Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008150.1 Hibiscus syriacus cultivar Beakdansim tig00110716_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3012591
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 14
Found at i:2102842 original size:11 final size:11
Alignment explanation
Indices: 2102839--2102909 Score: 76
Period size: 11 Copynumber: 6.5 Consensus size: 11
2102829 TTTTTTTTAA
*
2102839 TTTTTTT-AAT
1 TTTTTTTCATT
2102849 TT-TTTTCATT
1 TTTTTTTCATT
2102859 TTTTTTTCATT
1 TTTTTTTCATT
2102870 TTTTTTTCATT
1 TTTTTTTCATT
*
2102881 TTTTTTAT-TTT
1 TTTTTT-TCATT
2102892 TTCATTTTTCATT
1 TT--TTTTTCATT
2102905 TTTTT
1 TTTTT
2102910 CTTTTTTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
9 4 0.08
10 6 0.12
11 32 0.62
12 2 0.04
13 8 0.15
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTTCATT
Found at i:2102871 original size:8 final size:8
Alignment explanation
Indices: 2102871--2102920 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
2102861 TTTTTCATTT
2102871 TTTTTTCA
1 TTTTTTCA
*
2102879 TTTTTTTTA
1 -TTTTTTCA
2102888 TTTTTTCA
1 TTTTTTCA
2102896 -TTTTTCA
1 TTTTTTCA
*
2102903 TTTTTTTCT
1 -TTTTTTCA
2102912 TTTTTTCA
1 TTTTTTCA
2102920 T
1 T
2102921 CTTCAAGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 7 0.20
8 15 0.43
9 13 0.37
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTCA
Found at i:2102871 original size:9 final size:9
Alignment explanation
Indices: 2102830--2102920 Score: 91
Period size: 9 Copynumber: 10.1 Consensus size: 9
2102820 TTATTTGTTT
*
2102830 TTTTTTTAA
1 TTTTTTTCA
*
2102839 TTTTTTTAA
1 TTTTTTTCA
2102848 TTTTTTTCA
1 TTTTTTTCA
2102857 TTTTTTTTTCA
1 --TTTTTTTCA
2102868 TTTTTTTTTCA
1 --TTTTTTTCA
*
2102879 TTTTTTTTA
1 TTTTTTTCA
2102888 -TTTTTTCA
1 TTTTTTTCA
2102896 --TTTTTCA
1 TTTTTTTCA
2102903 TTTTTTTC-
1 TTTTTTTCA
2102911 TTTTTTTCA
1 TTTTTTTCA
2102920 T
1 T
2102921 CTTCAAGAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
7 7 0.09
8 15 0.20
9 32 0.43
11 20 0.27
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:2102915 original size:24 final size:23
Alignment explanation
Indices: 2102850--2102920 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 23
2102840 TTTTTTAATT
*
2102850 TTTTTCATTTTTTTTTCATTTT--
1 TTTTTCATTTTTTTTT-TTTTTCA
2102872 TTTTTCATTTTTTTTATTTTTTCA
1 TTTTTCATTTTTTTT-TTTTTTCA
2102896 TTTTTCATTTTTTTCTTTTTTTCA
1 TTTTTCATTTTTTT-TTTTTTTCA
2102920 T
1 T
2102921 CTTCAAGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
22 19 0.43
23 1 0.02
24 23 0.52
25 1 0.02
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTCATTTTTTTTTTTTTTCA
Found at i:2102923 original size:11 final size:11
Alignment explanation
Indices: 2102848--2102909 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
2102838 ATTTTTTTAA
2102848 TTTTTTTCATT
1 TTTTTTTCATT
2102859 TTTTTTTCATT
1 TTTTTTTCATT
2102870 TTTTTTTCATT
1 TTTTTTTCATT
*
2102881 TTTTTTAT-TTT
1 TTTTTT-TCATT
2102892 TTCATTTTTCATT
1 TT--TTTTTCATT
2102905 TTTTT
1 TTTTT
2102910 CTTTTTTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
11 35 0.78
12 2 0.04
13 8 0.18
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTTCATT
Found at i:2115405 original size:16 final size:18
Alignment explanation
Indices: 2115373--2115405 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2115363 AAATTAGGAT
2115373 AAATTGATCAATGTATAA
1 AAATTGATCAATGTATAA
2115391 AAATTGA-CAAT-TATA
1 AAATTGATCAATGTATA
2115406 TTTTCATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (18 bp):
AAATTGATCAATGTATAA
Found at i:2124334 original size:24 final size:24
Alignment explanation
Indices: 2124299--2124386 Score: 115
Period size: 24 Copynumber: 3.7 Consensus size: 24
2124289 AATATAACAT
* *
2124299 AATCCAGTTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAG
2124323 AATCCAGGTCAAGTATTCA-ATCAG
1 AATCCAGGTCAAGTA-TCAGATCAG
* *
2124347 AATCCAAGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAG
*
2124371 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
2124387 TATAATAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
23 2 0.04
24 51 0.91
25 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.24
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAG
Found at i:2126894 original size:18 final size:18
Alignment explanation
Indices: 2126868--2126905 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2126858 CGGTCAACGT
2126868 GTCGAGTCAACGGGTCGG
1 GTCGAGTCAACGGGTCGG
*
2126886 GTCGGGTCAACGGGTCGG
1 GTCGAGTCAACGGGTCGG
2126904 GT
1 GT
2126906 TGTGACTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.21, G:0.47, T:0.18
Consensus pattern (18 bp):
GTCGAGTCAACGGGTCGG
Found at i:2127843 original size:30 final size:30
Alignment explanation
Indices: 2127809--2127900 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 30
2127799 ATACCGCTTT
*
2127809 TCTCATTTTGATACATAAACTATTTTTTGA
1 TCTCATTTAGATACATAAACTATTTTTTGA
*
2127839 TCTCATTTAGATTCATAAACTATTTTTCT-A
1 TCTCATTTAGATACATAAACTATTTTT-TGA
* *
2127869 TCTTATTTAGATACATAAACTATTTTTCGA
1 TCTCATTTAGATACATAAACTATTTTTTGA
2127899 TC
1 TC
2127901 AATCCATTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
30 54 0.98
31 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.05, T:0.49
Consensus pattern (30 bp):
TCTCATTTAGATACATAAACTATTTTTTGA
Found at i:2130566 original size:20 final size:19
Alignment explanation
Indices: 2130531--2130580 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
2130521 CTTTTCTTCG
2130531 ATATT-AAAAAA-TAATAA
1 ATATTAAAAAAATTAATAA
2130548 ATATTAAAAAAATTGAATAA
1 ATATTAAAAAAATT-AATAA
2130568 A-ATTAAAACAAAT
1 ATATTAAAA-AAAT
2130581 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.17
18 6 0.21
19 8 0.28
20 10 0.34
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
ATATTAAAAAAATTAATAA
Found at i:2130586 original size:2 final size:2
Alignment explanation
Indices: 2130579--2130617 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2130569 ATTAAAACAA
2130579 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2130618 GTAAGGTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2132273 original size:13 final size:13
Alignment explanation
Indices: 2132255--2132289 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
2132245 TTCTTATTCC
2132255 TCTTCAGATGAGT
1 TCTTCAGATGAGT
2132268 TCTTCAGATGAGT
1 TCTTCAGATGAGT
2132281 TCTTCAGAT
1 TCTTCAGAT
2132290 TATGAACTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (13 bp):
TCTTCAGATGAGT
Found at i:2132288 original size:52 final size:52
Alignment explanation
Indices: 2132226--2132327 Score: 177
Period size: 52 Copynumber: 2.0 Consensus size: 52
2132216 AGGTTGAATA
*
2132226 AGTTCTTCAGACTATGAACTTCTTATTCCTCTTCAGATGAGTTCTTCAGATG
1 AGTTCTTCAGACTATGAACTCCTTATTCCTCTTCAGATGAGTTCTTCAGATG
* *
2132278 AGTTCTTCAGATTATGAACTCCTTATTCCTCTTCATATGAGTTCTTCAGA
1 AGTTCTTCAGACTATGAACTCCTTATTCCTCTTCAGATGAGTTCTTCAGA
2132328 CTATGAACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (52 bp):
AGTTCTTCAGACTATGAACTCCTTATTCCTCTTCAGATGAGTTCTTCAGATG
Found at i:2132311 original size:39 final size:39
Alignment explanation
Indices: 2132268--2132538 Score: 337
Period size: 39 Copynumber: 6.9 Consensus size: 39
2132258 TCAGATGAGT
* *
2132268 TCTTCAGATGAGTTCTTCAGATTATGAACTCCTTATTCC
1 TCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCC
* * * *
2132307 TCTTCATATGAGTTCTTCAGACTATGAACTTCTTCTTCC
1 TCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCC
* * *
2132346 TCTTGAGACGAGTTCTTCAGATTATGAAATCCTTTTTCC
1 TCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCC
* * ** *
2132385 TCTTTAGACGAGTTCTTCAGACTATGAACTTTTTCTTTC
1 TCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCC
2132424 TCGTT-AGACGAGTTCTTCAGATTATGAACTCCTTCTTCC
1 TC-TTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCC
* * * * *
2132463 TCTTTAGATGAGTTCTTCAGACTATGAACTTCTTATTCC
1 TCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCC
* *
2132502 TCTTCAGGCAAGTTCTTCAGATTATGAACTCCTTCTT
1 TCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTT
2132539 GAAATGTTTT
Statistics
Matches: 197, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
38 2 0.01
39 193 0.98
40 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (39 bp):
TCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCC
Found at i:2132360 original size:78 final size:78
Alignment explanation
Indices: 2132268--2132535 Score: 403
Period size: 78 Copynumber: 3.4 Consensus size: 78
2132258 TCAGATGAGT
* * *
2132268 TCTTCAGATGAGTTCTTCAGATTATGAACTCCTTATTCCTCTTCATATGAGTTCTTCAGACTATG
1 TCTTCAGACGAGTTCTTCAGATTATGAACTCCTTATTCCTCTTTAGATGAGTTCTTCAGACTATG
2132333 AACTTCTTCTTCC
66 AACTTCTTCTTCC
* * * *
2132346 TCTTGAGACGAGTTCTTCAGATTATGAAATCCTTTTTCCTCTTTAGACGAGTTCTTCAGACTATG
1 TCTTCAGACGAGTTCTTCAGATTATGAACTCCTTATTCCTCTTTAGATGAGTTCTTCAGACTATG
* *
2132411 AACTTTTTCTTTC
66 AACTTCTTCTTCC
*
2132424 TCGTT-AGACGAGTTCTTCAGATTATGAACTCCTTCTTCCTCTTTAGATGAGTTCTTCAGACTAT
1 TC-TTCAGACGAGTTCTTCAGATTATGAACTCCTTATTCCTCTTTAGATGAGTTCTTCAGACTAT
*
2132488 GAACTTCTTATTCC
65 GAACTTCTTCTTCC
* *
2132502 TCTTCAGGCAAGTTCTTCAGATTATGAACTCCTT
1 TCTTCAGACGAGTTCTTCAGATTATGAACTCCTT
2132536 CTTGAAATGT
Statistics
Matches: 171, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 2 0.01
78 167 0.98
79 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (78 bp):
TCTTCAGACGAGTTCTTCAGATTATGAACTCCTTATTCCTCTTTAGATGAGTTCTTCAGACTATG
AACTTCTTCTTCC
Found at i:2132664 original size:73 final size:73
Alignment explanation
Indices: 2132543--2132804 Score: 461
Period size: 73 Copynumber: 3.6 Consensus size: 73
2132533 CTTCTTGAAA
* *
2132543 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCTAGCAAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAGCGAG
2132608 AAACAGTT
66 AAACAGTT
* *
2132616 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTATCTAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAGCGAG
2132681 AAACAGTT
66 AAACAGTT
* *
2132689 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAAATTTCTCCAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAGCGAG
2132754 AAACAGTT
66 AAACAGTT
2132762 TGTTTTAAGGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
1 TGTTTTAA-GAAAAACAATCTCAAGTGAGATAAATTGCTATTT
2132805 GAAAACATCT
Statistics
Matches: 180, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
73 146 0.81
74 34 0.19
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (73 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAGCGAG
AAACAGTT
Found at i:2134032 original size:55 final size:54
Alignment explanation
Indices: 2133898--2134055 Score: 253
Period size: 55 Copynumber: 2.9 Consensus size: 54
2133888 CACTGGTTTA
* *
2133898 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCACAGATGTTCG
1 TAAAACATTTGACAACACATTCATTCTTTCCTGTGGCTTCTGCACAGATGTTCG
* * * *
2133952 TAAAATATTTAAGAACACATTCATTCTTTCCTGTGGCTTCTGCCCAGATGTTTCG
1 TAAAACATTTGACAACACATTCATTCTTTCCTGTGGCTTCTGCACAGATG-TTCG
2134007 TAAAACATTTGACAACACATTCATTCTTTCCTGTGGCTTCTGCACAGAT
1 TAAAACATTTGACAACACATTCATTCTTTCCTGTGGCTTCTGCACAGAT
2134056 TTCTCGTCAG
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 44 0.47
55 49 0.53
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (54 bp):
TAAAACATTTGACAACACATTCATTCTTTCCTGTGGCTTCTGCACAGATGTTCG
Found at i:2135755 original size:15 final size:15
Alignment explanation
Indices: 2135735--2135763 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2135725 TTTTTCCTCA
2135735 TTTCTTTATCGAAGC
1 TTTCTTTATCGAAGC
2135750 TTTCTTTATCGAAG
1 TTTCTTTATCGAAG
2135764 AATGAAAGAA
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:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (15 bp):
TTTCTTTATCGAAGC
Found at i:2136518 original size:15 final size:16
Alignment explanation
Indices: 2136484--2136521 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
2136474 CTTGATTTAA
2136484 TCTCTTTCTTCTTCTTT
1 TCTC-TTCTTCTTCTTT
*
2136501 TCTCTTCTT-TTTTTT
1 TCTCTTCTTCTTCTTT
2136516 TCTCTT
1 TCTCTT
2136522 TATTTTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 5 0.25
17 4 0.20
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TCTCTTCTTCTTCTTT
Found at i:2139109 original size:11 final size:11
Alignment explanation
Indices: 2139095--2139119 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2139085 ACTTTTCAAG
