 92 1.00
ACGTcount: A:0.52, C:0.05, G:0.21, T:0.22
Consensus pattern (89 bp):
AAATGATATTAGGATTTGACAACAAGAAGAGAATAAAGTGTTAAAGTGATGATCAAAAGAAGAAA
TAATATAAGAGAAGAAGAGCTATC
Found at i:37998037 original size:13 final size:13
Alignment explanation
Indices: 37998019--37998045 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37998009 TTAACTTATA
37998019 TGTGTGAAAATTT
1 TGTGTGAAAATTT
37998032 TGTGTGAAAATTT
1 TGTGTGAAAATTT
37998045 T
1 T
37998046 ATTGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:37999239 original size:42 final size:42
Alignment explanation
Indices: 37999135--37999293 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 42
37999125 AATGTGATAT
* * * *
37999135 CGTGTAAAACCATGTCTGGGACGTTGGCATCGGTTTAAGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATC-GTATATGA-TTA
* *
37999179 TGTGTAAGACCATGTCTGGGACATTGGCGTCGTATATGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTA
* * * *
37999221 CGTGTAAGACCCTGTCTGGGATAGTGGCATCGTTATTTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTA
* * * * *
37999264 CATGTAACACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
37999294 TGTACGAGTT
Statistics
Matches: 94, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 30 0.32
43 37 0.39
44 27 0.29
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTA
Found at i:38006337 original size:12 final size:12
Alignment explanation
Indices: 38006320--38006346 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38006310 AATTTAGATC
38006320 CGTAAATTTTTT
1 CGTAAATTTTTT
38006332 CGTAAATTTTTT
1 CGTAAATTTTTT
38006344 CGT
1 CGT
38006347 TAAGGTCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (12 bp):
CGTAAATTTTTT
Found at i:38007151 original size:20 final size:20
Alignment explanation
Indices: 38007126--38007164 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38007116 TACTTTCTTC
38007126 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
38007146 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
38007165 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:38007279 original size:25 final size:25
Alignment explanation
Indices: 38007251--38007307 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
38007241 CTTATAACTC
38007251 ACCTGAATTTATTTATTATGCTTTT
1 ACCTGAATTTATTTATTATGCTTTT
38007276 ACCTGAATTTATTTATTATGCTTTT
1 ACCTGAATTTATTTATTATGCTTTT
38007301 ACCTGAA
1 ACCTGAA
38007308 CTTTCATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.51
Consensus pattern (25 bp):
ACCTGAATTTATTTATTATGCTTTT
Found at i:38009114 original size:19 final size:19
Alignment explanation
Indices: 38009090--38009127 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
38009080 GGTTTCTAGA
38009090 AAATGATATACTTTTCTGG
1 AAATGATATACTTTTCTGG
*
38009109 AAATGATTTACTTTTCTGG
1 AAATGATATACTTTTCTGG
38009128 CATTTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (19 bp):
AAATGATATACTTTTCTGG
Found at i:38027309 original size:17 final size:16
Alignment explanation
Indices: 38027282--38027315 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
38027272 TTATTAACCC
38027282 AAATTAAATTAGATAT
1 AAATTAAATTAGATAT
*
38027298 AAATTAAAATTAGTTAT
1 AAATT-AAATTAGATAT
38027315 A
1 A
38027316 TTATGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (16 bp):
AAATTAAATTAGATAT
Found at i:38030619 original size:39 final size:40
Alignment explanation
Indices: 38030576--38030743 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
38030566 CTCGTTCAAG
* * * *
38030576 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
38030615 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
38030655 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
38030695 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
38030735 TGCCTTCGG
1 TGCCTTCGG
38030744 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:38030727 original size:80 final size:80
Alignment explanation
Indices: 38030611--38030796 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
38030601 AGTAACTCAT
* * *
38030611 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
38030675 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
38030690 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
38030754 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
38030771 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
38030797 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:38030756 original size:40 final size:40
Alignment explanation
Indices: 38030613--38030796 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
38030603 TAACTCATAC
* *
38030613 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
38030653 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
38030693 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
38030733 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
38030774 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38030797 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:38038560 original size:39 final size:40
Alignment explanation
Indices: 38038517--38038684 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
38038507 CTCGTTCAAG
* * * *
38038517 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
38038556 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
38038596 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * * *
38038636 GGCCTTCGGGACTTAACCCAGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCC-GGATTATAAAACTCACACGAA
38038676 TGCCTTCGG
1 TGCCTTCGG
38038685 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
39 26 0.24
40 78 0.72
41 4 0.04
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:38038606 original size:40 final size:39
Alignment explanation
Indices: 38038554--38038684 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 39
38038544 TAACTCATAC
* *
38038554 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
38038594 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
38038634 AAGGCCTTCGGGACTTAACCCAGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
38038674 AATGCCTTCGG
1 AATGCCTTCGG
38038685 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 77 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:38038668 original size:80 final size:80
Alignment explanation
Indices: 38038552--38038730 Score: 215
Period size: 80 Copynumber: 2.2 Consensus size: 80
38038542 AGTAACTCAT
* * * *
38038552 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
38038616 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
38038631 ACAAAGGCCTTCGGGACTTAACCCAGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCAGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
38038695 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
38038712 ACAAAGCCTTCGGGACTTA
1 ACAAAGCCTTCGGGACTTA
38038731 GCCCGGACAG
Statistics
Matches: 87, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 11 0.13
80 65 0.75
81 10 0.11
82 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:38057195 original size:22 final size:22
