Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 82 of 97
Found at i:32393187 original size:109 final size:110
Alignment explanation
Indices: 32393069--32393268 Score: 285
Period size: 109 Copynumber: 1.8 Consensus size: 110
32393059 ATAGCTCTAA
* * *
32393069 CTTAATTTTAAAAGCTATTATCTTTCATAAGAGCTTTATAATAGCTTTTAAATT-AAAAAAAGTT
1 CTTAATTTTAAAAACTATTATCTTTCATAAGAGCTTTATAATAACTTTTAAATTAAAAAAAAATT
* *
32393133 AGGCCAAACAGGCTTTTAATAAGCTTGCTTAGCAAACAACTTTAG
66 AGACCAAACAGGCTCTTAATAAGCTTGCTTAGCAAACAACTTTAG
* * * * *
32393178 CTTAATTTTAAAAATTATTATTTTTCGTAAGAGTTTTATAATAACTTTTAAGTTAAAAAAAAATT
1 CTTAATTTTAAAAACTATTATCTTTCATAAGAGCTTTATAATAACTTTTAAATTAAAAAAAAATT
* *
32393243 AGACCAAACGGGCTCTTAATGAGCTT
66 AGACCAAACAGGCTCTTAATAAGCTT
32393269 TGTTTTTAAG
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
109 47 0.60
110 31 0.40
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (110 bp):
CTTAATTTTAAAAACTATTATCTTTCATAAGAGCTTTATAATAACTTTTAAATTAAAAAAAAATT
AGACCAAACAGGCTCTTAATAAGCTTGCTTAGCAAACAACTTTAG
Found at i:32393291 original size:18 final size:18
Alignment explanation
Indices: 32393268--32393306 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
32393258 TTAATGAGCT
32393268 TTGTTTTTAAGGTGTTTC
1 TTGTTTTTAAGGTGTTTC
32393286 TTGTTTTTAAGGTGTTTC
1 TTGTTTTTAAGGTGTTTC
32393304 TTG
1 TTG
32393307 ATAAGTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.05, G:0.23, T:0.62
Consensus pattern (18 bp):
TTGTTTTTAAGGTGTTTC
Found at i:32393480 original size:58 final size:60
Alignment explanation
Indices: 32393400--32393519 Score: 190
Period size: 58 Copynumber: 2.0 Consensus size: 60
32393390 AGGGAGCAGA
* * * *
32393400 TTCAAACCTTTAACCTTTGTTAGTTCTTGTAAGTTGTAAGGATCAAGAAGGTTGGATTGG
1 TTCAAACCTTTAACCCTAGTTAGTTCTTATAAGTTGTAAGGATCAAGAAGGTTAGATTGG
32393460 TTCAAA-C-TTAACCCTAGTTAGTTCTTATAAGTTGTAAGGATCAAGAAGGTTAGATTGG
1 TTCAAACCTTTAACCCTAGTTAGTTCTTATAAGTTGTAAGGATCAAGAAGGTTAGATTGG
32393518 TT
1 TT
32393520 TGTTTAATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
58 49 0.88
59 1 0.02
60 6 0.11
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.38
Consensus pattern (60 bp):
TTCAAACCTTTAACCCTAGTTAGTTCTTATAAGTTGTAAGGATCAAGAAGGTTAGATTGG
Found at i:32393915 original size:20 final size:20
Alignment explanation
Indices: 32393887--32393925 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
32393877 TATTTTTTTA
32393887 ATTACTATTATATATTTAAAT
1 ATTACTATTATA-ATTTAAAT
32393908 ATTA-TATTATAATTTAAA
1 ATTACTATTATAATTTAAA
32393926 GGTAAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTACTATTATAATTTAAAT
Found at i:32394016 original size:15 final size:16
Alignment explanation
Indices: 32393996--32394028 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
32393986 ACAATAACGT
32393996 TAATGTTAAT-TTACA
1 TAATGTTAATGTTACA
32394011 TAATGTTAATGTTACA
1 TAATGTTAATGTTACA
32394027 TA
1 TA
32394029 TTAATGTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (16 bp):
TAATGTTAATGTTACA
Found at i:32394436 original size:14 final size:14
Alignment explanation
Indices: 32394410--32394458 Score: 73
Period size: 14 Copynumber: 3.6 Consensus size: 14
32394400 ATATTATATG
*
32394410 AATTTTT-ACATTT
1 AATTTTTAAAATTT
32394423 AATTTTTAAAATTT
1 AATTTTTAAAATTT
*
32394437 AATTTTTAAAAGTT
1 AATTTTTAAAATTT
32394451 AATTTTTA
1 AATTTTTA
32394459 CTATAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
13 7 0.21
14 26 0.79
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (14 bp):
AATTTTTAAAATTT
Found at i:32394775 original size:30 final size:30
Alignment explanation
Indices: 32394741--32394797 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
32394731 AAACAAGCTC
* *
32394741 TTATACCTTTGTTTTGATTCAAATAAATTT
1 TTATACCTTTATTTTGAGTCAAATAAATTT
**
32394771 TTATATTTTTATTTTGAGTCAAATAAA
1 TTATACCTTTATTTTGAGTCAAATAAA
32394798 CTGTTATAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (30 bp):
TTATACCTTTATTTTGAGTCAAATAAATTT
Found at i:32400009 original size:27 final size:27
Alignment explanation
Indices: 32399979--32400042 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
32399969 GTAAAGTATG
*
32399979 AAAAAATAATAATAAGAAATAAAATAA
1 AAAAAATAATAATAAAAAATAAAATAA
* *
32400006 AAAATATGATAATAAAAAATAAAATAA
1 AAAAAATAATAATAAAAAATAAAATAA
*
32400033 AAATAATAAT
1 AAAAAATAAT
32400043 TAAATAATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (27 bp):
AAAAAATAATAATAAAAAATAAAATAA
Found at i:32400010 original size:12 final size:13
Alignment explanation
Indices: 32399979--32400055 Score: 88
Period size: 12 Copynumber: 5.9 Consensus size: 13
32399969 GTAAAGTATG
32399979 AAAAAATAATAAT
1 AAAAAATAATAAT
*
32399992 AAGAAATAA-AAT
1 AAAAAATAATAAT
32400004 AAAAAATATGATAAT
1 AAAAAATA--ATAAT
32400019 AAAAAATAA-AAT
1 AAAAAATAATAAT
32400031 -AAAAATAATAATT
1 AAAAAATAATAA-T
*
32400044 AAATAATAATAA
1 AAAAAATAATAA
32400056 ATGACAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
11 8 0.15
12 15 0.27
13 10 0.18
14 11 0.20
15 11 0.20
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AAAAAATAATAAT
Found at i:32400050 original size:32 final size:31
Alignment explanation
Indices: 32399985--32400076 Score: 86
Period size: 32 Copynumber: 3.0 Consensus size: 31
32399975 TATGAAAAAA
*
32399985 TAATAATAAGAAATAAAAT-AAAA-AAT-A-
1 TAATAATAAAAAATAAAATAAAAATAATAAT
*
32400012 TGATAATAAAAAATAAAATAAAAATAATAAT
1 TAATAATAAAAAATAAAATAAAAATAATAAT
* *
32400043 TAAATAATAATAAATGACAA-AAAAATAGATAAT
1 T-AATAATAAAAAAT-AAAATAAAAATA-ATAAT
32400076 T
1 T
32400077 GCATTAGCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
27 17 0.32
28 4 0.08
29 3 0.06
30 1 0.02
31 1 0.02
32 18 0.34
33 9 0.17
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (31 bp):
TAATAATAAAAAATAAAATAAAAATAATAAT
Found at i:32403266 original size:18 final size:17
Alignment explanation
Indices: 32403244--32403284 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
32403234 AAATGAAACA
*
32403244 AAAAAAAAATATAAAAT
1 AAAAAAAAAGATAAAAT
32403261 ACAAAAAAAAGATAAAAT
1 A-AAAAAAAAGATAAAAT
32403279 AAAAAA
1 AAAAAA
32403285 TGATGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (17 bp):
AAAAAAAAAGATAAAAT
Found at i:32406846 original size:17 final size:18
Alignment explanation
Indices: 32406813--32406847 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32406803 CATGAAGATT
*
32406813 GAAAAAATGAATGATGAA
1 GAAAAAATGAATAATGAA
32406831 GAAAAAATGAA-AATGAA
1 GAAAAAATGAATAATGAA
32406848 AATTGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (18 bp):
GAAAAAATGAATAATGAA
Found at i:32407374 original size:85 final size:84
Alignment explanation
Indices: 32407226--32407382 Score: 233
Period size: 85 Copynumber: 1.9 Consensus size: 84
32407216 ACAATCAATC
* *
32407226 AAAAAAAAAAAGTAAGTGAGAAAGATGAAGCTTTAGGATGAAAACCCGAAAGGGCAATCTAGAGC
1 AAAAAAAAAAAGTAAGTGAAAAAGATGAAGCTCTAGGATGAAAACCCGAAAGGGCAATCTAGAGC
*
32407291 GGAGATGAAAAAAAAAAAG
66 GAAGATGAAAAAAAAAAAG
* * * * *
32407310 AAAAGAAAAAAAGTGAGTGAAAAAGATGAAGCTCTAGGGTGAAAACTCGAAAGGGCAGTTTAGAG
1 AAAA-AAAAAAAGTAAGTGAAAAAGATGAAGCTCTAGGATGAAAACCCGAAAGGGCAATCTAGAG
32407375 CGAAGATG
65 CGAAGATG
32407383 GGAATTTATG
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 4 0.06
85 60 0.94
ACGTcount: A:0.51, C:0.08, G:0.27, T:0.13
Consensus pattern (84 bp):
AAAAAAAAAAAGTAAGTGAAAAAGATGAAGCTCTAGGATGAAAACCCGAAAGGGCAATCTAGAGC
GAAGATGAAAAAAAAAAAG
Found at i:32408798 original size:142 final size:142
Alignment explanation
Indices: 32408524--32409199 Score: 989
Period size: 142 Copynumber: 4.8 Consensus size: 142
32408514 ACATTTCAGA
*
32408524 TAATTAATGTCCAGA-TTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAAT
1 TAATTAATGTCAAGATTTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAAT
* * *
32408588 CCTCCGGGTACATTCTAAAGACCTCCGGCCACATTATTCAT-TTAAATCCTCTGAGTGCAT-TTT
66 CCTCCGGGTACATTCTGAAGACCTCCGGGCACATTATTC-TCTTAAATCCTCTGGGTGCATCTTT
**
32408651 CTAAAACCTCTAGG
130 -TAAAACCTCCGGG
* * * *
32408665 TAATTAGTGTCAAGATTTTTTAAAGTTACGTTGCCTCAGTTTTCCAAGAGCCACATTTCTTAAAT
1 TAATTAATGTCAAGATTTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAAT
** * * * * *
32408730 CCTCCAAGTACATTATGAAGACCTCCGGGCACATTATTCTCTTAAACCCTCCGGGAGCATCTCTT
66 CCTCCGGGTACATTCTGAAGACCTCCGGGCACATTATTCTCTTAAATCCTCTGGGTGCATCTTTT
32408795 AAAACCTCCGGG
131 AAAACCTCCGGG
* * * * *
32408807 TAATTAGTGTCAAGATTTTTTAAAGTTACATTGCCTCAATTTTCAAGGAGCCACAATTCCTAAAT
1 TAATTAATGTCAAGATTTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAAT
* *
32408872 CCTCCGAGTACATTCTGAAGACCTCTGGGCACATTATTCTCTTAAATCCTCTGGGTGCATCTTTT
66 CCTCCGGGTACATTCTGAAGACCTCCGGGCACATTATTCTCTTAAATCCTCTGGGTGCATCTTTT
*
32408937 AAAATCTCCGGG
131 AAAACCTCCGGG
*
32408949 TAATTAATGTCAAGATTTTTTAAAGTTACGTTGCCTCAGTGTTCGAGGAGCCACATTTCCTAAAT
1 TAATTAATGTCAAGATTTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAAT
* * * *
32409014 ACTCCGGGTACATTATGAAGACCTCCGGGCATATTATTCTCTTAAATCCTCTGTGTGCATCTTTT
66 CCTCCGGGTACATTCTGAAGACCTCCGGGCACATTATTCTCTTAAATCCTCTGGGTGCATCTTTT
*
32409079 AAAACTTCCGGG
131 AAAACCTCCGGG
* *
32409091 TAACTAATGTCAAGATTTTTTAAAGTTACATTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAAT
1 TAATTAATGTCAAGATTTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAAT
* * *
32409156 CCTCCGGATACCTTCTGAAGACCTCCGGGTACATTATTCTCTTA
66 CCTCCGGGTACATTCTGAAGACCTCCGGGCACATTATTCTCTTA
32409200 TAACCTTCGG
Statistics
Matches: 478, Mismatches: 54, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
141 14 0.03
142 462 0.97
143 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (142 bp):
TAATTAATGTCAAGATTTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAAT
CCTCCGGGTACATTCTGAAGACCTCCGGGCACATTATTCTCTTAAATCCTCTGGGTGCATCTTTT
AAAACCTCCGGG
Found at i:32409295 original size:38 final size:38
Alignment explanation
Indices: 32409232--32409377 Score: 172
Period size: 38 Copynumber: 3.9 Consensus size: 38
32409222 AAGGTTTTTT
* **
32409232 AAGTTTCGTTGCCTCAA-TTT--TGAGTTTGTTTTTAA
1 AAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTTAA
* * *
32409267 AAGTGTCGTTGCCTCAATTTTGAGGAGTTCCTTTTTAA
1 AAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTTAA
* *
32409305 AAGTTTCGTTGCCTCAACTTTAAGGAATTCATTTTTAA
1 AAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTTAA
* *
32409343 AAGTTTTCATTGCCTCAACTTTGAAGAGTTCATTT
1 AAG-TTTCGTTGCCTCAACTTTGAGGAGTTCATTT
32409378 AATAAAAAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
35 16 0.17
36 3 0.03
38 48 0.51
39 27 0.29
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (38 bp):
AAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTTAA
Found at i:32410847 original size:17 final size:17
Alignment explanation
Indices: 32410825--32410863 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
32410815 GAGAATATAG
*
32410825 AAATAATAAAGAATAA-A
1 AAATAAAAAAG-ATAATA
32410842 AAATAAAAAAGATAATA
1 AAATAAAAAAGATAATA
32410859 AAATA
1 AAATA
32410864 TTTTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (17 bp):
AAATAAAAAAGATAATA
Found at i:32411316 original size:14 final size:13
Alignment explanation
Indices: 32411306--32411361 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
32411296 AAAAAATTAC
32411306 TAAATAAAAATAA
1 TAAATAAAAATAA
*
32411319 TAAATAAATAACAA
1 TAAATAAA-AATAA
* *
32411333 TAGATAAAAAATTA
1 TAAAT-AAAAATAA
*
32411347 TAAA-AATAATAA
1 TAAATAAAAATAA
32411359 TAA
1 TAA
32411362 TAATTCAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
12 9 0.26
13 8 0.24
14 14 0.41
15 3 0.09
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (13 bp):
TAAATAAAAATAA
Found at i:32411328 original size:17 final size:17
Alignment explanation
Indices: 32411306--32411358 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
32411296 AAAAAATTAC
32411306 TAAATAAAAATAATAAA
1 TAAATAAAAATAATAAA
*
32411323 TAAATAACAATAGATAAA
1 TAAATAAAAATA-ATAAA
*
32411341 AAATTATAAAAATAATAA
1 TAA--ATAAAAATAATAA
32411359 TAATAATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 11 0.37
18 7 0.23
19 4 0.13
20 8 0.27
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (17 bp):
TAAATAAAAATAATAAA
Found at i:32411668 original size:12 final size:12
Alignment explanation
Indices: 32411638--32411703 Score: 73
Period size: 12 Copynumber: 5.2 Consensus size: 12
32411628 GTAAAGTATG
32411638 AAAAATAATAAT
1 AAAAATAATAAT
32411650 AAGAAATAA-AAT
1 AA-AAATAATAAT
32411662 AGAAAATATGATAAT
1 A-AAAATA--ATAAT
32411677 AAAATATAA-AAT
1 AAAA-ATAATAAT
32411689 AAAAATAATAAT
1 AAAAATAATAAT
32411701 AAA
1 AAA
32411704 TGATAAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
11 4 0.09
12 24 0.51
13 8 0.17
14 4 0.09
15 7 0.15
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:32411714 original size:27 final size:26
Alignment explanation
Indices: 32411638--32411716 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 26
32411628 GTAAAGTATG
32411638 AAAAATAATAAT-AAGA-AATAAAAT
1 AAAAATAATAATAAAGATAATAAAAT
32411662 AGAAAATATGATAATAAA-AT-ATAAAAT
1 A-AAAATA--ATAATAAAGATAATAAAAT
*
32411689 AAAAATAATAATAAATGATAAAAAAAT
1 AAAAATAATAATAAA-GATAATAAAAT
32411716 A
1 A
32411717 GATAATTACA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
24 9 0.20
25 6 0.13
26 8 0.17
27 21 0.46
28 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (26 bp):
AAAAATAATAATAAAGATAATAAAAT
Found at i:32413448 original size:24 final size:24
Alignment explanation
Indices: 32413386--32413450 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
32413376 AGGGCATAGG
*
32413386 AAAAAAGAGA-A-AAA-TGAAAGA
1 AAAAAAGAGATAGAAAGAGAAAGA
* *
32413407 AAAAGAGAGGTAGAAAGAGAAAGA
1 AAAAAAGAGATAGAAAGAGAAAGA
* *
32413431 AAAAAATAGATAGGAAGAGA
1 AAAAAAGAGATAGAAAGAGA
32413451 CTCGTGTGCA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 8 0.24
22 1 0.03
23 3 0.09
24 22 0.65
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (24 bp):
AAAAAAGAGATAGAAAGAGAAAGA
Found at i:32413586 original size:160 final size:159
Alignment explanation
Indices: 32413321--32413673 Score: 526
Period size: 160 Copynumber: 2.2 Consensus size: 159
32413311 TTATTTATAA
** * *
32413321 TCTATAACATACTTAAAAAAAAGCCCCAAAGGGGCTTCCTCTTCTAGCCACGTGGAGGGCATAGG
1 TCTATAACATACTTAAAAGGAAG-CCCAAAGGGGCTTCCTCCTCTAGCCACATGGAGGGCATAGG
* * *
32413386 AAAAAAGAGAAAAATGAAAGAAAAAGAGAGGTAGAAAGAGAAAGAAAAAAATAGATAGGAAGAGA
65 AAAAAAGAGAAAAAGGAAAGAAAAAGAGAGGTACAAAGAGAAAGAAAAAAATAGATAGAAAGAGA
*
32413451 CTCGTGTGCAACACATGGGCCATAGTCTAG
130 CTCGTGTGCAACACACGGGCCATAGTCTAG
*
32413481 TCTATAACATACTTAAAAGGAAGCCTCAAAGGGGCTTCCTCCTCTAGCCACATGGAGGGTATAGG
1 TCTATAACATACTTAAAAGGAAGCC-CAAAGGGGCTTCCTCCTCTAGCCACATGGAGGGCATAGG
* *
32413546 AAAAAAGAGAAAAAGGGAAGAAAAAGAGAGGTACAAAGAGAAAGAAAAAAATAGATAGAAAGAGG
65 AAAAAAGAGAAAAAGGAAAGAAAAAGAGAGGTACAAAGAGAAAGAAAAAAATAGATAGAAAGAGA
* * * *
32413611 TTTGTGTGCAACGCACGGGCCATAGTTTAG
130 CTCGTGTGCAACACACGGGCCATAGTCTAG
**
32413641 TCTATAACATAAGTAAAAGGAAGTCCCAAAGGG
1 TCTATAACATACTTAAAAGGAAG-CCCAAAGGG
32413674 CCTTTCTCAT
Statistics
Matches: 174, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
159 2 0.01
160 170 0.98
161 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.16
Consensus pattern (159 bp):
TCTATAACATACTTAAAAGGAAGCCCAAAGGGGCTTCCTCCTCTAGCCACATGGAGGGCATAGGA
AAAAAGAGAAAAAGGAAAGAAAAAGAGAGGTACAAAGAGAAAGAAAAAAATAGATAGAAAGAGAC
TCGTGTGCAACACACGGGCCATAGTCTAG
Found at i:32416956 original size:28 final size:28
Alignment explanation
Indices: 32416923--32416985 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
32416913 TAAGTTTTGA
32416923 TCGAAATTATATAGAAGTTTATTAGTTT
1 TCGAAATTATATAGAAGTTTATTAGTTT
* *
32416951 TCGAAATTATGTAGAGGTTTATTAGTTT
1 TCGAAATTATATAGAAGTTTATTAGTTT
32416979 TCGAAAT
1 TCGAAAT
32416986 GGATACTCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.44
Consensus pattern (28 bp):
TCGAAATTATATAGAAGTTTATTAGTTT
Found at i:32418009 original size:90 final size:92
Alignment explanation
Indices: 32417890--32418099 Score: 241
Period size: 94 Copynumber: 2.3 Consensus size: 92
32417880 CTTTCATATC
* * * *** *
32417890 ATTTTTTAATATTAAATGTAATTAATATAAAG-G-TACATAT-TTGCTAGCTAAAGATAAGG-TT
1 ATTTTTCAATGTTAAATGTAACTAATATAAAGTGATACATATAAAACTAGCTAAAAAT-AGGATT
* *
32417951 TGTGAGAG-ATTAAGTTACAATATATTCT
65 T-TGAGAGAATTAAGTTACAACATATTAT
*
32417979 ATTTTTCAAGTGTTAAATGTAACTAATATAAAGTGATGCATATCAAAACTAGCTAAAAATAGGAT
1 ATTTTTCAA-TGTTAAATGTAACTAATATAAAGTGATACATAT-AAAACTAGCTAAAAATAGGAT
*
32418044 TTTGAGAGAAATTAAGTTACTACATATTAT
64 TTTGAGAG-AATTAAGTTACAACATATTAT
32418074 ATTTTTCAATGTTAAATGTAACTAAT
1 ATTTTTCAATGTTAAATGTAACTAAT
32418100 GAAGAGTGGT
Statistics
Matches: 102, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
89 8 0.08
90 21 0.21
91 1 0.01
92 6 0.06
93 9 0.09
94 31 0.30
95 26 0.25
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (92 bp):
ATTTTTCAATGTTAAATGTAACTAATATAAAGTGATACATATAAAACTAGCTAAAAATAGGATTT
TGAGAGAATTAAGTTACAACATATTAT
Found at i:32427585 original size:18 final size:17
Alignment explanation
Indices: 32427562--32427595 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
32427552 GAAGATCAAT
32427562 GACAAAGAAAAAAGAAAA
1 GACAAA-AAAAAAGAAAA
*
32427580 GACAAAATAAAAGAAA
1 GACAAAAAAAAAGAAA
32427596 TTCAAACCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (17 bp):
GACAAAAAAAAAGAAAA
Found at i:32428261 original size:146 final size:147
Alignment explanation
Indices: 32428057--32428342 Score: 409
Period size: 146 Copynumber: 2.0 Consensus size: 147
32428047 TACCAATTAC
* *