2139095 TTCTTTTATTT
1 TTCTTTTATTT
2139106 TTCTTTTATTT
1 TTCTTTTATTT
2139117 TTC
1 TTC
2139120 AAGCTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (11 bp):
TTCTTTTATTT
Found at i:2139756 original size:17 final size:17
Alignment explanation
Indices: 2139727--2139769 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
2139717 ACTTTAATTG
2139727 CTTTTACTTA-TTTAATCA
1 CTTTTA-TTATTTTAAT-A
2139745 CTTTTATTATTTTAATA
1 CTTTTATTATTTTAATA
2139762 -TTTTATTA
1 CTTTTATTA
2139770 CCAAAATTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.33
17 4 0.17
18 12 0.50
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (17 bp):
CTTTTATTATTTTAATA
Found at i:2144332 original size:8 final size:9
Alignment explanation
Indices: 2144314--2144340 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
2144304 AAGATGTTCG
2144314 AAAAAGAAA
1 AAAAAGAAA
2144323 AAAAAGAAA
1 AAAAAGAAA
2144332 AAAAAGAAA
1 AAAAAGAAA
2144341 GAAGAGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:2145446 original size:29 final size:32
Alignment explanation
Indices: 2145400--2145461 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
2145390 TTTATAAAAG
2145400 TTTTCTCTATTTACTTTTCAAG-TTATTTTCA
1 TTTTCTCTATTTACTTTTCAAGCTTATTTTCA
*
2145431 TTTT-TCT-TTTATTTTTCAAGCCTTATTTTCA
1 TTTTCTCTATTTACTTTTCAAG-CTTATTTTCA
2145462 AAATGCTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 12 0.43
30 3 0.11
31 13 0.46
ACGTcount: A:0.18, C:0.16, G:0.03, T:0.63
Consensus pattern (32 bp):
TTTTCTCTATTTACTTTTCAAGCTTATTTTCA
Found at i:2146649 original size:6 final size:7
Alignment explanation
Indices: 2146634--2146674 Score: 59
Period size: 6 Copynumber: 6.0 Consensus size: 7
2146624 ATAAAAGTAC
2146634 AAATGCA
1 AAATGCA
2146641 AAATG-A
1 AAATGCA
2146647 AAATGCA
1 AAATGCA
2146654 AAGATGCA
1 AA-ATGCA
2146662 AAATG-A
1 AAATGCA
2146668 AAATGCA
1 AAATGCA
2146675 TGCATGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 12 0.39
7 12 0.39
8 7 0.23
ACGTcount: A:0.59, C:0.10, G:0.17, T:0.15
Consensus pattern (7 bp):
AAATGCA
Found at i:2146652 original size:13 final size:14
Alignment explanation
Indices: 2146634--2146674 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
2146624 ATAAAAGTAC
2146634 AAATGCAAAATG-A
1 AAATGCAAAATGCA
2146647 AAATGCAAAGATGCA
1 AAATGCAAA-ATGCA
2146662 AAATG-AAAATGCA
1 AAATGCAAAATGCA
2146675 TGCATGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 14 0.54
14 6 0.23
15 6 0.23
ACGTcount: A:0.59, C:0.10, G:0.17, T:0.15
Consensus pattern (14 bp):
AAATGCAAAATGCA
Found at i:2149663 original size:20 final size:19
Alignment explanation
Indices: 2149615--2149658 Score: 67
Period size: 17 Copynumber: 2.5 Consensus size: 19
2149605 CCTTTCTTCG
2149615 ATATTAAAAAA-T-AATAA
1 ATATTAAAAAATTGAATAA
2149632 ATATTAAAAAATTGAATAA
1 ATATTAAAAAATTGAATAA
2149651 A-ATTAAAA
1 ATATTAAAA
2149659 CAAATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.44
18 8 0.32
19 6 0.24
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
ATATTAAAAAATTGAATAA
Found at i:2149685 original size:141 final size:138
Alignment explanation
Indices: 2149513--2149810 Score: 345
Period size: 141 Copynumber: 2.1 Consensus size: 138
2149503 GGAAAAATAT
* * *
2149513 ATTAAA-AAATATATAT-TTTTATGGTTTTATAAATAGGGTATTTATTTATTTAAAAATATTAGA
1 ATTAAACAAATATATATATTTTATGGTTTTATAAATAAGATATTTATTTATTTAAAAATATCAGA
* * *
2149576 AAATGACATCTAATTGCTTTAAGA-CAACCCCTTTCTTCGATATTAAAAAAT-AATAAATATTAA
66 AAAGGACATCTAATTACTTTAAGATC-A-CCCTTTCTT-AATATTAAAAAATAAATAAATATT-A
2149639 AAAATTGAATAAA
127 AAAATT-AATAAA
* * *
2149652 ATTAAAACAAATATATATATTTT-TGTTTTTATAAGTAATATATTTATTTATTTAAAAATATCAG
1 ATT-AAACAAATATATATATTTTATGGTTTTATAAATAAGATATTTATTTATTTAAAAATATCAG
* * * * **
2149716 AATAGGACATCTAATTATTTTAAGATCATCCTTTCTTAATATTTAAAAATAAATAAATATTATTA
65 AAAAGGACATCTAATTACTTTAAGATCACCCTTTCTTAATATTAAAAAATAAATAAATATTAAAA
*
2149781 ATTTATAAA
130 ATTAATAAA
*
2149790 ATTAATCAAATAATATATATT
1 ATTAAACAAAT-ATATATATT
2149811 AATATGACTA
Statistics
Matches: 136, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
137 7 0.05
138 17 0.12
139 19 0.14
140 21 0.15
141 67 0.49
142 5 0.04
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (138 bp):
ATTAAACAAATATATATATTTTATGGTTTTATAAATAAGATATTTATTTATTTAAAAATATCAGA
AAAGGACATCTAATTACTTTAAGATCACCCTTTCTTAATATTAAAAAATAAATAAATATTAAAAA
TTAATAAA
Found at i:2150868 original size:45 final size:45
Alignment explanation
Indices: 2150802--2150896 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
2150792 TGGAACGGGG
* * *
2150802 ACATGGAGGGACTGCTGGCAGTGATGGAAGCTACTGGAATTTGCA
1 ACATGAAGGGACTGCTAGCAGTGATGGAAGCTACTAGAATTTGCA
* * * *
2150847 ACATGAAGGGGCTGCTAGCAGTTATGGAAGCTGCTAGAATTTGTA
1 ACATGAAGGGACTGCTAGCAGTGATGGAAGCTACTAGAATTTGCA
2150892 ACATG
1 ACATG
2150897 GAGATGCTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (45 bp):
ACATGAAGGGACTGCTAGCAGTGATGGAAGCTACTAGAATTTGCA
Found at i:2150973 original size:19 final size:20
Alignment explanation
Indices: 2150951--2150993 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
2150941 TTTATGTAAG
*
2150951 TTTATAAT-TTTTTTATATT
1 TTTATAATATTTTTTAGATT
*
2150970 TTTA-ATTATTTTTTAGATT
1 TTTATAATATTTTTTAGATT
2150989 TTTAT
1 TTTAT
2150994 TTGTTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTATAATATTTTTTAGATT
Found at i:2153505 original size:2 final size:2
Alignment explanation
Indices: 2153498--2153553 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
2153488 ATTTAACTTA
2153498 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2153540 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
2153554 TTTATTTGAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2154261 original size:6 final size:6
Alignment explanation
Indices: 2154250--2154278 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2154240 AAGAGCATAT
2154250 ATATAA ATATAA ATATAA ATATAA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATA
2154279 TATTCATACT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:2154295 original size:13 final size:12
Alignment explanation
Indices: 2154277--2154318 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
2154267 AATATAAATA
2154277 TATATTCATACTT
1 TATATT-ATACTT
2154290 TATATTTATAC-T
1 TATA-TTATACTT
2154302 TATATATATACTT
1 TATAT-TATACTT
2154315 TATA
1 TATA
2154319 CTTTTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.04
12 10 0.38
13 13 0.50
14 2 0.08
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (12 bp):
TATATTATACTT
Found at i:2154324 original size:8 final size:7
Alignment explanation
Indices: 2154284--2154330 Score: 50
Period size: 6 Copynumber: 7.4 Consensus size: 7
2154274 ATATATATTC
2154284 ATACTTT
1 ATACTTT
2154291 ATA-TTT
1 ATACTTT
2154297 ATAC-TT
1 ATACTTT
*
2154303 ATA-TAT
1 ATACTTT
2154309 ATACTTT
1 ATACTTT
2154316 ATACTTT
1 ATACTTT
2154323 -TA-TTT
1 ATACTTT
2154328 ATA
1 ATA
2154331 AATCACGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
5 3 0.09
6 19 0.56
7 12 0.35
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (7 bp):
ATACTTT
Found at i:2154328 original size:12 final size:13
Alignment explanation
Indices: 2154277--2154330 Score: 60
Period size: 12 Copynumber: 4.3 Consensus size: 13
2154267 AATATAAATA
*
2154277 TATATTCATACTT
1 TATATTTATACTT
2154290 TATATTTATAC-T
1 TATATTTATACTT
*
2154302 TATATATATACTT
1 TATATTTATACTT
2154315 TATACTTT-TA-TT
1 TATA-TTTATACTT
2154327 TATA
1 TATA
2154331 AATCACGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
12 17 0.47
13 17 0.47
14 2 0.06
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.57
Consensus pattern (13 bp):
TATATTTATACTT
Found at i:2154330 original size:19 final size:18
Alignment explanation
Indices: 2154288--2154330 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
2154278 ATATTCATAC
2154288 TTTATATTTATACTTATA
1 TTTATATTTATACTTATA
* *
2154306 TATATACTTTATACTTTTA
1 TTTATA-TTTATACTTATA
2154325 TTTATA
1 TTTATA
2154331 AATCACGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTATATTTATACTTATA
Found at i:2155099 original size:14 final size:15
Alignment explanation
Indices: 2155080--2155115 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
2155070 GATGTTACGT
2155080 GTACCCGGT-ATCGG
1 GTACCCGGTAATCGG
2155094 GTACCCGGTAATCGG
1 GTACCCGGTAATCGG
2155109 GTACCCG
1 GTACCCG
2155116 ATACCCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (15 bp):
GTACCCGGTAATCGG
Found at i:2157246 original size:17 final size:18
Alignment explanation
Indices: 2157224--2157257 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2157214 AAAAATGCCA
2157224 AAAAC-AGACCCTTTAAT
1 AAAACAAGACCCTTTAAT
2157241 AAAACAAGACCCTTTAA
1 AAAACAAGACCCTTTAA
2157258 ACCCTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.50, C:0.24, G:0.06, T:0.21
Consensus pattern (18 bp):
AAAACAAGACCCTTTAAT
Found at i:2158415 original size:15 final size:15
Alignment explanation
Indices: 2158395--2158435 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
2158385 AACCTATATG
*
2158395 AAAAATAATAGTAAT
1 AAAAATAATACTAAT
*
2158410 AAAAATATTACTAAT
1 AAAAATAATACTAAT
2158425 AAATAATAATA
1 AAA-AATAATA
2158436 AAATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAAATAATACTAAT
Found at i:2159601 original size:66 final size:66
Alignment explanation
Indices: 2159495--2159624 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
2159485 TGTTACCCCC
* * * * * * *
2159495 ACGAGTATCGATACCTAAAATGGCTATTGGAATTTTCTAAATGGATCCGGTATCGATACTCCTCC
1 ACGAGCATCGATACCAAAAATGGCTACTAGAATTTGCTAAATGGACCCAGTATCGATACTCCTCC
2159560 T
66 T
2159561 ACGAGCATCGATA-CAAAAATTGGCTACTAGAATTTGCTAAATGGACCCAGTATCGATACTCCTC
1 ACGAGCATCGATACCAAAAA-TGGCTACTAGAATTTGCTAAATGGACCCAGTATCGATACTCCTC
2159625 ATACAAGTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 5 0.09
66 51 0.91
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (66 bp):
ACGAGCATCGATACCAAAAATGGCTACTAGAATTTGCTAAATGGACCCAGTATCGATACTCCTCC
T
Found at i:2159638 original size:66 final size:65
Alignment explanation
Indices: 2159501--2159640 Score: 172
Period size: 66 Copynumber: 2.1 Consensus size: 65
2159491 CCCCACGAGT
* * * * * * * *
2159501 ATCGATACCTAAAATGGCTATTGGAATTTTCTAAATGGATCCGGTATCGATACTCCTCCTACGAG
1 ATCGATA-CAAAAATGGCTACTAGAATTTGCTAAATGGACCCAGTATCGATACTCCTCATACAAG
2159566 C
65 C
2159567 ATCGATACAAAAATTGGCTACTAGAATTTGCTAAATGGACCCAGTATCGATACTCCTCATACAAG
1 ATCGATACAAAAA-TGGCTACTAGAATTTGCTAAATGGACCCAGTATCGATACTCCTCATACAAG
*
2159632 T
65 C
*
2159633 TTCGATAC
1 ATCGATAC
2159641 CCTACGAACA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 5 0.08
66 58 0.92
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (65 bp):
ATCGATACAAAAATGGCTACTAGAATTTGCTAAATGGACCCAGTATCGATACTCCTCATACAAGC
Found at i:2160665 original size:22 final size:23
Alignment explanation
Indices: 2160637--2160723 Score: 65
Period size: 22 Copynumber: 3.9 Consensus size: 23
2160627 ATACTAAACC
2160637 TTAAACCATAAATCCTAAAAT-A
1 TTAAACCATAAATCCTAAAATCA
* * *
2160659 TTAAACCCTAAAACCTTAAATCA
1 TTAAACCATAAATCCTAAAATCA
* * *
2160682 -TAAATCATAAATAAC-ATAATACA
1 TTAAACCATAAAT-CCTAAAAT-CA
*
2160705 ATAAACCATAAATCC-AAAA
1 TTAAACCATAAATCCTAAAA
2160724 CATATAATCC
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
22 30 0.61
23 8 0.16
24 11 0.22
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (23 bp):
TTAAACCATAAATCCTAAAATCA
Found at i:2160833 original size:28 final size:27
Alignment explanation
Indices: 2160797--2160875 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
2160787 TTAAAACCCT
* *
2160797 AAACATAAACCTTAAACCCTAAATTATAA
1 AAAC-TAAACCTTAAACCAT-AACTATAA
*
2160826 AAACTAAAACTATAAACCATAACTATAA
1 AAACTAAACCT-TAAACCATAACTATAA
* *
2160854 AACACTAAACCATAAATCATAA
1 AA-ACTAAACCTTAAACCATAA
2160876 ACCTTGAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.58, C:0.20, G:0.00, T:0.22
Consensus pattern (27 bp):
AAACTAAACCTTAAACCATAACTATAA
Found at i:2160841 original size:36 final size:37
Alignment explanation
Indices: 2160749--2160843 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 37
2160739 TTTAAAAACC
*
2160749 ATAAAAACCTAAAACTCTAAACCTTAAAACTATATATT
1 ATAAAAA-CTAAAACTATAAACCTTAAAACTATATATT
* * *
2160787 TTAAAACCCT-AAAC-ATAAACCTTAAACCCTA-A-ATT