Alignment explanation
Indices: 38057177--38057221 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
38057167 AACCCTAATG
38057177 ACATGTCATTTTTATCCTACAA
1 ACATGTCATTTTTATCCTACAA
38057199 ACATGTCATTTTTATCCTACAA
1 ACATGTCATTTTTATCCTACAA
38057221 A
1 A
38057222 TTTCTAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.40
Consensus pattern (22 bp):
ACATGTCATTTTTATCCTACAA
Found at i:38058703 original size:18 final size:19
Alignment explanation
Indices: 38058658--38058704 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
38058648 GTTATTCTGC
38058658 GAACCTAT-ATCATTATGT
1 GAACCTATGATCATTATGT
*
38058676 GAATCC-ATGAT-ATTTTGT
1 GAA-CCTATGATCATTATGT
38058694 GAACCTATGAT
1 GAACCTATGAT
38058705 TGCATAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.08
18 19 0.76
19 4 0.16
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (19 bp):
GAACCTATGATCATTATGT
Found at i:38077030 original size:50 final size:50
Alignment explanation
Indices: 38076940--38077039 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 50
38076930 CAAAGTCATC
* ** * * * *
38076940 TCCCAGACATGGTCTTACATGGGAGTTGTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACAGGGGACCTCTCATATCAGTGCCAACGCCATG
* *
38076990 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACAGGGGACCTCTCATATCAGTGCCAACGCCATG
38077040 CCATGTCCCC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACAGGGGACCTCTCATATCAGTGCCAACGCCATG
Found at i:38084280 original size:20 final size:20
Alignment explanation
Indices: 38084255--38084293 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38084245 TACTTTTTTC
38084255 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
38084275 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
38084294 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:38084645 original size:50 final size:50
Alignment explanation
Indices: 38084591--38084689 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
38084581 AGTTCACATA
* * * *
38084591 TCGGTTCCCATGCCATGTCCCAGACATAGTCTTACGGGGGACCTCTCATC
1 TCGGTGCCAATGCCAAGTCCCAAACATAGTCTTACGGGGGACCTCTCATC
* *
38084641 TCGGTGCCAATGCCAAGTCCCAAACATGGTCTTACGTGGGACCTCTCAT
1 TCGGTGCCAATGCCAAGTCCCAAACATAGTCTTACGGGGGACCTCTCAT
38084690 AACCTCAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.25
Consensus pattern (50 bp):
TCGGTGCCAATGCCAAGTCCCAAACATAGTCTTACGGGGGACCTCTCATC
Found at i:38089318 original size:17 final size:18
Alignment explanation
Indices: 38089296--38089331 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38089286 AGGCCAATTT
*
38089296 GGGCATG-TGGGCCACAC
1 GGGCATGTTGGCCCACAC
38089313 GGGCATGTTGGCCCACAC
1 GGGCATGTTGGCCCACAC
38089331 G
1 G
38089332 AGTATGTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.17, C:0.31, G:0.39, T:0.14
Consensus pattern (18 bp):
GGGCATGTTGGCCCACAC
Found at i:38089328 original size:18 final size:17
Alignment explanation
Indices: 38089296--38089345 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
38089286 AGGCCAATTT
*
38089296 GGGCATGTGGGCCACAC
1 GGGCATGTGGCCCACAC
38089313 GGGCATGTTGGCCCACAC
1 GGGCATG-TGGCCCACAC
* *
38089331 GAGTATGTGGACCCA
1 GGGCATGTGG-CCCA
38089346 TAATTCTGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 10 0.36
18 18 0.64
ACGTcount: A:0.20, C:0.28, G:0.36, T:0.16
Consensus pattern (17 bp):
GGGCATGTGGCCCACAC
Found at i:38094682 original size:50 final size:49
Alignment explanation
Indices: 38094575--38094756 Score: 165
Period size: 50 Copynumber: 3.7 Consensus size: 49
38094565 GAGAGGTCCA
* * *
38094575 ATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGATCCCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-ATGAGA-A-CTCCC
* *
38094627 A--TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCTC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-ATGAGAACTCCC
* * * ** *
38094675 ATGTAAGACCATATCTAGGATATGGCATTGGCAATGCAA-GA-AGCGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AATGAGAAC-TCCC
* *
38094724 ATGTAATACCATGTCTGGGACATGGCTTTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
38094757 TGTTATTATC
Statistics
Matches: 107, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
48 6 0.06
49 34 0.32
50 65 0.61
51 1 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAATGAGAACTCCC
Found at i:38097907 original size:10 final size:10
Alignment explanation
Indices: 38097892--38097918 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38097882 TTAAGTTTAG
38097892 TGTGTTTAAA
1 TGTGTTTAAA
38097902 TGTGTTTAAA
1 TGTGTTTAAA
38097912 TGTGTTT
1 TGTGTTT
38097919 GTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (10 bp):
TGTGTTTAAA
Found at i:38109539 original size:16 final size:16
Alignment explanation
Indices: 38109509--38109548 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
38109499 AACTTTTGCC
*
38109509 TAAAGAAAGAGAAAAGA
1 TAAA-AAAGAAAAAAGA
38109526 TAAAAAAGAAAAAAGA
1 TAAAAAAGAAAAAAGA
38109542 -AAAAAAG
1 TAAAAAAG
38109549 GCCAGCAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 11 0.50
17 4 0.18
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (16 bp):
TAAAAAAGAAAAAAGA
Found at i:38112676 original size:39 final size:39
Alignment explanation
Indices: 38112555--38112816 Score: 307
Period size: 39 Copynumber: 6.6 Consensus size: 39
38112545 GCTCCTCGTT
* * *
38112555 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATTTCGCA
* * * *
38112595 CAAATGCCTTCGGGACTTAACCCAGATTTAGTATCTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATTTCGCA
38112635 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATTTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATTTCGCA
*
38112674 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATTTCGCA
* *
38112713 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATATCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATTTCGCA
* * * *
38112752 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATTTCGCA
38112793 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
38112817 CATCATTCAA
Statistics
Matches: 197, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 127 0.64
40 59 0.30
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATTTCGCA
Found at i:38117002 original size:39 final size:40
Alignment explanation
Indices: 38116959--38117126 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
38116949 CTCGTTCAAG
* * * *
38116959 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
38116998 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* ** *
38117038 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTTGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
38117078 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
38117118 TGCCTTCGG
1 TGCCTTCGG
38117127 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
39 26 0.24
40 79 0.72
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:38117110 original size:80 final size:80
Alignment explanation
Indices: 38116994--38117179 Score: 238
Period size: 80 Copynumber: 2.3 Consensus size: 80