32428057 AGACAAATAATTAAATAATGTATTTTGATAAATCTAGAATTACTTGGGCTTAAGGTTTAGTTTA-
1 AGACAAATAATTAAATAATGTATTTTGATAAATCTAGAATTACTTGCGATTAAGGTTTAGTTTAG
* * **
32428121 AGTTGCACAGTGACAAGGCTACAAGGCCCAACATCTAAAATTGCACCAATTGTCACTGTTTCACG
66 A-TTGCACAGTAACAAGGCTACAAGACCCAACATCTAAAATTGCACCAATCATCACTGTTTCACG
32428186 AATGAAAGGAATCATTTT
130 AATGAAAGGAATCATTTT
*
32428204 AGACAAATAATTAAA-AAT-TCATTTT-ATAAATTTTAGAATTACTTGCGATTAAGGTTTAGTTT
1 AGACAAATAATTAAATAATGT-ATTTTGATAAA-TCTAGAATTACTTGCGATTAAGGTTTAGTTT
* * * * *
32428266 AGATTGCATAGTAATAAGGCTACAAGACCCAACATGTAAAATTGCACTAATCATCACTGTTTCAT
64 AGATTGCACAGTAACAAGGCTACAAGACCCAACATCTAAAATTGCACCAATCATCACTGTTTCAC
32428331 GAATGAAAGGAA
129 GAATGAAAGGAA
32428343 GCATATAAAG
Statistics
Matches: 124, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
145 6 0.05
146 102 0.82
147 16 0.13
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (147 bp):
AGACAAATAATTAAATAATGTATTTTGATAAATCTAGAATTACTTGCGATTAAGGTTTAGTTTAG
ATTGCACAGTAACAAGGCTACAAGACCCAACATCTAAAATTGCACCAATCATCACTGTTTCACGA
ATGAAAGGAATCATTTT
Found at i:32430768 original size:26 final size:26
Alignment explanation
Indices: 32430738--32430789 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
32430728 GGTTGAAATA
32430738 TTTAATTAATT-TACAAA-TAAATAATC
1 TTTAATT-ATTAT-CAAATTAAATAATC
32430764 TTTAATTATTATCAAATTAAATAATC
1 TTTAATTATTATCAAATTAAATAATC
32430790 AAGTTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTAATTATTATCAAATTAAATAATC
Found at i:32431331 original size:17 final size:18
Alignment explanation
Indices: 32431291--32431332 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
32431281 AAAAGAAAAG
32431291 ATAAAAATAAATAAATGA
1 ATAAAAATAAATAAATGA
* *
32431309 AT-AAAAT-AATTAATTA
1 ATAAAAATAAATAAATGA
32431325 ATAAAAAT
1 ATAAAAAT
32431333 CTATATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
ATAAAAATAAATAAATGA
Found at i:32439850 original size:3 final size:3
Alignment explanation
Indices: 32439842--32439883 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
32439832 TATATATTCT
*
32439842 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32439884 GAAAATCATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32450900 original size:21 final size:21
Alignment explanation
Indices: 32450863--32450902 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
32450853 AAATGCCATG
*
32450863 AAGAAATGAACAGAGAAAATA
1 AAGAAATAAACAGAGAAAATA
32450884 AAGAAATAAAACA-AGAAAA
1 AAGAAAT-AAACAGAGAAAA
32450903 AGATCGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.72, C:0.05, G:0.15, T:0.07
Consensus pattern (21 bp):
AAGAAATAAACAGAGAAAATA
Found at i:32452949 original size:16 final size:17
Alignment explanation
Indices: 32452920--32452954 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
32452910 ACAGATTATC
*
32452920 AAAATAAAAGAAAAGAA
1 AAAAGAAAAGAAAAGAA
32452937 AAAAGAAAA-AAAAGAA
1 AAAAGAAAAGAAAAGAA
32452953 AA
1 AA
32452955 GGAATCGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAGAAAAGAA
Found at i:32461106 original size:4 final size:4
Alignment explanation
Indices: 32461097--32461123 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
32461087 GCTCAGCTTC
32461097 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
32461124 TGAGATGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:32464068 original size:2 final size:2
Alignment explanation
Indices: 32464061--32464100 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
32464051 TTTGTCTTCC
32464061 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
32464101 GTGTGCTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32466373 original size:25 final size:27
Alignment explanation
Indices: 32466337--32466395 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
32466327 ATGTAATTAT
32466337 AGTT-TATATATTTT-AAAT-GAGATA
1 AGTTATATATATTTTAAAATAGAGATA
*
32466361 AGTTATATATATTTTAAAATAGATATA
1 AGTTATATATATTTTAAAATAGAGATA
32466388 AGTTATAT
1 AGTTATAT
32466396 GTTAATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 4 0.13
25 10 0.32
26 4 0.13
27 13 0.42
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (27 bp):
AGTTATATATATTTTAAAATAGAGATA
Found at i:32466954 original size:35 final size:35
Alignment explanation
Indices: 32466908--32466975 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
32466898 ACTTATAAGA
* *
32466908 TGTTTGAGATATTTGTTTTTGGTTATTTAAGTTGT
1 TGTTTGAGATATTAGTTTTTGATTATTTAAGTTGT
32466943 TGTTTGAGATATTAGTTTTTGATTATTTAAGTT
1 TGTTTGAGATATTAGTTTTTGATTATTTAAGTT
32466976 TNATTGCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (35 bp):
TGTTTGAGATATTAGTTTTTGATTATTTAAGTTGT
Found at i:32466994 original size:160 final size:159
Alignment explanation
Indices: 32466817--32467115 Score: 472
Period size: 160 Copynumber: 1.9 Consensus size: 159
32466807 CATGGTAAGG
* * * *
32466817 TATTGCTATTGAGTGATAATAACTATTAACAACTTTTCATTTATATGTACAAATAAGAACATAAT
1 TATTGCTATTAAGTGATAATAACTATTAACAACCTTTCATTTATATATACAAAAAAGAACATAAT
* *
32466882 ATAAACAATAATTATAACTTATAAGATGTTTGAGATATTTGTTTTTGGTTATTTAAGTTGTTGTT
66 AGAAACAATAACTATAACTTATAAGATGTTTGAGATATTTGTTTTTGGTTATTTAAGTTGTTGTT
*
32466947 TGAGATATTAGTTTTTGATTATTTAAGTT
131 TAAGATATTAGTTTTTGATTATTTAAGTT
* *
32466976 TNATTGCTATTAAGTGATAGTAACTATTAACAACCTTTCATTTATATATACAAAAAAGAATATAA
1 T-ATTGCTATTAAGTGATAATAACTATTAACAACCTTTCATTTATATATACAAAAAAGAACATAA
* * * *
32467041 TAGAAATAATAACTATAGCTTATATGTTGTTTGAGATATTTGTTTTTGGTTATTTAAGTTGTTGT
65 TAGAAACAATAACTATAACTTATAAGATGTTTGAGATATTTGTTTTTGGTTATTTAAGTTGTTGT
32467106 TTAAGATATT
130 TTAAGATATT
32467116 TTAAAATAAT
Statistics
Matches: 126, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
159 1 0.01
160 125 0.99
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (159 bp):
TATTGCTATTAAGTGATAATAACTATTAACAACCTTTCATTTATATATACAAAAAAGAACATAAT
AGAAACAATAACTATAACTTATAAGATGTTTGAGATATTTGTTTTTGGTTATTTAAGTTGTTGTT
TAAGATATTAGTTTTTGATTATTTAAGTT
Found at i:32474158 original size:18 final size:18
Alignment explanation
Indices: 32474137--32474171 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32474127 ATGATTAGTT
32474137 AATTA-TTAATTATAAAAA
1 AATTATTTAATT-TAAAAA
32474155 AATTATTTAATTTAAAA
1 AATTATTTAATTTAAAA
32474172 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTATTTAATTTAAAAA
Found at i:32474225 original size:29 final size:30
Alignment explanation
Indices: 32474151--32474225 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 30
32474141 ATTAATTATA
* **
32474151 AAAAAATTATTTAATTTAAAATAAAAATAT
1 AAAAATTTATTTAAAATAAAATAAAAATAT
* *
32474181 AAAAATTTAATT-AAATATAATAAAAA-AT
1 AAAAATTTATTTAAAATAAAATAAAAATAT
32474209 AAAAATTTATTTAAAAT
1 AAAAATTTATTTAAAAT
32474226 TTTTGGAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 13 0.34
29 15 0.39
30 10 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (30 bp):
AAAAATTTATTTAAAATAAAATAAAAATAT
Found at i:32474487 original size:4 final size:4
Alignment explanation
Indices: 32474478--32474503 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
32474468 GCTTTTGTTT
32474478 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
32474504 TATGGAGGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:32475011 original size:2 final size:2
Alignment explanation
Indices: 32475006--32475057 Score: 79
Period size: 2 Copynumber: 26.0 Consensus size: 2
32474996 TCTCTCTCTT
32475006 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
*
32475048 TA TA TT TA TA
1 TA TA TA TA TA
32475058 GGTAAGAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 44 0.96
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32486277 original size:63 final size:63
Alignment explanation
Indices: 32486178--32486302 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 63
32486168 GCATGAATTG
* *
32486178 CTTCATCGCATTACTGTTGTCTATAAGATGCTCTCATTTATGCATTCTTTATTTATGTACCAC
1 CTTCATCGCATTACTGTTGTCTATAAGATGCTCTCATTTAAGCAGTCTTTATTTATGTACCAC
* * *
32486241 CTTCATTGCATTACTGTTTTCTATAAGAT-TTACTCATTTAAGCAGTCTTTATTTATGTACCA
1 CTTCATCGCATTACTGTTGTCTATAAGATGCT-CTCATTTAAGCAGTCTTTATTTATGTACCA
32486303 TCACTAGTAG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 1 0.02
63 55 0.98
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (63 bp):
CTTCATCGCATTACTGTTGTCTATAAGATGCTCTCATTTAAGCAGTCTTTATTTATGTACCAC
Found at i:32488475 original size:3 final size:3
Alignment explanation
Indices: 32488467--32488495 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32488457 ATATTTGGAT
32488467 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
32488496 TTTATAAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:32504962 original size:2 final size:2
Alignment explanation
Indices: 32504955--32504981 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32504945 GGTCTTGTCA