1 ATAAAA-ACTAAAACTATAAACCTTAAA-ACTATATATT
2160822 ATAAAAACTAAAACTATAAACC
1 ATAAAAACTAAAACTATAAACC
2160844 ATAACTATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
34 2 0.04
35 12 0.26
36 19 0.40
37 7 0.15
38 7 0.15
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (37 bp):
ATAAAAACTAAAACTATAAACCTTAAAACTATATATT
Found at i:2160877 original size:21 final size:20
Alignment explanation
Indices: 2160838--2160919 Score: 62
Period size: 21 Copynumber: 4.0 Consensus size: 20
2160828 ACTAAAACTA
*
2160838 TAAACCATAACT-ATAAAACAC
1 TAAACCATAAATCAT-AAAC-C
2160859 TAAACCATAAATCATAAACC
1 TAAACCATAAATCATAAACC
* *
2160879 TTGAAATC-TAAACCATAAATCC
1 -T-AAACCATAAATCATAAA-CC
2160901 TAAACCAT-AATCTATAAAC
1 TAAACCATAAATC-ATAAAC
2160920 TATATACTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
20 9 0.18
21 33 0.66
22 8 0.16
ACGTcount: A:0.52, C:0.23, G:0.01, T:0.23
Consensus pattern (20 bp):
TAAACCATAAATCATAAACC
Found at i:2160878 original size:14 final size:14
Alignment explanation
Indices: 2160832--2160919 Score: 74
Period size: 14 Copynumber: 6.3 Consensus size: 14
2160822 ATAAAAACTA
* *
2160832 AAACTATAAACCAT
1 AAACCATAAATCAT
* *
2160846 -AACTATAAAACACT
1 AAACCATAAATCA-T
2160860 AAACCATAAATCAT
1 AAACCATAAATCAT
*
2160874 AAACCTTGAAATC-T
1 AAACCAT-AAATCAT
*
2160888 AAACCATAAATCCT
1 AAACCATAAATCAT
2160902 AAACCAT-AATCTAT
1 AAACCATAAATC-AT
2160916 AAAC
1 AAAC
2160920 TATATACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
13 20 0.32
14 28 0.44
15 15 0.24
ACGTcount: A:0.53, C:0.23, G:0.01, T:0.23
Consensus pattern (14 bp):
AAACCATAAATCAT
Found at i:2161005 original size:21 final size:22
Alignment explanation
Indices: 2160981--2161035 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
2160971 TGAAAGCTAC
* * *
2160981 ACCATAAATCTTA-AACCTTAA
1 ACCATAAAACCTATAACCTCAA
2161002 ACCA-AAAACCTATAACCTCAA
1 ACCATAAAACCTATAACCTCAA
*
2161023 ACCATAAACCCTA
1 ACCATAAAACCTA
2161036 AATCTTTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 6 0.21
21 15 0.54
22 7 0.25
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (22 bp):
ACCATAAAACCTATAACCTCAA
Found at i:2161166 original size:28 final size:28
Alignment explanation
Indices: 2161134--2161194 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
2161124 ACTATAATCT
*
2161134 TTAAACCCTAAACCCTAACCTAATAACC
1 TTAAACCATAAACCCTAACCTAATAACC
* *
2161162 TTAAACTATAAGCCCTAACCTAATAACC
1 TTAAACCATAAACCCTAACCTAATAACC
2161190 TTAAA
1 TTAAA
2161195 TCTTGAACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.25
Consensus pattern (28 bp):
TTAAACCATAAACCCTAACCTAATAACC
Found at i:2161272 original size:7 final size:7
Alignment explanation
Indices: 2161134--2161696 Score: 80
Period size: 7 Copynumber: 79.7 Consensus size: 7
2161124 ACTATAATCT
2161134 TTAAACC
1 TTAAACC
*
2161141 CTAAACC
1 TTAAACC
*
2161148 CT-AACC
1 TTAAACC
*
2161154 TAATAACC
1 TTA-AACC
2161162 TTAAA-C
1 TTAAACC
*
2161168 TATAAGCC
1 T-TAAACC
*
2161176 CT-AACC
1 TTAAACC
*
2161182 TAATAACC
1 TTA-AACC
*
2161190 TTAAATC
1 TTAAACC
*
2161197 TTGAACC
1 TTAAACC
* * *
2161204 ATGAACT
1 TTAAACC
2161211 TTAAACC
1 TTAAACC
*
2161218 CTAAA-C
1 TTAAACC
*
2161224 TCTAAAAC
1 T-TAAACC
* *
2161232 ATAAACT
1 TTAAACC
*
2161239 TTAAACT
1 TTAAACC
*
2161246 TTAAAAC
1 TTAAACC
*
2161253 ATAAACC
1 TTAAACC
*
2161260 AT-AACC
1 TTAAACC
2161266 TTAAACC
1 TTAAACC
2161273 TTGAAA--
1 TT-AAACC
*
2161279 -TAAAGC
1 TTAAACC
2161285 TTAAAACC
1 TT-AAACC
* *
2161293 ATAAAAAC
1 -TTAAACC
*
2161301 TAAAACC
1 TTAAACC
2161308 -TAAACC
1 TTAAACC
* *
2161314 ATAAACT
1 TTAAACC
2161321 TTAAACC
1 TTAAACC
* *
2161328 ATAAACT
1 TTAAACC
2161335 TTAAACC
1 TTAAACC
* *
2161342 ATAAA-A
1 TTAAACC
2161348 TCTAAACC
1 T-TAAACC
*
2161356 ATAAA-C
1 TTAAACC
*
2161362 TCTAAACA
1 T-TAAACC
*
2161370 ATAAACC
1 TTAAACC
*
2161377 --AAGA-A
1 TTAA-ACC
2161382 TTATAGACC
1 TTA-A-ACC
*
2161391 TTAGACC
1 TTAAACC
*
2161398 CTAAACC
1 TTAAACC
* *
2161405 CTAAACT
1 TTAAACC
*
2161412 TTAGACC
1 TTAAACC
2161419 TTAAACC
1 TTAAACC
**
2161426 TTAAAAA
1 TTAAACC
2161433 TCTAAACC
1 T-TAAACC
*
2161441 CTAAACC
1 TTAAACC
2161448 TTAAACAC
1 TTAAAC-C
*
2161456 -TAAAGAC
1 TTAAA-CC
*
2161463 TTAAAATC
1 TT-AAACC
2161471 TTAAACCAC
1 TTAAA-C-C
*
2161480 TAAAATCC
1 TTAAA-CC
2161488 -TATAACC
1 TTA-AACC
*
2161495 TTAAAAC
1 TTAAACC
2161502 TATAAA-C
1 T-TAAACC
2161509 TATAAACC
1 T-TAAACC
2161517 TTAAACCC
1 TTAAA-CC
* *
2161525 TAAAACT
1 TTAAACC
* *
2161532 TTAGA-T
1 TTAAACC
2161538 TATAAACC
1 T-TAAACC
* *
2161546 ATAAGCC
1 TTAAACC
2161553 TTAAACC
1 TTAAACC
*
2161560 -TAAA-A
1 TTAAACC
*
2161565 ATAAACC
1 TTAAACC
*
2161572 ATAAA-C
1 TTAAACC
*
2161578 TATATTACC
1 T-TA-AACC
*
2161587 ATAAACC
1 TTAAACC
*
2161594 TTGAA-C
1 TTAAACC
2161600 TATAAACC
1 T-TAAACC
2161608 TTAAACC
1 TTAAACC
2161615 TTAAACC
1 TTAAACC
* *
2161622 ATGAA-C
1 TTAAACC
*
2161628 TATAAATC
1 T-TAAACC
*
2161636 ATAAACC
1 TTAAACC
*
2161643 GTAAACC
1 TTAAACC
*
2161650 ATAAACC
1 TTAAACC
2161657 TTGAATA-C
1 TT-AA-ACC
*
2161665 -TAAA-T
1 TTAAACC
2161670 TATAAACC
1 T-TAAACC
*
2161678 CTAAACC
1 TTAAACC
2161685 TTAAACC
1 TTAAACC
2161692 TTAAA
1 TTAAA
2161697 ATCTAAAAAC
Statistics
Matches: 398, Mismatches: 105, Indels: 106
0.65 0.17 0.17
Matches are distributed among these distances:
4 3 0.01
5 4 0.01
6 38 0.10
7 275 0.69
8 63 0.16
9 15 0.04
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.25
Consensus pattern (7 bp):
TTAAACC
Found at i:2161318 original size:14 final size:14
Alignment explanation
Indices: 2161303--2161375 Score: 103
Period size: 14 Copynumber: 5.3 Consensus size: 14
2161293 ATAAAAACTA
2161303 AAAC-CTAAACCAT
1 AAACTCTAAACCAT
*
2161316 AAACTTTAAACCAT
1 AAACTCTAAACCAT
*
2161330 AAACTTTAAACCAT
1 AAACTCTAAACCAT
*
2161344 AAAATCTAAACCAT
1 AAACTCTAAACCAT
*
2161358 AAACTCTAAACAAT
1 AAACTCTAAACCAT
2161372 AAAC
1 AAAC
2161376 CAAGAATTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
13 4 0.07
14 50 0.93
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACTCTAAACCAT
Found at i:2161469 original size:36 final size:36
Alignment explanation
Indices: 2161398--2161507 Score: 100
Period size: 36 Copynumber: 2.9 Consensus size: 36
2161388 ACCTTAGACC
* * *
2161398 CTAAACCCTAAACTTTAGACCTTAAACCTTAAAAAT
1 CTAAACCCTAAACCTTAAACCTTAAAACTTAAAAAT
2161434 CTAAACCCTAAACCTTAAACAC-TAAAGACTT-AAAAT
1 CTAAACCCTAAACCTTAAAC-CTTAAA-ACTTAAAAAT
2161470 CTTAAACCACTAAAATCC-TATAACCTTAAAACTATAAA
1 C-TAAACC-CT-AAA-CCTTA-AACCTTAAAACT-TAAA
2161508 CTATAAACCT
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
36 28 0.46
37 10 0.16
38 2 0.03
39 9 0.15
40 10 0.16
41 2 0.03
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (36 bp):
CTAAACCCTAAACCTTAAACCTTAAAACTTAAAAAT
Found at i:2161557 original size:29 final size:28
Alignment explanation
Indices: 2161489--2161575 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
2161479 CTAAAATCCT
2161489 ATAACCTTAAAACTATAAACTATAAACC
1 ATAACCTTAAAACTATAAACTATAAACC
* * * * *
2161517 TTAAACCCTAAAACTTTAGATTATAAACC
1 AT-AACCTTAAAACTATAAACTATAAACC
*
2161546 ATAAGCCTTAAACCTA-AAA--ATAAACC
1 ATAA-CCTTAAAACTATAAACTATAAACC
2161572 ATAA
1 ATAA
2161576 ACTATATTAC
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
26 11 0.23
28 5 0.11
29 31 0.66
ACGTcount: A:0.52, C:0.21, G:0.02, T:0.25
Consensus pattern (28 bp):
ATAACCTTAAAACTATAAACTATAAACC
Found at i:2161591 original size:22 final size:21
Alignment explanation
Indices: 2161538--2161658 Score: 95
Period size: 21 Copynumber: 5.8 Consensus size: 21
2161528 AACTTTAGAT
*
2161538 TATAAACCATAAGCCTTAAACC
1 TATAAACCATAAACCTTAAA-C
*
2161560 TA-AAA--ATAAACCATAAAC
1 TATAAACCATAAACCTTAAAC
* *
2161578 TATATTACCATAAACCTTGAAC
1 TATA-AACCATAAACCTTAAAC
*
2161600 TATAAACCTTAAACCTTAAAC
1 TATAAACCATAAACCTTAAAC
* * * * *
2161621 CATGAACTATAAATCATAAAC
1 TATAAACCATAAACCTTAAAC
**
2161642 CGTAAACCATAAACCTT
1 TATAAACCATAAACCTT
2161659 GAATACTAAA
Statistics
Matches: 76, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
18 3 0.04
19 11 0.14
20 1 0.01
21 44 0.58
22 17 0.22
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.25
Consensus pattern (21 bp):
TATAAACCATAAACCTTAAAC
Found at i:2161621 original size:28 final size:28
Alignment explanation
Indices: 2161588--2161651 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
2161578 TATATTACCA
* * *
2161588 TAAACCTTGAACTATAAACCTTAAACCT
1 TAAACCATGAACTATAAACCATAAACCG
*
2161616 TAAACCATGAACTATAAATCATAAACCG
1 TAAACCATGAACTATAAACCATAAACCG
2161644 TAAACCAT
1 TAAACCAT
2161652 AAACCTTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (28 bp):
TAAACCATGAACTATAAACCATAAACCG
Found at i:2161692 original size:35 final size:35
Alignment explanation
Indices: 2161600--2161693 Score: 127
Period size: 35 Copynumber: 2.7 Consensus size: 35
2161590 AACCTTGAAC
* *
2161600 TATAAACCTTAAACCTTAAACCATGAACTATAAAT
1 TATAAACCCTAAACCTTAAACCTTGAACTATAAAT
* * *
2161635 CATAAACCGTAAACCATAAACCTTGAA-TACTAAAT
1 TATAAACCCTAAACCTTAAACCTTGAACTA-TAAAT
2161670 TATAAACCCTAAACCTTAAACCTT
1 TATAAACCCTAAACCTTAAACCTT
2161694 AAAATCTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
34 2 0.04
35 49 0.96
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (35 bp):
TATAAACCCTAAACCTTAAACCTTGAACTATAAAT
Found at i:2161795 original size:21 final size:21
Alignment explanation
Indices: 2161757--2162262 Score: 74
Period size: 21 Copynumber: 24.2 Consensus size: 21
2161747 TCCTATAGCC
* * *
2161757 TAAACTTTAGACCATAAACCA
1 TAAACTATAAACCTTAAACCA
*
2161778 TAAACTATAAACCTTAAATACA
1 TAAACTATAAACCTTAAA-CCA
*
2161800 -AAA-TCATAAGCCTT-AACCA
1 TAAACT-ATAAACCTTAAACCA
** *
2161819 TAAAACCCTAAATCTTAATACCA
1 T-AAACTATAAACCTTAA-ACCA
*
2161842 TAAA--AT---CCTAAAACCA
1 TAAACTATAAACCTTAAACCA
* * *
2161858 TGAA-TGATAAACCATAAACCC
1 TAAACT-ATAAACCTTAAACCA
*
2161879 TAAA-TATTAAACTTTAAATCC-
1 TAAACTA-TAAACCTTAAA-CCA
* * *
2161900 -AAACTTTAAA-CTCTAAGCCT
1 TAAACTATAAACCT-TAAACCA
* * * * *
2161920 TGAATTTTAAACCCTAAACTA
1 TAAACTATAAACCTTAAACCA
* * * *
2161941 TAAACCATAAGCTTTAAACCG
1 TAAACTATAAACCTTAAACCA
*
2161962 TAAA-TGCTAAACCTTAAACCA
1 TAAACT-ATAAACCTTAAACCA
* *
2161983 TTAACCT-T-AACTCTTAAACCC
1 -TAAACTATAAAC-CTTAAACCA
* ***
2162004 TAAACTATATATAATAAA-CA
1 TAAACTATAAACCTTAAACCA
* * *
2162024 TTAAA-TAACAAACCCTAAACTA
1 -TAAACT-ATAAACCTTAAACCA
* *
2162046 TAAACCT-TAAACAC-TAAAGCT
1 TAAA-CTATAAAC-CTTAAACCA
* *
2162067 TAAACCATAAA-CTATAAACCT
1 TAAACTATAAACCT-TAAACCA
* *
2162088 TAAAC-ATAAAATCTTAAATCA
1 TAAACTAT-AAACCTTAAACCA
* *
2162109 TAAATTATAAAACCCTAAACCA
1 TAAACTAT-AAACCTTAAACCA
* * *
2162131 TAATATTATAAACCATAAACCT
1 TAA-ACTATAAACCTTAAACCA
* * * *
2162153 TGAACCT-TGAACTTTAAACCC
1 T-AAACTATAAACCTTAAACCA
** *
2162174 TAAACCCTAAACCTTAATCTC-
1 TAAACTATAAACCTTAAAC-CA
* * *
2162195 TAAACTATAATCTTTAAACTA
1 TAAACTATAAACCTTAAACCA
* * *
2162216 TAAACCATAAATCATAAACTC-
1 TAAACTATAAACCTTAAAC-CA
* *
2162237 TAAACAATAAAACC-TAAACCT
1 TAAACTAT-AAACCTTAAACCA
2162258 TAAAC
1 TAAAC
2162263 CTTAAACACT
Statistics
Matches: 344, Mismatches: 96, Indels: 90
0.65 0.18 0.17
Matches are distributed among these distances:
16 7 0.02
17 4 0.01
18 2 0.01
19 6 0.02
20 32 0.09
21 228 0.66
22 51 0.15
23 14 0.04
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAACTATAAACCTTAAACCA
Found at i:2161946 original size:14 final size:14
Alignment explanation
Indices: 2161927--2162012 Score: 50
Period size: 14 Copynumber: 6.1 Consensus size: 14
2161917 CCTTGAATTT
2161927 TAAACCCTAAACTA
1 TAAACCCTAAACTA
* * *
2161941 TAAACCATAAGCTT
1 TAAACCCTAAACTA
* *
2161955 TAAACCGTAAA-TGC
1 TAAACCCTAAACT-A
* *
2161969 TAAACCTTAAACCA
1 TAAACCCTAAACTA
* * *
2161983 TTAA-CCTTAACTCT
1 TAAACCCTAAACT-A
2161997 TAAACCCTAAACTA
1 TAAACCCTAAACTA
2162011 TA
1 TA
2162013 TATAATAAAC
Statistics
Matches: 51, Mismatches: 17, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
13 6 0.12
14 38 0.75
15 7 0.14
ACGTcount: A:0.44, C:0.26, G:0.03, T:0.27
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:2161952 original size:35 final size:34
Alignment explanation
Indices: 2161892--2162086 Score: 101
Period size: 35 Copynumber: 5.6 Consensus size: 34
2161882 ATATTAAACT
* * *
2161892 TTAAATCC-AAACTTTAAACTC-TAAGCCTTGAATT
1 TTAAACCCTAAACTATAAAC-CATAAGCCTT-AATC
* *
2161926 TTAAACCCTAAACTATAAACCATAAGCTTTAAACC
