Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 145 of 230
Found at i:42802613 original size:27 final size:28
Alignment explanation
Indices: 42802572--42802627 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
42802562 GCGTAAGTTC
42802572 TTTTTTTACAGGGGTTTTTCAGTTCTTA
1 TTTTTTTACAGGGGTTTTTCAGTTCTTA
*
42802600 TTTTTTTACA-GGGTTTTTCGGTTCTTA
1 TTTTTTTACAGGGGTTTTTCAGTTCTTA
42802627 T
1 T
42802628 ATCTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.12, C:0.11, G:0.18, T:0.59
Consensus pattern (28 bp):
TTTTTTTACAGGGGTTTTTCAGTTCTTA
Found at i:42802634 original size:28 final size:28
Alignment explanation
Indices: 42802575--42802634 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 28
42802565 TAAGTTCTTT
*
42802575 TTTTACAGGGGTTTTTCAGTTCTTATTT
1 TTTTACAGGGGTTTTTCAGTTCTTATTC
*
42802603 TTTTACA-GGGTTTTTCGGTTCTTATATC
1 TTTTACAGGGGTTTTTCAGTTCTTAT-TC
42802631 TTTT
1 TTTT
42802635 TTTTGTGACC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.13, C:0.12, G:0.17, T:0.58
Consensus pattern (28 bp):
TTTTACAGGGGTTTTTCAGTTCTTATTC
Found at i:42803568 original size:44 final size:44
Alignment explanation
Indices: 42803520--42803757 Score: 165
Period size: 44 Copynumber: 5.2 Consensus size: 44
42803510 CCTTTATTTT
* *
42803520 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * *
42803564 AATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * * * *** *
42803608 AATCTAATGCGATCTACTCTACTGTAA-CTTCAGAGAGATGACA-TCCTTTATTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGATTAC-TGGCTTC
* * * *
42803662 AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * *
42803706 AATTTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
*
42803750 AATTTGCT
1 AATCTGCT
42803758 TCCTTACACT
Statistics
Matches: 147, Mismatches: 33, Indels: 28
0.71 0.16 0.13
Matches are distributed among these distances:
44 107 0.73
45 4 0.03
46 1 0.01
47 3 0.02
49 2 0.01
51 2 0.01
52 1 0.01
53 4 0.03
54 23 0.16
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
Found at i:42803728 original size:142 final size:142
Alignment explanation
Indices: 42803483--42803752 Score: 459
Period size: 142 Copynumber: 1.9 Consensus size: 142
42803473 TGCGATCCTT
* ** *
42803483 TCTATTGTAACTTCAGAGAGATGTGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGA
1 TCTACTGTAACTTCAGAGAGATGACATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
* *
42803548 TAGGATTACTGGTTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
66 TAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
42803613 AATGCGATCTAC
131 AATGCGATCTAC
*
42803625 TCTACTGTAACTTCAGAGAGATGACATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAGA
1 TCTACTGTAACTTCAGAGAGATGACATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
* *
42803690 TAGGATTACTAGCTTCAATTTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAAT
66 TAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAAT
42803753 TTGCTTCCTT
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 119 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (142 bp):
TCTACTGTAACTTCAGAGAGATGACATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
TAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
AATGCGATCTAC
Found at i:42812405 original size:19 final size:19
Alignment explanation
Indices: 42812381--42812426 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
42812371 AATAATTTTA
* *
42812381 AATGCATATG-ATGACATG
1 AATGCAGATGCATGAAATG
42812399 TAATGCAGATGCATGAAATG
1 -AATGCAGATGCATGAAATG
42812419 AATGCAGA
1 AATGCAGA
42812427 AAGGTGTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (19 bp):
AATGCAGATGCATGAAATG
Found at i:42816329 original size:23 final size:23
Alignment explanation
Indices: 42816285--42816329 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
42816275 ATAATAAGTT
**
42816285 TAAAAATAATATTAAGCCAATAA
1 TAAAAATAATATTAAAACAATAA
* *
42816308 TAAAAATAATGTTAAAATAATA
1 TAAAAATAATATTAAAACAATA
42816330 TATGAACATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAAATAATATTAAAACAATAA
Found at i:42817040 original size:36 final size:36
Alignment explanation
Indices: 42816990--42817061 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
42816980 GACGACACCG
42816990 TTTTAAATCCGGTGATTAAAACTAAAATAAAACTAA
1 TTTTAAATCCGGTGATTAAAACTAAAATAAAACTAA
**
42817026 TTTTAAATTTGGTGATTAAAACTAAAATAAAACTAA
1 TTTTAAATCCGGTGATTAAAACTAAAATAAAACTAA
42817062 AAAACCCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (36 bp):
TTTTAAATCCGGTGATTAAAACTAAAATAAAACTAA
Found at i:42825114 original size:75 final size:76
Alignment explanation
Indices: 42824982--42825121 Score: 210
Period size: 75 Copynumber: 1.9 Consensus size: 76
42824972 AACTTTTAAT
* *
42824982 ACACTGGCACAAAGCCTACTAGGCACAAAGTCTGAATAACACTAGCATAAAGCCTGCTAGGCACA
1 ACACTGGCACAAAGCCTACTAGGCACAAAGCCTGAATAACACTAGCACAAAGCCTGCTAGGCACA
42825047 GAGCTTGAATA
66 GAGCTTGAATA
* * * * *
42825058 ACACT-GCACAAAGTCTGCTAGGCACAGAGCCTGAATAACACTGGCACAAAGTCTGCTAGGCACA
1 ACACTGGCACAAAGCCTACTAGGCACAAAGCCTGAATAACACTAGCACAAAGCCTGCTAGGCACA
42825122 AAGCCTGCTA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
75 52 0.91
76 5 0.09
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.16
Consensus pattern (76 bp):
ACACTGGCACAAAGCCTACTAGGCACAAAGCCTGAATAACACTAGCACAAAGCCTGCTAGGCACA
GAGCTTGAATA
Found at i:42825121 original size:16 final size:16
Alignment explanation
Indices: 42825100--42825141 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
42825090 GAATAACACT
*
42825100 GGCACAAAGTCTGCTA
1 GGCACAAAGCCTGCTA
42825116 GGCACAAAGCCTGCTA
1 GGCACAAAGCCTGCTA
42825132 GGCACAAAGC
1 GGCACAAAGC
42825142 TTGAATAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.33, C:0.29, G:0.26, T:0.12
Consensus pattern (16 bp):
GGCACAAAGCCTGCTA
Found at i:42825127 original size:38 final size:38
Alignment explanation
Indices: 42824982--42825128 Score: 206
Period size: 38 Copynumber: 3.9 Consensus size: 38
42824972 AACTTTTAAT
* *
42824982 ACACTGGCACAAAGCCTACTAGGCACAAAGTCTGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
* * * *
42825020 ACACTAGCATAAAGCCTGCTAGGCACAGAGCTTGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
* *
42825058 ACACT-GCACAAAGTCTGCTAGGCACAGAGCCTGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
*
42825095 ACACTGGCACAAAGTCTGCTAGGCACAAAGCCTG
1 ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTG
42825129 CTAGGCACAA
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
37 34 0.35
38 64 0.65
ACGTcount: A:0.36, C:0.27, G:0.21, T:0.16
Consensus pattern (38 bp):
ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
Found at i:42827893 original size:25 final size:25
Alignment explanation
Indices: 42827865--42827932 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
42827855 CTCGTGTGAA
* * *
42827865 CATATCGATTTATAGCTCATGAGAG
1 CATACCGATTTACAGCTCAAGAGAG
* *
42827890 CATACCGATCTACAGCTCAAGTGAG
1 CATACCGATTTACAGCTCAAGAGAG
*
42827915 CATACCGATTCACAGCTC
1 CATACCGATTTACAGCTC
42827933 GTATGAGTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (25 bp):
CATACCGATTTACAGCTCAAGAGAG
Found at i:42827939 original size:25 final size:25
Alignment explanation
Indices: 42827850--42827944 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
42827840 TGTTCTAACC
* * *
42827850 CACAGCTCGTGTGAACATATCGATT
1 CACAGCTCGTATGAGCATACCGATT
* * *
42827875 TATAGCTCATGA-GAGCATACCGA-T
1 CACAGCTCGT-ATGAGCATACCGATT
*
42827899 CTACAGCTC-AAGTGAGCATACCGATT
1 C-ACAGCTCGTA-TGAGCATACCGATT
*
42827925 CACAGCTCGTATGAGTATAC
1 CACAGCTCGTATGAGCATAC
42827945 ATGTATATGA
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 48 0.91
26 3 0.06
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
CACAGCTCGTATGAGCATACCGATT
Found at i:42830251 original size:22 final size:22
Alignment explanation
Indices: 42830226--42830269 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
42830216 TCTGCATAAT
42830226 TAATAAATGTTTTATCAACAGC
1 TAATAAATGTTTTATCAACAGC
42830248 TAATAAATGTTTTATCAACAGC
1 TAATAAATGTTTTATCAACAGC
42830270 GAAGAGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (22 bp):
TAATAAATGTTTTATCAACAGC
Found at i:42834889 original size:23 final size:23
Alignment explanation
Indices: 42834863--42834943 Score: 60
Period size: 23 Copynumber: 3.5 Consensus size: 23
42834853 TAATAATTTT
*
42834863 TGGATTGAAGTATAAGTTTAAAA
1 TGGAATGAAGTATAAGTTTAAAA
* **
42834886 TGGAATGAAAATCATAA---TAATTTT
1 TGGAATG-AAGT-ATAAGTTTAA--AA
*
42834910 TGGATTGAAGTATAAGTTTAAAA
1 TGGAATGAAGTATAAGTTTAAAA
42834933 TGGAATGAAGT
1 TGGAATGAAGT
42834944 TAACATTCTT
Statistics
Matches: 42, Mismatches: 9, Indels: 14
0.65 0.14 0.22
Matches are distributed among these distances:
22 7 0.17
23 19 0.45
24 9 0.21
25 7 0.17
ACGTcount: A:0.43, C:0.01, G:0.21, T:0.35
Consensus pattern (23 bp):
TGGAATGAAGTATAAGTTTAAAA
Found at i:42834916 original size:47 final size:47
Alignment explanation
Indices: 42834847--42834941 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
42834837 AGTAATATAT
42834847 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
1 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
42834894 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
1 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
42834941 A
1 A
42834942 GTTAACATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (47 bp):
AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
Found at i:42834976 original size:24 final size:24
Alignment explanation
Indices: 42834944--42834991 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
42834934 GGAATGAAGT
42834944 TAACATTCTTATTTTCACATTATA
1 TAACATTCTTATTTTCACATTATA
42834968 TAACATTCTTATTTTCACATTATA
1 TAACATTCTTATTTTCACATTATA
42834992 AAACTGTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (24 bp):
TAACATTCTTATTTTCACATTATA
Found at i:42837238 original size:20 final size:21
Alignment explanation
Indices: 42837213--42837271 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
42837203 AAGAATATAA
42837213 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAATTTTTATAAATT
* *
42837233 ATTTTG-AATTTCTAAAAATT
1 ATTTTGAAATTTTTATAAATT
*
42837253 ATTTTGAATTATTTTATAA
1 ATTTTGAAAT-TTTTATAA
42837272 TTTTTGTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 10 0.32
20 13 0.42
21 2 0.06
22 6 0.19
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (21 bp):
ATTTTGAAATTTTTATAAATT
Found at i:42837955 original size:25 final size:26
Alignment explanation
Indices: 42837915--42837963 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
42837905 ATCAAGCAGA
42837915 CCAATAAAAATATATATA-ATTTAGG
1 CCAATAAAAATATATATATATTTAGG
42837940 CCAA-AAAAATACTATATATATTTA