38116984 AGTAACTCAT
* * *
38116994 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
38117058 GA-ATTAGT-ATCTT-GC
65 GATA-TAGTCA-CTTAGC
**
38117073 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
38117137 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
38117154 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
38117180 CAGCATTCAA
Statistics
Matches: 95, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
79 11 0.12
80 75 0.79
81 9 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:38117139 original size:40 final size:40
Alignment explanation
Indices: 38116996--38117179 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
38116986 TAACTCATAC
* *
38116996 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* * *
38117036 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTTGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
38117076 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
38117116 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
38117157 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38117180 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:38124903 original size:39 final size:40
Alignment explanation
Indices: 38124860--38125027 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
38124850 CTCGTTCAAG
* * * *
38124860 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
38124899 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
38124939 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
38124979 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
38125019 TGCCTTCGG
1 TGCCTTCGG
38125028 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:38125011 original size:80 final size:80
Alignment explanation
Indices: 38124895--38125080 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
38124885 AGTAACTCAT
* * *
38124895 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
38124959 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
38124974 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
38125038 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
38125055 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
38125081 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:38125040 original size:40 final size:40
Alignment explanation
Indices: 38124897--38125080 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
38124887 TAACTCATAC
* *
38124897 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
38124937 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
38124977 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
38125017 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
38125058 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38125081 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:38129644 original size:45 final size:43
Alignment explanation
Indices: 38129502--38129681 Score: 157
Period size: 45 Copynumber: 4.0 Consensus size: 43
38129492 TGTACTAAGA
* * *
38129502 ATCATTGATTATAAAGGTGGTTGTTGTCTGCTGATTACACCAAGT
1 ATCATTGATTATAAAGGTGGTTCTTG--TGCTGATTCCACCGAGT
* * * *
38129547 ATCATTGATTATAAAGGTGGTTGTTGTGTGCTGACTCCACTGGGT
1 ATCATTGATTATAAAGGTGGTT-CT-TGTGCTGATTCCACCGAGT
* *
38129592 A-CTATTGATTATGAAGGTGGGTTCTATGTGTTGATTCCACCGAGT
1 ATC-ATTGATTATAAAGGT-GGTTCT-TGTGCTGATTCCACCGAGT
* * * *
38129637 ATCATTGACTATAAGGGTGGTGCTATGTGCTGA-TCCACCGTGT
1 ATCATTGATTATAAAGGTGGTTCT-TGTGCTGATTCCACCGAGT
38129680 AT
1 AT
38129682 ATGTTATTAT
Statistics
Matches: 111, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
43 11 0.10
44 14 0.13
45 78 0.70
46 6 0.05
47 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (43 bp):
ATCATTGATTATAAAGGTGGTTCTTGTGCTGATTCCACCGAGT
Found at i:38130234 original size:87 final size:88
Alignment explanation
Indices: 38130126--38130304 Score: 306
Period size: 87 Copynumber: 2.0 Consensus size: 88
38130116 TGAGATAAAA
*
38130126 TTTATATTTTTAGAATCCTGAATGAGTCTATTTTCAAAAGAAATAAACGAG-CTATTATCCGAAT
1 TTTATATTTTTAGAATCCTGAATGAGTCCATTTTCAAAAGAAATAAACGAGACTATTATCCGAAT
* * *
38130190 TCTGTACTATGAAATAATTAGTT
66 TATGTACTATGAAAAAATTAATT
*
38130213 TTTATATTTTTAGAATCCTGAATGAGTCCATTTTCAAAAGAAATAAACGAGAGTATTATCCGAAT
1 TTTATATTTTTAGAATCCTGAATGAGTCCATTTTCAAAAGAAATAAACGAGACTATTATCCGAAT
38130278 TATGTACTATGAAAAAATTAATT
66 TATGTACTATGAAAAAATTAATT
38130301 TTTA
1 TTTA
38130305 GTTAAGAAAG
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
87 50 0.58
88 36 0.42
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (88 bp):
TTTATATTTTTAGAATCCTGAATGAGTCCATTTTCAAAAGAAATAAACGAGACTATTATCCGAAT
TATGTACTATGAAAAAATTAATT
Found at i:38140964 original size:50 final size:50
Alignment explanation
Indices: 38140857--38141050 Score: 217
Period size: 50 Copynumber: 3.8 Consensus size: 50
38140847 ATTTGGGTAA
* *
38140857 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT-C--GAG---ATG
38140913 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
** * * *
38140963 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
** * * * *
38141013 AGAACTCCCATGGAAGACCATATCTTGGATATGGCATT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATT
38141051 AGTAGTACAT
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 77 0.63
53 3 0.02
55 1 0.01
56 41 0.34
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
Found at i:38143798 original size:50 final size:54
Alignment explanation
Indices: 38143639--38143887 Score: 298
Period size: 56 Copynumber: 4.7 Consensus size: 54
38143629 GGGAATGAGA
38143639 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-TGAGG-TATGAGAGG
38143695 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-TGAGG-TATGAGAGG
* *
38143751 TCCCATGTAAGACCATGTCTGGGATATGGCGTTGGCA-C-TGA-G-ATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATGAGGTATGAGAGG
** * * * * **
38143801 TCCCCCGTAAGACAATGTTTGGGACATGGCATGGGCA-C-CGA--TATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATGAGGTATGAGAGG
* *
38143851 TCCCATGTAAGACCATATCTGGGACATGGTATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
38143888 GTACAGAAAA
Statistics
Matches: 173, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
50 77 0.45
52 1 0.01
53 3 0.02
55 1 0.01
56 91 0.53
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (54 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATGAGGTATGAGAGG
Found at i:38148270 original size:41 final size:41
Alignment explanation
Indices: 38148205--38148391 Score: 259
Period size: 41 Copynumber: 4.6 Consensus size: 41
38148195 TTTAAACAGA
* * * * *
38148205 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAG
*
38148246 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
*
38148287 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
** * *
38148328 TTCACCGAAACTTAGCCTGCTGGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
38148369 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
38148392 ATGTATAGTC
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 1 0.01
41 130 0.99