1 TTAAACCCTAAACTATAAACCATAAGCCTT-AATC
* **
2161961 GTAAATGCTAAACCT-TAAACCATTAA-CCTTAACTC
1 TTAAACCCTAAA-CTATAAACCA-TAAGCCTTAA-TC
* ** * * *
2161996 TTAAACCCTAAACTATATATAATAAACATTAAATA
1 TTAAACCCTAAACTATAAACCATAAGCCTT-AATC
** * * * *
2162031 ACAAACCCTAAACTATAAACCTTAAACACTAAAGC
1 TTAAACCCTAAACTATAAACCATAAGC-CTTAATC
*
2162066 TTAAACCATAAACTATAAACC
1 TTAAACCCTAAACTATAAACC
2162087 TTAAACATAA
Statistics
Matches: 120, Mismatches: 32, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
34 15 0.12
35 97 0.81
36 8 0.07
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (34 bp):
TTAAACCCTAAACTATAAACCATAAGCCTTAATC
Found at i:2162043 original size:7 final size:7
Alignment explanation
Indices: 2162033--2162269 Score: 70
Period size: 7 Copynumber: 33.6 Consensus size: 7
2162023 ATTAAATAAC
*
2162033 AAACCCT
1 AAACCAT
*
2162040 AAACTAT
1 AAACCAT
*
2162047 AAACCTT
1 AAACCAT
2162054 AAA-CACT
1 AAACCA-T
* *
2162061 AAAGCTT
1 AAACCAT
2162068 AAACCAT
1 AAACCAT
*
2162075 AAACTAT
1 AAACCAT
*
2162082 AAACCTT
1 AAACCAT
2162089 AAA-CAT
1 AAACCAT
* *
2162095 AAAATCTT
1 -AAACCAT
*
2162103 AAATCAT
1 AAACCAT
**
2162110 AAATTAT
1 AAACCAT
*
2162117 AAAACCCT
1 -AAACCAT
2162125 AAACCAT
1 AAACCAT
**
2162132 AATATTAT
1 AA-ACCAT
2162140 AAACCAT
1 AAACCAT
*
2162147 AAACCTT
1 AAACCAT
* *
2162154 GAACCTT
1 AAACCAT
* **
2162161 GAACTTT
1 AAACCAT
*
2162168 AAACCCT
1 AAACCAT
*
2162175 AAACCCT
1 AAACCAT
*
2162182 AAACCTT
1 AAACCAT
*
2162189 AATCTC-T
1 AAAC-CAT
*
2162196 AAACTAT
1 AAACCAT
* **
2162203 AATCTTT
1 AAACCAT
*
2162210 AAACTAT
1 AAACCAT
2162217 AAACCAT
1 AAACCAT
*
2162224 AAATCAT
1 AAACCAT
2162231 AAACTC-T
1 AAAC-CAT
*
2162238 AAACAAT
1 AAACCAT
2162245 AAAACC-T
1 -AAACCAT
*
2162252 AAACCTT
1 AAACCAT
*
2162259 AAACCTT
1 AAACCAT
2162266 AAAC
1 AAAC
2162270 ACTAAACTTA
Statistics
Matches: 176, Mismatches: 42, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
6 8 0.05
7 150 0.85
8 18 0.10
ACGTcount: A:0.49, C:0.23, G:0.01, T:0.26
Consensus pattern (7 bp):
AAACCAT
Found at i:2162087 original size:35 final size:35
Alignment explanation
Indices: 2162033--2162150 Score: 123
Period size: 35 Copynumber: 3.3 Consensus size: 35
2162023 ATTAAATAAC
*
2162033 AAACCCTAAACTATAAACCTTAAACACT-AAAGCTT
1 AAACCATAAACTATAAACCTTAAACA-TAAAAGCTT
*
2162068 AAACCATAAACTATAAACCTTAAACATAAAATCTT
1 AAACCATAAACTATAAACCTTAAACATAAAAGCTT
* * * * *
2162103 AAATCATAAATTATAAAACCCTAAACCATAATA-TTAT
1 AAACCATAAACTAT-AAACCTTAAA-CATAAAAGCT-T
2162140 AAACCATAAAC
1 AAACCATAAAC
2162151 CTTGAACCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
34 1 0.01
35 43 0.61
36 10 0.14
37 16 0.23
ACGTcount: A:0.53, C:0.21, G:0.01, T:0.25
Consensus pattern (35 bp):
AAACCATAAACTATAAACCTTAAACATAAAAGCTT
Found at i:2162127 original size:22 final size:23
Alignment explanation
Indices: 2162093--2162151 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
2162083 AACCTTAAAC
* * *
2162093 ATAAAATCTTAAATCATAA-ATT
1 ATAAAACCCTAAACCATAATATT
2162115 ATAAAACCCTAAACCATAATATT
1 ATAAAACCCTAAACCATAATATT
*
2162138 AT-AAACCATAAACC
1 ATAAAACCCTAAACC
2162152 TTGAACCTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAACCCTAAACCATAATATT
Found at i:2162321 original size:7 final size:7
Alignment explanation
Indices: 2162309--2162470 Score: 70
Period size: 7 Copynumber: 23.1 Consensus size: 7
2162299 TAATCATTAT
2162309 ACCTTAA
1 ACCTTAA
2162316 ACCTTAA
1 ACCTTAA
2162323 ATCC-TAA
1 A-CCTTAA
*
2162330 ACATTAA
1 ACCTTAA
*
2162337 A-GTCTAA
1 ACCT-TAA
*
2162344 ATCTTAA
1 ACCTTAA
2162351 ACACTT-A
1 AC-CTTAA
**
2162358 ACCCAAA
1 ACCTTAA
* *
2162365 ATCTTAC
1 ACCTTAA
2162372 ACCTTAA
1 ACCTTAA
* *
2162379 ACCATGA
1 ACCTTAA
2162386 A-CTATAA
1 ACCT-TAA
*
2162393 ATCTTTAA
1 A-CCTTAA
2162401 ACCTTAA
1 ACCTTAA
2162408 ACCTTAA
1 ACCTTAA
2162415 A-CTATAA
1 ACCT-TAA
*
2162422 ACTTTAA
1 ACCTTAA
2162429 ACCTTACA
1 ACCTTA-A
2162437 A-CTTAA
1 ACCTTAA
* *
2162443 ATCATAA
1 ACCTTAA
*
2162450 ACCCTAA
1 ACCTTAA
2162457 A--TTAAA
1 ACCTT-AA
2162463 ACCTTAA
1 ACCTTAA
2162470 A
1 A
2162471 ACCTAAATTA
Statistics
Matches: 115, Mismatches: 24, Indels: 32
0.67 0.14 0.19
Matches are distributed among these distances:
5 1 0.01
6 11 0.10
7 87 0.76
8 15 0.13
9 1 0.01
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.29
Consensus pattern (7 bp):
ACCTTAA
Found at i:2162408 original size:29 final size:29
Alignment explanation
Indices: 2162363--2162434 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
2162353 ACTTAACCCA
* *
2162363 AAATC-TTACACCTTAAACCATGAACTAT
1 AAATCTTTAAACCTTAAACCATAAACTAT
*
2162391 AAATCTTTAAACCTTAAACCTTAAACTAT
1 AAATCTTTAAACCTTAAACCATAAACTAT
2162420 AAA-CTTTAAACCTTA
1 AAATCTTTAAACCTTA
2162435 CAACTTAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.43
29 23 0.57
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.32
Consensus pattern (29 bp):
AAATCTTTAAACCTTAAACCATAAACTAT
Found at i:2162416 original size:14 final size:14
Alignment explanation
Indices: 2162033--2163382 Score: 180
Period size: 14 Copynumber: 96.2 Consensus size: 14
2162023 ATTAAATAAC
*
2162033 AAACCCTAAA-CTAT
1 AAACCTTAAACCT-T
2162047 AAACCTTAAACAC-T
1 AAACCTTAAAC-CTT
* *
2162061 AAAGCTTAAACCAT
1 AAACCTTAAACCTT
2162075 AAA-CTATAAACCTT
1 AAACCT-TAAACCTT
* * *
2162089 AAACATAAAATCTT
1 AAACCTTAAACCTT
* * *
2162103 AAATCATAAA-TTAT
1 AAACCTTAAACCT-T
* *
2162117 AAAACCCTAAACCAT
1 -AAACCTTAAACCTT
* *
2162132 AATA-TTATAAACCAT
1 AA-ACCT-TAAACCTT
*
2162147 AAACCTTGAACCTT
1 AAACCTTAAACCTT
* * *
2162161 GAACTTTAAACCCT
1 AAACCTTAAACCTT
*
2162175 AAACCCTAAACCTT
1 AAACCTTAAACCTT
*
2162189 -AATCTCTAAA-CTAT
1 AAACCT-TAAACCT-T
* *
2162203 AATCTTTAAA-CTAT
1 AAACCTTAAACCT-T
* * *
2162217 AAACCATAAATCAT
1 AAACCTTAAACCTT
* *
2162231 AAA-CTCTAAACAATA
1 AAACCT-TAAAC-CTT
2162246 AAACC-TAAACCTT
1 AAACCTTAAACCTT
2162259 AAACCTTAAACAC-T
1 AAACCTTAAAC-CTT
**
2162273 AAA-CTTAAACAAT
1 AAACCTTAAACCTT
* *
2162286 AAACTTTAGAGCC-T
1 AAACCTTA-AACCTT
* * *
2162300 AATCATTATACCTT
1 AAACCTTAAACCTT
2162314 AAACCTTAAATCC-T
1 AAACCTTAAA-CCTT
* *
2162328 AAACATTAAA-GTCT
1 AAACCTTAAACCT-T
*
2162342 AAATCTTAAACACTT
1 AAACCTTAAAC-CTT
** *
2162357 -AACCCAAAATCTT
1 AAACCTTAAACCTT
* *
2162370 ACACCTTAAACCAT
1 AAACCTTAAACCTT
* *
2162384 GAA-CTATAAATCTTT
1 AAACCT-TAAA-CCTT
2162399 AAACCTTAAACCTT
1 AAACCTTAAACCTT
*
2162413 AAA-CTATAAACTTT
1 AAACCT-TAAACCTT
2162427 AAACCTTACAA-CTT
1 AAACCTTA-AACCTT
* * *
2162441 AAATCATAAACCCT
1 AAACCTTAAACCTT
2162455 AAA--TTAAAACCTT
1 AAACCTT-AAACCTT
*
2162468 AAAACC-TAAA-TTAT
1 -AAACCTTAAACCT-T
* * *
2162482 AAACCATGAACC-C
1 AAACCTTAAACCTT
***
2162495 AAAAAATAAACCTT
1 AAACCTTAAACCTT
* *
2162509 AACCACTAAAACC-T
1 AAAC-CTTAAACCTT
***
2162523 AAAGAATAAA-CTAT
1 AAACCTTAAACCT-T
*
2162537 AAACCTTAAATCTT
1 AAACCTTAAACCTT
** **
2162551 AAACCCAAAAAATT
1 AAACCTTAAACCTT
* *
2162565 AAACATTAAAACCCT
1 AAACCTT-AAACCTT
**
2162580 AAACCTTTAAATTTAT
1 AAACC-TTAAACCT-T
*** **
2162596 AAATAGTAAATATT
1 AAACCTTAAACCTT
* * *
2162610 -AACCCTAAA-ATA
1 AAACCTTAAACCTT
2162622 AAACCTTAAACCTT
1 AAACCTTAAACCTT
** *
2162636 AAAACCTTGTACATT
1 -AAACCTTAAACCTT
* *
2162651 AAACCATAAACCAT
1 AAACCTTAAACCTT
*
2162665 AAA--TATATAACCCT
1 AAACCT-TA-AACCTT
* *
2162679 AAACCCTAAA-CAT
1 AAACCTTAAACCTT
** * *
2162692 AAATATGAAAACCAT
1 AAACCT-TAAACCTT
* *
2162707 AAACATTAAACCCT
1 AAACCTTAAACCTT
* ***
2162721 AATACCATAAATAAGT
1 AA-ACCTTAAA-CCTT
* *
2162737 AAAACTCTAAACCCT
1 AAACCT-TAAACCTT
* *
2162752 AAACCATAAAACTTT
1 AAACC-TTAAACCTT
*
2162767 AACCCCTT-AACCTT
1 AA-ACCTTAAACCTT
* *
2162781 AAACCTTAAAACAT
1 AAACCTTAAACCTT
* *
2162795 AAACCTTAATCCCT
1 AAACCTTAAACCTT
* *
2162809 AAACATTAAACATT
1 AAACCTTAAACCTT
*
2162823 AAACCTTAAACTTT
1 AAACCTTAAACCTT
2162837 AAAACCTTAAACCTT
1 -AAACCTTAAACCTT
* *
2162852 AAAACCCTAAACCCT
1 -AAACCTTAAACCTT
* * *
2162867 AAACTTTAAATCAT
1 AAACCTTAAACCTT
* * *
2162881 AATCCGTAAAACTT
1 AAACCTTAAACCTT
* *
2162895 AAAACTTAAACCAT
1 AAACCTTAAACCTT
* * * *
2162909 AAATCATATACCCT
1 AAACCTTAAACCTT
* *
2162923 AAAACTTTAA-CTAT
1 AAACCTTAAACCT-T
* *
2162937 ATACTTTAAACCTT
1 AAACCTTAAACCTT
*
2162951 AAACCCTAAA-CTAT
1 AAACCTTAAACCT-T
* *
2162965 TAACC-TAAA-ATAT
1 AAACCTTAAACCT-T
*
2162978 AAACCTT--ACCACT
1 AAACCTTAAACC-TT
* *
2162991 AAACCCATAAACCAT
1 AAA-CCTTAAACCTT
* *
2163006 AAA--TAAAAAACTAT
1 AAACCT-TAAACCT-T
*
2163020 AAACCTTAAACCAT
1 AAACCTTAAACCTT
* *
2163034 -AATCTATAAACCCT
1 AAACCT-TAAACCTT
* *
2163048 AAACCTT-AA-GTA
1 AAACCTTAAACCTT
*
2163060 AAACCCTAAACCTT
1 AAACCTTAAACCTT
** *
2163074 AAATTTTAAA-CAT
1 AAACCTTAAACCTT
* *
2163087 AAACCAT-AACTTT
1 AAACCTTAAACCTT
* *
2163100 AAACCTTAAATCATG
1 AAACCTTAAA-CCTT
* *
2163115 AATA-C-TAAATCAT
1 AA-ACCTTAAACCTT
* *
2163128 GAACCATAAA-CTAT
1 AAACCTTAAACCT-T
* * *
2163142 AAGCCTTATA-TTAT
1 AAACCTTAAACCT-T
* *
2163156 AAACCCTAAATCTT
1 AAACCTTAAACCTT
* *
2163170 AAATCTTAAACTTT
1 AAACCTTAAACCTT
*
2163184 AAACCATAAACCTT
1 AAACCTTAAACCTT
* *
2163198 AAA-CTCTACACCAT
1 AAACCT-TAAACCTT
* *
2163212 ATACCTTAAACTTT
1 AAACCTTAAACCTT
** * *
2163226 AAGTCATGAACCTT
1 AAACCTTAAACCTT
*
2163240 AAA-CTATAAACATT
1 AAACCT-TAAACCTT
* *
2163254 AAACCCTAAACTTT
1 AAACCTTAAACCTT
* ***
2163268 AAACCATAAATAAT
1 AAACCTTAAACCTT
*
2163282 AAACCATAAATCC-T
1 AAACCTTAAA-CCTT
*
2163296 AAACCTTAAAACTT
1 AAACCTTAAACCTT
* *
2163310 AAACCATAAACCAT
1 AAACCTTAAACCTT
2163324 AAA-CTCTAAACCTT
1 AAACCT-TAAACCTT
*
2163338 AAA-CTATAAATCTT
1 AAACCT-TAAACCTT
* *
2163352 AGATCTTAAACCTT
1 AAACCTTAAACCTT
* *
2163366 AAACCCTAAACCAT
1 AAACCTTAAACCTT
2163380 AAA
1 AAA
2163383 AATTAAACCA
Statistics
Matches: 929, Mismatches: 306, Indels: 202
0.65 0.21 0.14
Matches are distributed among these distances:
12 14 0.02
13 137 0.15
14 588 0.63
15 164 0.18
16 26 0.03
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.27
Consensus pattern (14 bp):
AAACCTTAAACCTT
Found at i:2162428 original size:21 final size:21
Alignment explanation
Indices: 2162398--2162485 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 21
2162388 TATAAATCTT
*
2162398 TAAACCTTAAACCTTAAACTA
1 TAAACTTTAAACCTTAAACTA
2162419 TAAACTTTAAACCTTACAACT-
1 TAAACTTTAAACCTTA-AACTA
* * *
2162440 TAAA-TCATAAACCCTAAATTA
1 TAAACT-TTAAACCTTAAACTA
* *
2162461 -AAACCTTAAAACC-TAAATTA
1 TAAA-CTTTAAACCTTAAACTA
2162481 TAAAC
1 TAAAC
2162486 CATGAACCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
20 15 0.27
21 35 0.64
22 5 0.09
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAACTTTAAACCTTAAACTA
Found at i:2162493 original size:20 final size:20
Alignment explanation
Indices: 2162445--2162488 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2162435 CAACTTAAAT
*
2162445 CATAAACCCTAAATTAAAAC
1 CATAAAACCTAAATTAAAAC
*
2162465 CTTAAAACCTAAATTATAAAC
1 CATAAAACCTAAATTA-AAAC
2162486 CAT
1 CAT
2162489 GAACCCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (20 bp):
CATAAAACCTAAATTAAAAC
Found at i:2162753 original size:7 final size:7
Alignment explanation
Indices: 2162744--2163382 Score: 154
Period size: 7 Copynumber: 91.6 Consensus size: 7
2162734 AGTAAAACTC
*
2162744 TAAACCC
1 TAAACCT
2162751 TAAACCAT
1 TAAACC-T
* *
2162759 AAAACTT
1 TAAACCT
*
2162766 TAACCCCT
1 TAAAC-CT
2162774 T-AACCT
1 TAAACCT
2162780 TAAACCT
1 TAAACCT
* *
2162787 TAAAACA
1 TAAACCT
2162794 TAAACCT
1 TAAACCT
* *
2162801 TAATCCC
1 TAAACCT
*
2162808 TAAACAT
1 TAAACCT
*
2162815 TAAACAT
1 TAAACCT
2162822 TAAACCT
1 TAAACCT
*
2162829 TAAACTT
1 TAAACCT
2162836 TAAAACCT
1 T-AAACCT
2162844 TAAACCT
1 TAAACCT
*
2162851 TAAAACCC
1 T-AAACCT
*
2162859 TAAACCC
1 TAAACCT
*
2162866 TAAACTT
1 TAAACCT
* *
2162873 TAAATCA
1 TAAACCT
* *
2162880 TAATCCG
1 TAAACCT
*
2162887 TAAAACT
1 TAAACCT
*
2162894 TAAAACT
1 TAAACCT
*
2162901 TAAACCA
1 TAAACCT
* *
2162908 TAAATCA
1 TAAACCT
* *
2162915 TATACCC
1 TAAACCT
*
2162922 TAAAACT
1 TAAACCT
*
2162929 TTAA-CT
1 TAAACCT
* *
2162935 ATATACTT
1 -TAAACCT
2162943 TAAACCT
1 TAAACCT
*
2162950 TAAACCC
1 TAAACCT
2162957 TAAA-CT
1 TAAACCT
*
2162963 ATTAACC-
1 -TAAACCT
*
2162970 TAAA-AT
1 TAAACCT
2162976 ATAAACCT
1 -TAAACCT
*
2162984 T--ACCAC
1 TAAACC-T
*
2162990 TAAACCCA
1 TAAA-CCT
*
2162998 TAAACCA
1 TAAACCT
2163005 TAAA--T
1 TAAACCT
* *
2163010 AAAAAACT
1 -TAAACCT
2163018 ATAAACCT
1 -TAAACCT
*
2163026 TAAACCA
1 TAAACCT
*
2163033 T-AATCT
1 TAAACCT
*