32504955 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
32504982 ATTTTCCAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:32515404 original size:13 final size:13
Alignment explanation
Indices: 32515386--32515410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32515376 TTTTAAAGGG
32515386 AAAAAACAAAAAA
1 AAAAAACAAAAAA
32515399 AAAAAACAAAAA
1 AAAAAACAAAAA
32515411 CCAAAGCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAA
Found at i:32515759 original size:2 final size:2
Alignment explanation
Indices: 32515752--32515781 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32515742 AAGTAAGAAA
32515752 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
32515782 TTCTTAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32524337 original size:102 final size:101
Alignment explanation
Indices: 32524187--32524387 Score: 305
Period size: 102 Copynumber: 2.0 Consensus size: 101
32524177 TGTTGAATCC
* *
32524187 TGAACAGTGTACATCATAAAAAAGTGTACTTTCTTCAAAAGGCAAGTTCATATTAATTTTCTTGA
1 TGAACAGTGGACATCATAAAAAAATGTACTTTCTTCAAAAGGCAAGTTCATATTAATTTTCTTGA
* *
32524252 ATCCATGTCCTTTTTCTCTATTCTTGATTTATTTTT
66 ATCCATGTCATTTTTCACTATTCTTGATTTATTTTT
* * *
32524288 TGAATAGTGGACATCATAAAAAACCATGTACTTTCTTC-AATGGCAAGTTCCTATTAATTTTCTT
1 TGAACAGTGGACATCATAAAAAA--ATGTACTTTCTTCAAAAGGCAAGTTCATATTAATTTTCTT
*
32524352 GAATCCATGTCATTTTTCACTATTCTTGCTTTATTT
64 GAATCCATGTCATTTTTCACTATTCTTGATTTATTT
32524388 AATTTTGTCT
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
101 21 0.23
102 57 0.63
103 12 0.13
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (101 bp):
TGAACAGTGGACATCATAAAAAAATGTACTTTCTTCAAAAGGCAAGTTCATATTAATTTTCTTGA
ATCCATGTCATTTTTCACTATTCTTGATTTATTTTT
Found at i:32527628 original size:26 final size:25
Alignment explanation
Indices: 32527574--32527628 Score: 58
Period size: 26 Copynumber: 2.1 Consensus size: 25
32527564 AGTTTATTTA
* *
32527574 ATTATTATTTTAATAATTAAAATATT
1 ATTATTATTTTAATAA-TAAAAAAAT
32527600 ATTATTATTTTTAACTAA-AAAAAAAT
1 ATTATTA-TTTTAA-TAATAAAAAAAT
32527626 ATT
1 ATT
32527629 CGAATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 16 0.64
27 6 0.24
28 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTATTATTTTAATAATAAAAAAAT
Found at i:32527750 original size:17 final size:17
Alignment explanation
Indices: 32527724--32527762 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
32527714 TAAAGATATT
32527724 TAAAAATTATTATTAAA
1 TAAAAATTATTATTAAA
*
32527741 TAAAAGTTATTATTAAA
1 TAAAAATTATTATTAAA
32527758 -AAAAA
1 TAAAAA
32527763 CCTTGAGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
TAAAAATTATTATTAAA
Found at i:32535642 original size:19 final size:20
Alignment explanation
Indices: 32535615--32535660 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
32535605 GTGAGACAAG
*
32535615 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
32535634 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
32535653 ATAATATT
1 ATAATATT
32535661 AAAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:32540801 original size:2 final size:2
Alignment explanation
Indices: 32540796--32540820 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32540786 TATATATATA
32540796 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
32540821 CATGTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:32540966 original size:175 final size:171
Alignment explanation
Indices: 32540675--32541020 Score: 656
Period size: 175 Copynumber: 2.0 Consensus size: 171
32540665 CCTGACTAAA
32540675 CTTGTCTAATTTGTTATCTTTGATTGCATCTTATCTGTTATGATGGTCCTAATGTAAATTAATTT
1 CTTGTCTAATTTGTTATCTTTGATTGCATCTTATCTGTTATGATGGTCCTAATGTAAATTAATTT
32540740 TCCTTTGATTAGTTGATGGTTTCTTCTGAAGTAGAATTTATCTATATATATATATATGTGTGTGT
66 TCCTTTGATTAGTTGATGGTTTCTTCTGAAGTAGAATTTATCTATATATATATATATGTGTGTGT
32540805 GTGTGTGTGTGTGTGTCATGTAATTTTAGTCTTATTCCTTGTTT
131 GTGTGTGTGTGTGTGTCATG-AATTTTAG-CTTATTCC-TGTTT
32540849 NCTTGTCTAATTTGTTATCTTTGATTGCATCTTATCTGTTATGATGGTCCTAATGTAAATTAATT
1 -CTTGTCTAATTTGTTATCTTTGATTGCATCTTATCTGTTATGATGGTCCTAATGTAAATTAATT
32540914 TTCCTTTGATTAGTTGATGGTTTCTTCTGAAGTAGAATTTATCTATATATATATATATGTGTGTG
65 TTCCTTTGATTAGTTGATGGTTTCTTCTGAAGTAGAATTTATCTATATATATATATATGTGTGTG
32540979 TGTGTGTGTGTGTGTGTCATGAATTTTAGCTTATTCCTGTTT
130 TGTGTGTGTGTGTGTGTCATGAATTTTAGCTTATTCCTGTTT
32541021 AGTTTTAAGT
Statistics
Matches: 171, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
172 5 0.03
173 8 0.05
174 8 0.05
175 150 0.88
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (171 bp):
CTTGTCTAATTTGTTATCTTTGATTGCATCTTATCTGTTATGATGGTCCTAATGTAAATTAATTT
TCCTTTGATTAGTTGATGGTTTCTTCTGAAGTAGAATTTATCTATATATATATATATGTGTGTGT
GTGTGTGTGTGTGTGTCATGAATTTTAGCTTATTCCTGTTT
Found at i:32540976 original size:2 final size:2
Alignment explanation
Indices: 32540971--32540995 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32540961 TATATATATA
32540971 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
32540996 CATGAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:32555435 original size:18 final size:18
Alignment explanation
Indices: 32555400--32555436 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32555390 AGATGTGATG
* *
32555400 AAGAAGTACTTTATTGGT
1 AAGAAGTACTTCAATGGT
32555418 AAGAAGTACTTCAATGGT
1 AAGAAGTACTTCAATGGT
32555436 A
1 A
32555437 TAAGCTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (18 bp):
AAGAAGTACTTCAATGGT
Found at i:32567112 original size:3 final size:3
Alignment explanation
Indices: 32567104--32567128 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
32567094 AGCAAAACAA
32567104 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
32567129 CCAATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:32577839 original size:35 final size:35
Alignment explanation
Indices: 32577793--32577875 Score: 157
Period size: 35 Copynumber: 2.4 Consensus size: 35
32577783 TACCACATGC
*
32577793 AGGAAGAAAGTAGGTTTCTTTTTTTATGGATAACT
1 AGGAAGAAAGTAGGTTTCCTTTTTTATGGATAACT
32577828 AGGAAGAAAGTAGGTTTCCTTTTTTATGGATAACT
1 AGGAAGAAAGTAGGTTTCCTTTTTTATGGATAACT
32577863 AGGAAGAAAGTAG
1 AGGAAGAAAGTAG
32577876 ACGTATTAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (35 bp):
AGGAAGAAAGTAGGTTTCCTTTTTTATGGATAACT
Found at i:32583163 original size:4 final size:4
Alignment explanation
Indices: 32583154--32583180 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
32583144 AGATATGAAG
32583154 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
32583181 GACAGCTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:32584934 original size:21 final size:21
Alignment explanation
Indices: 32584909--32584957 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
32584899 ATTAGAATTG
32584909 ATTTTAAAGTTTAATAAATCA
1 ATTTTAAAGTTTAATAAATCA
** * *
32584930 ATTTTAGGGTTTAATGAATCG
1 ATTTTAAAGTTTAATAAATCA
32584951 ATTTTAA
1 ATTTTAA
32584958 GACTTGTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (21 bp):
ATTTTAAAGTTTAATAAATCA
Found at i:32585227 original size:20 final size:21
Alignment explanation
Indices: 32585158--32585225 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
32585148 CTTTAAAATT
* * *
32585158 GATTTTAGGATTTAATGAATC
1 GATTTTAGGTTTTATTGAACC
*
32585179 GATTTTAAAG-TTTATTGAACC
1 GATTTT-AGGTTTTATTGAACC
*
32585200 GATTTTAGGTTTTATTGAGCC
1 GATTTTAGGTTTTATTGAACC
32585221 GATTT
1 GATTT
32585226 AGTAAATCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (21 bp):
GATTTTAGGTTTTATTGAACC
Found at i:32585289 original size:19 final size:19
Alignment explanation
Indices: 32585261--32585302 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
32585251 AACCAAATCA
*
32585261 TTAAACTTTA-GAATCGGTT
1 TTAAAATTTATGAATC-GTT
32585280 TTAAAATTTATTGAATCGTT
1 TTAAAATTTA-TGAATCGTT
32585300 TTA
1 TTA
32585303 GTAAAACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 6 0.30
21 5 0.25
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (19 bp):
TTAAAATTTATGAATCGTT
Found at i:32585372 original size:21 final size:21
Alignment explanation
Indices: 32585324--32585374 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
32585314 AAACTAGTTT
*
32585324 AACCCTTAAACCAATTCACTA
1 AACCCTAAAACCAATTCACTA
* *
32585345 AATCCTAAAACCAATTTAGC-A
1 AACCCTAAAACCAATTCA-CTA
32585366 AACCCTAAA
1 AACCCTAAA
32585375 TCGATTTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (21 bp):
AACCCTAAAACCAATTCACTA
Found at i:32585438 original size:21 final size:21
Alignment explanation
Indices: 32585372--32585439 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
32585362 AGCAAACCCT
*
32585372 AAATCGATTTAACAAATCTTC
1 AAATCGATTTAATAAATCTTC
* * * *
32585393 AAATTGA-TTCATTAATCTATA