1 CCAATAAAAATA-TATATATATTTA
42837964 TCTTTTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 10 0.45
26 5 0.23
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (26 bp):
CCAATAAAAATATATATATATTTAGG
Found at i:42842607 original size:21 final size:22
Alignment explanation
Indices: 42842574--42842614 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
42842564 CATCCCTAAT
42842574 TAAATATTCAAATAATTTTTTA
1 TAAATATTCAAATAATTTTTTA
* *
42842596 TAAA-ATTGAAATTATTTTT
1 TAAATATTCAAATAATTTTT
42842615 AATTTAAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TAAATATTCAAATAATTTTTTA
Found at i:42845215 original size:37 final size:35
Alignment explanation
Indices: 42845174--42845309 Score: 121
Period size: 37 Copynumber: 3.7 Consensus size: 35
42845164 CGAAAATACA
* * *
42845174 CCAAATGCTCGTAAAAGCTCATCCACCCAATAAAATG
1 CCAAATGCTC-TAAGAGCT-ATCCACCCAATAACACG
*
42845211 CCAAATGCTCTGAAGAGCTAGTCCAACCAA-AATCACG
1 CCAAATGCTCT-AAGAGCTA-TCCACCCAATAA-CACG
*
42845248 CCAAAGGCTCATAAGAGCTAATCCACCCAATAACACG
1 CCAAATGCTC-TAAGAGCT-ATCCACCCAATAACACG
* *
42845285 CCAATTGCTCCAAAGAGCTAGTCCA
1 CCAAATGCT-CTAAGAGCTA-TCCA
42845310 ACCTAAAACA
Statistics
Matches: 82, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
36 5 0.06
37 72 0.88
38 5 0.06
ACGTcount: A:0.38, C:0.31, G:0.14, T:0.17
Consensus pattern (35 bp):
CCAAATGCTCTAAGAGCTATCCACCCAATAACACG
Found at i:42845301 original size:74 final size:74
Alignment explanation
Indices: 42845166--42845317 Score: 198
Period size: 74 Copynumber: 2.1 Consensus size: 74
42845156 ATTCCATCCG
* * * * **
42845166 AAAATACACCAAATGCTCGTAAAAGCTCATCCACCCAATAAAATGCCAAATGCTCTGAAGAGCTA
1 AAAATACACCAAAGGCTCATAAAAGCTAATCCACCCAATAAAACGCCAAATGCTCCAAAGAGCTA
42845231 GTCCAACC-
66 GTCCAACCT
* * * *
42845239 AAAATCACGCCAAAGGCTCATAAGAGCTAATCCACCCAATAACACGCCAATTGCTCCAAAGAGCT
1 AAAAT-ACACCAAAGGCTCATAAAAGCTAATCCACCCAATAAAACGCCAAATGCTCCAAAGAGCT
42845304 AGTCCAACCT
65 AGTCCAACCT
42845314 AAAA
1 AAAA
42845318 CACATTAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
73 5 0.07
74 58 0.87
75 4 0.06
ACGTcount: A:0.41, C:0.30, G:0.12, T:0.16
Consensus pattern (74 bp):
AAAATACACCAAAGGCTCATAAAAGCTAATCCACCCAATAAAACGCCAAATGCTCCAAAGAGCTA
GTCCAACCT
Found at i:42847135 original size:145 final size:144
Alignment explanation
Indices: 42846868--42847186 Score: 431
Period size: 145 Copynumber: 2.2 Consensus size: 144
42846858 GATATTGAAT
* * * * * * *
42846868 GTGAGCCCAACTCTAGTTGGGTAAACCAACAATGTTTGCCCCCAGCGCTAGTCGGTTATATCGAT
1 GTGAGCCCAACTCTAGTTGGATAAACCAACAATATTTACCCCCAACGCTAGTCAGTTATACCGAC
* * *
42846933 GATTGTGTGCCCAGCACTAGTTAGACAAACTGACAAAAGTTGCGCCTAGCGCTAGTCGAATATAT
66 GATTGTGTGCCCAGCACTAGTTAGACAAACTAACAAAAGTTGCGCCCAGCGCCAGTCGAATATAT
42846998 CAAAAAAAATCCATA
131 -AAAAAAAATCCATA
** * * *
42847013 GTGAGCCCAACTCTAGTTGGATAAACCAATGATATTTACGCCCAACGCTAGTTAGTTATACCGGC
1 GTGAGCCCAACTCTAGTTGGATAAACCAACAATATTTACCCCCAACGCTAGTCAGTTATACCGAC
* * *
42847078 GATTGTGTGCCTAGCACTAGTTAGACAATCTAACAAAAGTTGCGCCCAGTGCCAGTCGAATATAT
66 GATTGTGTGCCCAGCACTAGTTAGACAAACTAACAAAAGTTGCGCCCAGCGCCAGTCGAATATAT
** *
42847143 TGACAAAATCCATA
131 AAAAAAAATCCATA
*
42847157 GTGAGCCCAGCTCTAGTTGGATAAACCAAC
1 GTGAGCCCAACTCTAGTTGGATAAACCAAC
42847187 GATGTTTGTT
Statistics
Matches: 151, Mismatches: 23, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
144 39 0.26
145 112 0.74
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (144 bp):
GTGAGCCCAACTCTAGTTGGATAAACCAACAATATTTACCCCCAACGCTAGTCAGTTATACCGAC
GATTGTGTGCCCAGCACTAGTTAGACAAACTAACAAAAGTTGCGCCCAGCGCCAGTCGAATATAT
AAAAAAAATCCATA
Found at i:42848240 original size:14 final size:15
Alignment explanation
Indices: 42848221--42848259 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
42848211 ATTTCCTTTA
42848221 CATATTATAATTA-T
1 CATATTATAATTATT
42848235 CATATTATAATTATT
1 CATATTATAATTATT
*
42848250 AATATTATAA
1 CATATTATAA
42848260 CATATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (15 bp):
CATATTATAATTATT
Found at i:42848674 original size:13 final size:14
Alignment explanation
Indices: 42848656--42848685 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
42848646 TGACACATTC
42848656 GTTAGTTAA-TTTA
1 GTTAGTTAATTTTA
42848669 GTTAGTTAATTTTA
1 GTTAGTTAATTTTA
42848683 GTT
1 GTT
42848686 TTAATCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (14 bp):
GTTAGTTAATTTTA
Found at i:42859646 original size:56 final size:56
Alignment explanation
Indices: 42859580--42859697 Score: 148
Period size: 56 Copynumber: 2.1 Consensus size: 56
42859570 TCCATGCCCT
* * * ** *
42859580 TGTGAATATACTGACTTGGGACACAC-GACCAAGCCACATGCTCGTGTGCTAGGCCA
1 TGTGAGTATACTGACCTAGGACACACAG-CCAAAACACATGCCCGTGTGCTAGGCCA
* *
42859636 TGTGAGTATACTGACCTAGGTCACACAGCCAAAACACATGCCCGTGTGCTAGGTCA
1 TGTGAGTATACTGACCTAGGACACACAGCCAAAACACATGCCCGTGTGCTAGGCCA
42859692 TGTGAG
1 TGTGAG
42859698 AAATTTGAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
56 52 0.98
57 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.22
Consensus pattern (56 bp):
TGTGAGTATACTGACCTAGGACACACAGCCAAAACACATGCCCGTGTGCTAGGCCA
Found at i:42860584 original size:25 final size:25
Alignment explanation
Indices: 42860534--42860609 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 25
42860524 ATTCATGTAT
*
42860534 GCTCATACGAGCT-ACA-AACGAGAA
1 GCTCATCCGAGCTGA-ATAACGAGAA
* *
42860558 GCTCCTCCGAGCTGAATAACGGGAA
1 GCTCATCCGAGCTGAATAACGAGAA
** * *
42860583 GCTCATGTGAGCTGAATATCGAAAA
1 GCTCATCCGAGCTGAATAACGAGAA
42860608 GC
1 GC
42860610 ACATTAGAAC
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
24 12 0.29
25 29 0.71
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (25 bp):
GCTCATCCGAGCTGAATAACGAGAA
Found at i:42860647 original size:25 final size:25
Alignment explanation
Indices: 42860566--42860670 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 25
42860556 AAGCTCCTCC
* **
42860566 GAGCTGAATAACGGGAAGCTCATGT
1 GAGCTGAATAACGGAAAGCTCATAA
* * * *
42860591 GAGCTGAATATCGAAAAGCACATTA
1 GAGCTGAATAACGGAAAGCTCATAA
* * *
42860616 GAACTGTATAACGGCAAGCTCATAA
1 GAGCTGAATAACGGAAAGCTCATAA
*
42860641 GAGCTGTAA-ATCGGAAAGCTCATAA
1 GAGCTG-AATAACGGAAAGCTCATAA
42860666 GAGCT
1 GAGCT
42860671 ATGTTCTGCC
Statistics
Matches: 62, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
25 61 0.98
26 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (25 bp):
GAGCTGAATAACGGAAAGCTCATAA
Found at i:42860863 original size:22 final size:22
Alignment explanation
Indices: 42860812--42860864 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
42860802 TCATGGAAAT
42860812 TGTAC-ATTTAACAAATAATAA
1 TGTACAATTTAACAAATAATAA
*
42860833 T-T-CAATTTAACACAT-ATGAA
1 TGTACAATTTAACAAATAAT-AA
42860853 TGTACAATTTAA
1 TGTACAATTTAA
42860865 TTACACGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 2 0.07
22 8 0.30
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (22 bp):
TGTACAATTTAACAAATAATAA
Found at i:42863722 original size:21 final size:21
Alignment explanation
Indices: 42863696--42863744 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
42863686 CAACTCTAAG
42863696 TCATGTGTTAGATAGTTCTTT
1 TCATGTGTTAGATAGTTCTTT
*
42863717 TCATGTGTTGGATAGTTCTTT
1 TCATGTGTTAGATAGTTCTTT
42863738 TCATGTG
1 TCATGTG
42863745 GCTGTAACTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.10, G:0.22, T:0.51
Consensus pattern (21 bp):
TCATGTGTTAGATAGTTCTTT
Found at i:42869110 original size:28 final size:29
Alignment explanation
Indices: 42869078--42869176 Score: 98
Period size: 28 Copynumber: 3.5 Consensus size: 29
42869068 ATAATAAGCC
*
42869078 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
42869106 CGCACACTTAGTGC-CATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
42869134 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
42869163 CGCACACTTAGTGC
1 CGCACACTTAGTGC
42869177 CAATCTCATG
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
27 3 0.05
28 35 0.59
29 17 0.29
30 4 0.07
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:42873215 original size:21 final size:22
Alignment explanation
Indices: 42873188--42873256 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 22
42873178 ACATAAGTAA
*
42873188 CTAAAAT-GACACACGAAGTGC
1 CTAAAATAGACACACAAAGTGC
* *
42873209 CTGAAATACGACACATAAAGTGC
1 CTAAAATA-GACACACAAAGTGC
* *
42873232 CTAAAATACGGCACATAAAGTGC
1 CTAAAATA-GACACACAAAGTGC
42873255 CT
1 CT
42873257 GATCGACAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
21 6 0.15
23 35 0.85
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.17
Consensus pattern (22 bp):
CTAAAATAGACACACAAAGTGC
Found at i:42873229 original size:23 final size:23
Alignment explanation
Indices: 42873203--42873258 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
42873193 ATGACACACG
42873203 AAGTGCCTGAAATACGACACATA
1 AAGTGCCTGAAATACGACACATA
* *
42873226 AAGTGCCTAAAATACGGCACATA
1 AAGTGCCTGAAATACGACACATA
42873249 AAGTGCCTGA
1 AAGTGCCTGA
42873259 TCGACAAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (23 bp):
AAGTGCCTGAAATACGACACATA
Found at i:42879093 original size:26 final size:26
Alignment explanation
Indices: 42879020--42879097 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
42879010 TCATCCAATA
* *
42879020 ACATACCAT-TTGTGGACAAGCCACC
1 ACATAACATATTGTGGACAAACCACC
* * *
42879045 ACAT-A-A-ATT-TCGATAAACGACC
1 ACATAACATATTGTGGACAAACCACC
42879067 ACATAACATATTGTGGACAAACCACC
1 ACATAACATATTGTGGACAAACCACC
42879093 ACATA
1 ACATA
42879098 TTTGCTGATA
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
22 13 0.32
23 4 0.10
24 1 0.03
25 7 0.17
26 15 0.38
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.21
Consensus pattern (26 bp):
ACATAACATATTGTGGACAAACCACC
Found at i:42879114 original size:47 final size:46
Alignment explanation
Indices: 42879020--42879119 Score: 132
Period size: 47 Copynumber: 2.1 Consensus size: 46
42879010 TCATCCAATA
* *
42879020 ACATACCATTTGTGGACAAGCCACCACATAAATTTCGATAAACGACC
1 ACATAACATTTGTGGACAAACCACCACAT-AATTTCGATAAACGACC
42879067 ACATAACATATTGTGGACAAACCACCACAT-ATTTGCTGAT-AACGACC
1 ACATAACAT-TTGTGGACAAACCACCACATAATTT-C-GATAAACGACC
42879114 ACATAA
1 ACATAA
42879120 TCGCAGATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
46 4 0.08
47 22 0.46
48 22 0.46
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (46 bp):
ACATAACATTTGTGGACAAACCACCACATAATTTCGATAAACGACC
Found at i:42879128 original size:21 final size:21
Alignment explanation
Indices: 42879090--42879129 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
42879080 TGGACAAACC
* * *
42879090 ACCACATATTTGCTGATAACG
1 ACCACATAATCGCAGATAACG
42879111 ACCACATAATCGCAGATAA
1 ACCACATAATCGCAGATAA