2163039 ATAAACCC
1 -TAAACCT
2163047 TAAACCT
1 TAAACCT
*
2163054 T-AA-GT
1 TAAACCT
* *
2163059 AAAACCC
1 TAAACCT
2163066 TAAACCT
1 TAAACCT
**
2163073 TAAATTT
1 TAAACCT
*
2163080 TAAA-CA
1 TAAACCT
*
2163086 TAAACCA
1 TAAACCT
*
2163093 T-AACTT
1 TAAACCT
2163099 TAAACCT
1 TAAACCT
*
2163106 TAAATCAT
1 TAAA-CCT
*
2163114 GAATA-C-
1 TAA-ACCT
* *
2163120 TAAATCA
1 TAAACCT
* *
2163127 TGAACCA
1 TAAACCT
2163134 TAAA-CT
1 TAAACCT
*
2163140 ATAAGCCT
1 -TAAACCT
* *
2163148 TATA-TT
1 TAAACCT
*
2163154 ATAAACCC
1 -TAAACCT
*
2163162 TAAATCT
1 TAAACCT
*
2163169 TAAATCT
1 TAAACCT
*
2163176 TAAACTT
1 TAAACCT
*
2163183 TAAACCA
1 TAAACCT
2163190 TAAACCT
1 TAAACCT
2163197 TAAA-CT
1 TAAACCT
* *
2163203 CTACACCA
1 -TAAACCT
*
2163211 TATACCT
1 TAAACCT
*
2163218 TAAACTT
1 TAAACCT
** *
2163225 TAAGTCA
1 TAAACCT
*
2163232 TGAACCT
1 TAAACCT
2163239 TAAA-CT
1 TAAACCT
*
2163245 ATAAACAT
1 -TAAACCT
*
2163253 TAAACCC
1 TAAACCT
*
2163260 TAAACTT
1 TAAACCT
*
2163267 TAAACCA
1 TAAACCT
***
2163274 TAAATAA
1 TAAACCT
*
2163281 TAAACCA
1 TAAACCT
2163288 TAAATCC-
1 TAAA-CCT
2163295 TAAACCT
1 TAAACCT
*
2163302 TAAAACT
1 TAAACCT
*
2163309 TAAACCA
1 TAAACCT
*
2163316 TAAACCA
1 TAAACCT
2163323 TAAA-CT
1 TAAACCT
2163329 CTAAACCT
1 -TAAACCT
2163337 TAAA-CT
1 TAAACCT
*
2163343 ATAAATCT
1 -TAAACCT
* *
2163351 TAGATCT
1 TAAACCT
2163358 TAAACCT
1 TAAACCT
*
2163365 TAAACCC
1 TAAACCT
*
2163372 TAAACCA
1 TAAACCT
2163379 TAAA
1 TAAA
2163383 AATTAAACCA
Statistics
Matches: 455, Mismatches: 134, Indels: 86
0.67 0.20 0.13
Matches are distributed among these distances:
5 5 0.01
6 42 0.09
7 355 0.78
8 50 0.11
9 3 0.01
ACGTcount: A:0.48, C:0.24, G:0.01, T:0.27
Consensus pattern (7 bp):
TAAACCT
Found at i:2162755 original size:38 final size:35
Alignment explanation
Indices: 2162673--2162761 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 35
2162663 ATAAATATAT
*
2162673 AACCCTAAACCCTAAACATAAATATGAAAACCATA
1 AACCCTAAACCCTAAACATAAATAAGAAAACCATA
**
2162708 AACATTAAACCCTAATACCATAAATAAGTAAAACTC-TA
1 AACCCTAAACCCTAA-A-CATAAATAAG-AAAAC-CATA
*
2162746 AACCCTAAACCATAAA
1 AACCCTAAACCCTAAA
2162762 ACTTTAACCC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
35 13 0.30
36 1 0.02
37 10 0.23
38 19 0.43
39 1 0.02
ACGTcount: A:0.54, C:0.25, G:0.02, T:0.19
Consensus pattern (35 bp):
AACCCTAAACCCTAAACATAAATAAGAAAACCATA
Found at i:2162764 original size:22 final size:22
Alignment explanation
Indices: 2162736--2162783 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
2162726 CATAAATAAG
2162736 TAAAACTCTAAACCCTAAACCA
1 TAAAACTCTAAACCCTAAACCA
* * * *
2162758 TAAAACTTTAACCCCTTAACCT
1 TAAAACTCTAAACCCTAAACCA
2162780 TAAA
1 TAAA
2162784 CCTTAAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAAACTCTAAACCCTAAACCA
Found at i:2162843 original size:15 final size:15
Alignment explanation
Indices: 2162809--2162863 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
2162799 CTTAATCCCT
*
2162809 AAACATTAAACATT-
1 AAACCTTAAACATTA
*
2162823 AAACCTTAAACTTTA
1 AAACCTTAAACATTA
*
2162838 AAACCTTAAACCTTA
1 AAACCTTAAACATTA
*
2162853 AAACCCTAAAC
1 AAACCTTAAAC
2162864 CCTAAACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
14 12 0.33
15 24 0.67
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (15 bp):
AAACCTTAAACATTA
Found at i:2162863 original size:22 final size:22
Alignment explanation
Indices: 2162745--2162876 Score: 99
Period size: 22 Copynumber: 6.1 Consensus size: 22
2162735 GTAAAACTCT
* * *
2162745 AAACCCTAAACCATAAAACTTT
1 AAACCCTAAACCTTAAACCTTA
* *
2162767 AACCCCTTAACCTTAAACCTTA
1 AAACCCTAAACCTTAAACCTTA
* * *
2162789 AAA-CATAAACCTTAATCCCT-
1 AAACCCTAAACCTTAAACCTTA
** *
2162809 AAACATTAAACATTAAACCTT-
1 AAACCCTAAACCTTAAACCTTA
**
2162830 AAACTTTAAAACCTTAAACCTTA
1 AAACCCT-AAACCTTAAACCTTA
* *
2162853 AAACCCTAAACCCTAAACTTTA
1 AAACCCTAAACCTTAAACCTTA
2162875 AA
1 AA
2162877 TCATAATCCG
Statistics
Matches: 86, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
20 3 0.03
21 31 0.36
22 47 0.55
23 5 0.06
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (22 bp):
AAACCCTAAACCTTAAACCTTA
Found at i:2166059 original size:22 final size:22
Alignment explanation
Indices: 2166018--2166067 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
2166008 TATGATGAAC
*
2166018 AAACATTTATGAAAAATCATTA
1 AAACATTTATGAAAAATCATCA
2166040 AAAC-TTTA-GAAAAAGTTCATCA
1 AAACATTTATGAAAAA--TCATCA
2166062 AAACAT
1 AAACAT
2166068 ATTTTCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.25
21 4 0.17
22 13 0.54
23 1 0.04
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (22 bp):
AAACATTTATGAAAAATCATCA
Found at i:2166605 original size:19 final size:20
Alignment explanation
Indices: 2166560--2166608 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2166550 CTCAAAATTA
* *
2166560 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAATCTAATTTTG
*
2166580 CTTTTCAAAATCTAATTTT-
1 TTTTTCAAAATCTAATTTTG
2166599 TTTTTCAAAA
1 TTTTTCAAAA
2166609 GAAAATCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTTTCAAAATCTAATTTTG
Found at i:2168459 original size:21 final size:21
Alignment explanation
Indices: 2168410--2168462 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
2168400 CCAGGACAGA
*
2168410 GAGTATTAGTACTCCTTTAAT
1 GAGTATTGGTACTCCTTTAAT
2168431 GAGTATTGGTACTCCTTTAAT
1 GAGTATTGGTACTCCTTTAAT
2168452 GAGTATTGGTA
1 GAGTATTGGTA
2168463 TTACCTTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (21 bp):
GAGTATTGGTACTCCTTTAAT
Found at i:2172911 original size:18 final size:18
Alignment explanation
Indices: 2172888--2172928 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2172878 AGGCATTTGA
2172888 TCCTCTGGC-TGTGCTTGT
1 TCCTCT-GCTTGTGCTTGT
*
2172906 TCCTCTTCTTGTGCTTGT
1 TCCTCTGCTTGTGCTTGT
2172924 TCCTC
1 TCCTC
2172929 GTGATGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.00, C:0.32, G:0.20, T:0.49
Consensus pattern (18 bp):
TCCTCTGCTTGTGCTTGT
Found at i:2174450 original size:23 final size:23
Alignment explanation
Indices: 2174420--2174503 Score: 116
Period size: 23 Copynumber: 3.7 Consensus size: 23
2174410 TTCCCCTGTG
2174420 GGGGGAATCGGTTCCCCTTTAAA
1 GGGGGAATCGGTTCCCCTTTAAA
*
2174443 GGGGGAATCGGTTCCCTTTTAAA
1 GGGGGAATCGGTTCCCCTTTAAA
* *
2174466 GGGGGAATCAGTTCCCC-TTCAA
1 GGGGGAATCGGTTCCCCTTTAAA
* *
2174488 GGGGGTATCGATTCCC
1 GGGGGAATCGGTTCCC
2174504 TCTGCACTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 17 0.31
23 37 0.69
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTTAAA
Found at i:2178354 original size:22 final size:21
Alignment explanation
Indices: 2178312--2178351 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2178302 GAGTTTCTTT
*
2178312 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2178333 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2178352 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2190751 original size:12 final size:12
Alignment explanation
Indices: 2190736--2190761 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2190726 ACTAACATAA
2190736 GCCTAACAGATT
1 GCCTAACAGATT
2190748 GCCTAACAGATT
1 GCCTAACAGATT
2190760 GC
1 GC
2190762 ACAACTGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (12 bp):
GCCTAACAGATT
Found at i:2194565 original size:7 final size:8
Alignment explanation
Indices: 2194548--2194582 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
2194538 AAATTAAAAG
2194548 AAAATGAA
1 AAAATGAA
2194556 AAAATGAA
1 AAAATGAA
2194564 AAAATGAA
1 AAAATGAA
*
2194572 AAAAAGAA
1 AAAATGAA
2194580 AAA
1 AAA
2194583 GGTTAGGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (8 bp):
AAAATGAA
Found at i:2196450 original size:22 final size:22
Alignment explanation
Indices: 2196422--2196481 Score: 120
Period size: 22 Copynumber: 2.7 Consensus size: 22
2196412 CGCTTCGACT
2196422 AGGGTAAGTCCTTATGAACCCA
1 AGGGTAAGTCCTTATGAACCCA
2196444 AGGGTAAGTCCTTATGAACCCA
1 AGGGTAAGTCCTTATGAACCCA
2196466 AGGGTAAGTCCTTATG
1 AGGGTAAGTCCTTATG
2196482 GATGCAGGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (22 bp):
AGGGTAAGTCCTTATGAACCCA
Found at i:2208176 original size:43 final size:44
Alignment explanation
Indices: 2208096--2208218 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 44
2208086 CATTTTGTCT
* * *
2208096 ACAAAC-CCGCTAATTATCTTGTCTTTAGT--GATATTTTTGGCC
1 ACAAACGCCGCTAATTCTATTGTCTTTAGTGGGAT-TTTTTGACC
* * * *
2208138 ATAAACGTCGCTAATTCTATTGTCTTTAGTGGGGTTTTTTTACC
1 ACAAACGCCGCTAATTCTATTGTCTTTAGTGGGATTTTTTGACC
* *
2208182 ACAAACGCCGCTAATTCTATTGTTTTTACTGGGATTT
1 ACAAACGCCGCTAATTCTATTGTCTTTAGTGGGATTT
2208219 GTAATATAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 5 0.08
43 20 0.30
44 39 0.59
45 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (44 bp):
ACAAACGCCGCTAATTCTATTGTCTTTAGTGGGATTTTTTGACC
Found at i:2211368 original size:15 final size:14
Alignment explanation
Indices: 2211344--2211375 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
2211334 CACATTTTTA
2211344 TTTTTTAAAATTAT
1 TTTTTTAAAATTAT
2211358 TTTTCTTAAAATTAT
1 TTTT-TTAAAATTAT
2211373 TTT
1 TTT
2211376 AAAAGGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTTAAAATTAT
Found at i:2216397 original size:99 final size:99
Alignment explanation
Indices: 2216215--2216438 Score: 310
Period size: 99 Copynumber: 2.3 Consensus size: 99
2216205 ACACAGAATA
* * *
2216215 TAATAT-TATACATATACAATAAAGCTTAAGTTGTCCTTCTAAAGCAATTGGTTAAATGCCCCAG
1 TAATATATATATATATACAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAG
*
2216279 TTTTATGGATAAGATTCAGCTAACCTGATAAAGG
66 CTTTATGGATAAGATTCAGCTAACCTGATAAAGG
* * * * *
2216313 TGAT-TATAATATATATACAATAAAGCTTGAGTTTTCCCTCTAGAGCAATTGGTTAAACG-CCCT
1 TAATATAT-ATATATATACAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCA
* *
2216376 GACTTTATGGATAATATTCAGCTAGCCTGATAAAGG
65 G-CTTTATGGATAAGATTCAGCTAACCTGATAAAGG
2216412 TAATATATATATATATACAATAAAGCT
1 TAATATATATATATATACAATAAAGCT
2216439 GAAAATAGCT
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
97 1 0.01
98 8 0.07
99 98 0.89
100 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (99 bp):
TAATATATATATATATACAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAG
CTTTATGGATAAGATTCAGCTAACCTGATAAAGG
Found at i:2217221 original size:42 final size:42
Alignment explanation
Indices: 2217137--2217221 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
2217127 ATAATAAATA
* * *
2217137 TTGGGGCATTTGGAAGGCTCGTTTAAGCAAAAAGTGTGAATG
1 TTGGGGCATTTGGAAAGCCCGTTTAAGCAAAAAGTATGAATG
* * * * *
2217179 TTGGGGCATTTTGAAAGCCCGTTTTAGCCATAAGTATTAATG
1 TTGGGGCATTTGGAAAGCCCGTTTAAGCAAAAAGTATGAATG
2217221 T
1 T
2217222 GGAGCACATT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (42 bp):
TTGGGGCATTTGGAAAGCCCGTTTAAGCAAAAAGTATGAATG
Found at i:2218234 original size:16 final size:16
Alignment explanation
Indices: 2218196--2218239 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
2218186 TGTATCATAA
2218196 CATCATACATAA-TTT
1 CATCATACATAATTTT
2218211 CATACATACATAATTTT
1 CAT-CATACATAATTTT
*
2218228 CCTCATA-ATAAT
1 CATCATACATAAT
2218240 ATATGTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 8 0.31
16 13 0.50
17 5 0.19
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (16 bp):
CATCATACATAATTTT
Found at i:2218445 original size:62 final size:62
Alignment explanation
Indices: 2218358--2218822 Score: 400
Period size: 62 Copynumber: 7.5 Consensus size: 62
2218348 TTTCCTATAT
* * * *
2218358 TCAATCTTTGACTTCCTCGTAAAGAGAAGTCAATTTTTATTATCCTTGACTCCCCAGTAGAG
1 TCAATCTTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCTTAACTCCCTAGTAGAG
* * * *
2218420 TCTATCATTT-ACTTCCTCGTGAAGAGAAGTCAATCTTTGTTAT-TTCTAACTCTCTAGTAGAG
1 TCAATC-TTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCT-TAACTCCCTAGTAGAG
* * * * *
2218482 TCAATCCTTGACTTCCTTGTGAAGAGAAGTCAATCTTTGTTAT-CTCTGACTCCCCAGTAGAG
1 TCAATCTTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCT-TAACTCCCTAGTAGAG
* * * * *
2218544 TCAATCTTTGACTTCCTCGTAAAGAGAAGTTAATTTTTATTATCCCTAACTCCCTAGAAGAG
1 TCAATCTTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCTTAACTCCCTAGTAGAG
* * * * * * *
2218606 CCAATCTTTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTATCCCTAACTCCCTAGCATAG
1 TCAATCTTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCTTAACTCCCTAGTAGAG
* * * * * * * * *