1 AAATCGATTTAATAAATCT-TC
*
32585414 AAATCGATTTAATAAACCTTC
1 AAATCGATTTAATAAATCTTC
32585435 AAATC
1 AAATC
32585440 AGTTCATTAA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
20 8 0.23
21 19 0.54
22 8 0.23
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.35
Consensus pattern (21 bp):
AAATCGATTTAATAAATCTTC
Found at i:32585446 original size:42 final size:41
Alignment explanation
Indices: 32585372--32585539 Score: 146
Period size: 42 Copynumber: 4.1 Consensus size: 41
32585362 AGCAAACCCT
* * *
32585372 AAATCGATTTAACAAATCTTCAAAT-TGATTCATTAATCTATA
1 AAATCGATTTAATAAACCTTCAAATCAG-TTCATTAATCT-TA
*
32585414 AAATCGATTTAATAAACCTTCAAATCAGTTCATTAAACTCTA
1 AAATCGATTTAATAAACCTTCAAATCAGTTCATTAATCT-TA
* * * * *
32585456 AAA--GGTTT-AGAAACCCTCGAATCGGTTCATTAAATCTTA
1 AAATCGATTTAATAAACCTTCAAATCAGTTCATT-AATCTTA
* * * *
32585495 AAATTGATTTAATAAACCTTCAAACCAATTCATTAAACCTTA
1 AAATCGATTTAATAAACCTTCAAATCAGTTCATT-AATCTTA
32585537 AAA
1 AAA
32585540 CCAGTTTATC
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
39 24 0.24
40 8 0.08
41 4 0.04
42 65 0.64
43 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (41 bp):
AAATCGATTTAATAAACCTTCAAATCAGTTCATTAATCTTA
Found at i:32585532 original size:21 final size:21
Alignment explanation
Indices: 32585507--32585560 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
32585497 ATTGATTTAA
32585507 TAAACCTTCAAACCAATTCAT
1 TAAACCTTCAAACCAATTCAT
* * *
32585528 TAAACCTTAAAACCAGTTTAT
1 TAAACCTTCAAACCAATTCAT
* *
32585549 CAAACTTTCAAA
1 TAAACCTTCAAA
32585561 ATGACTCATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (21 bp):
TAAACCTTCAAACCAATTCAT
Found at i:32585559 original size:42 final size:41
Alignment explanation
Indices: 32585481--32585637 Score: 118
Period size: 42 Copynumber: 3.8 Consensus size: 41
32585471 CTCGAATCGG
* * *
32585481 TTCATTAAATCTTAAAAT-TGATTTAATAAACCTTCAAACCAA
1 TTCATTAAACCTTAAAATCAG-TTTAACAAA-CTTCAAACCAA
* * ***
32585523 TTCATTAAACCTTAAAACCAGTTTATCAAACTTTCAAAATGA
1 TTCATTAAACCTTAAAATCAGTTTAACAAAC-TTCAAACCAA
* * * * * *
32585565 CTCATTAAATCTTAAAATTAGTTTAACAAAACCTCGAACCAG
1 TTCATTAAACCTTAAAATCAGTTTAAC-AAACTTCAAACCAA
* * *
32585607 TTCATTAAACCCTAAAATCAATTTACCAAAC
1 TTCATTAAACCTTAAAATCAGTTTAACAAAC
32585638 CCTCAAATCG
Statistics
Matches: 87, Mismatches: 25, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
41 5 0.06
42 77 0.89
43 5 0.06
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (41 bp):
TTCATTAAACCTTAAAATCAGTTTAACAAACTTCAAACCAA
Found at i:32585637 original size:21 final size:21
Alignment explanation
Indices: 32585613--32585652 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32585603 CCAGTTCATT
32585613 AAACCCTAAAATCAATTTACC
1 AAACCCTAAAATCAATTTACC
* *
32585634 AAACCCTCAAATCGATTTA
1 AAACCCTAAAATCAATTTA
32585653 TTGAACTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.28, G:0.03, T:0.25
Consensus pattern (21 bp):
AAACCCTAAAATCAATTTACC
Found at i:32585644 original size:84 final size:84
Alignment explanation
Indices: 32585365--32585644 Score: 225
Period size: 84 Copynumber: 3.4 Consensus size: 84
32585355 CCAATTTAGC
* * * * * * * * *
32585365 AAACCCT-AAATCGATTTAACAAATCTTCAAATTGATTCATT-AATCTATAAAATCGATTTAATA
1 AAACCCTAAAACCAATTTACCAAACCCTCAAAATGACTCATTAAATCT-TAAAATTGATTTAAAA
* *
32585428 AACCTTCAAATCAGTTCATT
65 AACCTTCAAACCAATTCATT
* ** * * ** *
32585448 AAACTCTAAAA--GGTTTA-GAAACCCTC-GAATCGGTTCATTAAATCTTAAAATTGATTTAATA
1 AAACCCTAAAACCAATTTACCAAACCCTCAAAAT-GACTCATTAAATCTTAAAATTGATTTAAAA
32585509 AACCTTCAAACCAATTCATT
65 AACCTTCAAACCAATTCATT
* * * **
32585529 AAACCTTAAAACCAGTTTATCAAACTTTCAAAATGACTCATTAAATCTTAAAATT-AGTTTAACA
1 AAACCCTAAAACCAATTTACCAAACCCTCAAAATGACTCATTAAATCTTAAAATTGA-TTTAA-A
* *
32585593 AAACC-TCGAACCAGTTCATT
64 AAACCTTCAAACCAATTCATT
*
32585613 AAACCCTAAAATCAATTTACCAAACCCTCAAA
1 AAACCCTAAAACCAATTTACCAAACCCTCAAA
32585645 TCGATTTATT
Statistics
Matches: 159, Mismatches: 29, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
80 2 0.01
81 55 0.35
82 10 0.06
83 12 0.08
84 72 0.45
85 8 0.05
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (84 bp):
AAACCCTAAAACCAATTTACCAAACCCTCAAAATGACTCATTAAATCTTAAAATTGATTTAAAAA
ACCTTCAAACCAATTCATT
Found at i:32600750 original size:21 final size:20
Alignment explanation
Indices: 32600719--32600758 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
32600709 TTATATATGT
32600719 TATTTATGTTAATT-TTATTA
1 TATTTATGTT-ATTATTATTA
32600739 TATTTGATGTTATTATTATT
1 TATTT-ATGTTATTATTATT
32600759 TTGTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (20 bp):
TATTTATGTTATTATTATTA
Found at i:32600788 original size:31 final size:31
Alignment explanation
Indices: 32600731--32600789 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
32600721 TTTATGTTAA
* *
32600731 TTTTATTATATTTGATGTTATTATTATTTTG
1 TTTTATTATAATTGATGTTATAATTATTTTG
*
32600762 TTTTATTATAATT-ATTTTTATAATTATT
1 TTTTATTATAATTGA-TGTTATAATTATT
32600790 GATTTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (31 bp):
TTTTATTATAATTGATGTTATAATTATTTTG
Found at i:32600949 original size:56 final size:56
Alignment explanation
Indices: 32600880--32600991 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
32600870 TCATGTTATT
*
32600880 AATCGTGTTGTGTCCTATATTGACAATTTAATAAACATATTAATTGTGTTGTGTTA
1 AATCGTGTCGTGTCCTATATTGACAATTTAATAAACATATTAATTGTGTTGTGTTA
* *
32600936 AATCGTGTCGTGTCCTATATTGACAGTTTAATAAATATATTAATTGTGTTGTGTTA
1 AATCGTGTCGTGTCCTATATTGACAATTTAATAAACATATTAATTGTGTTGTGTTA
32600992 CATGGTTATT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (56 bp):
AATCGTGTCGTGTCCTATATTGACAATTTAATAAACATATTAATTGTGTTGTGTTA
Found at i:32603593 original size:103 final size:103
Alignment explanation
Indices: 32603406--32603595 Score: 236
Period size: 103 Copynumber: 1.8 Consensus size: 103
32603396 CTAGAGTAAG
* * *
32603406 AGTGACGAACTATGGTAAAAAAATAAGCGATAAAGCTTGCAACCAATAGCATAATGTTATTACAA
1 AGTGACGAACTATGGTAAAAAAATAAGCGATAAAGCTTACAACCAATAGCATAATATAATTACAA
* * **
32603471 CCAAAGTATAAGCGGTAAAGCTTGCAGCTTAAATAAAA
66 CCAAAATATAAACAATAAAGCTTGCAGCTTAAATAAAA
* * * * * * ** *
32603509 AGTGATGAACTATGGTCAAATAATGAGCGATAAAGCTTACAACTAATAGTATAATATAATTGTAG
1 AGTGACGAACTATGGTAAAAAAATAAGCGATAAAGCTTACAACCAATAGCATAATATAATTACAA
32603574 CCAAAATATAAACAATAAAGCT
66 CCAAAATATAAACAATAAAGCT
32603596 AATGGATAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
103 71 1.00
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.24
Consensus pattern (103 bp):
AGTGACGAACTATGGTAAAAAAATAAGCGATAAAGCTTACAACCAATAGCATAATATAATTACAA
CCAAAATATAAACAATAAAGCTTGCAGCTTAAATAAAA
Found at i:32604666 original size:35 final size:36
Alignment explanation
Indices: 32604627--32604706 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 36
32604617 ACTCTATTTA
32604627 TTTTAGTTCTTCTACGTGAAGTAATGT-TTTACTTG
1 TTTTAGTTCTTCTACGTGAAGTAATGTATTTACTTG
* * ** * *
32604662 TTTTAGTTGTTTTGTGTGAAGTAGTGTACTTTATTTG
1 TTTTAGTTCTTCTACGTGAAGTAATGTA-TTTACTTG
32604699 TTTTAGTT
1 TTTTAGTT
32604707 GTTTTATGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
35 22 0.59
37 15 0.41
ACGTcount: A:0.17, C:0.06, G:0.20, T:0.56
Consensus pattern (36 bp):
TTTTAGTTCTTCTACGTGAAGTAATGTATTTACTTG
Found at i:32604704 original size:37 final size:37
Alignment explanation
Indices: 32604615--32604724 Score: 125
Period size: 37 Copynumber: 3.0 Consensus size: 37
32604605 GTATGGAGTA
* * * * * *
32604615 GTACTCTATTTATTTTAGTTCTTCTACGTGAAGTAAT
1 GTACTTTATTTGTTTTAGTTGTTTTATGTGAAGTAGT
* *
32604652 GT--TTTACTTGTTTTAGTTGTTTTGTGTGAAGTAGT
1 GTACTTTATTTGTTTTAGTTGTTTTATGTGAAGTAGT
*
32604687 GTACTTTATTTGTTTTAGTTGTTTTATGCGAAGTAGT
1 GTACTTTATTTGTTTTAGTTGTTTTATGTGAAGTAGT
32604724 G
1 G
32604725 CTTCACTTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
35 27 0.45
37 33 0.55
ACGTcount: A:0.19, C:0.07, G:0.21, T:0.53
Consensus pattern (37 bp):
GTACTTTATTTGTTTTAGTTGTTTTATGTGAAGTAGT
Found at i:32607963 original size:23 final size:23
Alignment explanation
Indices: 32607933--32607977 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
32607923 CTTGATGGTC
32607933 CATGCTTGAAAGAATTTCAGATT
1 CATGCTTGAAAGAATTTCAGATT
32607956 CATGCTTGAAAGAATTTCAGAT
1 CATGCTTGAAAGAATTTCAGAT
32607978 AGGTGAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (23 bp):
CATGCTTGAAAGAATTTCAGATT
Found at i:32627291 original size:24 final size:23
Alignment explanation
Indices: 32627246--32627291 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
32627236 AATATAAATA
* *
32627246 ATATATGTAAAATTCATTATCAT
1 ATATATGTAAAATACATCATCAT
32627269 ATATATGATAAAATACATCATCA
1 ATATATG-TAAAATACATCATCA
32627292 ACATTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (23 bp):
ATATATGTAAAATACATCATCAT