42879130 GTTGCCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (21 bp):
ACCACATAATCGCAGATAACG
Found at i:42905847 original size:62 final size:59
Alignment explanation
Indices: 42905758--42905874 Score: 135
Period size: 62 Copynumber: 1.9 Consensus size: 59
42905748 ATTAATTATG
** * * *
42905758 TTAATATTAAATATAATTTAATTTTTATCCTGTAGATAAAAATTCTATTATTTTAATAAGAT
1 TTAATATTAAATATAATCGAATATTTAT-CT-T-GATAAAAATTATATTAATTTAATAAGAT
* * *
42905820 TTAATATTAGATTTAATCGAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATATAATCGAATATTTATCTTGATAAAAATTATATTAATTTAATA
42905875 GTAAAGTGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 21 0.45
60 1 0.02
61 2 0.04
62 23 0.49
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATATAATCGAATATTTATCTTGATAAAAATTATATTAATTTAATAAGAT
Found at i:42908609 original size:20 final size:20
Alignment explanation
Indices: 42908581--42908619 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
42908571 TACTTTCTTC
*
42908581 TTTACTTACTCTCTTACTTT
1 TTTAATTACTCTCTTACTTT
*
42908601 TTTAATTACTTTCTTACTT
1 TTTAATTACTCTCTTACTT
42908620 AAATAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTACTCTCTTACTTT
Found at i:42908954 original size:50 final size:50
Alignment explanation
Indices: 42908840--42909071 Score: 184
Period size: 50 Copynumber: 4.6 Consensus size: 50
42908830 AGTCATGTGT
* * * * * *
42908840 CAGACATGGTCTTACATGGGATG-TTTCCT-GTACTGCCAATGTCATATCC
1 CAGACATGGTCTTACATGGGA-GCTCTCATATTAGTGCCAATGCCATGTCC
* * * *
42908889 CAAATATGGTCTTACATGGGAGTTCTCATATTAGTGCCCATGCCATGTCC
1 CAGACATGGTCTTACATGGGAGCTCTCATATTAGTGCCAATGCCATGTCC
* * * ** * *
42908939 CAGACATGGTCTTACAGGGGACCTCTCATCTCGGTACCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGAGCTCTCATATTAGTGCCAATGCCATGTCC
* * * *
42908989 CAGACATGGTCTTACGTGAGACCTCTCATAACCTCAATAATGCCAATGCCATGTCC
1 CAGACATGGTCTTACATGGGAGCTCTCAT-A--T---TAGTGCCAATGCCATGTCC
42909045 CAGACATGGTCTTACATGGG-G-TCTCAT
1 CAGACATGGTCTTACATGGGAGCTCTCAT
42909072 CCCCCTAATG
Statistics
Matches: 143, Mismatches: 32, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
48 1 0.01
49 23 0.16
50 80 0.56
53 1 0.01
54 6 0.04
56 32 0.22
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
CAGACATGGTCTTACATGGGAGCTCTCATATTAGTGCCAATGCCATGTCC
Found at i:42912284 original size:38 final size:38
Alignment explanation
Indices: 42912126--42912364 Score: 168
Period size: 38 Copynumber: 6.3 Consensus size: 38
42912116 AATACCAAAT
42912126 ATACTGAATGTTGCTCAATCGAGCAAAATCTA-TTGAAC
1 ATACTGAATGTTGCTCAATCGAGCAAAATCTACTT-AAC
* * * * *
42912164 ACACTG--TGTAATGCTCACTGGAGCAAAACCTACTTAAT
1 ATACTGAATGT--TGCTCAATCGAGCAAAATCTACTTAAC
** * * *
42912202 ATACCAAATGTTTCTC-ATCAAG-AAAATCTACTTAAT
1 ATACTGAATGTTGCTCAATCGAGCAAAATCTACTTAAC
42912238 ATACTGAATGTTGCTCAATCGAGCAAAATCTA-TTAAAC
1 ATACTGAATGTTGCTCAATCGAGCAAAATCTACTT-AAC
* * * * ** *
42912276 AAATTGAATGTTGCTCAATTGAG-AATAACCTACCAAAT
1 ATACTGAATGTTGCTCAATCGAGCAA-AATCTACTTAAC
* * * * * *
42912314 ATACCGAATATTGCTCAATCAAGTAAAATCTACTAAAAT
1 ATACTGAATGTTGCTCAATCGAGCAAAATCTACT-TAAC
42912353 ATACTGAATGTT
1 ATACTGAATGTT
42912365 CTTCAACCGG
Statistics
Matches: 154, Mismatches: 35, Indels: 23
0.73 0.17 0.11
Matches are distributed among these distances:
36 29 0.19
37 12 0.08
38 92 0.60
39 18 0.12
40 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (38 bp):
ATACTGAATGTTGCTCAATCGAGCAAAATCTACTTAAC
Found at i:42916136 original size:29 final size:29
Alignment explanation
Indices: 42916102--42916160 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
42916092 CCAAATATAT
* * *
42916102 TGAATGTTGCTCAATGGAGTAAAATCTAC
1 TGAATGTCGCTCAATCGAGCAAAATCTAC
42916131 TGAATGTCGCTCAATCGAGCAAAATCTAC
1 TGAATGTCGCTCAATCGAGCAAAATCTAC
42916160 T
1 T
42916161 AAACACACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (29 bp):
TGAATGTCGCTCAATCGAGCAAAATCTAC
Found at i:42916326 original size:38 final size:38
Alignment explanation
Indices: 42916128--42916383 Score: 230
Period size: 38 Copynumber: 6.7 Consensus size: 38
42916118 GAGTAAAATC
* * * *
42916128 TACTGAATGTCGCTCAATCGAGCAAAATCTACTAAACA
1 TACTGAATGTTGCTCAATCGAGCAAAACCTACTGAATA
* *
42916166 CACTAAATGTTGCTCAATCGAGCAAAACCTA-TAGAATA
1 TACTGAATGTTGCTCAATCGAGCAAAACCTACT-GAATA
* *
42916204 TATTGAATGTTGCTCAATCGAGCAAAATCTACTGAATA
1 TACTGAATGTTGCTCAATCGAGCAAAACCTACTGAATA
**** * *
42916242 TACTGAATGCCATTGAATCGAGCAAAATCTACTG-ATCA
1 TACTGAATGTTGCTCAATCGAGCAAAACCTACTGAAT-A
* *
42916280 CACTGAATGTTGCTCAATCGAGCGAAACCTA-TCGAATA
1 TACTGAATGTTGCTCAATCGAGCAAAACCTACT-GAATA
* * * * *
42916318 TACCGAATGTTTCTCAATCAAGTAAAACCTACTAAAATA
1 TACTGAATGTTGCTCAATCGAGCAAAACCTACT-GAATA
* * * *
42916357 TATTAAATGTTGTTCAATCAAGCAAAA
1 TACTGAATGTTGCTCAATCGAGCAAAA
42916384 ATATATTGAC
Statistics
Matches: 174, Mismatches: 38, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
37 4 0.02
38 141 0.81
39 29 0.17
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (38 bp):
TACTGAATGTTGCTCAATCGAGCAAAACCTACTGAATA
Found at i:42916328 original size:114 final size:114
Alignment explanation
Indices: 42916143--42916350 Score: 317
Period size: 114 Copynumber: 1.8 Consensus size: 114
42916133 AATGTCGCTC
**
42916143 AATCGAGCAAAATCTACTAAACACACTAAATGTTGCTCAATCGAGCAAAACCTATAGAATATATT
1 AATCGAGCAAAATCTACTAAACACACTAAATGTTGCTCAATCGAGCAAAACCTATAGAATATACC
* *
42916208 GAATGTTGCTCAATCGAGCAAAATCTACTGAATATACTGAATGCCATTG
66 GAATGTTGCTCAATCAAGCAAAACCTACTGAATATACTGAATGCCATTG
* * * * *
42916257 AATCGAGCAAAATCTACTGATCACACTGAATGTTGCTCAATCGAGCGAAACCTATCGAATATACC
1 AATCGAGCAAAATCTACTAAACACACTAAATGTTGCTCAATCGAGCAAAACCTATAGAATATACC
* *
42916322 GAATGTTTCTCAATCAAGTAAAACCTACT
66 GAATGTTGCTCAATCAAGCAAAACCTACT
42916351 AAAATATATT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 83 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (114 bp):
AATCGAGCAAAATCTACTAAACACACTAAATGTTGCTCAATCGAGCAAAACCTATAGAATATACC
GAATGTTGCTCAATCAAGCAAAACCTACTGAATATACTGAATGCCATTG
Found at i:42917073 original size:44 final size:44
Alignment explanation
Indices: 42916998--42917098 Score: 157
Period size: 44 Copynumber: 2.3 Consensus size: 44
42916988 CTTTGACATG
* * **
42916998 TTTGAGTGTATTTGAAGATGGTTTTTGTCTTATAAAATTGTGTA
1 TTTGGGTGTTTTTGAAGATGGTTTTAATCTTATAAAATTGTGTA
*
42917042 TTTGGGTGTTTTTGAATATGGTTTTAATCTTATAAAATTGTGTA
1 TTTGGGTGTTTTTGAAGATGGTTTTAATCTTATAAAATTGTGTA
42917086 TTTGGGTGTTTTT
1 TTTGGGTGTTTTT
42917099 AGGTACCTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.22, C:0.02, G:0.23, T:0.53
Consensus pattern (44 bp):
TTTGGGTGTTTTTGAAGATGGTTTTAATCTTATAAAATTGTGTA
Found at i:42927546 original size:3 final size:3
Alignment explanation
Indices: 42927510--42927561 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
42927500 TAAATTGATG
* * * *
42927510 AAT AAT AAA AAT AATT AAT AGT GAC AAGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
42927557 AAT AA
1 AAT AA
42927562 ACCCGTTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
3 34 0.87
4 5 0.13
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:42928363 original size:16 final size:17
Alignment explanation
Indices: 42928324--42928363 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
42928314 GTTTTTACAG
42928324 AGGAAAAATAAAATAAA
1 AGGAAAAATAAAATAAA
**
42928341 AATAAAAAT-AAATAAA
1 AGGAAAAATAAAATAAA
42928357 AGGAAAA
1 AGGAAAA
42928364 TTGCCCCGTC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (17 bp):
AGGAAAAATAAAATAAA
Found at i:42932433 original size:15 final size:15
Alignment explanation
Indices: 42932413--42932443 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42932403 ATATATTTTG
42932413 TATTTTTTTTCTTTA
1 TATTTTTTTTCTTTA
*
42932428 TATTTTTTTTGTTTA
1 TATTTTTTTTCTTTA
42932443 T
1 T
42932444 TTCCTTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.81
Consensus pattern (15 bp):
TATTTTTTTTCTTTA
Found at i:42934381 original size:19 final size:19
Alignment explanation
Indices: 42934341--42934383 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
42934331 GTCTCTTTAT
*
42934341 GCATTCATCTCATGCATTC
1 GCATTCATCTCATGCATAC
*
42934360 GCATTACATGTCAT-CATAC
1 GCATT-CATCTCATGCATAC
42934379 GCATT
1 GCATT
42934384 TAAATCCACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (19 bp):
GCATTCATCTCATGCATAC
Found at i:42942645 original size:15 final size:15
Alignment explanation
Indices: 42942625--42942655 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
42942615 TGAAAAATAA
42942625 TCAAAAGCAACTAAG
1 TCAAAAGCAACTAAG
42942640 TCAAAAGCAACTAAG
1 TCAAAAGCAACTAAG
42942655 T
1 T
42942656 AAGCTCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.13, T:0.16
Consensus pattern (15 bp):
TCAAAAGCAACTAAG
Found at i:42946375 original size:21 final size:20
Alignment explanation
Indices: 42946347--42946387 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
42946337 CAATTTTCAC
**
42946347 GAAAATTTATTAAAACTTTA
1 GAAAATTTAGCAAAACTTTA
42946367 GAAATATTTAGCAAAACTTTA
1 GAAA-ATTTAGCAAAACTTTA
42946388 AAGTAAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (20 bp):
GAAAATTTAGCAAAACTTTA
Found at i:42947766 original size:11 final size:11
Alignment explanation
Indices: 42947750--42947775 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
42947740 ACTTCTTTCC
42947750 CCTTATAAAGA
1 CCTTATAAAGA
42947761 CCTTATAAAGA
1 CCTTATAAAGA
42947772 CCTT
1 CCTT
42947776 GTTGATCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (11 bp):
CCTTATAAAGA
Found at i:42952590 original size:6 final size:6
Alignment explanation
Indices: 42952581--42952605 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
42952571 TTAAAATAAA
42952581 AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT A
42952606 TTTTAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:42956352 original size:28 final size:28
Alignment explanation
Indices: 42956310--42956424 Score: 164
Period size: 27 Copynumber: 4.2 Consensus size: 28
42956300 CTATTCAGTA
* *
42956310 ACAGT-ACAGTGTGGGCCTTAGCTCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
42956337 ACAGTAACAATGTGGG-CGTAGCCTAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
42956364 ACAGTAACAATGT-GGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
42956391 ATAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
42956419 ACAGTA
1 ACAGTA
42956425 TCGGTACAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
26 2 0.03
27 47 0.61
28 28 0.36
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:42956810 original size:27 final size:27
Alignment explanation
Indices: 42956780--42956934 Score: 193
Period size: 27 Copynumber: 5.7 Consensus size: 27
42956770 ATCTCGTAGA
*
42956780 GGTATTTCGGTCATTTTACCCTATTGG
1 GGTATTTCGGTCATTTTACCCTATGGG