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
Found at i:38153680 original size:27 final size:25
Alignment explanation
Indices: 38153630--38153680 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
38153620 CAATTATATC
*
38153630 GCATTATTTATTTGGCAGTTTTACT
1 GCATTATTGATTTGGCAGTTTTACT
*
38153655 GCATTATTGATTGTTGCTAGTTTTAC
1 GCATTATTGATT-TGGC-AGTTTTAC
38153681 CACATCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.50
26 3 0.14
27 8 0.36
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.51
Consensus pattern (25 bp):
GCATTATTGATTTGGCAGTTTTACT
Found at i:38157456 original size:40 final size:40
Alignment explanation
Indices: 38157380--38157598 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
38157370 ATGTCCAGGC
* * * * **
38157380 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGT
38157420 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
38157460 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
38157500 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
38157540 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT
*
38157580 TATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTG
38157599 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 154 0.93
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
Found at i:38157616 original size:120 final size:119
Alignment explanation
Indices: 38157380--38157631 Score: 296
Period size: 120 Copynumber: 2.1 Consensus size: 119
38157370 ATGTCCAGGC
*
38157380 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* ** *
38157445 TTACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
66 TTACTAAATCCGGGCTAAGTCCCGAAGGCATTGGAACGAGTGACTAAATCC-GGT
* * * **
38157500 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * *
38157563 AGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGT
64 AGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTGGAACGAGTGA-CTAAATCCGGT
* *
38157619 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
38157632 TACGTGATTT
Statistics
Matches: 113, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
119 16 0.14
120 88 0.78
121 9 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGGCTAAGTCCCGAAGGCATTGGAACGAGTGACTAAATCCGGT
Found at i:38165396 original size:40 final size:40
Alignment explanation
Indices: 38165294--38165517 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
38165284 TTGAATGATG
* * * *
38165294 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
38165334 TCCGGACTAAGAT-CCGAA-GCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38165373 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38165413 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38165453 TCC-GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38165493 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38165518 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
38 1 0.01
39 59 0.35
40 106 0.63
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38165430 original size:79 final size:80
Alignment explanation
Indices: 38165294--38165517 Score: 305
Period size: 79 Copynumber: 2.8 Consensus size: 80
38165284 TTGAATGATG
* * * * * *
38165294 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAA-GCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
38165356 TTGTGCGAGTTACTAAA
64 TTGTGCGAGTTACTAAA
* *
38165373 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
38165438 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
*
38165453 TCC-GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
38165516 TG
65 TG
38165518 AACGAGGAGC
Statistics
Matches: 130, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
78 1 0.01
79 97 0.75
80 32 0.25
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:38165506 original size:119 final size:119
Alignment explanation
Indices: 38165294--38165515 Score: 308
Period size: 119 Copynumber: 1.9 Consensus size: 119
38165284 TTGAATGATG
*
38165294 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGCATTTG
*
38165359 TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
66 TGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
* * * * *
38165413 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGG-TTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAA-GCAT
*
38165475 TTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
63 TTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
38165516 TGAACGAGGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
117 1 0.01
118 9 0.10
119 72 0.79
120 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGCATTTG
TGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:38165535 original size:79 final size:79
Alignment explanation
Indices: 38165301--38165550 Score: 258
Period size: 79 Copynumber: 3.2 Consensus size: 79
38165291 ATGTCCGGGC
* * * * * * **
38165301 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAA-GCATTTGTGCG
1 TAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCATTTGAACG
*
38165363 AGTTACTAAATCCGGGT
64 AGTGACTAAATCC-GGT
* **
38165380 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG
*
38165445 TTACTAAATCCGGT
66 TGACTAAATCCGGT
* *
38165459 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGA
*
38165523 G-GAGCTATATCCGGT
65 GTGA-CTAAATCCGGT
* *
38165538 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
38165551 TACGTGATTT
Statistics
Matches: 150, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.01
79 116 0.77
80 32 0.21
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG
TGACTAAATCCGGT
Found at i:38165535 original size:119 final size:119
Alignment explanation
Indices: 38165294--38165550 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
38165284 TTGAATGATG
* *
38165294 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGCATTTG
* ** *
38165359 TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
66 TGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTGGAACGAGTGACTAAA
* * * *
38165413 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGG-TTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAA-GCAT
* * *
38165475 TTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
63 TTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
38165532 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38165551 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
117 1 0.01
118 24 0.20
119 84 0.71
120 9 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGCATTTG
TGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:38168813 original size:16 final size:16
Alignment explanation
Indices: 38168780--38168813 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38168770 AAACATTTGG
**
38168780 AATGGAATGGTTGGTA
1 AATGGAATGGTTCATA
38168796 AATGGAATGGTTCATA
1 AATGGAATGGTTCATA
38168812 AA
1 AA
38168814 CTTATGAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.29, T:0.29
Consensus pattern (16 bp):
AATGGAATGGTTCATA
Found at i:38171268 original size:6 final size:5