Found at i:32627399 original size:12 final size:14
Alignment explanation
Indices: 32627373--32627413 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
32627363 CATTTATAAA
32627373 ATTTAAAA-AATTT
1 ATTTAAAATAATTT
32627386 A-TTAAAATAA-TT
1 ATTTAAAATAATTT
*
32627398 ATTTAAAATTATTT
1 ATTTAAAATAATTT
32627412 AT
1 AT
32627414 ATAAGGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 9 0.38
13 11 0.46
14 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTAAAATAATTT
Found at i:32627571 original size:153 final size:153
Alignment explanation
Indices: 32627386--32627668 Score: 527
Period size: 153 Copynumber: 1.9 Consensus size: 153
32627376 TAAAAAATTT
32627386 ATTAAAATAATTATTTAAAATTATTTATATAAGGTTAAAATAATCTTTAACTATTAATTTTTAAT
1 ATTAAAATAATTATTTAAAATTATTTATATAAGGTTAAAATAATCTTTAACTATTAATTTTTAAT
32627451 AGGTTAATAAACGTGTCATGTATACACGTTTAAACACGATAAAACGATTAAGTAAACGTGTNATT
66 AGGTTAATAAACGTGTCATGTATACACGTTTAAACACGATAAAACGATTAAGTAAACGTGT-ATT
32627516 AATTACTATTTAATTAAAATTAAA
130 AATTACTATTTAATTAAAATTAAA
32627540 ATTATAAATAATTA-TT-AAATTATTTATATAAGGTTAAAATAATCTTTAACTATTAATTTTTAA
1 ATTA-AAATAATTATTTAAAATTATTTATATAAGGTTAAAATAATCTTTAACTATTAATTTTTAA
32627603 TAGGTTAATAAACGTGTCATGTATACACGTTTAAACACGATAAAACGATTAAGTAAACGTGT-TT
65 TAGGTTAATAAACGTGTCATGTATACACGTTTAAACACGATAAAACGATTAAGTAAACGTGTATT
32627667 AA
130 AA
32627669 ATGTGTTTTA
Statistics
Matches: 128, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
151 4 0.03
153 109 0.85
154 6 0.05
155 9 0.07
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (153 bp):
ATTAAAATAATTATTTAAAATTATTTATATAAGGTTAAAATAATCTTTAACTATTAATTTTTAAT
AGGTTAATAAACGTGTCATGTATACACGTTTAAACACGATAAAACGATTAAGTAAACGTGTATTA
ATTACTATTTAATTAAAATTAAA
Found at i:32631292 original size:28 final size:28
Alignment explanation
Indices: 32631225--32631320 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 28
32631215 AAAAAAATAT
* **
32631225 TTAAATAAGTTATTATATTTTTATTTCG
1 TTAAATAAGTTTTTATATTTTTATTGAG
*
32631253 TTAAACCAAGTTTTTATATTTTTATTGAG
1 TTAAA-TAAGTTTTTATATTTTTATTGAG
* * *
32631282 TCAAATAAGTTTTTATGTTTTCATTTTGAG
1 TTAAATAAGTTTTTATATTTT--TATTGAG
32631312 TTAAATAAG
1 TTAAATAAG
32631321 CATTTATGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 19 0.34
29 23 0.41
30 14 0.25
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.52
Consensus pattern (28 bp):
TTAAATAAGTTTTTATATTTTTATTGAG
Found at i:32631735 original size:15 final size:16
Alignment explanation
Indices: 32631715--32631745 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32631705 AAAATTATTA
32631715 AATG-AAGTATAAAAT
1 AATGAAAGTATAAAAT
32631730 AATGAAAGTATAAAAT
1 AATGAAAGTATAAAAT
32631746 TTCGGGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (16 bp):
AATGAAAGTATAAAAT
Found at i:32632332 original size:17 final size:18
Alignment explanation
Indices: 32632301--32632350 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
32632291 ATTTTATACA
32632301 AATTTTAATAGAATTTAAAT
1 AATTTTAATA-AA-TTAAAT
32632321 -ATTTTAAT-AATTAAAT
1 AATTTTAATAAATTAAAT
32632337 AATTTTAAATAAAT
1 AATTTT-AATAAAT
32632351 ATTTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.22
17 7 0.26
18 3 0.11
19 11 0.41
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AATTTTAATAAATTAAAT
Found at i:32632351 original size:14 final size:13
Alignment explanation
Indices: 32632316--32632358 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 13
32632306 TAATAGAATT
32632316 TAAATATTTTAATAA
1 TAAATATTTT-A-AA
32632331 TTAAATAATTTTAAA
1 -TAAAT-ATTTTAAA
32632346 TAAATATTTTAAA
1 TAAATATTTTAAA
32632359 AATAACTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.31
14 5 0.19
15 2 0.08
16 6 0.23
17 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TAAATATTTTAAA
Found at i:32635114 original size:18 final size:18
Alignment explanation
Indices: 32635081--32635117 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32635071 CTTGTAATGG
**
32635081 TAACAATTAATTATGACT
1 TAACAATTAACCATGACT
32635099 TAACAATTAACCATGACT
1 TAACAATTAACCATGACT
32635117 T
1 T
32635118 TTTATCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (18 bp):
TAACAATTAACCATGACT
Found at i:32637734 original size:6 final size:6
Alignment explanation
Indices: 32637717--32637758 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
32637707 ATACTCATTT
* * *
32637717 AAAATA AAAAGA AGAAGA AGAAGA AAAAGA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
32637759 GAGAGATTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:32644362 original size:22 final size:21
Alignment explanation
Indices: 32644337--32644387 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
32644327 TGTTTTTATG
*
32644337 TTGTTCTTGTAGAATGATAT-AA
1 TTGTTCTTATAG-ATGA-ATCAA
*
32644359 TTGTGGCTTATAGATGAATCAA
1 TTGT-TCTTATAGATGAATCAA
32644381 TTGTTCT
1 TTGTTCT
32644388 ATTATTGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 4 0.17
22 14 0.58
23 6 0.25
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (21 bp):
TTGTTCTTATAGATGAATCAA
Found at i:32658715 original size:2 final size:2
Alignment explanation
Indices: 32658708--32658827 Score: 155
Period size: 2 Copynumber: 62.0 Consensus size: 2
32658698 AAAGTTGAAC
32658708 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AGT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
32658749 AT AT AT AT ACT -T AT -T ANT AT AT AT AT AT -T AT AT AT -T AT AT
1 AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
*
32658789 AT AT AT AT AT AT AT AT AT AT AT AT AT CT A- 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
32658828 TGAAATGTAT
Statistics
Matches: 106, Mismatches: 2, Indels: 20
0.83 0.02 0.16
Matches are distributed among these distances:
1 7 0.07
2 95 0.90
3 4 0.04
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32663351 original size:12 final size:12
Alignment explanation
Indices: 32663334--32663366 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
32663324 TAAGACATGG
32663334 GGAAAAAGAAAA
1 GGAAAAAGAAAA
32663346 GGAAAAAGAAAA
1 GGAAAAAGAAAA
*
32663358 GGAAGAAGA
1 GGAAAAAGA
32663367 TACATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (12 bp):
GGAAAAAGAAAA
Found at i:32663861 original size:2 final size:2
Alignment explanation
Indices: 32663854--32663890 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32663844 ATGGATTTAT
32663854 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
32663891 GAAGGGGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32669625 original size:38 final size:38
Alignment explanation
Indices: 32669583--32669789 Score: 125
Period size: 38 Copynumber: 5.4 Consensus size: 38
32669573 ACTTGATTGT
* * * * *
32669583 ATGTCCTACATAATGGGGGCCGTACTATTATTCGAGAA
1 ATGTCCTAAATAGTGGGGACCATACCATTATTCGAGAA
* *
32669621 ATGTCCTAAATAGTGGGGATCATACCATTATTCGTGAA
1 ATGTCCTAAATAGTGGGGACCATACCATTATTCGAGAA
* * ***
32669659 ATGTCCTAGATAGTGGGCATTGTACCATTA-TCTGCA-AA
1 ATGTCCTAAATAGTGGGGACCATACCATTATTC-G-AGAA
* * * * * *
32669697 ATTTTCTAAATAGTGGGGATCGTACCATT-CTCCATGAA
1 ATGTCCTAAATAGTGGGGACCATACCATTATTCGA-GAA
* * * *
32669735 ATGTCCTAGATAGTGGAGACCTTACCATTGTTC-ATGAA
1 ATGTCCTAAATAGTGGGGACCATACCATTATTCGA-GAA
* * *
32669773 TTGTCTTAGATAGTGGG
1 ATGTCCTAAATAGTGGG
32669790 AATTGTAACA
Statistics
Matches: 135, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
36 1 0.01
37 2 0.01
38 130 0.96
39 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (38 bp):
ATGTCCTAAATAGTGGGGACCATACCATTATTCGAGAA
Found at i:32669802 original size:38 final size:38
Alignment explanation
Indices: 32669618--32669805 Score: 148
Period size: 38 Copynumber: 4.9 Consensus size: 38
32669608 TATTATTCGA
* * ** * *
32669618 GAAATGTCCTAAATAGTGGGGATCATACCATTATTCGT
1 GAAATGTCCTAGATAGTGGGAATTGTACCATTGTTCAT
* *
32669656 GAAATGTCCTAGATAGTGGGCATTGTACCATT-ATC-T
1 GAAATGTCCTAGATAGTGGGAATTGTACCATTGTTCAT
* * * * * * *
32669692 GCAAAATTTTCTAAATAGTGGGGATCGTACCATTCTCCAT
1 G--AAATGTCCTAGATAGTGGGAATTGTACCATTGTTCAT
**
32669732 GAAATGTCCTAGATAGTGGAGACCT-TACCATTGTTCAT
1 GAAATGTCCTAGATAGTGG-GAATTGTACCATTGTTCAT
* * *
32669770 GAATTGTCTTAGATAGTGGGAATTGTAACATTGTTC
1 GAAATGTCCTAGATAGTGGGAATTGTACCATTGTTC
32669806 CTATGAGATG
Statistics
Matches: 118, Mismatches: 26, Indels: 12
0.76 0.17 0.08
Matches are distributed among these distances:
36 2 0.02
37 5 0.04
38 107 0.91
39 2 0.02
40 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (38 bp):
GAAATGTCCTAGATAGTGGGAATTGTACCATTGTTCAT
Found at i:32670059 original size:22 final size:22
Alignment explanation
Indices: 32670028--32670083 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
32670018 GGGTTTTATA
*
32670028 AATGAAGTATCAATACTTCATG
1 AATGATGTATCAATACTTCATG