*
42956807 GGTATTTCGATCATTTTACCCTATGGG
1 GGTATTTCGGTCATTTTACCCTATGGG
*
42956834 GGTATTTCGGTCATTCTACCCTATGGG
1 GGTATTTCGGTCATTTTACCCTATGGG
* * * *
42956861 GGTATTTCGATCATTCTATCTTATGGG
1 GGTATTTCGGTCATTTTACCCTATGGG
* * * **
42956888 GGTATTTAGGCCATTTTATCCTATAAG
1 GGTATTTCGGTCATTTTACCCTATGGG
*
42956915 GGTATTTTGGTCATTTTACC
1 GGTATTTCGGTCATTTTACC
42956935 TATTTTAGGG
Statistics
Matches: 111, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
GGTATTTCGGTCATTTTACCCTATGGG
Found at i:42957350 original size:27 final size:28
Alignment explanation
Indices: 42957312--42957375 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
42957302 GATTTACCCT
42957312 AATACAGTAACAATGT-GGCCTTAGCCC
1 AATACAGTAACAATGTGGGCCTTAGCCC
*
42957339 AATATAGTAACAATGTGGGCCTTAGCCC
1 AATACAGTAACAATGTGGGCCTTAGCCC
42957367 AATACAGTA
1 AATACAGTA
42957376 TCGGTACAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (28 bp):
AATACAGTAACAATGTGGGCCTTAGCCC
Found at i:42957759 original size:27 final size:27
Alignment explanation
Indices: 42957729--42957885 Score: 224
Period size: 27 Copynumber: 5.8 Consensus size: 27
42957719 TCATCTCGTA
*
42957729 GGGGTATTTCGGTCATTTTACCCTATT
1 GGGGTATTTCGGTCATTTTACCCTATG
*
42957756 GGGGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
42957783 GGGGTATTTCGGTCATTCTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* * *
42957810 GGGGTATTTCGATCATTCTACCTTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
42957837 GGGGTATTTCGGTCATTTTATCCTATA
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
42957864 AGGGTATTTTGGTCATTTTACC
1 GGGGTATTTCGGTCATTTTACC
42957886 TATTTTAGGG
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTATG
Found at i:42958197 original size:951 final size:951
Alignment explanation
Indices: 42956358--42958260 Score: 3707
Period size: 951 Copynumber: 2.0 Consensus size: 951
42956348 GTGGGCGTAG
42956358 CCTAATACAGTAACAATGTGGCCTTAGCCCAATATAGTAACAATGTGGGCCTTAGCCCAATACAG
1 CCTAATACAGTAACAATGTGGCCTTAGCCCAATATAGTAACAATGTGGGCCTTAGCCCAATACAG
42956423 TATCGGTACAGTGCAATAATGCAATCCATCCCAATCCAGCCAACACACCACTCCGTACCACCAAC
66 TATCGGTACAGTGCAATAATGCAATCCATCCCAATCCAGCCAACACACCACTCCGTACCACCAAC
*
42956488 CCACCATGTGGGGATAAAATTGACCCACCCAGCCAACACACCAATATCACAGCAAACCAGCCAGT
131 CCACCATGTGGGGATAAAATCGACCCACCCAGCCAACACACCAATATCACAGCAAACCAGCCAGT
*
42956553 AAAATAAACGGCATATACCCATCAGTAGGTCCACAGTCGTCTTGGGCGACCCGTGCAAACTTATC
196 AAAATAAACGGCATATACCCATCAATAGGTCCACAGTCGTCTTGGGCGACCCGTGCAAACTTATC
42956618 AGTACGATACACTTCCTCCAAATATAACAACCCATACACATGTAATATGTCGTGACATAATATCG
261 AGTACGATACACTTCCTCCAAATATAACAACCCATACACATGTAATATGTCGTGACATAATATCG
42956683 TACGTGTATGCAAAATGTCATGCTCAATCACAGTCATACATATTATAGAGCAAATCAGTCATAAC
326 TACGTGTATGCAAAATGTCATGCTCAATCACAGTCATACATATTATAGAGCAAATCAGTCATAAC
42956748 ATAAGGCCATAACAGTCATTTCATCTCGTAGAGGTATTTCGGTCATTTTACCCTATTGGGGTATT
391 ATAAGGCCATAACAGTCATTTCATCTCGTAGAGGTATTTCGGTCATTTTACCCTATTGGGGTATT
42956813 TCGATCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTCT
456 TCGATCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTCT
*
42956878 ATCTTATGGGGGTATTTAGGCCATTTTATCCTATAAGGGTATTTTGGTCATTTTACCTATTTTAG
521 ACCTTATGGGGGTATTTAGGCCATTTTATCCTATAAGGGTATTTTGGTCATTTTACCTATTTTAG
*
42956943 GGTCTCGGTGTAGATATCGACCTCTCGAAATGTCCGCAGTCGCCTCAAGCGATCAGGTAACCTAA
586 GGTCTCGGTGCAGATATCGACCTCTCGAAATGTCCGCAGTCGCCTCAAGCGATCAGGTAACCTAA
42957008 ATGGTCATAGATGCGACTATCTATATCCATATGAGACTTAAAAACCTAATTCATCATATTTATAG
651 ATGGTCATAGATGCGACTATCTATATCCATATGAGACTTAAAAACCTAATTCATCATATTTATAG
42957073 ATTATCAGGAACATTGACTACTCCAGGCAACATTATCAGAATCCATATGACCACATCAAGCTTGA
716 ATTATCAGGAACATTGACTACTCCAGGCAACATTATCAGAATCCATATGACCACATCAAGCTTGA
42957138 AAGCAGTTTCAATATACTACAATCTTTAACTTGCAACTAATAATAACTTGATCTGTATTTATCTT
781 AAGCAGTTTCAATATACTACAATCTTTAACTTGCAACTAATAATAACTTGATCTGTATTTATCTT
*
42957203 TTAATAACACTATTATATATAATTCACCAAAAATATTTTACAATTGCCCAAATCATTTTCTGTAT
846 TTAATAACACTATTATATATAATTCACCAAAAATATTTTACAATTGACCAAATCATTTTCTGTAT
42957268 AAAGATAACTAAAATAACTCTGCTTGTACTATCTGATTTAC
911 AAAGATAACTAAAATAACTCTGCTTGTACTATCTGATTTAC
42957309 CCTAATACAGTAACAATGTGGCCTTAGCCCAATATAGTAACAATGTGGGCCTTAGCCCAATACAG
1 CCTAATACAGTAACAATGTGGCCTTAGCCCAATATAGTAACAATGTGGGCCTTAGCCCAATACAG
42957374 TATCGGTACAGTGCAATAATGCAATCCATCCCAATCCAGCCAACACACCACTCCGTACCACCAAC
66 TATCGGTACAGTGCAATAATGCAATCCATCCCAATCCAGCCAACACACCACTCCGTACCACCAAC
42957439 CCACCATGTGGGGATAAAATCGACCCACCCAGCCAACACACCAATATCACAGCAAACCAGCCAGT
131 CCACCATGTGGGGATAAAATCGACCCACCCAGCCAACACACCAATATCACAGCAAACCAGCCAGT
*
42957504 AAAATAAACGGCATATACCCATCAATAGGTCCACAGTTGTCTTGGGCGACCCGTGCAAACTTATC
196 AAAATAAACGGCATATACCCATCAATAGGTCCACAGTCGTCTTGGGCGACCCGTGCAAACTTATC
*
42957569 AGTACGATACACTTCCTCCAAATATAACAACCCATACCCATGTAATATGTCGTGACATAATATCG
261 AGTACGATACACTTCCTCCAAATATAACAACCCATACACATGTAATATGTCGTGACATAATATCG
42957634 TACGTGTATGCAAAATGTCATGCTCAATCACAGTCATACATATTATAGAGCAAATCAGTCATAAC
326 TACGTGTATGCAAAATGTCATGCTCAATCACAGTCATACATATTATAGAGCAAATCAGTCATAAC
* *
42957699 ATAAGGCCATAACGGTCATTTCATCTCGTAGGGGTATTTCGGTCATTTTACCCTATTGGGGTATT
391 ATAAGGCCATAACAGTCATTTCATCTCGTAGAGGTATTTCGGTCATTTTACCCTATTGGGGTATT
42957764 TCGATCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTCT
456 TCGATCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTCT
* *
42957829 ACCTTATGGGGGTATTTCGGTCATTTTATCCTATAAGGGTATTTTGGTCATTTTACCTATTTTAG
521 ACCTTATGGGGGTATTTAGGCCATTTTATCCTATAAGGGTATTTTGGTCATTTTACCTATTTTAG
42957894 GGTCTCGGTGCAGATATCGACCTCTCGAAATGTCCGCAGTCGCCTCAAGCGATCAGGTAACCTAA
586 GGTCTCGGTGCAGATATCGACCTCTCGAAATGTCCGCAGTCGCCTCAAGCGATCAGGTAACCTAA
42957959 ATGGTCATAGATGCGACTATCTATATCCATATGAGACTTAAAAACCTAATTCATCATATTTATAG
651 ATGGTCATAGATGCGACTATCTATATCCATATGAGACTTAAAAACCTAATTCATCATATTTATAG
42958024 ATTATCAGGAACATTGACTACTCCAGGCAACATTATCAGAATCCATATGACCACATCAAGCTTGA
716 ATTATCAGGAACATTGACTACTCCAGGCAACATTATCAGAATCCATATGACCACATCAAGCTTGA
42958089 AAGCAGTTTCAATATACTACAATCTTTAACTTGCAACTAATAATAACTTGATCTGTATTTATCTT
781 AAGCAGTTTCAATATACTACAATCTTTAACTTGCAACTAATAATAACTTGATCTGTATTTATCTT
42958154 TTAATAACACTATTATATATAATTCACCAAAAATATTTTACAATTGACCAAATCATTTTCTGTAT
846 TTAATAACACTATTATATATAATTCACCAAAAATATTTTACAATTGACCAAATCATTTTCTGTAT
42958219 AAAGATAACTAAAATAACTCTGCTTGTACTATCTGATTTAC
911 AAAGATAACTAAAATAACTCTGCTTGTACTATCTGATTTAC
42958260 C
1 C
42958261 AGACTCACTA
Statistics
Matches: 941, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
951 941 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (951 bp):
CCTAATACAGTAACAATGTGGCCTTAGCCCAATATAGTAACAATGTGGGCCTTAGCCCAATACAG
TATCGGTACAGTGCAATAATGCAATCCATCCCAATCCAGCCAACACACCACTCCGTACCACCAAC
CCACCATGTGGGGATAAAATCGACCCACCCAGCCAACACACCAATATCACAGCAAACCAGCCAGT
AAAATAAACGGCATATACCCATCAATAGGTCCACAGTCGTCTTGGGCGACCCGTGCAAACTTATC
AGTACGATACACTTCCTCCAAATATAACAACCCATACACATGTAATATGTCGTGACATAATATCG
TACGTGTATGCAAAATGTCATGCTCAATCACAGTCATACATATTATAGAGCAAATCAGTCATAAC
ATAAGGCCATAACAGTCATTTCATCTCGTAGAGGTATTTCGGTCATTTTACCCTATTGGGGTATT
TCGATCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTCT
ACCTTATGGGGGTATTTAGGCCATTTTATCCTATAAGGGTATTTTGGTCATTTTACCTATTTTAG
GGTCTCGGTGCAGATATCGACCTCTCGAAATGTCCGCAGTCGCCTCAAGCGATCAGGTAACCTAA
ATGGTCATAGATGCGACTATCTATATCCATATGAGACTTAAAAACCTAATTCATCATATTTATAG
ATTATCAGGAACATTGACTACTCCAGGCAACATTATCAGAATCCATATGACCACATCAAGCTTGA
AAGCAGTTTCAATATACTACAATCTTTAACTTGCAACTAATAATAACTTGATCTGTATTTATCTT
TTAATAACACTATTATATATAATTCACCAAAAATATTTTACAATTGACCAAATCATTTTCTGTAT
AAAGATAACTAAAATAACTCTGCTTGTACTATCTGATTTAC
Found at i:42959197 original size:40 final size:40
Alignment explanation
Indices: 42959153--42959276 Score: 167
Period size: 40 Copynumber: 3.1 Consensus size: 40
42959143 GTGATTGGGA
* * *
42959153 GCACCAAAGTGCAAACAGTGGTACATATGTGCATTCAGGG
1 GCACCAAAGTGCAAACAGGGGCACAGATGTGCATTCAGGG
*
42959193 GCACCAAAGTACAAACAGGGGCACAGATGTGCATTCAGGG
1 GCACCAAAGTGCAAACAGGGGCACAGATGTGCATTCAGGG
** * * *
42959233 GCACCAAAGTGCAAACAAAGGCACAGATATGCATTTAGAG
1 GCACCAAAGTGCAAACAGGGGCACAGATGTGCATTCAGGG
42959273 GCAC
1 GCAC
42959277 TTTTTCATTT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (40 bp):
GCACCAAAGTGCAAACAGGGGCACAGATGTGCATTCAGGG
Found at i:42959213 original size:20 final size:20
Alignment explanation
Indices: 42959153--42959249 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 20
42959143 GTGATTGGGA
*
42959153 GCACCAAAGTGCAAACAGTG
1 GCACCAAAGTGCAAACAGGG
* * **
42959173 GTA-CATATGTGCATTCAGGG
1 GCACCA-AAGTGCAAACAGGG
*
42959193 GCACCAAAGTACAAACAGGG
1 GCACCAAAGTGCAAACAGGG
* **
42959213 GCA-CAGATGTGCATTCAGGG
1 GCACCA-AAGTGCAAACAGGG
42959233 GCACCAAAGTGCAAACA
1 GCACCAAAGTGCAAACA
42959250 AAGGCACAGA
Statistics
Matches: 56, Mismatches: 17, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
19 4 0.07
20 48 0.86
21 4 0.07
ACGTcount: A:0.36, C:0.23, G:0.27, T:0.14
Consensus pattern (20 bp):
GCACCAAAGTGCAAACAGGG
Found at i:42960702 original size:18 final size:19
Alignment explanation
Indices: 42960679--42960714 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
42960669 TCATATAGGG
42960679 TCATTGATTTC-ACTTAAA
1 TCATTGATTTCAACTTAAA
42960697 TCATTGATTTCAACTTAA
1 TCATTGATTTCAACTTAA
42960715 GCAAATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (19 bp):
TCATTGATTTCAACTTAAA
Found at i:42961161 original size:40 final size:40
Alignment explanation
Indices: 42961116--42961221 Score: 194
Period size: 40 Copynumber: 2.6 Consensus size: 40
42961106 AAGCATTCTT
*
42961116 TTCAGTAGATTCAATAGGTATGGCTCAAAAGCGCATATGG
1 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCGCATATGG
42961156 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCGCATATGG
1 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCGCATATGG
*
42961196 TTTAGTAGATTCAGTAGGTATGGCTC
1 TTCAGTAGATTCAGTAGGTATGGCTC
42961222 TTCTGAGCAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (40 bp):
TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCGCATATGG
Found at i:42969353 original size:79 final size:81
Alignment explanation
Indices: 42969251--42969435 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
42969241 GCTCCTCGTT
* *
42969251 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
42969314 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
42969331 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
42969395 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
42969411 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42969436 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:42969435 original size:40 final size:40
Alignment explanation
Indices: 42969251--42969435 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
42969241 GCTCCTCGTT
* *
42969251 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