Alignment explanation
Indices: 38171243--38171285 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
38171233 ATTATGTCAG
*
38171243 AATAA AATAA TATGAA AATAAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA A
38171286 GGAAACAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:38171268 original size:17 final size:16
Alignment explanation
Indices: 38171246--38171285 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
38171236 ATGTCAGAAT
*
38171246 AAAATAATATGAAAATA
1 AAAATAAAAT-AAAATA
38171263 AAAATAAAATAAAAT-
1 AAAATAAAATAAAATA
38171278 AAAATAAA
1 AAAATAAA
38171286 GGAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 5 0.23
17 9 0.41
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:38171268 original size:22 final size:21
Alignment explanation
Indices: 38171243--38171285 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
38171233 ATTATGTCAG
*
38171243 AATAAAATAATATGAAAATAAA
1 AATAAAATAAAAT-AAAATAAA
38171265 AATAAAATAAAATAAAATAAA
1 AATAAAATAAAATAAAATAAA
38171286 GGAAACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (21 bp):
AATAAAATAAAATAAAATAAA
Found at i:38175785 original size:25 final size:25
Alignment explanation
Indices: 38175757--38175817 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
38175747 TTCAACTCAT
*
38175757 ATGAGCTTACCGATACTCAGCTCGC
1 ATGAGCTTACCGATACTCAGCTCGA
* * *
38175782 ATGAGCTTACCGTTATTCAGCTTGA
1 ATGAGCTTACCGATACTCAGCTCGA
*
38175807 AAGAGCTTACC
1 ATGAGCTTACC
38175818 AATTATAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (25 bp):
ATGAGCTTACCGATACTCAGCTCGA
Found at i:38176386 original size:20 final size:20
Alignment explanation
Indices: 38176361--38176399 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
38176351 TTGGTTACAT
38176361 TTTGGTTATAATGGCATATG
1 TTTGGTTATAATGGCATATG
*
38176381 TTTGGTTATAATGGTATAT
1 TTTGGTTATAATGGCATAT
38176400 ATTTCGGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTGGTTATAATGGCATATG
Found at i:38181867 original size:33 final size:33
Alignment explanation
Indices: 38181830--38181895 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
38181820 AACCTTACCA
38181830 CCCTTTTATGATCACAAGCATATTTTCATCTAG
1 CCCTTTTATGATCACAAGCATATTTTCATCTAG
38181863 CCCTTTTATGATCACAAGCATATTTTCATCTAG
1 CCCTTTTATGATCACAAGCATATTTTCATCTAG
38181896 ACATTTACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.39
Consensus pattern (33 bp):
CCCTTTTATGATCACAAGCATATTTTCATCTAG
Found at i:38182889 original size:38 final size:37
Alignment explanation
Indices: 38182819--38182891 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
38182809 CTTTCATAAT
*
38182819 TTCACTTTTTCACTTTCAATCACAATTCAATTCAAAA
1 TTCACTTTTCCACTTTCAATCACAATTCAATTCAAAA
38182856 TTCACTTTTCCA-TTTCTAAGTCA-ATATTCAATTCAA
1 TTCACTTTTCCACTTTC-AA-TCACA-ATTCAATTCAA
38182892 TTCCACACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 14 0.44
38 14 0.44
ACGTcount: A:0.33, C:0.23, G:0.01, T:0.42
Consensus pattern (37 bp):
TTCACTTTTCCACTTTCAATCACAATTCAATTCAAAA
Found at i:38183047 original size:45 final size:45
Alignment explanation
Indices: 38182975--38183060 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
38182965 CTCGGTGGAT
*
38182975 TCAGCACATAGCAACCACCTTATTAATCAACGATGTCCGGTAGAA
1 TCAGCACATAGCAACCACCTTACTAATCAACGATGTCCGGTAGAA
* * *
38183020 TCAGCACATAGCAACCATCTTACTAATCAATGATGTTCGGT
1 TCAGCACATAGCAACCACCTTACTAATCAACGATGTCCGGT
38183061 TCATATAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (45 bp):
TCAGCACATAGCAACCACCTTACTAATCAACGATGTCCGGTAGAA
Found at i:38189715 original size:45 final size:45
Alignment explanation
Indices: 38189636--38189808 Score: 226
Period size: 45 Copynumber: 3.9 Consensus size: 45
38189626 CCGTTACACT
* * *
38189636 GTGG-ATCAACACATAGC-ACCACCCTTATAATCAATTATATTCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATTCG
**
38189679 GTGGAATCAGCACATAGCAACCACCTTTATTTTCAATGAT-TTCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATT-CG
* * * **
38189724 GTGGAGTTAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATTCG
38189769 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGAT
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGAT
38189809 TCTTAGTACA
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 4 0.04
44 14 0.13
45 93 0.84
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATTCG
Found at i:38189806 original size:90 final size:89
Alignment explanation
Indices: 38189645--38189809 Score: 258
Period size: 90 Copynumber: 1.8 Consensus size: 89
38189635 TGTGGATCAA
* ** *
38189645 CACATAGCACCACCCTTATAATCAATTATATTCGGTGGAATCAGCACATAGCAACCACCTTTATT
1 CACATAGCACCACCCTTATAATCAATGATACCCGGTGGAATCAGCACATAGCAACCACCTTTATA
*
38189710 TTCAATGATTTCCGGTGGAGTTAG
66 ATCAATGATTTCCGGTGGAGTTAG
* *
38189734 CACATAGCAACCACCTTTATAATCAATGGTACCCGGTGGAATCAGCACATAGCAACCACCTTTAT
1 CACATAGC-ACCACCCTTATAATCAATGATACCCGGTGGAATCAGCACATAGCAACCACCTTTAT
38189799 AATCAATGATT
65 AATCAATGATT
38189810 CTTAGTACAC
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
89 8 0.12
90 60 0.88
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (89 bp):
CACATAGCACCACCCTTATAATCAATGATACCCGGTGGAATCAGCACATAGCAACCACCTTTATA
ATCAATGATTTCCGGTGGAGTTAG
Found at i:38192062 original size:42 final size:42
Alignment explanation
Indices: 38192013--38192097 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
38192003 TGTACCCAAC
38192013 AACTATGTCGAAATAACAAACTAGTTATCCTTAATTGCACTT
1 AACTATGTCGAAATAACAAACTAGTTATCCTTAATTGCACTT
38192055 AACTATGTCGAAATAACAAACTAGTTATCCTTAATTGCACTT
1 AACTATGTCGAAATAACAAACTAGTTATCCTTAATTGCACTT
38192097 A
1 A
38192098 CACTTCATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (42 bp):
AACTATGTCGAAATAACAAACTAGTTATCCTTAATTGCACTT
Found at i:38199495 original size:39 final size:40
Alignment explanation
Indices: 38199396--38199580 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
38199386 TTGATTGATG
* * * *
38199396 TCCGGGCTAAGTCCCGAAGG-TTTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
38199435 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
38199476 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
38199515 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
38199554 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
38199581 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:38199602 original size:79 final size:79
Alignment explanation
Indices: 38199449--38199613 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
38199439 AGACTAAGAT
* **
38199449 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
38199514 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
38199528 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
38199591 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38199607 CCGAAGG
1 CCGAAGG
38199614 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38205036 original size:12 final size:12
Alignment explanation
Indices: 38205019--38205055 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
38205009 TAGGCTTCCA