2218668 TTATTATTTAACTTCCTCATGAAGAGAAGTCAATTTTTATTATTATCCCTATCTCCCCAG-AGGA
1 TCAATCTTTGACTTCCTCGTGAAGAGAAGTCAA--TCT-TTATTATCCTTAACTCCCTAGTA-GA
2218732 G
62 G
* * * * * * * * * * * *
2218733 CCAATCTTTGGCTTCTTTGTGAAGTGAAGT-ACATCTCTGTTATCCCTGACTCCCCAGCAAAG
1 TCAATCTTTGACTTCCTCGTGAAGAGAAGTCA-ATCTTTATTATCCTTAACTCCCTAGTAGAG
*
2218795 TTAATCTTTGACTTCCTCGTGAAGAGAA
1 TCAATCTTTGACTTCCTCGTGAAGAGAA
2218823 TTTTTATGTC
Statistics
Matches: 326, Mismatches: 67, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
61 3 0.01
62 271 0.83
63 7 0.02
64 4 0.01
65 41 0.13
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (62 bp):
TCAATCTTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCTTAACTCCCTAGTAGAG
Found at i:2218593 original size:124 final size:123
Alignment explanation
Indices: 2218359--2218822 Score: 509
Period size: 124 Copynumber: 3.7 Consensus size: 123
2218349 TTCCTATATT
* * * * * *
2218359 CAATCTTTGACTTCCTCGTAAAGAGAAGTCAATTTTTATTATCCTTGACTCCCCAGTAGAGTCTA
1 CAATCTTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATCCCTGACTCCCCAGCAGAGTCAA
* * ** * *
2218424 TCATTT-ACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTTCTAACTCTCTAGTAGAGT
66 TC-TTTGACTTCCTCGTGAAGAGAAGTCAATTTTTATTATCCCTAACTCCCTAG-AGAGC
* * * *
2218483 CAATCCTTGACTTCCTTGTGAAGAGAAGTCAATCTTTGTTATCTCTGACTCCCCAGTAGAGTCAA
1 CAATCTTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATCCCTGACTCCCCAGCAGAGTCAA
* *
2218548 TCTTTGACTTCCTCGTAAAGAGAAGTTAATTTTTATTATCCCTAACTCCCTAGAAGAGC
66 TCTTTGACTTCCTCGTGAAGAGAAGTCAATTTTTATTATCCCTAACTCCCTAG-AGAGC
* * * * * * *
2218607 CAATCTTTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTATCCCTAACTCCCTAGCATAGTTAT
1 CAATCTTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATCCCTGACTCCCCAGCAGAGTCAA
* * * * *
2218672 TATTTAACTTCCTCATGAAGAGAAGTCAATTTTTATTATTATCCCTATCTCCCCAGAGGAGC
66 TCTTTGACTTCCTCGTGAAGAGAAGTCAA--TTT-TTATTATCCCTAACTCCCTAGA-GAGC
* * * * * * *
2218734 CAATCTTTGGCTTCTTTGTGAAGTGAAGT-ACATCTCTGTTATCCCTGACTCCCCAGCAAAGTTA
1 CAATCTTTGACTTCCTCGTGAAGAGAAGTCA-ATCTTTGTTATCCCTGACTCCCCAGCAGAGTCA
2218798 ATCTTTGACTTCCTCGTGAAGAGAA
65 ATCTTTGACTTCCTCGTGAAGAGAA
2218823 TTTTTATGTC
Statistics
Matches: 285, Mismatches: 49, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
123 3 0.01
124 181 0.64
126 5 0.02
127 96 0.34
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (123 bp):
CAATCTTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATCCCTGACTCCCCAGCAGAGTCAA
TCTTTGACTTCCTCGTGAAGAGAAGTCAATTTTTATTATCCCTAACTCCCTAGAGAGC
Found at i:2218684 original size:186 final size:186
Alignment explanation
Indices: 2218358--2218710 Score: 483
Period size: 186 Copynumber: 1.9 Consensus size: 186
2218348 TTTCCTATAT
* * * * *
2218358 TCAATCTTTGACTTCCTCGTAAAGAGAAGTCAATTTTTATTATCCTTGACTCCCCAGTAGAGTCT
1 TCAATCTTTGACTTCCTCGTAAAGAGAAGTCAATTTTTATTATCCCTAACTCCCCAGAAGAGCCA
* ** * * *
2218423 ATCATTTACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTTCTAACTCTCTAGTAGAGTCAATC
66 ATCATTTACTTCCTCATGAAGAGAAGTCAATCTTTGTTATCCCTAACTCCCTAGCAGAGTCAATA
* ** *
2218488 CTTGACTTCCTTGTGAAGAGAAGTCAATCTTTGTTATCTCTGACTCCCCAGTAGAG
131 CTTAACTTCCTCATGAAGAGAAGTCAATCTTTATTATCTCTGACTCCCCAGTAGAG
* *
2218544 TCAATCTTTGACTTCCTCGTAAAGAGAAGTTAATTTTTATTATCCCTAACTCCCTAGAAGAGCCA
1 TCAATCTTTGACTTCCTCGTAAAGAGAAGTCAATTTTTATTATCCCTAACTCCCCAGAAGAGCCA
* * * *
2218609 ATC-TTTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTATCCCTAACTCCCTAGCATAGTTATT
66 ATCATTT-ACTTCCTCATGAAGAGAAGTCAATCTTTGTTATCCCTAACTCCCTAGCAGAGTCAAT
* *
2218673 ATTTAACTTCCTCATGAAGAGAAGTCAATTTTTATTAT
130 ACTTAACTTCCTCATGAAGAGAAGTCAATCTTTATTAT
2218711 TATCCCTATC
Statistics
Matches: 143, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
185 3 0.02
186 140 0.98
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (186 bp):
TCAATCTTTGACTTCCTCGTAAAGAGAAGTCAATTTTTATTATCCCTAACTCCCCAGAAGAGCCA
ATCATTTACTTCCTCATGAAGAGAAGTCAATCTTTGTTATCCCTAACTCCCTAGCAGAGTCAATA
CTTAACTTCCTCATGAAGAGAAGTCAATCTTTATTATCTCTGACTCCCCAGTAGAG
Found at i:2219078 original size:90 final size:90
Alignment explanation
Indices: 2218863--2219890 Score: 1208
Period size: 90 Copynumber: 11.5 Consensus size: 90
2218853 AACGATGCAT
** * * * * * **
2218863 CAAATCAATCTTAAGTCTGATCTCCCCGGAATAGTAGTGGAACATATTCTTCTTAGGTCAGAT-T
1 CAAATCAATCTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCAGATTCTTCTTATTTCAGATGT
* * * * * *
2218927 TGGTCATC-CTGAAAAAGCAGTAAAT
66 TGGCCTTCAC-GAAAGAGTAGTGAAG
* ** *
2218952 CAAATCAATCTCGAGTATGATCTCACATGAAGAGTAGAGGAGAAGATTCTTCTTATTTCAGATGT
1 CAAATCAATCTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCAGATTCTTCTTATTTCAGATGT
2219017 TGGCCTTCACGAAAGAGTAGTGAAG
66 TGGCCTTCACGAAAGAGTAGTGAAG
* * *
2219042 TAAATCAATCTCGAGTATGATC-CCCCTGAAACAGTAGAGGAGCAGATTCTTCTTATTTCAGATG
1 CAAATCAATCTCGAGTATGATCTCCCC-GGAAGAGTAGAGGAGCAGATTCTTCTTATTTCAGATG
*
2219106 TTGGCCTTCGCGAAAGAGT-GTGAAG
65 TTGGCCTTCACGAAAGAGTAGTGAAG
* * * * * * **
2219131 CAAATCAATCTTGAGTCTGATCTCCCCGAAAGAGTAGTGGAACAAATTCTTCTTATGCCAGAT-T
1 CAAATCAATCTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCAGATTCTTCTTATTTCAGATGT
* * * * ** *
2219195 TGGTCTTTC-TGAAAAAGCAGCAAAT
66 TGG-CCTTCACGAAAGAGTAGTGAAG
* * * * *
2219220 CAAATTAATCTCAAGTATTATCTCCCCGGAAGAGTAGATGAGCATATTCTTCTTATTTCAGATGT
1 CAAATCAATCTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCAGATTCTTCTTATTTCAGATGT
*
2219285 TGGCCTTCACGAAATAGTAGTGAAG
66 TGGCCTTCACGAAAGAGTAGTGAAG
* * * * *
2219310 CAAATCAATCTCGAGTCTAATCTCCCTGGAAGAGTAGAGGAGCATATTCTTTTTATTTCAGATGT
1 CAAATCAATCTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCAGATTCTTCTTATTTCAGATGT
2219375 TGGCCTTCACGAAAGAGTAGTGAAG
66 TGGCCTTCACGAAAGAGTAGTGAAG
* * *
2219400 CAAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGAAGAGCAAATTCTTCTTATTTCAGATGT
1 CAAATCAATCTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCAGATTCTTCTTATTTCAGATGT
* * *
2219465 TGGCCTTCATGGAAGAGTAGTGAAA
66 TGGCCTTCACGAAAGAGTAGTGAAG
* *
2219490 CAAATCAATCTCGAGTATGATCTCCCCGAAAGAGTAGAGGAGCAGATTCTTCTTATGTCAGAT-T
1 CAAATCAATCTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCAGATTCTTCTTATTTCAGATGT
*
2219554 TGGCCTTCCCGAAAGAGTAGTGAAG
66 TGGCCTTCACGAAAGAGTAGTGAAG
* * *
2219579 CAAATCAATTTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCATATTCATCTTATTTCAGATGT
1 CAAATCAATCTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCAGATTCTTCTTATTTCAGATGT
* *
2219644 TGGCCTTCCCAAAAGAGTAGTGAAG
66 TGGCCTTCACGAAAGAGTAGTGAAG
* * * * * * * *
2219669 CAAATGAATCTCGAGTCTGATTTCACCAGCATAGTAGAGGAGCAGATTCTTCTTTTTTCAGATGT
1 CAAATCAATCTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCAGATTCTTCTTATTTCAGATGT
*
2219734 TGGCCTTCAAGAAAGAGTAGTGAAG
66 TGGCCTTCACGAAAGAGTAGTGAAG
* ** * * * * * * *
2219759 CAAATCAATCTCGAGTCTGATCTCCCCAAAAGAGTAGTGGAACAAATTCTTCTCATGTCATATAT
1 CAAATCAATCTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCAGATTCTTCTTATTTCAGATGT
*
2219824 TGGCCTTCATGAAAGAGTAGTGAAG
66 TGGCCTTCACGAAAGAGTAGTGAAG
*
2219849 CAAATCAATCTCGAG-ACTGATCTCCCCGGAATAGTAGAGGAG
1 CAAATCAATCTCGAGTA-TGATCTCCCCGGAAGAGTAGAGGAG
2219891 TTCAGATATT
Statistics
Matches: 801, Mismatches: 128, Indels: 19
0.84 0.14 0.02
Matches are distributed among these distances:
88 10 0.01
89 249 0.31
90 541 0.68
91 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (90 bp):
CAAATCAATCTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCAGATTCTTCTTATTTCAGATGT
TGGCCTTCACGAAAGAGTAGTGAAG
Found at i:2219457 original size:180 final size:180
Alignment explanation
Indices: 2218863--2220155 Score: 1440
Period size: 180 Copynumber: 7.3 Consensus size: 180
2218853 AACGATGCAT
* * * * * * **
2218863 CAAATCAATCTTAAGTCTGATCTCCCCGGAATAGTAGTGGAACATATTCTTCTTAGGTCAGAT-T
1 CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCAAATTCTTCTTATTTCAGATGT
* * * * * * * * **
2218927 TGGTCATC-CTGAAAAAGCAGTAAATCAAATCAATCTCGAGTATGATCTCACATGAAGAGTAGAG
66 TGGCCTTCAC-GAAAGAGTAGTGAAGCAAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGAG
*
2218991 GAGAAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAG
130 GAGCAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAG
* * * * *
2219042 TAAATCAATCTCGAGTATGATC-CCCCTGAAACAGTAGAGGAGCAGATTCTTCTTATTTCAGATG
1 CAAATCAATCTCAAGTATGATCTCCCC-GGAAGAGTAGAGGAGCAAATTCTTCTTATTTCAGATG
* * * *
2219106 TTGGCCTTCGCGAAAGAGT-GTGAAGCAAATCAATCTTGAGTCTGATCTCCCCGAAAGAGTAGTG
65 TTGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGAG
* * ** * * * * ** *
2219170 GAACAAATTCTTCTTATGCCAGAT-TTGGTCTTTC-TGAAAAAGCAGCAAAT
130 GAGCAGATTCTTCTTATTTCAGATGTTGG-CCTTCACGAAAGAGTAGTGAAG
* * * *
2219220 CAAATTAATCTCAAGTATTATCTCCCCGGAAGAGTAGATGAGCATATTCTTCTTATTTCAGATGT
1 CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCAAATTCTTCTTATTTCAGATGT
* * *
2219285 TGGCCTTCACGAAATAGTAGTGAAGCAAATCAATCTCGAGTCTAATCTCCCTGGAAGAGTAGAGG
66 TGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGAGG
* *
2219350 AGCATATTCTTTTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAG
131 AGCAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAG
* * *
2219400 CAAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGAAGAGCAAATTCTTCTTATTTCAGATGT
1 CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCAAATTCTTCTTATTTCAGATGT
* * * * *
2219465 TGGCCTTCATGGAAGAGTAGTGAAACAAATCAATCTCGAGTATGATCTCCCCGAAAGAGTAGAGG
66 TGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGAGG
* *
2219530 AGCAGATTCTTCTTATGTCAGAT-TTGGCCTTCCCGAAAGAGTAGTGAAG
131 AGCAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAG
* * * *
2219579 CAAATCAATTTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCATATTCATCTTATTTCAGATGT
1 CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCAAATTCTTCTTATTTCAGATGT
* * * * * * * *
2219644 TGGCCTTCCCAAAAGAGTAGTGAAGCAAATGAATCTCGAGTCTGATTTCACCAGCATAGTAGAGG
66 TGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGAGG
* *
2219709 AGCAGATTCTTCTTTTTTCAGATGTTGGCCTTCAAGAAAGAGTAGTGAAG
131 AGCAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAG
* * ** * * * * * *
2219759 CAAATCAATCTCGAGTCTGATCTCCCCAAAAGAGTAGTGGAACAAATTCTTCTCATGTCATATAT
1 CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCAAATTCTTCTTATTTCAGATGT
* * *
2219824 TGGCCTTCATGAAAGAGTAGTGAAGCAAATCAATCTCGAGACTGATCTCCCCGGAATAGTAGA-G
66 TGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGAGG
* *
2219888 -G-AG-----------TTCAGATATTGGCCTTCACAAAAGAGTAGTGAAG
131 AGCAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAG
* * * * * *
2219925 CAAATCAATCTCAAGTGTGATCTCCCCTGAAGAGTAGAGGAGCAGATTCTTCTCATGTCAGATAT
1 CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCAAATTCTTCTTATTTCAGATGT
* * * * * * *
2219990 TGACCTTCACGAAAGAATAGTAAAGAAAATTAATCTCCAGTCTGATCTCCCCGGAAGAGTAGAAG
66 TGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGAGG
* *
2220055 AGCAGATTCTTCTTATTTCACATATTGGCCTTCACGAAAGAGTAGTGAAG
131 AGCAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAG
* * * * * *
2220105 GAAATCAATTTCAAGTTTGATCTCCCCGGAATAATAGAGGAACAAATTCTT
1 CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCAAATTCTT
2220156 TTTAATTATA
Statistics
Matches: 937, Mismatches: 154, Indels: 45
0.82 0.14 0.04
Matches are distributed among these distances:
166 142 0.15
167 1 0.00
168 1 0.00
169 2 0.00
177 2 0.00
178 87 0.09
179 332 0.35
180 369 0.39
181 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (180 bp):
CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCAAATTCTTCTTATTTCAGATGT
TGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGAGG
AGCAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAG
Found at i:2219665 original size:359 final size:359
Alignment explanation
Indices: 2218863--2220155 Score: 1532
Period size: 359 Copynumber: 3.6 Consensus size: 359
2218853 AACGATGCAT
* * * * * *
2218863 CAAATCAATCTTAAGTCTGATCTCCCCGGAATAGTAGTGGAACATATTCTTCTTAGGTCAGAT-T
1 CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCATATTCTTCTTATGTCAGATGT
* * * * * *
2218927 TGGTCATC-CTGAAAA-AGCAGTAAATCAAATCAATCTCGAGTATGATCTCACAT-GAAGAGTAG
66 TGGCCTTCAC--AAAAGAGTAGTAAAGCAAATCAATCTCGAGTCTGATCTCACCTGGAAGAGTAG
* *
2218989 AGGAGAAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAGTAAATCAATCTC
129 AGGAGCAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTC
* * * * **