42969291 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
42969331 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
42969370 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
42969411 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42969436 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:42980466 original size:9 final size:9
Alignment explanation
Indices: 42980443--42980977 Score: 217
Period size: 9 Copynumber: 58.1 Consensus size: 9
42980433 ATCAAAAATC
42980443 ACATAACTT
1 ACATAACTT
* *
42980452 ATATAATTT
1 ACATAACTT
*
42980461 ACATAACTC
1 ACATAACTT
*
42980470 ACGTAACTT
1 ACATAACTT
*
42980479 ACATAATTT
1 ACATAACTT
*
42980488 A-ATAACCAT
1 ACATAA-CTT
42980497 ATCATAACTT
1 A-CATAACTT
*
42980507 ACATAATTT
1 ACATAACTT
*
42980516 ACATACCTTT
1 ACATAAC-TT
* *
42980526 AAAGAA-TT
1 ACATAACTT
* *
42980534 AAAAAAAACTTT
1 --ACATAAC-TT
*
42980546 GGATCTTAACTT
1 --A-CATAACTT
42980558 A-ATAACTT
1 ACATAACTT
* **
42980566 ATATATATCAG
1 ACATA-A-CTT
42980577 ACCATAACTT
1 AC-ATAACTT
*
42980587 ACATAACTG
1 ACATAACTT
*
42980596 ACAT-ACAT
1 ACATAACTT
42980604 ACATAACTT
1 ACATAACTT
42980613 A-ATAACTT
1 ACATAACTT
* *
42980621 AAATATATCAT
1 ACATA-A-CTT
*
42980632 ATCATAACTC
1 A-CATAACTT
42980642 ACATAACTT
1 ACATAACTT
42980651 ACATAACTT
1 ACATAACTT
42980660 A-ATAACTT
1 ACATAACTT
* *
42980668 ATATATATCAT
1 ACATA-A-CTT
42980679 ACCATAACTT
1 A-CATAACTT
* *
42980689 ACAAAACAAAT
1 ACATAAC--TT
42980700 ACATAACTT
1 ACATAACTT
42980709 ACATAA--T
1 ACATAACTT
*
42980716 ACATAA-AT
1 ACATAACTT
* * *
42980724 ATATATCAT
1 ACATAACTT
42980733 ATCATAACTT
1 A-CATAACTT
*
42980743 ACATAACTC
1 ACATAACTT
*
42980752 ACAT-ACAT
1 ACATAACTT
42980760 ACATAACTT
1 ACATAACTT
*
42980769 A-ATGACTT
1 ACATAACTT
* * *
42980777 ATATGTATCAT
1 ACA--TAACTT
*
42980788 ATCATAACTC
1 A-CATAACTT
42980798 ACATAACTT
1 ACATAACTT
42980807 ACATAACTT
1 ACATAACTT
42980816 A-ATAACTT
1 ACATAACTT
* *
42980824 ATATATATCAT
1 ACATA-A-CTT
42980835 ACCATAACTT
1 A-CATAACTT
* *
42980845 ACGTAACTC
1 ACATAACTT
42980854 ACATAACTT
1 ACATAACTT
42980863 ACATAACTT
1 ACATAACTT
42980872 ACATAA--T
1 ACATAACTT
*
42980879 ACATAA-AT
1 ACATAACTT
* * *
42980887 ATATATCAT
1 ACATAACTT
42980896 ACCATAACTT
1 A-CATAACTT
42980906 ACATAACTT
1 ACATAACTT
42980915 A-ATTATACTT
1 ACA-TA-ACTT
42980925 --ATAACTT
1 ACATAACTT
*
42980932 ACATAAATAT
1 ACATAACT-T
* * *
42980942 ATATCACAT
1 ACATAACTT
42980951 -CATAACTT
1 ACATAACTT
*
42980959 ACATAATTT
1 ACATAACTT
42980968 ACATAACTT
1 ACATAACTT
42980977 A
1 A
42980978 ATTATACTTA
Statistics
Matches: 395, Mismatches: 86, Indels: 90
0.69 0.15 0.16
Matches are distributed among these distances:
7 18 0.05
8 74 0.19
9 198 0.50
10 54 0.14
11 30 0.08
12 18 0.05
13 3 0.01
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.34
Consensus pattern (9 bp):
ACATAACTT
Found at i:42980508 original size:28 final size:27
Alignment explanation
Indices: 42980400--42980520 Score: 104
Period size: 27 Copynumber: 4.4 Consensus size: 27
42980390 AAATGAATAT
* * *
42980400 ATAATTTACATAACTTACATAAATATAT
1 ATAATTTACATAACTCACATAACT-TAC
* * * * *
42980428 ATCATAT-CAAAAATCACATAACTTAT
1 ATAATTTACATAACTCACATAACTTAC
*
42980454 ATAATTTACATAACTCACGTAACTTAC
1 ATAATTTACATAACTCACATAACTTAC
42980481 ATAATTTA-ATAAC-CATATCATAACTTAC
1 ATAATTTACATAACTC--A-CATAACTTAC
42980509 ATAATTTACATA
1 ATAATTTACATA
42980521 CCTTTAAAGA
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
25 1 0.01
26 13 0.17
27 36 0.48
28 22 0.29
29 3 0.04
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.36
Consensus pattern (27 bp):
ATAATTTACATAACTCACATAACTTAC
Found at i:42980654 original size:47 final size:47
Alignment explanation
Indices: 42980588--42980927 Score: 299
Period size: 47 Copynumber: 6.8 Consensus size: 47
42980578 CCATAACTTA
* * *
42980588 CATAACTGACAT-ACATACATAACTTAATAACTTAAATATATCATAT
1 CATAACTTACATAACTTACATAACTTAATAACTTATATATATCATAT
* *
42980634 CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
1 CATAACTTACATAACTTACATAACTTAATAACTTATATATATCATAT
* * *
42980681 CATAACTTACAAAACAAATACATAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACATAAC--TTACATAACTTA-AT-A-AC-T-TATATATATCATAT
* *
42980735 CATAACTTACATAACTCACATACATACATAACTTAATGACTTATATGTATCATAT
1 CATAACTTACAT-A---AC-T---TACATAACTTAATAACTTATATATATCATAT
* *
42980790 CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
1 CATAACTTACATAACTTACATAACTTAATAACTTATATATATCATAT
* * *
42980837 CATAACTTACGTAACTCACATAACTTACATAACTTACATA-ATACATAAAT
1 CATAACTTACATAACTTACATAACTTA-ATAACTTATATATAT-CAT--AT
*
42980887 -ATATATCATACCATAACTTACATAACTTAATTATACTTATA
1 CATA-A-CTTA-CATAACTTACATAACTTAA-TA-ACTTATA
42980928 ACTTACATAA
Statistics
Matches: 243, Mismatches: 27, Indels: 41
0.78 0.09 0.13
Matches are distributed among these distances:
46 11 0.05
47 98 0.40
48 14 0.06
49 14 0.06
50 5 0.02
51 7 0.03
52 20 0.08
53 7 0.03
54 24 0.10
55 24 0.10
56 1 0.00
57 3 0.01
58 2 0.01
59 2 0.01
60 11 0.05
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (47 bp):
CATAACTTACATAACTTACATAACTTAATAACTTATATATATCATAT
Found at i:42980743 original size:156 final size:160
Alignment explanation
Indices: 42980566--42980988 Score: 603
Period size: 156 Copynumber: 2.6 Consensus size: 160
42980556 TTAATAACTT
* * *
42980566 ATATATATCAGACCATAACTTACATAACTGACATACATACATAACTTAATAACTTAAATATATCA
1 ATATATATCATACCATAACTTACATAACTCACATACATACATAACTTAATAACTTATATATATCA
42980631 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAC-AA-A
66 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACGAACA
42980694 ACA-AA-TACATAACTTACATAATACATAA
131 ACATAACTACATAACTTACATAATACATAA
* * *
42980722 ATATATATCATATCATAACTTACATAACTCACATACATACATAACTTAATGACTTATATGTATCA
1 ATATATATCATACCATAACTTACATAACTCACATACATACATAACTTAATAACTTATATATATCA
42980787 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACGTAAC
66 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACG-AAC
*
42980852 TCACATAACTTACATAACTTACATAATACATAA
130 -AACATAAC-TACATAACTTACATAATACATAA
* *
42980885 ATATATATCATACCATAACTTACATAACTTA-AT-TATACTTATAACTTACATAA---ATATATA
1 ATATATATCATACCATAACTTACATAACTCACATACATAC--ATAACTTA-ATAACTTATATATA
* * *
42980945 TCACATCATAACTTACATAATTTACATAACTTAATTATACTTAT
63 TCATATCATAACTCACATAACTTACATAACTTAA-TA-ACTTAT
42980989 CCTTAAACCC
Statistics
Matches: 240, Mismatches: 15, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
156 119 0.50
158 2 0.01
160 3 0.01
161 43 0.18
162 4 0.02
163 66 0.28
164 3 0.01
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (160 bp):
ATATATATCATACCATAACTTACATAACTCACATACATACATAACTTAATAACTTATATATATCA
TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACGAACA
ACATAACTACATAACTTACATAATACATAA
Found at i:42980822 original size:8 final size:9
Alignment explanation
Indices: 42980579--42980977 Score: 218
Period size: 9 Copynumber: 44.0 Consensus size: 9
42980569 TATATCAGAC
42980579 CATAACTTA
1 CATAACTTA
*
42980588 CATAACTGA
1 CATAACTTA
*
42980597 CAT-ACATA
1 CATAACTTA
42980605 CATAACTTA
1 CATAACTTA
42980614 -ATAACTTA
1 CATAACTTA
* *
42980622 AATATATCATA
1 CATA-A-CTTA
*
42980633 TCATAACTCA
1 -CATAACTTA
42980643 CATAACTTA
1 CATAACTTA
42980652 CATAACTTA
1 CATAACTTA
42980661 -ATAACTTA
1 CATAACTTA
* *
42980669 TATATATCATA
1 CATA-A-CTTA
42980680 CCATAACTTA
1 -CATAACTTA
* *
42980690 CAAAACAAATA
1 CATAAC--TTA
42980701 CATAACTTA
1 CATAACTTA
42980710 CATAA--TA
1 CATAACTTA
*
42980717 CATAA-ATA
1 CATAACTTA
* * *
42980725 TATATCATA
1 CATAACTTA
42980734 TCATAACTTA
1 -CATAACTTA
*
42980744 CATAACTCA
1 CATAACTTA
*
42980753 CAT-ACATA
1 CATAACTTA
42980761 CATAACTTA
1 CATAACTTA
*
42980770 -ATGACTTA
1 CATAACTTA
* * *
42980778 TATGTATCATA
1 CA--TAACTTA
*
42980789 TCATAACTCA
1 -CATAACTTA
42980799 CATAACTTA
1 CATAACTTA
42980808 CATAACTTA
1 CATAACTTA
42980817 -ATAACTTA
1 CATAACTTA
* *
42980825 TATATATCATA
1 CATA-A-CTTA
42980836 CCATAACTTA
1 -CATAACTTA
* *
42980846 CGTAACTCA
1 CATAACTTA
42980855 CATAACTTA
1 CATAACTTA
42980864 CATAACTTA
1 CATAACTTA
42980873 CATAA--TA
1 CATAACTTA
*
42980880 CATAA-ATA
1 CATAACTTA
* * *
42980888 TATATCATA
1 CATAACTTA
42980897 CCATAACTTA
1 -CATAACTTA
42980907 CATAACTTA
1 CATAACTTA
42980916 -ATTATACTT-
1 CA-TA-ACTTA
42980925 -ATAACTTA
1 CATAACTTA
*
42980933 CATAAATATA
1 CATAACT-TA
* * *
42980943 TATCACAT-
1 CATAACTTA
42980951 CATAACTTA
1 CATAACTTA
*
42980960 CATAATTTA
1 CATAACTTA
42980969 CATAACTTA
1 CATAACTTA
42980978 ATTATACTTA
Statistics
Matches: 302, Mismatches: 56, Indels: 64
0.72 0.13 0.15
Matches are distributed among these distances:
7 18 0.06
8 61 0.20
9 154 0.51
10 36 0.12
11 23 0.08
12 10 0.03
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:42983647 original size:21 final size:21
Alignment explanation
Indices: 42983620--42983732 Score: 145
Period size: 21 Copynumber: 5.4 Consensus size: 21
42983610 CTACAATTTA
* *
42983620 AAGCAGAAGCAGCAACGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
*
42983641 AAACAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
* *
42983662 AAGCAAAGGCAGCAGCGAAGG
1 AAGCAGAGGCAGCAGCGAGGG
* * *
42983683 AAGTAGAGGCAGTAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGGG
42983704 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
*
42983725 AAGTAGAG
1 AAGCAGAG
42983733 CAGAGCAGAA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.40, C:0.16, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGG
Found at i:42984117 original size:43 final size:42
Alignment explanation
Indices: 42984006--42984315 Score: 286
Period size: 42 Copynumber: 7.3 Consensus size: 42
42983996 GATGCCAAAG
* * *
42984006 TTAGTGGCGTTTT-TAGTAAAA-TGCTGCTAAAGGTCATGTTT
1 TTAGCGGCGTTTTCTA-TAAAAGCGCCGCTAAAGGTCATGTTT
* * * *
42984047 TTAGCGGCATTTGCTATAAAAGTGCCGCTAAAGGTTATGTTTT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATG-TTT
* *
42984090 TTAGCGGCGTTTTCTACAAAGGCGCCGCTAAAGGTCATGTTCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTT-T
** * *
42984133 TTAGTAGCG-TTTCTATAAAAGCGTCGCTAAAGGTCATGTTC
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTTT
* *
42984174 TTAGTGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATG-TTT
* * * * * *
42984217 TTAGCGGC-ATTGCTATAAAAACGTCGCTAAATGTCATGATCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATG-TTT
* * * **
42984259 ATAGCGGCGTTTATGTGAAAAAAGCGCCGCTAAAGGTCATGACCT
1 TTAGCGGCGTTT-TCT-ATAAAAGCGCCGCTAAAGGTCATG-TTT
42984304 TTAGCGGCGTTT
1 TTAGCGGCGTTT
42984316 ATGTAAAAAA
Statistics
Matches: 223, Mismatches: 37, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
41 23 0.10
42 111 0.50
43 54 0.24
44 1 0.00
45 34 0.15
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTTT
Found at i:42984218 original size:84 final size:84
Alignment explanation
Indices: 42984006--42984311 Score: 339
Period size: 84 Copynumber: 3.6 Consensus size: 84
42983996 GATGCCAAAG
* * * *
42984006 TTAGTGGCGTTTT-TAGTAAAA-TGCTGCTAAAGGTCATG-TTTTTAGCGGCATTTGCTATAAAA
1 TTAGCGGCGTTTTCTA-TAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTT-CTATAAAA
* * * *
42984068 GTGCCGCTAAAGGTTATGTTTT
64 GCGTCGCTAAAGGTCATG-TTC
* * * ** *
42984090 TTAGCGGCGTTTTCTACAAAGGCGCCGCTAAAGGTCATGTTCTTTAGTAGCGTTTCTATAAAAGC
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTCTATAAAAGC
42984155 GTCGCTAAAGGTCATGTTC
66 GTCGCTAAAGGTCATGTTC
* * *
42984174 TTAGTGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTGCTATAAAAAC
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTCTATAAAAGC
* *
42984239 GTCGCTAAATGTCATGATC
66 GTCGCTAAAGGTCATGTTC
* * *
42984258 TATAGCGGCGTTTATGTGAAAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGC
1 T-TAGCGGCGTTT-TCT-ATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
42984312 GTTTATGTAA
Statistics
Matches: 188, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
84 91 0.48
85 50 0.27
86 13 0.07
87 34 0.18
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (84 bp):
TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTCTATAAAAGC
GTCGCTAAAGGTCATGTTC
Found at i:42984776 original size:9 final size:9
Alignment explanation
Indices: 42984762--42984853 Score: 105
Period size: 9 Copynumber: 10.2 Consensus size: 9
42984752 GTAGTGATTC
42984762 AATTCGGTT
1 AATTCGGTT
*
42984771 AATTCGGGT
1 AATTCGGTT
42984780 AATTCGGTT
1 AATTCGGTT
*
42984789 AATTCGGGT
1 AATTCGGTT
*
42984798 AATTCGATT
1 AATTCGGTT
*
42984807 AATTCGATT
1 AATTCGGTT
*
42984816 AATTCAAG-T
1 AATTC-GGTT
42984825 AATTCGGTT
1 AATTCGGTT
*
42984834 AATTCAGTT
1 AATTCGGTT
*
42984843 AATTTGGTT
1 AATTCGGTT
42984852 AA
1 AA
42984854 CCGACCGAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
8 1 0.01
9 69 0.99
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:42992226 original size:30 final size:28
Alignment explanation
Indices: 42992184--42992271 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
42992174 TAAATTTCAA
* *
42992184 ATTTTGTT-ATATATATATATACATGCAT
1 ATTTT-TTAATATATATATATACATACAC
* * *
42992212 ATATTTTATAATATATACATAAACGTACAC
1 AT-TTTT-TAATATATATATATACATACAC
* * *
42992242 ATTTTTTAATTTATATATATATACACAC
1 ATTTTTTAATATATATATATACATACAC
42992270 AT
1 AT
42992272 ACTTTTATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
28 21 0.46
29 8 0.17
30 17 0.37
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.45
Consensus pattern (28 bp):
ATTTTTTAATATATATATATACATACAC
Found at i:42992512 original size:3 final size:3
Alignment explanation
Indices: 42992504--42992568 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
42992494 TTACATGTTC
*
42992504 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATG ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
42992552 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
42992569 GCTTTAGTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:42992707 original size:20 final size:21
Alignment explanation
Indices: 42992673--42992722 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
42992663 TGCTCATATT
*
42992673 ATTTTTACTTGCATTATCAT-A
1 ATTTTTACTTCCATTA-CATCA
42992694 ATTTTTA-TTCCATTACATCA
1 ATTTTTACTTCCATTACATCA
42992714 ATTTTTACT
1 ATTTTTACT
42992723 CAGATTCGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 15 0.58
21 8 0.31
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTTTTACTTCCATTACATCA
Found at i:42993770 original size:26 final size:27
Alignment explanation
Indices: 42993740--42993793 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
42993730 TTAAGAAGGA
42993740 TAAGCACGAAGTTTGAAA-ATTAATTT
1 TAAGCACGAAGTTTGAAATATTAATTT
*
42993766 TAAGCACGAAGTTTGAAATTTTAATTT
1 TAAGCACGAAGTTTGAAATATTAATTT
42993793 T
1 T
42993794 CATAAATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
TAAGCACGAAGTTTGAAATATTAATTT
Found at i:42996218 original size:3 final size:3
Alignment explanation
Indices: 42996186--42996233 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
42996176 GTGAGGTAAG
* * *
42996186 TAT TAA TAT TAG TAT T-T GTAT TAG TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
42996231 TAT
1 TAT
42996234 GAGTGGGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 1 0.03
3 35 0.95
4 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:42996233 original size:12 final size:12
Alignment explanation
Indices: 42996184--42996232 Score: 64
Period size: 12 Copynumber: 4.1 Consensus size: 12
42996174 ATGTGAGGTA
*
42996184 AGTATTAATATT
1 AGTATTATTATT
42996196 AGTATT-TGTATT
1 AGTATTAT-TATT
42996208 AGTATTATTATT
1 AGTATTATTATT
*
42996220 ATTATTATTATT
1 AGTATTATTATT
42996232 A
1 A
42996233 TGAGTGGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 32 0.97
13 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (12 bp):
AGTATTATTATT
Found at i:42996639 original size:37 final size:39
Alignment explanation
Indices: 42996589--42996680 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 39
42996579 CAGATAGATT
* *
42996589 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCT-TGGC
1 CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTAT--C
**
42996626 CGATGAGGCACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTATC
42996665 CGATGAGGCACTGGGT
1 CGATGAGGCACTGGGT
42996681 GCCATTCTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
37 20 0.43
38 2 0.04
39 22 0.47
40 2 0.04
41 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTATC
Found at i:42998900 original size:28 final size:26
Alignment explanation
Indices: 42998828--42998900 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 26
42998818 TAGAAATTTT
*
42998828 TTTATCAAAAATTA-GAAATTATTAAA
1 TTTAT-AAAAATTATAAAATTATTAAA
*
42998854 TATT-TAAAAAATATTAAAATTGATATAAA
1 T-TTATAAAAATTA-TAAAATT-AT-TAAA
42998883 TTTATAAAAATTATAAAA
1 TTTATAAAAATTATAAAA
42998901 AAATTTATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
25 7 0.18
26 2 0.05
27 7 0.18
28 9 0.24
29 13 0.34
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (26 bp):
TTTATAAAAATTATAAAATTATTAAA
Found at i:42998906 original size:21 final size:21
Alignment explanation
Indices: 42998880--42998922 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
42998870 AAATTGATAT
42998880 AAATTTATAAAAATTATAAAA
1 AAATTTATAAAAATTATAAAA
**
42998901 AAATTTATAAGTATTATAAAA
1 AAATTTATAAAAATTATAAAA
42998922 A
1 A
42998923 TATATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTTATAAAAATTATAAAA
Found at i:42998992 original size:21 final size:21
Alignment explanation
Indices: 42998958--42999062 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 21
42998948 AATTTTTTTA
*
42998958 TAAAA-TTAATAAAACATAT-T
1 TAAAATTTTATAAAA-ATATAT
*
42998978 TAAAATTTTATAAAAATGTAT
1 TAAAATTTTATAAAAATATAT
*
42998999 TAAAATTCTATAAAAA-AT-T
1 TAAAATTTTATAAAAATATAT
* * *
42999018 AAAAATTATA-AAAAAAATA-
1 TAAAATTTTATAAAAATATAT
* * *
42999037 TAAGATATTAT-AAGA-ATAT
1 TAAAATTTTATAAAAATATAT
42999056 TAAAATT
1 TAAAATT
42999063 GATATGAACT
Statistics
Matches: 66, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
18 8 0.12
19 25 0.38
20 9 0.14
21 24 0.36
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (21 bp):
TAAAATTTTATAAAAATATAT
Found at i:42999029 original size:17 final size:18
Alignment explanation
Indices: 42998997--42999032 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
42998987 ATAAAAATGT
*
42998997 ATTAAAATTCTATAAAAA
1 ATTAAAAATCTATAAAAA
42999015 ATTAAAAAT-TATAAAAA
1 ATTAAAAATCTATAAAAA
42999032 A
1 A
42999033 AATATAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTAAAAATCTATAAAAA
Found at i:42999611 original size:21 final size:21
Alignment explanation
Indices: 42999568--42999611 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
42999558 GTTTTCATAT
*
42999568 TTTTTTATAGTTTTTTTACAA
1 TTTTTTATAGTTTTTTAACAA
*
42999589 TTTTTTATTA-TTTTTTAAGAA
1 TTTTTTA-TAGTTTTTTAACAA
42999610 TT
1 TT
42999612 CTATCATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTTATAGTTTTTTAACAA
Found at i:43000015 original size:20 final size:18
Alignment explanation
Indices: 42999983--43000033 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
42999973 GTTATTTATA
*
42999983 ATTTCTTATAATTCTTAAT
1 ATTTTTTATAATT-TTAAT
**
43000002 ATTTTTTAATAATTTTTGT
1 ATTTTTT-ATAATTTTAAT
43000021 ATTTTTTATAATT
1 ATTTTTTATAATT
43000034 ATTTAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 6 0.21
19 16 0.57
20 6 0.21
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTTTATAATTTTAAT
Found at i:43000038 original size:10 final size:9
Alignment explanation
Indices: 42999977--43000038 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
42999967 AATCTAGTTA
42999977 TTTATAATT
1 TTTATAATT
42999986 TCTTATAATT
1 T-TTATAATT
* *
42999996 CTTAATATTT
1 -TTTATAATT
43000006 TTTAATAATT
1 TTT-ATAATT
* *
43000016 TTTGTATTT
1 TTTATAATT
43000025 TTTATAATT
1 TTTATAATT
43000034 ATTTA
1 -TTTA
43000039 AGAAACTATT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
9 14 0.34
10 26 0.63
11 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTATAATT
Found at i:43001577 original size:25 final size:25
Alignment explanation
Indices: 43001533--43001596 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
43001523 AATTTATGTA
*
43001533 TTTTTTTTAATTCGGCACTT-AAGTT
1 TTTTTTTTAATTCAGCACTTGAA-TT
* *
43001558 TTTTTTTTAATTTAGTACTTGAATT
1 TTTTTTTTAATTCAGCACTTGAATT
43001583 TAATTTTTTTAATT
1 T--TTTTTTTAATT
43001597 GAATTTAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 20 0.61
26 2 0.06
27 11 0.33
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.62
Consensus pattern (25 bp):
TTTTTTTTAATTCAGCACTTGAATT
Found at i:43008846 original size:14 final size:15
Alignment explanation
Indices: 43008821--43008849 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43008811 ATTGAATTAC
43008821 TTTTAGTTTTATTTA
1 TTTTAGTTTTATTTA
43008836 TTTTA-TTTTATTTA
1 TTTTAGTTTTATTTA
43008850 ACATAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTAGTTTTATTTA
Found at i:43013051 original size:31 final size:29
Alignment explanation
Indices: 43012987--43013055 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
43012977 ACGATAACGT
* *
43012987 AAGTGACTAAAACGTAACATTTCAAACAT
1 AAGTGACTAAAACGTAACATGTCAAACAA
* *
43013016 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAACGTAACAT--GTCAAACAA
43013047 AAGTGACTA
1 AAGTGACTA
43013056 TTTTGGTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAACGTAACATGTCAAACAA
Found at i:43013159 original size:29 final size:28
Alignment explanation
Indices: 43013127--43013188 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 28
43013117 AAAAAGCTGT
43013127 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* **
43013156 TTTTTTTATTATTTACCGAAATGGGCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
43013184 TTTTT
1 TTTTT
43013189 CGGGAAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.45
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:43013602 original size:125 final size:125
Alignment explanation
Indices: 43013406--43013757 Score: 607
Period size: 125 Copynumber: 2.8 Consensus size: 125
43013396 TTATTTCGAG
*
43013406 TTGAAGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGT
43013470 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
* * * *
43013531 TTGACGTTTCTGAGCAAATAGTATAAAATCACCTCTACCAGGATGCTATTTGAGAAGAAATTATG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTG
*
43013596 GAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
*
43013656 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTG
* *
43013721 AAATCGCGCCCTCGTGGATGCGATTTTACTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
43013758 CAAGTTTGGG
Statistics
Matches: 212, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
125 211 1.00
126 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
Found at i:43016875 original size:10 final size:10
Alignment explanation
Indices: 43016860--43016884 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43016850 CAAATCTAAC
43016860 ATTATGTAAA
1 ATTATGTAAA
43016870 ATTATGTAAA
1 ATTATGTAAA
43016880 ATTAT
1 ATTAT
43016885 TAAGTCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:43016938 original size:10 final size:10
Alignment explanation
Indices: 43016923--43016949 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
43016913 TAAAATTATC
43016923 AAATTATGTA
1 AAATTATGTA
43016933 AAATTATGTA
1 AAATTATGTA
43016943 AAATTAT
1 AAATTAT
43016950 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:43016994 original size:18 final size:18
Alignment explanation
Indices: 43016971--43017005 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43016961 AATTTTAATT
43016971 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
*
43016989 AAATTATGTAAAATTAT
1 AAATTAGGTAAAATTAT
43017006 TAAGTCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:43016997 original size:56 final size:55
Alignment explanation
Indices: 43016933--43017059 Score: 161
Period size: 56 Copynumber: 2.3 Consensus size: 55
43016923 AAATTATGTA
43016933 AAATTATGTAAAATTATTAAG-CCAAAAAAAT-T-TTAATTAAATTAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCC-AAAAAATGTGTTAA-T-AATTA-GTAAAATTATC
* ** *
43016989 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAATTTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAAATGTGTTAATAATTAGTAAAATTATC
43017044 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
43017060 GGTTAGGGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
55 26 0.41
56 30 0.47
57 4 0.06
58 4 0.06
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAAATGTGTTAATAATTAGTAAAATTATC
Found at i:43016998 original size:66 final size:64
Alignment explanation
Indices: 43016860--43017005 Score: 206
Period size: 66 Copynumber: 2.2 Consensus size: 64
43016850 CAAATCTAAC
* * *
43016860 ATTATGTAAAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAATGGTTAGTAAAATTATCAA
1 ATTATGTAAAATTATGTAAAATTATTAAGTCCAAAAATTTTATTAA-GATTAGTAAAATTATCAA
43016925 ATTATGTAAAATTATGTAAAATTATTAAG-CCAAAAAAATTTTAATTAA-ATTAGGTAAAATTAT
1 ATTATGTAAAATTATGTAAAATTATTAAGTCC--AAAAATTTT-ATTAAGATTA-GTAAAATTAT
43016988 CAA
62 CAA
43016991 ATTATGTAAAATTAT
1 ATTATGTAAAATTAT
43017006 TAAGTCCAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
64 2 0.03
65 32 0.43
66 36 0.49
67 4 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (64 bp):
ATTATGTAAAATTATGTAAAATTATTAAGTCCAAAAATTTTATTAAGATTAGTAAAATTATCAA
Found at i:43017091 original size:29 final size:29
Alignment explanation
Indices: 43017057--43017119 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
43017047 TTATGTAAAA
43017057 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
43017086 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
43017115 TTAGG
1 TTAGG
43017120 GTTTTAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (29 bp):
TTAGGTTAGGGTTAGGGTTTTTAATTAAG
Found at i:43017126 original size:17 final size:18
Alignment explanation
Indices: 43017096--43017442 Score: 116
Period size: 18 Copynumber: 19.7 Consensus size: 18
43017086 TTAGGTTAGG
43017096 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
43017114 GTTAGGG-TTTTAATTAAACTA
1 GTTAGGGTTTTTAATT--A--A
43017135 TGTTAGGGTTAGGATTTTTAATTAA
1 -GTTAGGG-T-----TTTTAATTAA
43017160 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
43017178 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
*
43017189 GTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
43017207 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **** *
43017225 ATTA-GG-TTAGGGTTAGG
1 GTTAGGGTTTTTAATTA-A
* *
43017242 GTTAGAGTTTTTAATTTA
1 GTTAGGGTTTTTAATTAA
**
43017260 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
43017271 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATT--A--A
43017293 GGTTAGGGTTTTTAATTAA
1 -GTTAGGGTTTTTAATTAA
*
43017312 GTTAAGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
43017330 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **** *
43017348 ATTA-GG-TTAGGGTTAGG
1 GTTAGGGTTTTTAATTA-A
43017365 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
43017383 ATTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
43017394 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
43017412 GTTAGGGTTTTTAATCAA
1 GTTAGGGTTTTTAATTAA
* *
43017430 ATTTGGGTTTTTA
1 GTTAGGGTTTTTA
43017443 TTACATCAAA
Statistics
Matches: 237, Mismatches: 48, Indels: 88
0.64 0.13 0.24
Matches are distributed among these distances:
11 11 0.05
12 5 0.02
13 3 0.01
14 6 0.03
15 6 0.03
16 13 0.05
17 23 0.10
18 116 0.49
19 11 0.05
21 2 0.01
22 7 0.03
23 17 0.07
24 7 0.03
25 1 0.00
27 1 0.00
29 8 0.03
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:43017173 original size:93 final size:94
Alignment explanation
Indices: 43017067--43017241 Score: 316
Period size: 93 Copynumber: 1.9 Consensus size: 94
43017057 TTAGGTTAGG
*
43017067 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGG-TTTTAATTAA
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATTAA
*
43017131 ACTATGTTAGGGTTAGGATTTTTAATTAA
66 ACTAGGTTAGGGTTAGGATTTTTAATTAA
43017160 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATTAA
*
43017225 ATTAGGTTAGGGTTAGG
66 ACTAGGTTAGGGTTAGG
43017242 GTTAGAGTTT
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 53 0.68
94 25 0.32
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (94 bp):
GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATTAA
ACTAGGTTAGGGTTAGGATTTTTAATTAA
Found at i:43017190 original size:47 final size:47
Alignment explanation
Indices: 43017067--43017432 Score: 312
Period size: 47 Copynumber: 7.4 Consensus size: 47
43017057 TTAGGTTAGG
* *
43017067 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAA
* *
43017114 GTTAGGG-TTTTAATTAAACTATGTTAGGGTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAA
*
43017160 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAA
43017207 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGAGTTTTTAATTTAGTTA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--G---GA-TTTTTAA-TTA---A
** *
43017264 GGTTAGGGTTAGGGTTT--TT-AATTAAATTA-GGTTAGGGTTTTTAATTAA
1 -GTTAGGGTT----TTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAA
* * **** * * * *
43017312 GTTAAGGTTTTTAATTAAGTTAGGGTTTTTAATTA-AATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAATTA-GG-TTAGGGTTAGGATT--TTTA--ATTA-A
*
43017365 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAA
*
43017412 GTTAGGGTTTTTAATCAAATT
1 GTTAGGGTTTTTAATTAAATT
43017433 TGGGTTTTTA
Statistics
Matches: 256, Mismatches: 35, Indels: 56
0.74 0.10 0.16
Matches are distributed among these distances:
43 3 0.01
45 2 0.01
46 46 0.18
47 103 0.40
48 8 0.03
49 4 0.02
50 6 0.02
51 8 0.03
52 16 0.06
53 28 0.11
54 3 0.01
56 1 0.00
57 1 0.00
58 14 0.05
59 8 0.03
60 2 0.01
62 3 0.01
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.46
Consensus pattern (47 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAA
Found at i:43017202 original size:29 final size:29
Alignment explanation
Indices: 43017160--43017417 Score: 200
Period size: 29 Copynumber: 8.8 Consensus size: 29
43017150 TTTTAATTAA
43017160 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
43017189 GTTAGGATTTTTAATTAAGTTAGGGTT---
1 GTTAGGGTTTTTAATTAAGTTA-GGTTAGG
* * * *
43017216 TTTA----ATTAAATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTA-GGTTAGG
* *
43017242 GTTAGAGTTTTTAATTTAGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
43017271 GTTAGGGTTTTTAATTAA---A--TTA-G
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
**
43017294 GTTAGGGTTTTTAATTAAGTTAAGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAGTT-AGG---TT-A--GG
43017330 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATT--A--A-GTTA-GGTTAGG
*
43017365 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
43017394 GTTAGGGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGG
43017418 GTTTTTAATC
Statistics
Matches: 185, Mismatches: 17, Indels: 54
0.72 0.07 0.21
Matches are distributed among these distances:
23 35 0.19
24 3 0.02
26 4 0.02
27 4 0.02
29 74 0.40
30 17 0.09
31 1 0.01
32 2 0.01
33 2 0.01
35 16 0.09
36 16 0.09
37 1 0.01
38 3 0.02
40 2 0.01
41 5 0.03
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAGTTAGGTTAGG
Found at i:43017352 original size:123 final size:123
Alignment explanation
Indices: 43017196--43017417 Score: 408
Period size: 123 Copynumber: 1.8 Consensus size: 123
43017186 AGGGTTAGGA
* *
43017196 TTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGAGTTTTTAATTTAG
1 TTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGAGTTTTTAATTAAA
43017261 TTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAAGG
66 TTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAAGG
*
43017319 TTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAA
1 TTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGAGTTTTTAATTAAA
*
43017384 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG
66 TTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
43017418 GTTTTTAATC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 95 1.00