38205019 AAAATGGAAATG
1 AAAATGGAAATG
38205031 AAAATGGAAATG
1 AAAATGGAAATG
38205043 AAAATGGAAATG
1 AAAATGGAAATG
38205055 A
1 A
38205056 TTCATTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:38205047 original size:18 final size:18
Alignment explanation
Indices: 38205020--38205054 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38205010 AGGCTTCCAA
*
38205020 AAATGGAAATGAAAATGG
1 AAATGAAAATGAAAATGG
*
38205038 AAATGAAAATGGAAATG
1 AAATGAAAATGAAAATG
38205055 ATTCATTTGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (18 bp):
AAATGAAAATGAAAATGG
Found at i:38205468 original size:23 final size:23
Alignment explanation
Indices: 38205438--38205503 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
38205428 CTAGTAGGAA
*
38205438 TACTAGGGTGTGCCGTCCACTCC
1 TACTAGGGTGTGTCGTCCACTCC
* *
38205461 TACTAGGGTGTGTCATCCACTTC
1 TACTAGGGTGTGTCGTCCACTCC
*
38205484 TATTAGGGTGTGTCGTCCAC
1 TACTAGGGTGTGTCGTCCAC
38205504 CCTTGTCTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.15, C:0.27, G:0.26, T:0.32
Consensus pattern (23 bp):
TACTAGGGTGTGTCGTCCACTCC
Found at i:38209658 original size:138 final size:138
Alignment explanation
Indices: 38209410--38209688 Score: 558
Period size: 138 Copynumber: 2.0 Consensus size: 138
38209400 TAAGCTACGA
38209410 CTCTAAAAACATAAAAACCATTAAAAACGGGACAAAAATGCACTTACATGCACACACCAAGGTTG
1 CTCTAAAAACATAAAAACCATTAAAAACGGGACAAAAATGCACTTACATGCACACACCAAGGTTG
38209475 GCCGAATGCTTTAAGCCCTAGCTATGGCTTTTTATTCTTCAATTTCGGTGGTGTTTCAATATAAG
66 GCCGAATGCTTTAAGCCCTAGCTATGGCTTTTTATTCTTCAATTTCGGTGGTGTTTCAATATAAG
38209540 GAAGATGG
131 GAAGATGG
38209548 CTCTAAAAACATAAAAACCATTAAAAACGGGACAAAAATGCACTTACATGCACACACCAAGGTTG
1 CTCTAAAAACATAAAAACCATTAAAAACGGGACAAAAATGCACTTACATGCACACACCAAGGTTG
38209613 GCCGAATGCTTTAAGCCCTAGCTATGGCTTTTTATTCTTCAATTTCGGTGGTGTTTCAATATAAG
66 GCCGAATGCTTTAAGCCCTAGCTATGGCTTTTTATTCTTCAATTTCGGTGGTGTTTCAATATAAG
38209678 GAAGATGG
131 GAAGATGG
38209686 CTC
1 CTC
38209689 CTTTATTTTC
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 141 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (138 bp):
CTCTAAAAACATAAAAACCATTAAAAACGGGACAAAAATGCACTTACATGCACACACCAAGGTTG
GCCGAATGCTTTAAGCCCTAGCTATGGCTTTTTATTCTTCAATTTCGGTGGTGTTTCAATATAAG
GAAGATGG
Found at i:38212679 original size:31 final size:31
Alignment explanation
Indices: 38212641--38212702 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
38212631 AGATAGACCA
38212641 AGAACTGATTTAGATTGGGGAAAAGCTAAAG
1 AGAACTGATTTAGATTGGGGAAAAGCTAAAG
38212672 AGAACTGATTTAGATTGGGGAAAAGCTAAAG
1 AGAACTGATTTAGATTGGGGAAAAGCTAAAG
38212703 CCTCAGATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (31 bp):
AGAACTGATTTAGATTGGGGAAAAGCTAAAG
Found at i:38214365 original size:16 final size:17
Alignment explanation
Indices: 38214344--38214386 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
38214334 TTGAAGAAAA
38214344 GAAAAGAATAAA-A-TTT
1 GAAAAGAA-AAATATTTT
38214360 GAAAAGAAAAATATTTT
1 GAAAAGAAAAATATTTT
38214377 GAAAA-AAAAA
1 GAAAAGAAAAA
38214387 GTGGTTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.12
16 14 0.56
17 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (17 bp):
GAAAAGAAAAATATTTT
Found at i:38214685 original size:21 final size:20
Alignment explanation
Indices: 38214645--38214715 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 20
38214635 GACCATATAC
*
38214645 TTTATTTTTATTTTCGTTTGTA
1 TTTA-TTTT-TTTTCTTTTGTA
*
38214667 TTTATTTTTTTTAGTTTTGT-
1 TTTATTTTTTTT-CTTTTGTA
*
38214687 TTTCTTTCTTTTTCTTTT-TA
1 TTTATTT-TTTTTCTTTTGTA
38214707 TTTTATTTT
1 -TTTATTTT
38214716 ATTATGCACT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 1 0.03
20 15 0.38
21 20 0.50
22 4 0.10
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.79
Consensus pattern (20 bp):
TTTATTTTTTTTCTTTTGTA
Found at i:38215692 original size:19 final size:18
Alignment explanation
Indices: 38215665--38215721 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
38215655 TTTGTTCTAA
38215665 AAAATAAAAAAATAAAAAC
1 AAAA-AAAAAAATAAAAAC
* *
38215684 AAAACAAAAGAAGAAAAAC
1 AAAA-AAAAAAATAAAAAC
38215703 ATAAAAAAAAGAATAAAAA
1 A-AAAAAAAA-AATAAAAA
38215722 TATTTTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.07
Consensus pattern (18 bp):
AAAAAAAAAAATAAAAAC
Found at i:38215701 original size:20 final size:20
Alignment explanation
Indices: 38215678--38215721 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
38215668 ATAAAAAAAT
*
38215678 AAAAACA-AAACAAAAGAAG
1 AAAAACATAAAAAAAAGAAG
*
38215697 AAAAACATAAAAAAAAGAAT
1 AAAAACATAAAAAAAAGAAG
38215717 AAAAA
1 AAAAA
38215722 TATTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.82, C:0.07, G:0.07, T:0.05
Consensus pattern (20 bp):
AAAAACATAAAAAAAAGAAG
Found at i:38224825 original size:26 final size:26
Alignment explanation
Indices: 38224788--38224864 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 26
38224778 AAAAGGGTAC
* *
38224788 AAAA-TATATACATGTACATATATAA
1 AAAATTATATACATATATATATATAA
38224813 AAAATTATATACATATATATATTATAA
1 AAAATTATATACATATATATA-TATAA
*
38224840 AAAGATAAT-TACATATATATATATA
1 AAA-ATTATATACATATATATATATA
38224865 TAAACAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
25 4 0.09
26 18 0.39
27 20 0.43
28 4 0.09
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (26 bp):
AAAATTATATACATATATATATATAA
Found at i:38224852 original size:27 final size:28
Alignment explanation
Indices: 38224805--38224877 Score: 105
Period size: 27 Copynumber: 2.6 Consensus size: 28
38224795 ATACATGTAC
*
38224805 ATATATAAAAAATTATATACATATATAT
1 ATATATAAAAAATAATATACATATATAT
38224833 AT-TATAAAAAGATAAT-TACATATATAT
1 ATATATAAAAA-ATAATATACATATATAT
38224860 ATATATAAACAAATAATA
1 ATATATAAA-AAATAATA
38224878 ATAATTACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 21 0.52
28 17 0.43
29 2 0.05
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (28 bp):
ATATATAAAAAATAATATACATATATAT
Found at i:38225048 original size:17 final size:17
Alignment explanation
Indices: 38225026--38225069 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
38225016 TAGGAAATAA
38225026 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
38225043 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
38225060 -ATATGTATAT
1 AAAATGTATAT
38225070 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:38225200 original size:3 final size:3
Alignment explanation
Indices: 38225192--38225227 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
38225182 GTATATATAG
*
38225192 TAA TAA TAA TAA TAA TAA TCA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38225228 CTTAATAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:38225602 original size:19 final size:19
Alignment explanation
Indices: 38225574--38225629 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
38225564 AATCATATCT
*
38225574 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
38225593 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