32670050 AATGATGTATCAATACTTCATG
1 AATGATGTATCAATACTTCATG
32670072 AATGATGTATCA
1 AATGATGTATCA
32670084 CTACCTAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (22 bp):
AATGATGTATCAATACTTCATG
Found at i:32676692 original size:21 final size:23
Alignment explanation
Indices: 32676655--32676697 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
32676645 AATGAAAAGA
32676655 TTTGCTTAAGATAAC-AATAAAT
1 TTTGCTTAAGATAACAAATAAAT
32676677 TTTGCTTAAGAT-ACAAATAAA
1 TTTGCTTAAGATAACAAATAAA
32676698 GAGATGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (23 bp):
TTTGCTTAAGATAACAAATAAAT
Found at i:32683607 original size:17 final size:16
Alignment explanation
Indices: 32683585--32683618 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32683575 TGGCATGATC
32683585 ACAGTCAATAAAACATA
1 ACAGTCAA-AAAACATA
*
32683602 ACAGTCTAAAAACATA
1 ACAGTCAAAAAACATA
32683618 A
1 A
32683619 GGACAAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.59, C:0.18, G:0.06, T:0.18
Consensus pattern (16 bp):
ACAGTCAAAAAACATA
Found at i:32683848 original size:21 final size:21
Alignment explanation
Indices: 32683807--32683849 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
32683797 GAGCAGATAC
*
32683807 AGGGAAAGAGAACAAGCAAAT
1 AGGGAAAGAGAACAAGAAAAT
*
32683828 AGGG-AAGAGAATCTAGAAAAT
1 AGGGAAAGAGAA-CAAGAAAAT
32683849 A
1 A
32683850 AACTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.56, C:0.07, G:0.28, T:0.09
Consensus pattern (21 bp):
AGGGAAAGAGAACAAGAAAAT
Found at i:32684665 original size:26 final size:26
Alignment explanation
Indices: 32684636--32684686 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
32684626 CACCGCATTA
32684636 GACATTCACTACTTAATCTTAGTCTT
1 GACATTCACTACTTAATCTTAGTCTT
32684662 GACATTCACTACTTAATCTTAGTCT
1 GACATTCACTACTTAATCTTAGTCT
32684687 AAATCACCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (26 bp):
GACATTCACTACTTAATCTTAGTCTT
Found at i:32685956 original size:7 final size:7
Alignment explanation
Indices: 32685941--32685985 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
32685931 CATCATGCAG
*
32685941 TGGCCAT
1 TGGCTAT
32685948 TGGCTAT
1 TGGCTAT
32685955 TGGCTAT
1 TGGCTAT
32685962 TGGCTAT
1 TGGCTAT
32685969 TGGCTAT
1 TGGCTAT
*
32685976 TGGCTCT
1 TGGCTAT
32685983 TGG
1 TGG
32685986 GCTCATCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.11, C:0.18, G:0.31, T:0.40
Consensus pattern (7 bp):
TGGCTAT
Found at i:32692369 original size:13 final size:13
Alignment explanation
Indices: 32692351--32692380 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32692341 AAGACGAAAA
32692351 ATATTATAATATT
1 ATATTATAATATT
*
32692364 ATATTATCATATT
1 ATATTATAATATT
32692377 ATAT
1 ATAT
32692381 CAATATACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
ATATTATAATATT
Found at i:32692541 original size:28 final size:30
Alignment explanation
Indices: 32692483--32692542 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
32692473 TAAAACTATT
* *
32692483 AATTATAAAAGTTTATTTGAATTAAACTAA
1 AATTATAAAAGTTTATTTGAATCAAAATAA
32692513 AATT-TAAAA-TTTATTT-AACTCAAAATAA
1 AATTATAAAAGTTTATTTGAA-TCAAAATAA
32692541 AA
1 AA
32692543 ATAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.07
28 16 0.59
29 5 0.19
30 4 0.15
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (30 bp):
AATTATAAAAGTTTATTTGAATCAAAATAA
Found at i:32692549 original size:28 final size:28
Alignment explanation
Indices: 32692487--32692550 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
32692477 ACTATTAATT
* * *
32692487 ATAAAAGTTTATTTGAATTAAACTAAAA
1 ATAAAAATTTATTTGAATCAAAATAAAA
* *
32692515 TTTAAAATTTATTT-AACTCAAAATAAAA
1 ATAAAAATTTATTTGAA-TCAAAATAAAA
32692543 ATAAAAAT
1 ATAAAAAT
32692551 AATAAATATA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (28 bp):
ATAAAAATTTATTTGAATCAAAATAAAA
Found at i:32701316 original size:2 final size:2
Alignment explanation
Indices: 32701309--32701415 Score: 141
Period size: 2 Copynumber: 54.0 Consensus size: 2
32701299 TGAAAACTAC
32701309 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
* *
32701351 ANC A- AT GAT AT AT AT GA- AT -T AT AC AT AT AT AT -T AT AT AT
1 A-T AT AT -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
32701390 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
32701416 CAATAAAAAT
Statistics
Matches: 95, Mismatches: 3, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
1 4 0.04
2 87 0.92
3 4 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:32714494 original size:23 final size:21
Alignment explanation
Indices: 32714436--32714498 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 21
32714426 TGTAATCATA
*
32714436 TAAATAAAGTTTATTATAAAT
1 TAAATAATGTTTATTATAAAT
* *
32714457 TAGAGTAATGCTTATGTATAAAT
1 TA-AATAATGTTTAT-TATAAAT
32714480 TAAATATATGTTTA-TATAA
1 TAAATA-ATGTTTATTATAA
32714499 TCTATTACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 7 0.21
22 12 0.35
23 15 0.44
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.43
Consensus pattern (21 bp):
TAAATAATGTTTATTATAAAT
Found at i:32714838 original size:218 final size:214
Alignment explanation
Indices: 32714298--32714851 Score: 707
Period size: 212 Copynumber: 2.6 Consensus size: 214
32714288 TAATGATATA
* * * * *
32714298 TATACATATATGAAATTAATGATATAACCTATATGTTATAATATTTTATATCAAAATTTATATAA
1 TATATATATATGAAATTAATGACATAACTTATATGTTATAATATTTTATATCAAAGTTTGTATAA
* * * * * * * * * *
32714363 ATAGTATCTAATTATAAATAATATGTTATAAAATTTGAGGTGATCATTAATAAATTTACTACGTG
66 ATAATAACTAATTATAAATAATATGTTATAAAATATAAGGTAATAACTAATAAAGTTATTAAGTG
* * *
32714428 TAATCATATAAATAAAGTTTATTATAAATTAGAGTAATGCTTATGTATAAATTAAATATATGTTT
131 TAATCATATAAATAAAGTCTATTATAAATTAGAGTAATGCTTATATATAAATTAAATATATGTAT
* *
32714493 ATATAATCTATTACTTTAT
196 ATATAATATATCACTTTAT
* * * * *
32714512 TATATATAT-T-TAATTAATGACACAAATTATATGTTAAAATGTTTTATATCAAAGTTTGTATAA
1 TATATATATATGAAATTAATGACATAACTTATATGTTATAATATTTTATATCAAAGTTTGTATAA
* *
32714575 ATAATAACTAATTATAAATGATATGTTATAAAATATAATGTAATAACTAATAAAGTTATTAAGTG
66 ATAATAACTAATTATAAATAATATGTTATAAAATATAAGGTAATAACTAATAAAGTTATTAAGTG
* * * *
32714640 TAATCATATAAATAAAGTCTATTTTAAGTTATAGTAATGCTTATATATAAATTAGATATATGTAT
131 TAATCATATAAATAAAGTCTATTATAAATTAGAGTAATGCTTATATATAAATTAAATATATGTAT
32714705 ATATAATATATCACTTTATTT
196 ATATAATATATCACTTTA--T
* * *
32714726 TATATTTATATATGAAATTAATGACATAACTTATATGCTATTATATTTTATATTAAAGTTTGTAT
1 TATA--TATATATGAAATTAATGACATAACTTATATGTTATAATATTTTATATCAAAGTTTGTAT
* * * * *
32714791 AAATAATAACTAATTACAAACAATAGGTTATAAAATCTAAGGTAATAACCAATAAAGTTAT
64 AAATAATAACTAATTATAAATAATATGTTATAAAATATAAGGTAATAACTAATAAAGTTAT
32714852 CAAAATAAAG
Statistics
Matches: 288, Mismatches: 46, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
212 171 0.59
213 1 0.00
214 13 0.05
216 5 0.02
217 1 0.00
218 97 0.34
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (214 bp):
TATATATATATGAAATTAATGACATAACTTATATGTTATAATATTTTATATCAAAGTTTGTATAA
ATAATAACTAATTATAAATAATATGTTATAAAATATAAGGTAATAACTAATAAAGTTATTAAGTG
TAATCATATAAATAAAGTCTATTATAAATTAGAGTAATGCTTATATATAAATTAAATATATGTAT
ATATAATATATCACTTTAT
Found at i:32714880 original size:22 final size:22
Alignment explanation
Indices: 32714854--32714902 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
32714844 AAAGTTATCA
32714854 AAATAAAGTTTA-CTATAAATT
1 AAATAAAGTTTATCTATAAATT
* *
32714875 ATAATAATGTTTATGTATAAATT
1 A-AATAAAGTTTATCTATAAATT
32714898 AAATA
1 AAATA
32714903 TATGTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 14 0.58
23 9 0.38
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (22 bp):
AAATAAAGTTTATCTATAAATT
Found at i:32715229 original size:18 final size:18
Alignment explanation
Indices: 32715206--32715251 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
32715196 TCAATTCTTC
32715206 TTAATATATATAAAACAA
1 TTAATATATATAAAACAA
32715224 TTAATATATATAAAACAA
1 TTAATATATATAAAACAA
32715242 TT-ATATATAT
1 TTAATATATAT
32715252 TAATATGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAATATATATAAAACAA
Found at i:32715364 original size:14 final size:14
Alignment explanation
Indices: 32715345--32715390 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
32715335 AAAAAATTAA
32715345 TTGGACCAAACGTT
1 TTGGACCAAACGTT
32715359 TTGGACC-AA----
1 TTGGACCAAACGTT
32715368 TTGGACCAAACGTT
1 TTGGACCAAACGTT
32715382 TTGGACCAA
1 TTGGACCAA
32715391 TTAGACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (14 bp):
TTGGACCAAACGTT
Found at i:32715373 original size:23 final size:23
Alignment explanation
Indices: 32715343--32715401 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
32715333 CCAAAAAATT
32715343 AATTGGACCAAACGTTTTGGACC
1 AATTGGACCAAACGTTTTGGACC
32715366 AATTGGACCAAACGTTTTGGACC