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (123 bp):
TTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGAGTTTTTAATTAAA
TTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAAGG
Found at i:43017369 original size:35 final size:35
Alignment explanation
Indices: 43017330--43017402 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
43017320 TTTTAATTAA
43017330 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
43017365 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
43017400 GTT
1 GTT
43017403 TTTAATTAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.44
Consensus pattern (35 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
Found at i:43017407 original size:100 final size:92
Alignment explanation
Indices: 43017252--43017442 Score: 265
Period size: 100 Copynumber: 2.0 Consensus size: 92
43017242 GTTAGAGTTT
*
43017252 TTAATTTAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
1 TTAAATTAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
* *
43017317 GGTTTTTAATTAAGTTAGGGTTTTTAA
66 GGTTTTTAATCAAATTAGGGTTTTTAA
43017344 TTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 TTAAATTA-GTTA-GGTTAGGGTTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAAT
* *
43017409 TAAGTTAGGGTTTTTAATCAAATTTGGGTTTTTA
58 TAAGTTAAGGTTTTTAATCAAATTAGGGTTTTTA
43017443 TTACATCAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
92 7 0.08
93 4 0.05
94 23 0.27
95 2 0.02
97 1 0.01
99 3 0.03
100 46 0.53
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.48
Consensus pattern (92 bp):
TTAAATTAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
GGTTTTTAATCAAATTAGGGTTTTTAA
Found at i:43017409 original size:24 final size:27
Alignment explanation
Indices: 43017358--43017420 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 27
43017348 ATTAGGTTAG
43017358 GGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTAGGG-TTTT-ATTAAATTA
43017387 GGTTAGGGTTAGGG-TTT-TT-AATTA
1 GGTTAGGGTTAGGGTTTTATTAAATTA
*
43017411 AGTTAGGGTT
1 GGTTAGGGTT
43017421 TTTAATCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 14 0.42
25 2 0.06
27 3 0.09
29 14 0.42
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (27 bp):
GGTTAGGGTTAGGGTTTTATTAAATTA
Found at i:43017490 original size:25 final size:26
Alignment explanation
Indices: 43017438--43017501 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
43017428 AAATTTGGGT
43017438 TTTTATTACATCAAATATAACTTCTA
1 TTTTATTACATCAAATATAACTTCTA
* *
43017464 TTTTATTATATTAAATA-AACTTCTA
1 TTTTATTACATCAAATATAACTTCTA
43017489 TTTTATTACATCA
1 TTTTATTACATCA
43017502 GATAATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTTATTACATCAAATATAACTTCTA
Found at i:43018606 original size:7 final size:7
Alignment explanation
Indices: 43018596--43018627 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
43018586 TTATATACAT
43018596 AATACTA
1 AATACTA
43018603 AATACTA
1 AATACTA
43018610 AATACTA
1 AATACTA
43018617 AATACTA
1 AATACTA
43018624 AATA
1 AATA
43018628 TCAATCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:43019727 original size:10 final size:10
Alignment explanation
Indices: 43019708--43019758 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
43019698 GCCATTGATG
*
43019708 AAAATATAAA
1 AAAATTTAAA
43019718 AAAATTTAAA
1 AAAATTTAAA
* * *
43019728 ATTATTTTTAA
1 A-AAATTTAAA
43019739 AAAATTTAAA
1 AAAATTTAAA
43019749 AAAATTTAAA
1 AAAATTTAAA
43019759 TTTATTTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
10 26 0.79
11 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:43019749 original size:31 final size:30
Alignment explanation
Indices: 43019708--43019771 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 30
43019698 GCCATTGATG
43019708 AAAATATAAAAAAATTTAAAATTATTTTTAA
1 AAAATATAAAAAAATTTAAAATTA-TTTTAA
* *
43019739 AAAATTTAAAAAAATTTAAATTTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
43019769 AAA
1 AAA
43019772 TGAAATTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:43019755 original size:21 final size:21
Alignment explanation
Indices: 43019716--43019755 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43019706 TGAAAATATA
**
43019716 AAAAAATTTAAAATTATTTTT
1 AAAAAATTTAAAAAAATTTTT
43019737 AAAAAATTTAAAAAAATTT
1 AAAAAATTTAAAAAAATTT
43019756 AAATTTATTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAAATTTAAAAAAATTTTT
Found at i:43019828 original size:51 final size:51
Alignment explanation
Indices: 43019773--43019885 Score: 190
Period size: 51 Copynumber: 2.2 Consensus size: 51
43019763 TTTTAAAAAT
*
43019773 GAAATTAAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTAAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
* *
43019824 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTAAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
43019875 GAAATTGAGAG
1 GAAATTAAGAG
43019886 AATTTTGGAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.28
Consensus pattern (51 bp):
GAAATTAAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:43019882 original size:22 final size:22
Alignment explanation
Indices: 43019857--43019907 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
43019847 AAATATGGGT
43019857 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
43019879 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
43019901 TTGAGAG
1 TTGAGAG
43019908 GATTAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:43020189 original size:29 final size:28
Alignment explanation
Indices: 43020122--43020203 Score: 74
Period size: 29 Copynumber: 2.9 Consensus size: 28
43020112 TGATTTCCCG
* * * *
43020122 AAAAATGGCCCATTTCGATAAATAATCA
1 AAAAATGGCTCATTTCGGTAAATTATAA
*
43020150 AAAAATCGGCTCATTTCGGTAAATTTTGAA
1 AAAAAT-GGCTCATTTCGGTAAATTAT-AA
** *
43020180 AAAAATGGCTTTTTTAGGTAAATT
1 AAAAATGGCTCATTTCGGTAAATT
43020204 GCCCTAAAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
28 6 0.14
29 31 0.70
30 7 0.16
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (28 bp):
AAAAATGGCTCATTTCGGTAAATTATAA
Found at i:43032507 original size:33 final size:33
Alignment explanation
Indices: 43032467--43032531 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
43032457 CTAATCAGAT
*
43032467 AAGTGTAGCCACCTATCACTTTGTTTCTTGATA
1 AAGTGTAGCCACCTATCACTTTGTCTCTTGATA
*
43032500 AAGTGTAGCCACTTATCACTTTGTCTCTTGAT
1 AAGTGTAGCCACCTATCACTTTGTCTCTTGAT
43032532 CAGATAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (33 bp):
AAGTGTAGCCACCTATCACTTTGTCTCTTGATA
Found at i:43032567 original size:46 final size:46
Alignment explanation
Indices: 43032509--43032777 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
43032499 AAAGTGTAGC
* **
43032509 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
43032555 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
43032601 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
43032653 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
43032699 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
43032751 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
43032778 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:43032628 original size:52 final size:52
Alignment explanation
Indices: 43032552--43032771 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
43032542 TAGCTAAAGC
* *
43032552 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
43032605 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
43032657 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
43032703 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
43032755 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
43032772 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:43032674 original size:98 final size:98
Alignment explanation
Indices: 43032509--43032777 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
43032499 AAAGTGTAGC
* * *
43032509 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
43032574 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
43032608 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
43032673 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
43032706 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
43032771 GATCAGA
66 GATCAGA
43032778 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:43035958 original size:49 final size:50
Alignment explanation
Indices: 43035903--43036106 Score: 232
Period size: 49 Copynumber: 4.0 Consensus size: 50
43035893 TTCGTTTTCT
*
43035903 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
** * *
43035952 CGATGCCATAGCCCAACTATGGTCTTACACAAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
43036001 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
43036059 CGATGCCATAGCCCATCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
43036107 GTTCACATGT
Statistics
Matches: 133, Mismatches: 13, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
49 73 0.55
50 6 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.05
57 1 0.01
58 38 0.29
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.25
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:43036073 original size:58 final size:59
Alignment explanation
Indices: 43035987--43036105 Score: 222
Period size: 58 Copynumber: 2.0 Consensus size: 59
43035977 TACACAAAAT
43035987 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
*
43036045 CACATATCACTTACCGATGCCATAGCCCATCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
43036104 CA
1 CA
43036106 TGTTCACATG
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 53 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:43036086 original size:28 final size:27
Alignment explanation
Indices: 43035996--43036086 Score: 69
Period size: 28 Copynumber: 3.2 Consensus size: 27
43035986 TCACATATCA
43035996 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCA-CTATGGT
* * **
43036024 CTTACACGGAAT-CACATATCACACATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAC-TATGGT
43036054 CTTACCGATGCCATAGCCCATCTATGGT
1 CTTACCGATGCCATAGCCCA-CTATGGT
43036082 CTTAC
1 CTTAC
43036087 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.26
Consensus pattern (27 bp):
CTTACCGATGCCATAGCCCACTATGGT
Found at i:43037421 original size:37 final size:37
Alignment explanation
Indices: 43037364--43037515 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
43037354 TATGATCACT
*
43037364 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
43037399 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
43037436 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
43037481 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
43037516 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Done.