2219054 GAGTATGATC-CCCCTGAAACAGTAGAGGAGCAGATTCTTCTTATTTCAGATGTTGGCCTTCGCG
194 GAGTCTGATCTCCCC-GAAAGAGTAGAGGAACAAATTCTTCTTATTTCAGATGTTGGCCTTCATG
* * * * *
2219118 AAAGAGT-GTGAAGCAAATCAATCTTGAGTCTGATCTCCCCGAAAGAGTAGTGGAACAAATTCTT
258 AAAGAGTAGTGAAGCAAATCAATCTCGAGTATGATCTCCCCGAAAGAGTAGAGGAGCAGATTCTT
* * * * * ** *
2219182 CTTATGCCAGATTTGGTCTTTCTGAAAAAGCAGCAAAT
323 CTTATG-CAGATTTGGCCTTCCCGAAAGAGTAGTGAAG
* * * *
2219220 CAAATTAATCTCAAGTATTATCTCCCCGGAAGAGTAGATGAGCATATTCTTCTTATTTCAGATGT
1 CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCATATTCTTCTTATGTCAGATGT
* * * *
2219285 TGGCCTTCACGAAATAGTAGTGAAGCAAATCAATCTCGAGTCTAATCTC-CCTGGAAGAGTAGAG
66 TGGCCTTCACAAAAGAGTAGTAAAGCAAATCAATCTCGAGTCTGATCTCACCTGGAAGAGTAGAG
* *
2219349 GAGCATATTCTTTTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTCGA
131 GAGCAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTCGA
* * * *
2219414 GTCTGATCTCCCCGGAAGAGTAGAAGAGCAAATTCTTCTTATTTCAGATGTTGGCCTTCATGGAA
196 GTCTGATCTCCCCGAAAGAGTAGAGGAACAAATTCTTCTTATTTCAGATGTTGGCCTTCATGAAA
*
2219479 GAGTAGTGAAACAAATCAATCTCGAGTATGATCTCCCCGAAAGAGTAGAGGAGCAGATTCTTCTT
261 GAGTAGTGAAGCAAATCAATCTCGAGTATGATCTCCCCGAAAGAGTAGAGGAGCAGATTCTTCTT
2219544 ATGTCAGATTTGGCCTTCCCGAAAGAGTAGTGAAG
326 ATG-CAGATTTGGCCTTCCCGAAAGAGTAGTGAAG
* * * *
2219579 CAAATCAATTTCGAGTATGATCTCCCCGGAAGAGTAGAGGAGCATATTCATCTTATTTCAGATGT
1 CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCATATTCTTCTTATGTCAGATGT
* * * * * * *
2219644 TGGCCTTCCCAAAAGAGTAGTGAAGCAAATGAATCTCGAGTCTGATTTCACC-AGCATAGTAGAG
66 TGGCCTTCACAAAAGAGTAGTAAAGCAAATCAATCTCGAGTCTGATCTCACCTGGAAGAGTAGAG
* *
2219708 GAGCAGATTCTTCTTTTTTCAGATGTTGGCCTTCAAGAAAGAGTAGTGAAGCAAATCAATCTCGA
131 GAGCAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTCGA
* * * * * *
2219773 GTCTGATCTCCCCAAAAGAGTAGTGGAACAAATTCTTCTCATGTCATATATTGGCCTTCATGAAA
196 GTCTGATCTCCCCGAAAGAGTAGAGGAACAAATTCTTCTTATTTCAGATGTTGGCCTTCATGAAA
* *
2219838 GAGTAGTGAAGCAAATCAATCTCGAG-ACTGATCTCCCCGGAATAGTAGA-G-G-AG----TTC-
261 GAGTAGTGAAGCAAATCAATCTCGAGTA-TGATCTCCCCGAAAGAGTAGAGGAGCAGATTCTTCT
* * *
2219894 -A-G-ATA-TTGGCCTTCACAAAAGAGTAGTGAAG
325 TATGCAGATTTGGCCTTCCCGAAAGAGTAGTGAAG
* * * * *
2219925 CAAATCAATCTCAAGTGTGATCTCCCCTGAAGAGTAGAGGAGCAGATTCTTCTCATGTCAGATAT
1 CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCATATTCTTCTTATGTCAGATGT
* * * * * * * *
2219990 TGACCTTCACGAAAGAATAGTAAAGAAAATTAATCTCCAGTCTGATCTC-CCCGGAAGAGTAGAA
66 TGGCCTTCACAAAAGAGTAGTAAAGCAAATCAATCTCGAGTCTGATCTCACCTGGAAGAGTAGAG
* * * * *
2220054 GAGCAGATTCTTCTTATTTCACATATTGGCCTTCACGAAAGAGTAGTGAAGGAAATCAATTTCAA
131 GAGCAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTCGA
* * * *
2220119 GTTTGATCTCCCCGGAATAATAGAGGAACAAATTCTT
196 GTCTGATCTCCCCGAAAGAGTAGAGGAACAAATTCTT
2220156 TTTAATTATA
Statistics
Matches: 811, Mismatches: 116, Indels: 29
0.85 0.12 0.03
Matches are distributed among these distances:
345 2 0.00
346 217 0.27
347 2 0.00
349 1 0.00
350 1 0.00
352 3 0.00
356 2 0.00
357 59 0.07
358 166 0.20
359 356 0.44
360 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (359 bp):
CAAATCAATCTCAAGTATGATCTCCCCGGAAGAGTAGAGGAGCATATTCTTCTTATGTCAGATGT
TGGCCTTCACAAAAGAGTAGTAAAGCAAATCAATCTCGAGTCTGATCTCACCTGGAAGAGTAGAG
GAGCAGATTCTTCTTATTTCAGATGTTGGCCTTCACGAAAGAGTAGTGAAGCAAATCAATCTCGA
GTCTGATCTCCCCGAAAGAGTAGAGGAACAAATTCTTCTTATTTCAGATGTTGGCCTTCATGAAA
GAGTAGTGAAGCAAATCAATCTCGAGTATGATCTCCCCGAAAGAGTAGAGGAGCAGATTCTTCTT
ATGCAGATTTGGCCTTCCCGAAAGAGTAGTGAAG
Found at i:2219946 original size:76 final size:76
Alignment explanation
Indices: 2219820--2219966 Score: 231
Period size: 76 Copynumber: 1.9 Consensus size: 76
2219810 CTCATGTCAT
** * *
2219820 ATATTGGCCTTCATGAAAGAGTAGTGAAGCAAATCAATCTCGAGACTGATCTCCCCGGAATAGTA
1 ATATTGGCCTTCACAAAAGAGTAGTGAAGCAAATCAATCTCAAGACTGATCTCCCCGGAAGAGTA
2219885 GAGGAGTTCAG
66 GAGGAGTTCAG
** *
2219896 ATATTGGCCTTCACAAAAGAGTAGTGAAGCAAATCAATCTCAAGTGTGATCTCCCCTGAAGAGTA
1 ATATTGGCCTTCACAAAAGAGTAGTGAAGCAAATCAATCTCAAGACTGATCTCCCCGGAAGAGTA
2219961 GAGGAG
66 GAGGAG
2219967 CAGATTCTTC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (76 bp):
ATATTGGCCTTCACAAAAGAGTAGTGAAGCAAATCAATCTCAAGACTGATCTCCCCGGAAGAGTA
GAGGAGTTCAG
Found at i:2220037 original size:166 final size:166
Alignment explanation
Indices: 2219725--2220052 Score: 478
Period size: 166 Copynumber: 2.0 Consensus size: 166
2219715 TTCTTCTTTT
* *
2219725 TTCAGATGTTGGCCTTCAAGAAAGAGTAGTGAAGCAAATCAATCTCGAGTCTGATCTCCCCAAAA
1 TTCAGATATTGGCCTTCAAGAAAGAGTAGTGAAGCAAATCAATCTCAAGTCTGATCTCCCCAAAA
* * * * * * *
2219790 GAGTAGTGGAACAAATTCTTCTCATGTCATATATTGGCCTTCATGAAAGAGTAGTGAAGCAAATC
66 GAGTAGAGGAACAAATTCTTCTCATGTCAGATATTGACCTTCACGAAAGAATAGTAAAGAAAATC
* *
2219855 AATCTCGAGACTGATCTCCCCGGAATAGTAGAGGAG
131 AATCTCCAGACTGATCTCCCCGGAAGAGTAGAGGAG
* **
2219891 TTCAGATATTGGCCTTCACA-AAAGAGTAGTGAAGCAAATCAATCTCAAGTGTGATCTCCCCTGA
1 TTCAGATATTGGCCTTCA-AGAAAGAGTAGTGAAGCAAATCAATCTCAAGTCTGATCTCCCCAAA
* *
2219955 AGAGTAGAGGAGCAGATTCTTCTCATGTCAGATATTGACCTTCACGAAAGAATAGTAAAGAAAAT
65 AGAGTAGAGGAACAAATTCTTCTCATGTCAGATATTGACCTTCACGAAAGAATAGTAAAGAAAAT
* *
2220020 TAATCTCCAGTCTGATCTCCCCGGAAGAGTAGA
130 CAATCTCCAGACTGATCTCCCCGGAAGAGTAGA
2220053 AGAGCAGATT
Statistics
Matches: 143, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
166 142 0.99
167 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (166 bp):
TTCAGATATTGGCCTTCAAGAAAGAGTAGTGAAGCAAATCAATCTCAAGTCTGATCTCCCCAAAA
GAGTAGAGGAACAAATTCTTCTCATGTCAGATATTGACCTTCACGAAAGAATAGTAAAGAAAATC
AATCTCCAGACTGATCTCCCCGGAAGAGTAGAGGAG
Found at i:2220047 original size:90 final size:90
Alignment explanation
Indices: 2219892--2220155 Score: 348
Period size: 90 Copynumber: 2.9 Consensus size: 90
2219882 GTAGAGGAGT
* * * *
2219892 TCAGATATTGGCCTTCACAAAAGAGTAGTGAAGCAAATCAATCTCAAGTGTGATCTCCCCTGAAG
1 TCAGATATTGGCCTTCACGAAAGAGTAGTGAAGAAAATCAATCTCAAGTCTGATCTCCCCGGAAG
2219957 AGTAGAGGAGCAGATTCTTCTCATG
66 AGTAGAGGAGCAGATTCTTCTCATG
* * * * *
2219982 TCAGATATTGACCTTCACGAAAGAATAGTAAAGAAAATTAATCTCCAGTCTGATCTCCCCGGAAG
1 TCAGATATTGGCCTTCACGAAAGAGTAGTGAAGAAAATCAATCTCAAGTCTGATCTCCCCGGAAG
* * *
2220047 AGTAGAAGAGCAGATTCTTCTTATT
66 AGTAGAGGAGCAGATTCTTCTCATG
* * * * *
2220072 TCACATATTGGCCTTCACGAAAGAGTAGTGAAGGAAATCAATTTCAAGTTTGATCTCCCCGGAAT
1 TCAGATATTGGCCTTCACGAAAGAGTAGTGAAGAAAATCAATCTCAAGTCTGATCTCCCCGGAAG
* * *
2220137 AATAGAGGAACAAATTCTT
66 AGTAGAGGAGCAGATTCTT
2220156 TTTAATTATA
Statistics
Matches: 148, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 148 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (90 bp):
TCAGATATTGGCCTTCACGAAAGAGTAGTGAAGAAAATCAATCTCAAGTCTGATCTCCCCGGAAG
AGTAGAGGAGCAGATTCTTCTCATG
Found at i:2221192 original size:19 final size:21
Alignment explanation
Indices: 2221168--2221238 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 21
2221158 TGCAAAAATG
*
2221168 GTATCGATACCGTA-ATAG-A
1 GTATCGATACCATAGATAGTA
*
2221187 GTATCGGTACCATAGTATAGTA
1 GTATCGATACCATAG-ATAGTA
* **
2221209 GTATCGATACCAT-GTTAGGG
1 GTATCGATACCATAGATAGTA
2221229 GTATCGATAC
1 GTATCGATAC
2221239 TATTGAGCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 12 0.28
20 13 0.30
21 5 0.12
22 13 0.30
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (21 bp):
GTATCGATACCATAGATAGTA
Found at i:2221675 original size:54 final size:54
Alignment explanation
Indices: 2221563--2221768 Score: 290
Period size: 54 Copynumber: 3.8 Consensus size: 54
2221553 TACCAAATAA
*
2221563 GCACTAAGTGTGCAATTCACGGAATTCATCCATATGTTGATGAACAACCGTTTTG
1 GCACTAAGTGTGCAATTCACGAAATTCAT-CATATGTTGATGAACAACCGTTTTG
* * *
2221618 GCACTAAGTGTGTAATTCACGGAATTCATCATATGTTGATGAACAACCGTTTCG
1 GCACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAACAACCGTTTTG
*
2221672 GCACTAAGTGTGCAATTCAC-AACATTCATCATATGTTGATGAACAACCATTTTG
1 GCACTAAGTGTGCAATTCACGAA-ATTCATCATATGTTGATGAACAACCGTTTTG
* ** *
2221726 GCACTATGTGTGCAACCCACGAAATTCA-CAATATGTTTATGAA
1 GCACTAAGTGTGCAATTCACGAAATTCATC-ATATGTTGATGAA
2221769 TGATCGTATA
Statistics
Matches: 138, Mismatches: 10, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
53 2 0.01
54 106 0.77
55 30 0.22
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (54 bp):
GCACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAACAACCGTTTTG
Found at i:2221783 original size:108 final size:109
Alignment explanation
Indices: 2221563--2221793 Score: 297
Period size: 108 Copynumber: 2.1 Consensus size: 109
2221553 TACCAAATAA
* *
2221563 GCACTAAGTGTGCAATTCACGGAATTCATCCATATGTTGATGAACAACCGTTTTGGCACTAAGTG
1 GCACTAAGTGTGCAATTCACGAAATTCATCCATATGTTGATGAACAACCATTTTGGCACTAAGTG
* ** * * *
2221628 TGTAATTCACGGAATTCATCATATGTTGATGAACAACCGTTTCG
66 TGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAG
*
2221672 GCACTAAGTGTGCAATTCAC-AACATTCAT-CATATGTTGATGAACAACCATTTTGGCACTATGT
1 GCACTAAGTGTGCAATTCACGAA-ATTCATCCATATGTTGATGAACAACCATTTTGGCACTAAGT
* ** *
2221735 GTGCAACCCACGAAATTCA-CAATATGTTTATGAATGATCGTATAG
65 GTGCAACCCACGAAATTCATC-ATATGTTGATGAACAACCGTATAG
*
2221780 GCACTACGTGTGCA
1 GCACTAAGTGTGCA
2221794 TCGTAACGAA
Statistics
Matches: 106, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 79 0.75
109 26 0.25
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (109 bp):
GCACTAAGTGTGCAATTCACGAAATTCATCCATATGTTGATGAACAACCATTTTGGCACTAAGTG
TGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAG
Found at i:2222413 original size:81 final size:82
Alignment explanation
Indices: 2222278--2222466 Score: 254
Period size: 81 Copynumber: 2.3 Consensus size: 82
2222268 GGTGTTACAT
* * * *
2222278 ATCTCCCCTGAATGAATAGTGGAGCAGACCCGTCTTCCAAAATTGATCTCACTACCCAAAAAAGA
1 ATCTCCCCTGAATAAATAGTAGAGCAGACCCATCTTCCAAAATTGATCTAACTACCCAAAAAAGA
2222343 GGCA-AAAACAAGTCTC
66 GGCACAAAACAAGTCTC
* * *
2222359 ATCTCCCCTGAATAAATAGTAGAGTAGACCCATCTTCCAAAATTGATCTAACTACTCGAAAAAGA
1 ATCTCCCCTGAATAAATAGTAGAGCAGACCCATCTTCCAAAATTGATCTAACTACCCAAAAAAGA
* * *
2222424 GGCACGAATCAAGTCTG
66 GGCACAAAACAAGTCTC
* * *
2222441 ATCTCCCCTGAAAAAAGAGTGGAGCA
1 ATCTCCCCTGAATAAATAGTAGAGCA
2222467 TATTTCCCAT
Statistics
Matches: 93, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 62 0.67
82 31 0.33
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (82 bp):
ATCTCCCCTGAATAAATAGTAGAGCAGACCCATCTTCCAAAATTGATCTAACTACCCAAAAAAGA
GGCACAAAACAAGTCTC
Found at i:2222613 original size:3 final size:3
Alignment explanation
Indices: 2222594--2222636 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
2222584 TCTTGTTTAA
* *
2222594 TAT TAAT TAT TAG TAT TAT TAT TAT TATT TAG TAT TAT TAT TA
1 TAT T-AT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TA
2222637 AATAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
3 28 0.82
4 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:2222625 original size:19 final size:18
Alignment explanation
Indices: 2222594--2222636 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
2222584 TCTTGTTTAA
2222594 TATTAATTATTAGTATTAT
1 TATT-ATTATTAGTATTAT
2222613 TATTATTATTTAGTATTAT
1 TATTATTA-TTAGTATTAT
2222632 TATTA
1 TATTA
2222637 AATAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TATTATTATTAGTATTAT
Found at i:2225373 original size:81 final size:81
Alignment explanation
Indices: 2225261--2225460 Score: 210
Period size: 81 Copynumber: 2.5 Consensus size: 81
2225251 AGATACCAAA
* * * * *
2225261 CTATTGCGGCGTGTGTAAAAAAATGCCGCTAAAGTACAACTCTATCATGACATTAT-TGAAAAAC
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACAACTCTATCACGACATT-TGTGAAAAAA
2225325 A-CCACTAT-GAATGAAAC
65 AGCCACTATAG-AT-AAAC
* * * * *
2225342 CTATTGCGGCGTTTGTATAAAAACGCCGCT-AAGTTACTACTCTGTCACGGCGTTTGTTAAAAAA
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAG-TACAACTCTATCACGACATTTGTGAAAAAA
*
2225406 AGGCCACTATAGATTAAC
65 A-GCCACTATAGATAAAC
* *
2225424 CTATTGTGGCGTTTGTATACAAACGCCGCTAAAGTAC
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTAC
2225461 TACTTTTTCA
Statistics
Matches: 100, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
80 4 0.04
81 49 0.49
82 34 0.34
83 12 0.12
84 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (81 bp):
CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACAACTCTATCACGACATTTGTGAAAAAAA
GCCACTATAGATAAAC
Found at i:2225393 original size:41 final size:41
Alignment explanation
Indices: 2225348--2225503 Score: 135
Period size: 42 Copynumber: 3.8 Consensus size: 41
2225338 AAACCTATTG