1 AATTGGACCAAACGTTTTGGACC
* *
32715389 AATTAGACTAAAC
1 AATTGGACCAAAC
32715402 TATTTTACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (23 bp):
AATTGGACCAAACGTTTTGGACC
Found at i:32717267 original size:18 final size:19
Alignment explanation
Indices: 32717230--32717267 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
32717220 CTTCAGAGGG
*
32717230 AGGGAGTAGAGATAGAGAA
1 AGGGAGTAGAAATAGAGAA
*
32717249 AGGGAGTA-AAATTGAGAA
1 AGGGAGTAGAAATAGAGAA
32717267 A
1 A
32717268 AAAAAAGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.37, T:0.13
Consensus pattern (19 bp):
AGGGAGTAGAAATAGAGAA
Found at i:32717518 original size:20 final size:20
Alignment explanation
Indices: 32717470--32717521 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
32717460 GGACTATTTC
*
32717470 ATTTTTTTATTTTGATTTTT
1 ATTTTTTTATTTTCATTTTT
32717490 -TTGTTTTTATTTTCATTTTT
1 ATT-TTTTTATTTTCATTTTT
*
32717510 ATTTATTTATTT
1 ATTTTTTTATTT
32717522 ATTTATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (20 bp):
ATTTTTTTATTTTCATTTTT
Found at i:32717531 original size:34 final size:35
Alignment explanation
Indices: 32717435--32717531 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 35
32717425 TATCTTTGAC
**
32717435 TCATTTTTATTT-TTT-TTTATTTTTTGGACTATT
1 TCATTTTTATTTATTTATTTATTTTTTTTACTATT
*
32717468 TCA-TTTT-TTTATTTTGATTTTTTTGTTTTTA-T-TT
1 TCATTTTTATTTA-TTT-ATTTATTT-TTTTTACTATT
32717502 TCATTTTTATTTATTTATTTATTTATTTTT
1 TCATTTTTATTTATTTATTTATTT-TTTTT
32717532 CTTTCATGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
31 3 0.06
32 4 0.08
33 6 0.12
34 17 0.33
35 14 0.27
36 8 0.15
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.76
Consensus pattern (35 bp):
TCATTTTTATTTATTTATTTATTTTTTTTACTATT
Found at i:32718406 original size:28 final size:27
Alignment explanation
Indices: 32718374--32718433 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
32718364 GTTATACATT
32718374 ATGTTAATCTATC-TTGCTAATCATAGGG
1 ATGTTAATCTA-CATT-CTAATCATAGGG
* * *
32718402 ATGTTACTGTACATTCTAATCATATGG
1 ATGTTAATCTACATTCTAATCATAGGG
32718429 ATGTT
1 ATGTT
32718434 TCCTTGAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (27 bp):
ATGTTAATCTACATTCTAATCATAGGG
Found at i:32721591 original size:102 final size:101
Alignment explanation
Indices: 32721415--32721617 Score: 388
Period size: 102 Copynumber: 2.0 Consensus size: 101
32721405 CTTCTTAACC
32721415 ATTTCATAAAAATAAGAAAAGAAAAATAGTTTTCTTTGTCTAATAAAAAAGAATATTTGGTAAGA
1 ATTTCATAAAAATAAGAAAAGAAAAATAGTTTTCTTTGTCTAATAAAAAAGAATATTTGGTAAGA
*
32721480 ACTTTTGTTTCTTTTTTTGTTTTAGAAACAAAATTT
66 ACTTTTGTTTCTTCTTTTGTTTTAGAAACAAAATTT
32721516 NATTTCATAAAAATAAGAAAAGAAAAATAGTTTTCTTTGTCTAATAAAAAAGAATATTTGGTAAG
1 -ATTTCATAAAAATAAGAAAAGAAAAATAGTTTTCTTTGTCTAATAAAAAAGAATATTTGGTAAG
32721581 AACTTTTGTTTCTTCTTTTGTTTTAGAAACAAAATTT
65 AACTTTTGTTTCTTCTTTTGTTTTAGAAACAAAATTT
32721618 GCTAGCATAA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.41
Consensus pattern (101 bp):
ATTTCATAAAAATAAGAAAAGAAAAATAGTTTTCTTTGTCTAATAAAAAAGAATATTTGGTAAGA
ACTTTTGTTTCTTCTTTTGTTTTAGAAACAAAATTT
Found at i:32730150 original size:9 final size:9
Alignment explanation
Indices: 32730138--32730173 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
32730128 GATTTGCAGG
*
32730138 ATAATAACA
1 ATAATAAAA
*
32730147 ATAACAAAA
1 ATAATAAAA
32730156 ATAATAAAA
1 ATAATAAAA
32730165 ATAATAAAA
1 ATAATAAAA
32730174 GTGAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (9 bp):
ATAATAAAA
Found at i:32733541 original size:20 final size:23
Alignment explanation
Indices: 32733502--32733546 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
32733492 TATTTAACTA
32733502 TTTATATTTTATGCATTAT-AGT
1 TTTATATTTTATGCATTATAAGT
*
32733524 TTTATA-TTTA-GTATTATAAGT
1 TTTATATTTTATGCATTATAAGT
32733545 TT
1 TT
32733547 AAATAGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 9 0.43
22 6 0.29
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (23 bp):
TTTATATTTTATGCATTATAAGT
Found at i:32734898 original size:16 final size:16
Alignment explanation
Indices: 32734872--32734913 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
32734862 AAAAATAAAA
*
32734872 TAAAATCATATT-TGAT
1 TAAAAT-ATATTATAAT
32734888 TAAAAATATATTATAAT
1 T-AAAATATATTATAAT
32734905 TAAAATATA
1 TAAAATATA
32734914 CTCCTTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
TAAAATATATTATAAT
Found at i:32741195 original size:26 final size:24
Alignment explanation
Indices: 32741142--32741205 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
32741132 CACCATATAA
* * *
32741142 AAAAACATGTTACATGCTATGTAT
1 AAAAATATGTTACACGCTATGTAG
32741166 AAAAATATGTTACACGCTATGATTAG
1 AAAAATATGTTACACGCTATG--TAG
32741192 AAAAGAT-TGTTACA
1 AAAA-ATATGTTACA
32741206 AGTCATGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 19 0.56
26 13 0.38
27 2 0.06
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (24 bp):
AAAAATATGTTACACGCTATGTAG
Found at i:32741289 original size:29 final size:29
Alignment explanation
Indices: 32741197--32741326 Score: 117
Period size: 29 Copynumber: 4.5 Consensus size: 29
32741187 ATTAGAAAAG
*
32741197 ATTGTTACAAGTCATGTTGAGAAAAAAAATATT
1 ATTGTTACACGTCATGTT--G--AAAAAATATT
* * *
32741230 ATTGTTACACGTTATG-T--ACAAATA-C
1 ATTGTTACACGTCATGTTGAAAAAATATT
*
32741255 A-TGTTACACGTCATGTTGAAAAAATGTT
1 ATTGTTACACGTCATGTTGAAAAAATATT
* **
32741283 GTTGTTACACACCATGTTGAAAAAATATT
1 ATTGTTACACGTCATGTTGAAAAAATATT
32741312 ATTGTTACACGTCAT
1 ATTGTTACACGTCAT
32741327 ATTTAAATAC
Statistics
Matches: 77, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
24 13 0.17
25 2 0.03
26 6 0.08
27 5 0.06
29 36 0.47
32 1 0.01
33 14 0.18
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (29 bp):
ATTGTTACACGTCATGTTGAAAAAATATT
Found at i:32741744 original size:23 final size:23
Alignment explanation
Indices: 32741717--32741762 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
32741707 CTTGTTATCT
32741717 TGAAAGCACAGGAA-AGAGAAATC
1 TGAAAGCACA-GAAGAGAGAAATC
**
32741740 TGAAAGTGCAGAAGAGAGAAATC
1 TGAAAGCACAGAAGAGAGAAATC
32741763 GGGAGCATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.50, C:0.11, G:0.28, T:0.11
Consensus pattern (23 bp):
TGAAAGCACAGAAGAGAGAAATC
Found at i:32742353 original size:90 final size:90
Alignment explanation
Indices: 32742199--32742365 Score: 273
Period size: 90 Copynumber: 1.9 Consensus size: 90
32742189 GGTTAATGAT
* * * *
32742199 ATTTCTCCAAAGAGTGGAACACATTATGTTGTTTTTCAAAGTAGAGGGCAAACTAGTAGGATTCT
1 ATTTCTCCAAAGAGTGGAAAACATTATGTTGTTTTTCAAAGTAGAGAGCAAACTAGCAGCATTCT
32742264 CACTGTTTTCTCTATAATGATAGTC
66 CACTGTTTTCTCTATAATGATAGTC
*
32742289 ATTTCTCCAAAGAGTGGAAAACATTATGTTG-TTTTCGAGAGTAGAGAGCAAACTAGCAGCATTC
1 ATTTCTCCAAAGAGTGGAAAACATTATGTTGTTTTTC-AAAGTAGAGAGCAAACTAGCAGCATTC
32742353 TCACTGTTTTCTC
65 TCACTGTTTTCTC
32742366 CACAATAATA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
89 5 0.07
90 66 0.93
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (90 bp):
ATTTCTCCAAAGAGTGGAAAACATTATGTTGTTTTTCAAAGTAGAGAGCAAACTAGCAGCATTCT
CACTGTTTTCTCTATAATGATAGTC
Found at i:32748535 original size:15 final size:15
Alignment explanation
Indices: 32748512--32748541 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32748502 TATAGTAAAA
32748512 CCTCAATAAATTAAT
1 CCTCAATAAATTAAT
*
32748527 CCTCGATAAATTAAT
1 CCTCAATAAATTAAT
32748542 AATTTTGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.33
Consensus pattern (15 bp):
CCTCAATAAATTAAT
Found at i:32754352 original size:2 final size:2
Alignment explanation
Indices: 32754345--32754370 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32754335 GAATAAATTC
32754345 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
32754371 TAAACTATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32763949 original size:19 final size:19
Alignment explanation
Indices: 32763925--32763962 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
32763915 CTGCCAAACC
*
32763925 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
32763944 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
32763963 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:32767701 original size:24 final size:23
Alignment explanation
Indices: 32767669--32767731 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
32767659 GAAAGAACAT
*
32767669 TAAATACATAATTAAAACACATAA
1 TAAAAACATAATTAAAA-ACATAA
* *
32767693 TAAGAACATATCATT-TAAACATAA
1 TAAAAACATA--ATTAAAAACATAA
32767717 TAAAAACAT-ATTAAA
1 TAAAAACATAATTAAA
32767732 GCATCTTCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
21 3 0.10
22 1 0.03
24 22 0.71
25 2 0.06
26 3 0.10
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAAAACATAATTAAAAACATAA
Done.