38225614 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
38225630 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:38225611 original size:21 final size:21
Alignment explanation
Indices: 38225585--38225628 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
38225575 CTAATATTGC
38225585 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
38225606 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
38225627 AT
1 AT
38225629 CCTTGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:38226458 original size:44 final size:44
Alignment explanation
Indices: 38226409--38226618 Score: 316
Period size: 44 Copynumber: 4.8 Consensus size: 44
38226399 ATCTGCTATT
* *
38226409 TTCAACCTACTCCACTGCTG-CTTAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
*
38226453 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATC
* * * *
38226497 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
38226541 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
38226585 TTTAACCTATTCCACTGCTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
38226619 GCTGGGGTCA
Statistics
Matches: 150, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
43 1 0.01
44 147 0.98
45 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:38226679 original size:88 final size:86
Alignment explanation
Indices: 38226585--38226847 Score: 355
Period size: 88 Copynumber: 3.0 Consensus size: 86
38226575 ATTCACAATC
* * * * *
38226585 TTTAACCTATTCCACTGCTGACCAGGGAGATAGGGCTGGGGTCATCGATCTGCTTCGCTGTCGGT
1 TTTAACCTGTTCCACTGC-AACCAGGGAGA-AAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
* *
38226650 GTAGGAAGGTAAGATCTGCTATT
64 GCAGGAAGGCAAGATCTGCTATT
*
38226673 TTTAACCTGTTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
1 TTTAACCTGTTCCACTGCAA-CCAGGGA-GAAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
*
38226738 GCAAGAAGGCAAGATCTGCTATT
64 GCAGGAAGGCAAGATCTGCTATT
* * *
38226761 TTTAACCTGCTCCACTGCAACCAAGGGATGAAAGGCTGGTGTCTTCGATCTGCTTCGCTATCTGT
1 TTTAACCTGTTCCACTGCAACC-AGGGA-GAAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
*
38226826 GCAGGAAAGCAAGATCTGCTAT
64 GCAGGAAGGCAAGATCTGCTAT
38226848 CTTCGATCTA
Statistics
Matches: 156, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
87 3 0.02
88 152 0.97
89 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (86 bp):
TTTAACCTGTTCCACTGCAACCAGGGAGAAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGC
AGGAAGGCAAGATCTGCTATT
Found at i:38226680 original size:132 final size:132
Alignment explanation
Indices: 38226365--38226690 Score: 338
Period size: 132 Copynumber: 2.5 Consensus size: 132
38226355 ACTAATGTCT
* *
38226365 TCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTGCTGC
1 TCGATCTGCTTCACTG-CAGTACAGGAAGGTAAGATCTGCTATTTTCAACCTATTCCACTGCTGC
*
38226430 TTAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAA
65 TCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAA
*
38226495 TCT
130 TCA
* * * ** * * * *
38226498 TCAATCT-ATTCCACTGCTGCCCAGGGAGAT-AGAATTCT-CAATCTTCAACCTATTCCACTGCT
1 TCGATCTGCTT-CACTGCAGTACAGGAAGGTAAG-A-TCTGCTATTTTCAACCTATTCCACTGCT
* * *
38226560 GAC-CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG-GCTG
63 G-CTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTA
***
38226623 GGGTCA
127 CAATCA
* * ** * *
38226629 TCGATCTGCTTCGCTGTCGGTGTAGGAAGGTAAGATCTGCTATTTTTAACCTGTTCCACTGC
1 TCGATCTGCTTCACTG-CAGTACAGGAAGGTAAGATCTGCTATTTTCAACCTATTCCACTGC
38226691 AACCCAGGGA
Statistics
Matches: 153, Mismatches: 32, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
131 19 0.12
132 117 0.76
133 17 0.11
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (132 bp):
TCGATCTGCTTCACTGCAGTACAGGAAGGTAAGATCTGCTATTTTCAACCTATTCCACTGCTGCT
CAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAAT
CA
Found at i:38226889 original size:44 final size:44
Alignment explanation
Indices: 38226835--38227116 Score: 318
Period size: 44 Copynumber: 6.4 Consensus size: 44
38226825 TGCAGGAAAG
* * *
38226835 CAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
* * * * *
38226879 TAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGA
*
38226924 CAAGATCTG-TATCTTCGATCCACTTC-CTACCAATATAGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGA
* * * *
38226967 CAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
* * * *
38227011 CAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGA
* * *
38227056 CAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAAGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGA
*
38227100 CAGGATCTGCTATCTTC
1 CAAGATCTGCTATCTTC
38227117 ACTGATCTAC
Statistics
Matches: 198, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 22 0.11
44 128 0.65
45 47 0.24
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (44 bp):
CAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
Found at i:38226983 original size:132 final size:133
Alignment explanation
Indices: 38226835--38227116 Score: 512
Period size: 132 Copynumber: 2.1 Consensus size: 133
38226825 TGCAGGAAAG
*
38226835 CAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATC
1 CAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATC
* *
38226900 TACTTCGCCACCAGTATGGGAAGACAAGATCTGTATCTTCGATCCACTTC-CTACCAATATAGGA
66 TACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAAGA
38226964 AGA
131 AGA
*
38226967 CAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATC
1 CAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATC
38227032 TACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAAGA
66 TACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAAGA
38227097 AGA
131 AGA
*
38227100 CAGGATCTGCTATCTTC
1 CAAGATCTGCTATCTTC
38227117 ACTGATCTAC
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
132 112 0.78
133 31 0.22
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (133 bp):
CAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATC
TACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAAGA
AGA
Found at i:38232070 original size:23 final size:22
Alignment explanation
Indices: 38232029--38232099 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 22
38232019 ATATCATGAT
*
38232029 AACAAATACAATAGTAATAAATA
1 AACAAATA-AATAGAAATAAATA
*
38232052 CAAC-AATGACATAGAAATAATATA
1 -AACAAAT-AAATAGAAATAA-ATA
*
38232076 AACAAATAAATAAAAATAAATA
1 AACAAATAAATAGAAATAAATA
38232098 AA
1 AA
38232100 TCAATAACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 5 0.12
23 25 0.62
24 10 0.25
ACGTcount: A:0.68, C:0.08, G:0.04, T:0.20
Consensus pattern (22 bp):
AACAAATAAATAGAAATAAATA
Found at i:38232290 original size:27 final size:26
Alignment explanation
Indices: 38232234--38232306 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 26
38232224 AAAAGGGTAC
* *
38232234 AAAATATATACATGTACATATATAAA
1 AAAATATATACATATACATAGATAAA
*
38232260 AAAATTATATACATATATATAGATTATAA
1 AAAA-TATATACATATACATAGA-TA-AA
*
38232289 AAAAGATAATTACATATA
1 AAAATAT-A-TACATATA
38232307 TATGTAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 4 0.11