2225348 CGGCGTTTGTATAAAAACGCCGCT-AAGTTACTACTCTGTCA
1 CGGCGTTTGTATAAAAACGCCGCTAAAGTTACTACT-TGTCA
* * * *
2225389 CGGCGTTTGTTAAAAAAAGGCCACTATAGATTAACCTA-TTGT--
1 CGGCGTTTG-TATAAAAACGCCGCTAAAG-TT-A-CTACTTGTCA
* *
2225431 -GGCGTTTGTATACAAACGCCGCTAAAG-TACTACTTTTTCA
1 CGGCGTTTGTATAAAAACGCCGCTAAAGTTACTAC-TTGTCA
* *
2225471 CGGCGTTTTGCATAAAAACGCTGCTAAAGTTAC
1 CGGCG-TTTGTATAAAAACGCCGCTAAAGTTAC
2225504 AAATTTATGG
Statistics
Matches: 90, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
36 3 0.03
37 1 0.01
38 4 0.04
40 14 0.16
41 21 0.23
42 32 0.36
43 5 0.06
44 5 0.06
45 2 0.02
46 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (41 bp):
CGGCGTTTGTATAAAAACGCCGCTAAAGTTACTACTTGTCA
Found at i:2230160 original size:22 final size:20
Alignment explanation
Indices: 2230135--2230185 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
2230125 TTTATCGTTG
*
2230135 AAATTAATATATTATATAAAAT
1 AAATTAAAATA-T-TATAAAAT
*
2230157 AAATAAAAATATTATAAAAT
1 AAATTAAAATATTATAAAAT
2230177 AATATTAAA
1 AA-ATTAAA
2230186 GTAAACTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 10 0.40
21 6 0.24
22 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATTAAAATATTATAAAAT
Found at i:2231542 original size:69 final size:69
Alignment explanation
Indices: 2231433--2231585 Score: 274
Period size: 69 Copynumber: 2.2 Consensus size: 69
2231423 ATTCTTCCTA
* *
2231433 TTATCAATATTTATATTAAGAAGCTAAAATATTTTCTATTATATTAGATTTATTTAATAATTTAT
1 TTATTAATATTTATATTAAGAAGCTAAAATATTTTCTATTATATTAGAATTATTTAATAATTTAT
2231498 TATT
66 TATT
2231502 TTATTAATATTTATATTAAGAAGCTAAAATATTTTCTATTATATTAGAATTATTTAATAATTTAT
1 TTATTAATATTTATATTAAGAAGCTAAAATATTTTCTATTATATTAGAATTATTTAATAATTTAT
2231567 TATT
66 TATT
2231571 TTATTAA-ATTT-TATT
1 TTATTAATATTTATATT
2231586 GTACTAATTT
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
67 4 0.05
68 4 0.05
69 74 0.90
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (69 bp):
TTATTAATATTTATATTAAGAAGCTAAAATATTTTCTATTATATTAGAATTATTTAATAATTTAT
TATT
Found at i:2238198 original size:42 final size:43
Alignment explanation
Indices: 2238151--2238246 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 43
2238141 TTCTTAAGGC
* *
2238151 TAGTATCGATACCCA-TCGAGGAGGGTATCGATACTGAGA-GGG
1 TAGTATCGATA-CCAGTCAAGGAGGGTATCGATACTGAAAGGGG
*
2238193 TAGTATCGATA-CAGTTAAGGAGGGTATCGATACTGAAAGGGG
1 TAGTATCGATACCAGTCAAGGAGGGTATCGATACTGAAAGGGG
2238235 TAGTATCGATAC
1 TAGTATCGATAC
2238247 TAGGGGATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
40 2 0.04
41 21 0.44
42 25 0.52
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (43 bp):
TAGTATCGATACCAGTCAAGGAGGGTATCGATACTGAAAGGGG
Found at i:2238240 original size:21 final size:21
Alignment explanation
Indices: 2238175--2238265 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
2238165 ATCGAGGAGG
*
2238175 GTATCGATACTGAGA-GGGTA
1 GTATCGATACTGAAAGGGGTA
* *
2238195 GTATCGATACAGTTAAGGAGG--
1 GTATCGATACTG-AAAGG-GGTA
2238216 GTATCGATACTGAAAGGGGTA
1 GTATCGATACTGAAAGGGGTA
2238237 GTATCGATACT---AGGGGATA
1 GTATCGATACTGAAAGGGG-TA
2238256 GTATCGATAC
1 GTATCGATAC
2238266 CATTTTTAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
18 5 0.08
19 14 0.23
20 15 0.25
21 23 0.38
22 1 0.02
23 2 0.03
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.25
Consensus pattern (21 bp):
GTATCGATACTGAAAGGGGTA
Found at i:2238727 original size:21 final size:21
Alignment explanation
Indices: 2238689--2238728 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2238679 TTTATTAAAG
2238689 TTATATTATACAAGTTATGTT
1 TTATATTATACAAGTTATGTT
2238710 TTATGATTATACAA-TTATG
1 TTAT-ATTATACAAGTTATG
2238729 GAAATGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (21 bp):
TTATATTATACAAGTTATGTT
Found at i:2238968 original size:23 final size:23
Alignment explanation
Indices: 2238915--2238968 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
2238905 TTGGGACAAA
*
2238915 TATGTGGCACTTCAGTGCAAAAC
1 TATGTGGTACTTCAGTGCAAAAC
2238938 TATGTGGTACTTCAGTGCAAAAC
1 TATGTGGTACTTCAGTGCAAAAC
2238961 TATGTGGT
1 TATGTGGT
2238969 CCATCAGGAT
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:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (23 bp):
TATGTGGTACTTCAGTGCAAAAC
Found at i:2238975 original size:23 final size:23
Alignment explanation
Indices: 2238915--2238975 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
2238905 TTGGGACAAA
* *
2238915 TATGTGGCACTTCAGTGCAAAAC
1 TATGTGGTACATCAGTGCAAAAC
*
2238938 TATGTGGTACTTCAGTGCAAAAC
1 TATGTGGTACATCAGTGCAAAAC
*
2238961 TATGTGGTCCATCAG
1 TATGTGGTACATCAG
2238976 GATAGTTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (23 bp):
TATGTGGTACATCAGTGCAAAAC
Found at i:2239110 original size:2 final size:2
Alignment explanation
Indices: 2239103--2239148 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
2239093 AGTTAAATAA
*
2239103 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2239145 AT AT
1 AT AT
2239149 CTTTGGGATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2245668 original size:21 final size:21
Alignment explanation
Indices: 2245621--2245671 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2245611 CGATTATGAA
*
2245621 AATGTAAACTTTGAACAAGTG
1 AATGTGAACTTTGAACAAGTG
* *
2245642 AATGTGAACTTTGAACCATTG
1 AATGTGAACTTTGAACAAGTG
2245663 AATGTGAAC
1 AATGTGAAC
2245672 AGACTCTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (21 bp):
AATGTGAACTTTGAACAAGTG
Found at i:2245830 original size:21 final size:21
Alignment explanation
Indices: 2245804--2245875 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
2245794 GTCGGGGTTT
*
2245804 TATGTGGTCTTTTGGGATAAA
1 TATGTGGTCTTTCGGGATAAA
* * *
2245825 TATGTGG-CACTTCGGTACAAAA
1 TATGTGGTC-TTTCGGGA-TAAA
*
2245847 CTATGTGGTCTTTCGGGATAAT
1 -TATGTGGTCTTTCGGGATAAA
2245869 TATGTGG
1 TATGTGG
2245876 CACTTTGGTG
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
20 1 0.03
21 19 0.49
22 5 0.13
23 13 0.33
24 1 0.03
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.38
Consensus pattern (21 bp):
TATGTGGTCTTTCGGGATAAA
Found at i:2245854 original size:44 final size:44
Alignment explanation
Indices: 2245804--2245889 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
2245794 GTCGGGGTTT
*
2245804 TATGTGGTCTTTTGGGATAAATATGTGGCACTTCGGTACAAAAC
1 TATGTGGTCTTTCGGGATAAATATGTGGCACTTCGGTACAAAAC
* * *
2245848 TATGTGGTCTTTCGGGATAATTATGTGGCACTTTGGTGCAAA
1 TATGTGGTCTTTCGGGATAAATATGTGGCACTTCGGTACAAA
2245890 TTACGAGCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (44 bp):
TATGTGGTCTTTCGGGATAAATATGTGGCACTTCGGTACAAAAC
Found at i:2250695 original size:36 final size:36
Alignment explanation
Indices: 2250595--2250715 Score: 134
Period size: 38 Copynumber: 3.2 Consensus size: 36
2250585 ATTTTTTTTG
* * *
2250595 ATATTTTCGGTTGAATTTAAAATATTACGAAGAATGTA
1 ATATTTTCGGTTCAA-TAAAAATATTATGAA-AATGTA
2250633 ATATTTTCGGTTGCTAATAAAAATATTATGAAAATGTA
1 ATATTTTCGGTT-C-AATAAAAATATTATGAAAATGTA
* * *
2250671 ATATTTTCTGTTCAATAAAAATATTAGTAAAAAATCTA
1 ATATTTTCGGTTCAATAAAAATATTA-T-GAAAATGTA
2250709 ATATTTT
1 ATATTTT
2250716 AGATTACACT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
36 13 0.18
37 2 0.03
38 43 0.59
39 13 0.18
40 2 0.03
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (36 bp):
ATATTTTCGGTTCAATAAAAATATTATGAAAATGTA
Found at i:2278423 original size:194 final size:195
Alignment explanation
Indices: 2278089--2278474 Score: 498
Period size: 194 Copynumber: 2.0 Consensus size: 195
2278079 GGTTGACTAC
*
2278089 AAATGTAAGGGTAAGCTTTGATACCTCAGAAAAAAAAATGTCAAGGTTGGGTCTTTTGATATTGA
1 AAATGTAAGGGTAAGCTTTGATACCTCAGAAAAAAAAATGTCAAGGTTGAGTCTTTTGATATTGA
* * *
2278154 TCGTAGAGATGATTTCAGTGAAAAATCAAGGGATTGTATTTTGACTTAGGTAGGATATGAAATGT
66 TCGTAGACA-GATTTCAGTG-AAAATCAAGGGATTGTATTTCGACTTAGGTAGGATATAAAATGT
* * * * * ** **
2278219 CTAGTCTCTTCCCTTGTCAAAAGGTCTATAACCATGTTCCTTAAAGGACATTTCGTTACCTAATG
129 CTAATCTCTTCACTTGAC-AAAGGCCTATAACCATGATCCTTAAAAAACATTTAATTACCTAATG
2278284 TTT
193 TTT
* * *
2278287 AAATGT-AGGGTAAGCTTTTGAT-CCTCATAAACGAAAAATGTCAAGGTTGAGTCTTTTG-TGTT
1 AAATGTAAGGGTAAGC-TTTGATACCTCAGAAA-AAAAAATGTCAAGGTTGAGTCTTTTGATATT
2278349 GATCGTAGACA-ATTTCAAGTG-AAATCAAGGGATTGTATTTCGACTTAGG-ATGAGATATAAAA
64 GATCGTAGACAGATTTC-AGTGAAAATCAAGGGATTGTATTTCGACTTAGGTA-G-GATATAAAA
*
2278411 T-TCTAATCTCTTCACTTGACAAAGGCCTATAATCATGATCCTTAAAAAACATTTAATTACCTAA
126 TGTCTAATCTCTTCACTTGACAAAGGCCTATAACCATGATCCTTAAAAAACATTTAATTACCTAA
2278475 CATTCAAAGA
Statistics
Matches: 166, Mismatches: 17, Indels: 15
0.84 0.09 0.08
Matches are distributed among these distances:
193 38 0.23
194 44 0.27
195 14 0.08
196 4 0.02
197 30 0.18
198 36 0.22
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (195 bp):
AAATGTAAGGGTAAGCTTTGATACCTCAGAAAAAAAAATGTCAAGGTTGAGTCTTTTGATATTGA
TCGTAGACAGATTTCAGTGAAAATCAAGGGATTGTATTTCGACTTAGGTAGGATATAAAATGTCT
AATCTCTTCACTTGACAAAGGCCTATAACCATGATCCTTAAAAAACATTTAATTACCTAATGTTT
Found at i:2286101 original size:7 final size:7
Alignment explanation
Indices: 2286089--2286119 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
2286079 AAATAATATA
2286089 TATAAAG
1 TATAAAG
2286096 TATAAAG
1 TATAAAG
2286103 TATAAAG
1 TATAAAG
2286110 TATAAAG
1 TATAAAG
2286117 TAT
1 TAT
2286120 TGATATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (7 bp):
TATAAAG
Found at i:2286842 original size:75 final size:75
Alignment explanation
Indices: 2286747--2286955 Score: 221
Period size: 75 Copynumber: 2.8 Consensus size: 75
2286737 ATATATATAA
* * *
2286747 AAATCATAA-A-T-AAA-GTCAAATATCAATATTCAAACCACAATATTAAGTTTAGAACAGTAAA
1 AAATCATAATATTAAAATGTCAAATATCAAGATTCAAACCACAATATTAAGTCTAGAACAATAAA
*
2286808 ATCCATAAAC
66 ATACATAAAC
* * * * *
2286818 AAA-CTATAATATTAAAATGTCAAATTTCAAGATTCAAACTACAATATTAACTCTATAATAATAA
1 AAATC-ATAATATTAAAATGTCAAATATCAAGATTCAAACCACAATATTAAGTCTAGAACAATAA
**
2286882 AATACATAATT
65 AATACATAAAC
* * * * * *
2286893 AAATCATAATATTAAAGTGTCAAATCTTAAGACTCAAACCATAATATTAAGTCTAGAAAAATA
1 AAATCATAATATTAAAATGTCAAATATCAAGATTCAAACCACAATATTAAGTCTAGAACAATA
2286956 TTAAACTCAA
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
70 1 0.01
71 7 0.06
72 1 0.01
73 1 0.01
74 3 0.03
75 98 0.88
76 1 0.01
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.29
Consensus pattern (75 bp):
AAATCATAATATTAAAATGTCAAATATCAAGATTCAAACCACAATATTAAGTCTAGAACAATAAA
ATACATAAAC
Found at i:2288466 original size:13 final size:13
Alignment explanation
Indices: 2288450--2288482 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2288440 TTTATTTTCT
*
2288450 TTTTTAAATTTTG
1 TTTTCAAATTTTG
2288463 TTTTCAAATTTTG
1 TTTTCAAATTTTG
2288476 TTTTCAA
1 TTTTCAA
2288483 TAGTTATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (13 bp):
TTTTCAAATTTTG
Found at i:2289039 original size:5 final size:5
Alignment explanation
Indices: 2289029--2289091 Score: 56
Period size: 5 Copynumber: 11.8 Consensus size: 5
2289019 GTTTCCCTTT
*
2289029 TTTTA TTTTA TTTTT TTTTA TCTTTA TTTTCCTA CTTTT- TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA T-TTTA -TTT--TA -TTTTA TTTTA TTTTA
*
2289078 TTCTA TTTTA TTTT
1 TTTTA TTTTA TTTT
2289092 CTCTTTTAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
4 4 0.08
5 31 0.65
6 7 0.15
7 1 0.02
8 5 0.10
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:2289049 original size:39 final size:39
Alignment explanation
Indices: 2289006--2289091 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 39
2288996 ACTATTATTA
* *
2289006 TTTATTTTATTATGTTTCC-C-TTTTTTTATTTTATTTTTT
1 TTTATTTT-TTAT-TTTCCACTTTTTTTTATTTTATTCTAT
*
2289045 TTTA-TCTTTATTTTCCTACTTTTTTTTATTTTATTCTAT
1 TTTATTTTTTATTTTCC-ACTTTTTTTTATTTTATTCTAT
2289084 TTTATTTT
1 TTTATTTT
2289092 CTCTTTTAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
36 5 0.13
37 4 0.10
38 3 0.08
39 25 0.64
40 2 0.05
ACGTcount: A:0.14, C:0.09, G:0.01, T:0.76
Consensus pattern (39 bp):
TTTATTTTTTATTTTCCACTTTTTTTTATTTTATTCTAT
Found at i:2298443 original size:18 final size:18
Alignment explanation
Indices: 2298401--2298443 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2298391 CTTTAGATTA
*
2298401 TTTATTGAATTATTTTCT
1 TTTATTTAATTATTTTCT
2298419 TTTATTTAATT-TTTATCT
1 TTTATTTAATTATTT-TCT
2298437 TTTATTT
1 TTTATTT
2298444 TAAAAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTTTCT
Done.