27 15 0.39
28 4 0.11
29 7 0.18
30 8 0.21
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAATATATACATATACATAGATAAA
Found at i:38232699 original size:13 final size:13
Alignment explanation
Indices: 38232689--38232721 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
38232679 AGAAAATATT
38232689 TAATAAAAATAAA
1 TAATAAAAATAAA
38232702 TAATAAAAA-AAA
1 TAATAAAAATAAA
38232714 TAA-AAAAA
1 TAATAAAAA
38232722 AAGACTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 6 0.30
13 9 0.45
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
TAATAAAAATAAA
Found at i:38232713 original size:29 final size:32
Alignment explanation
Indices: 38232657--38232715 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
38232647 ATAATAATAA
* *
38232657 TAATAATAATAACTTAATAACAAGAAAATATT
1 TAATAAAAATAACATAATAACAAGAAAATATT
38232689 TAATAAAAATAA-ATAATAA-AA-AAAATA
1 TAATAAAAATAACATAATAACAAGAAAATA
38232716 AAAAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 2 0.08
31 6 0.24
32 11 0.44
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (32 bp):
TAATAAAAATAACATAATAACAAGAAAATATT
Found at i:38233041 original size:19 final size:20
Alignment explanation
Indices: 38233013--38233060 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
38233003 AATCATATCT
*
38233013 TCTAATATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
38233032 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
38233053 TCTAAGAT
1 TCTAAGAT
38233061 CATATCTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 10 0.38
21 16 0.62
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:38233489 original size:3 final size:3
Alignment explanation
Indices: 38233481--38233522 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
38233471 TTATCAAACA
*
38233481 ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT -TT A-T ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
38233523 GGATTTGATC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:38233746 original size:3 final size:3
Alignment explanation
Indices: 38233738--38233778 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
38233728 TTATCAAACA
38233738 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
38233779 CAGGATTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:38235648 original size:29 final size:29
Alignment explanation
Indices: 38235615--38235670 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
38235605 TTTGGTCTCT
*
38235615 ATATTTTTATAATGTTATTAATTAATTTA
1 ATATTTTTATAATGTAATTAATTAATTTA
38235644 ATATTTTTATAATGTAATTAATTAATT
1 ATATTTTTATAATGTAATTAATTAATT
38235671 CAAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (29 bp):
ATATTTTTATAATGTAATTAATTAATTTA
Found at i:38236455 original size:15 final size:15
Alignment explanation
Indices: 38236431--38236461 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38236421 TTGATGCTTG
38236431 TTATAAAATATATCT
1 TTATAAAATATATCT
*
38236446 TTATACAATATATCT
1 TTATAAAATATATCT
38236461 T
1 T
38236462 AACCTGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (15 bp):
TTATAAAATATATCT
Found at i:38251895 original size:67 final size:66
Alignment explanation
Indices: 38251785--38251971 Score: 302
Period size: 67 Copynumber: 2.8 Consensus size: 66
38251775 ATGTAAATTA
* * *
38251785 TGTATTGAATTTCTATTTTTGTATCAACTTCAATTATTGACATATATCTGCATTATGTATCCCAT
1 TGTATTGAATTTCT-TTCTTGTATCAACTTCAATTATTTACATATATTTGCATTATGTATCCCAT
38251850 TT
65 TT
*
38251852 TGTATTGAATTTCCTTTCTTGTATAAACTTCAATTATTTACATATATTTGCATTATGTATCCCAT
1 TGTATTGAATTT-CTTTCTTGTATCAACTTCAATTATTTACATATATTTGCATTATGTATCCCAT
38251917 TT
65 TT
*
38251919 TGTATTGAAATTTCATTCTTGTATCAACTTCAATTATTTACATATATTTGCAT
1 TGTATTG-AATTTCTTTCTTGTATCAACTTCAATTATTTACATATATTTGCAT
38251972 GAACTTGATT
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
67 105 0.94
68 7 0.06
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (66 bp):
TGTATTGAATTTCTTTCTTGTATCAACTTCAATTATTTACATATATTTGCATTATGTATCCCATT
T
Found at i:38253418 original size:16 final size:16
Alignment explanation
Indices: 38253397--38253432 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
38253387 TATAGTGTCA
38253397 CTAGTACTGCCGGACC
1 CTAGTACTGCCGGACC
38253413 CTAGTACTGCCGGACC
1 CTAGTACTGCCGGACC
38253429 CTAG
1 CTAG
38253433 CACCTTGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.36, G:0.25, T:0.19
Consensus pattern (16 bp):
CTAGTACTGCCGGACC
Found at i:38298730 original size:29 final size:29
Alignment explanation
Indices: 38298697--38298764 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
38298687 TTTATTTATA
38298697 AAATATTTTA-ACTTAATTTTCAATAATTT
1 AAATATTTTATA-TTAATTTTCAATAATTT
* * * *
38298726 AAATAATTTATATTTATTTTTAATATTTT
1 AAATATTTTATATTAATTTTCAATAATTT
*
38298755 AAATTTTTTA
1 AAATATTTTA
38298765 GAATTATTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (29 bp):
AAATATTTTATATTAATTTTCAATAATTT
Found at i:38298771 original size:29 final size:29
Alignment explanation
Indices: 38298712--38298777 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
38298702 TTTTAACTTA
* * *
38298712 ATTTTCAATAATTTAAATAATTTATATTT
1 ATTTTTAATAATTTAAATAATTTAGAATT
* **
38298741 ATTTTTAATATTTTAAATTTTTTAGAATT
1 ATTTTTAATAATTTAAATAATTTAGAATT
*
38298770 ATTGTTAA
1 ATTTTTAA
38298778 GAAAAATAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (29 bp):
ATTTTTAATAATTTAAATAATTTAGAATT
Found at i:38299216 original size:26 final size:26
Alignment explanation
Indices: 38299180--38299231 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
38299170 ATGGAAATGT
38299180 TAGCGTCTATTCAATTTGCTAACGTG
1 TAGCGTCTATTCAATTTGCTAACGTG
38299206 TAGCGTCTATTCAATTTGCTAACGTG
1 TAGCGTCTATTCAATTTGCTAACGTG
38299232 GCACCCATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (26 bp):
TAGCGTCTATTCAATTTGCTAACGTG
Found at i:38301277 original size:29 final size:29
Alignment explanation
Indices: 38301168--38301278 Score: 116
Period size: 29 Copynumber: 3.8 Consensus size: 29
38301158 ATAATTGAAA
* *
38301168 AATAGAGGGACTAATTTGATCCATTTAAT
1 AATAGAAGGACTAATTTGATCTATTTAAT
* *
38301197 AATAGAGGGACTAATTTTATTCT-TTTCAAT
1 AATAGAAGGACTAATTTGA-TCTATTT-AAT
* * * *
38301227 AGTATAAGGACTAAATTAATCTATTTAAT
1 AATAGAAGGACTAATTTGATCTATTTAAT
*
38301256 AATAGAAAGACTAATTTGATCTA
1 AATAGAAGGACTAATTTGATCTA
38301279 GTCCCTATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
29 45 0.67
30 22 0.33
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (29 bp):
AATAGAAGGACTAATTTGATCTATTTAAT
Found at i:38309226 original size:9 final size:9
Alignment explanation
Indices: 38309208--38309254 Score: 87
Period size: 9 Copynumber: 5.3 Consensus size: 9
38309198 TATATATATC
38309208 TTTTAT-AT
1 TTTTATAAT
38309216 TTTTATAAT
1 TTTTATAAT
38309225 TTTTATAAT
1 TTTTATAAT
38309234 TTTTATAAT
1 TTTTATAAT
38309243 TTTTATAAT
1 TTTTATAAT
38309252 TTT
1 TTT
38309255 ATTCATTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 6 0.16
9 32 0.84
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATAAT
Done.